GOS 1064070

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Warning: this metagenomic sequence has been carefully annotated by students during bioinformatics assignments. These quality annotations are therefore the result of a teaching exercise that you are most welcome to amend and extend if necessary!


Sequence
CAMERA AccNum : JCVI_READ_1092963177979
Annotathon code: GOS_1064070
Sample :
  • GPS :1°58'26s; 95°0'53w
  • Eastern Tropical Pacific: Equatorial Pacific TAO Buoy - International
  • Open Ocean (-1.8m, 28°C, 0.1-0.8 microns)
Authors
Team : Orsay 2009
Username : Hayet
Annotated on : 2010-01-18 13:45:54
  • Bezzeghoud Hayet

Contents

Synopsis

  • Taxonomie: Alphaproteobacteria (fiche NCBI)
    Rang: class - Code Génétique: Bacterial and Plant Plastid - Identifiant NCBI: 28211
    Règne: Bacteria - Division: Proteobacteria - Classe: Alphaproteobacteria - Ordre:
    Bacteria; Proteobacteria; Alphaproteobacteria;

Séquence génomique 

>JCVI_READ_1092963177979 GOS_1064070 ADN génomique
TTGCCCATGCAATAGATCGTCAGGCCATTATCGATGGTGCAATGTTTGGTTACGGCACTCCTATAGGAACCCATTTTGCCCCTCATAATCCAGATTACGT
CGACTTAACTGGTAATTCAAATTATGATCCTGAACTTTCCAAAAAACTTCTAGCCGAAGCCGGACTTTCCGATGGCTTTACAACCACCCTAAAACTCCCA
CCGCCTTCATATGCTAGAAGAGGTGGAGAGATAATAGCATCTCAACTACGTGCAGTTGGAATTGAGACTGAAATAAGTAATTTGGAATGGGCTCAATGGC
TTGAGCAAGTCTTCAGAGGAAAAGATTATGGCCTTACAATTGTTAGCCACACTGAGCCAATGGATATAGGGATCTATGCAAGACCTGACTACTACTTCCA
GTATGATAATCCAGAATTTCAGTCACTTATGACAGAATTGAATGGGACTACAGATCCATCCAAGCGCAGCAGCATGTTGAAAAAAGCGCAACGTATGATT
TCAAATGATTACGTAAATGGATATCTTTTTGAGTTAGCTTACACAACTGTTGCTAATGCAAAAGTCCGTGGTCTTTGGAAGAATGCGCCTACGCAAGCCA
CTGATCTCACTGGGGTAAGTTGGGCAGATTAGTTAACAAATAAACTTGGAAGGCGAGGAG

Traduction 

[42 - 629/660] sens direct

>GOS_1064070 Traduction [42-629 sens direct]
MFGYGTPIGTHFAPHNPDYVDLTGNSNYDPELSKKLLAEAGLSDGFTTTLKLPPPSYARRGGEIIASQLRAVGIETEISNLEWAQWLEQVFRGKDYGLTI
VSHTEPMDIGIYARPDYYFQYDNPEFQSLMTELNGTTDPSKRSSMLKKAQRMISNDYVNGYLFELAYTTVANAKVRGLWKNAPTQATDLTGVSWAD

Commentaires des annotateurs

En conclusion, la séquence étudiée, proviendrait d'un organisme bactérien qui serait soit le représentant d’une lignée inconnue appartenant au groupe des alpha protéobactéries, soit le représentant d’une lignée inconnue proche parente.


Grâce aux relations d'orthologie, on peut supposer que la séquence code pour une protéine de transport et plus particulièrement pour un ABC transporteur. Ce transporteur est probablement extracellulaire (régions conservées trouvées là où le domaine "Bacterial extracellular solute-binding protein" a été détecté par INTERPRO. )


Recherche d'ORF

PROTOCOLE: NCBI orf finder


ANALYSE DES RÉSULTATS:


ORf le plus long : situé sur le brin direct, cadre de lecture 3. 

RÉSULTATS BRUTS:

Frame		from		to	Length
+3		42	..	632	591
+2		2	..	88	87
-2		1	..	86	86
+1		556	..	618	63
-3		419	..	475	57
+1		376	..	432	57
-1		607	..	659	54

Alignement multiple

PROTOCOLE:


ANALYSE DES RÉSULTATS:


les domaines conservés sont :


3-41

53-83

84-113

Les 3 régions précédentes sont toutes inclues dans le domaine trouvé par INTERPRO. Elles correspondraient probablement à des régions caractéristiques des extracellular solute-binding protein.


116-132

150-192


La séquence d'acides aminés étudiée est beaucoup plus courte en 5' que les autres séquences, ce qui est étonnant. Les résultats de l'orf finder du NCBI ne laissaient pas présager cela.


Hypothèse : la séquence initiale d'ADN n'est pas complète. La taille du bout manquant est évaluée à environ 347 acides aminés, soit environ 1041 pb. 

RÉSULTATS BRUTS:

CLUSTAL FORMAT: MUSCLE (3.7) multiple sequence alignment


GOS_106407      ------------------------------------------------------------
Rhodobacte      ---------------MLSASAA------------ALLAGAAFA-----------------
Roseobacte      --------MMFRSLVFAASSAL------------ALAAGAAWA-----------------
Phaeobacte      --------MTRLPFLFAASSAL------------AILAGAAAA-----------------
Ruegeria_p      --------MTRLPFLFAASSAL------------AILAGAASA-----------------
Verminephr      --------MLNRRTVLATGVSGVTGAIIALPLTAPLTALAQGR-----------------
Acidovorax      -------MPIDRRTLLAAAAAS--------PLALPLPALAQPR-----------------
Comamonas       --------MLNRRSLLASSAAS-------LPLFATWPALAQAR-----------------
Delftia_ac      --------MFNRRSLLASSAAA------GLPLLMPWPALAQSR-----------------
Propioniba      ----------MRDQLKAAGLAV-----AVALSATGI-AGCQST-----------------
Kytococcus      MPPRDLGVTVNRSVVRAAALAG-----SALLALTACSAGSQNSDGGQSSSGSSSQGSDGA
Streptomyc      --------MKARSTAAALALLL---------VTSGCSAGSSAS-----------------
                                                                            

GOS_106407      ------------------------------------------------------------
Rhodobacte      ----KSDITIALQLEPPHLDPTSAAAGAIDSVLYSNVFEGLTRFMAD-GSVVAGLAESWE
Roseobacte      ----KDSATIGLQLEPPHLDPTSAAAGAIDQVLYSNVFEGLTRFMGD-GSVVPGLAKSWE
Phaeobacte      ----RDTVTVALQLEPPHLDPTSAAAGAIDQVLYSNVFEGLTRFMGD-GSVVPGLAQSWE
Ruegeria_p      ----RDTVTVALQLEPPHLDPTSAAAGAIDQVLYSNVFEGLTRFMGD-GSVVPGLAESWE
Verminephr      ----KDAVVLGMTLEPPSLDPTTSAASAIAEVVHYNIFETLTKINTD-GSVAPLLAESWE
Acidovorax      ----KDTVVLAMTLEPPGLDPTSGAASAIGEITLYNVFETLTRINPD-GSTSPLLAERWD
Comamonas       ----KDSVTLAMTLEPPGLDPTAGAASSIAEVVLYNVFETLTKINAD-GSVSPLLAESWE
Delftia_ac      ----KDSITLAMTLEPPGLDPTAGAASSIGEIVLYNLFETLTKINPD-GSVSPLLAESWE
Propioniba      ---DDNVLTIGATAAPPTLDLVSNAAAAIPQVLLYNVYETLVRVNDS-GKLVGLLAKSWK
Kytococcus      SGPSDETVTLGLVAEPATLDFRTGDGAAIPQLLLGNVYETLVTVDPESGEIVDALAESHE
Streptomyc      VSPGPDTLSVGYSAEPANFDFTRSDGVAIPQALLYNVYEGLVKLDPQ-GRIVPLLAKSWT
                                                                            

GOS_106407      ------------------------------------------------------------
Rhodobacte      ISDDGLSYTFKLRDGVTFHDGSAMDAEDVKFSLDRARAEDSTNAQKALYAGITDVSVMDP
Roseobacte      ISEDGLTYTFHLNIGVSFHDGTAMDAEDVKFSLDRARAEDSTNAQKALFADIAGVTVVDS
Phaeobacte      ISEDGLSYTFTLQDGVTFHDGSTMDAEDVKFSLDRARAEDSTNAQKALFADIASVDVVDP
Ruegeria_p      ISEDGLTYTFRLQDGVTFHDGTTMDAEDVKFSLDRARAEDSTNAQKALFADIASVDVVDP
Verminephr      VSPDLKTYTFKLRRGVKFQNGEPFTAATVKFAFDRSGSDKSSNKSKSTFASLTT-QVVDD
Acidovorax      ISPDLKTLTFHLRRGVKFHNGAAFNAEAVKYSFDRAAVEKSTNKDKRTFANLTA-QVVDE
Comamonas       VSSDLKTYTFRLRKDVKFQNGEPFNAAAVKFSFDRAASDKSTNKDKRTFANLST-KVADE
Delftia_ac      VSPDLKTYTFRLRKGVSFQNGEPCNAHSVKYSFDRAGDDKSTNKDKRTFASLST-RVVDD
Propioniba      LSDDGLRLTFRLDPNARFASGARVTSAAVKASLERMRGASASPVNQANLAAIKAIHTPDD
Kytococcus      ISKDRLTYTFTLPTDRTFSDGSELTAQDVVSSIEAVQGTAWTSSLKSQMDVVESAEATDD
Streptomyc      ISPDRKTYDFQLQQGVKFSNGAPFTASDVQFSLMRVKT-DWTISIKSAMDVVDHVEVVAP
                                                                            

GOS_106407      ------------------------------------------------------------
Rhodobacte      MTVKLTLAEANGSMLFNLAWGDAVIVAAESIENIKQMPIGTGAFKFVNWVQGDKIELARN
Roseobacte      ATVQVTLNQPNGNFLFNLAWGDAVIVAPESIDDIKTAPVGTGAFKFAGWVQGDRIDLERN
Phaeobacte      LTVKLTLSQPNGNLLFNLAWGDAVIVAPETIDTIKTAPVGTGAFTFTNWVQGDRIDLARN
Ruegeria_p      LTVQITLSQPNGNLLFNLAWGDAVIVAPESIDTIKTAPVGTGAFTFTNWVQGDRIDLARN
Verminephr      YTVVLLNKDIDPDLLFVLGQAPFAIVEPKSADRNASQPVGTGPYRLGSWNRGSAVLLTAW
Acidovorax      HTVTVASKEADPDLLFLLGQATAAIVEPTSAEGNGVRPVGTGPYQFTAWSQGASVTLTAW
Comamonas       HTVVLTSQEIDPDFLFMMGQATSIIVEPKSAATNASKPVGTGPYQLAAWARGSSVTLSAW
Delftia_ac      HTVVVINKDIDPDFLFVLGQATSIIVEPKSAATNATRPVGTGPYQLGNWSKGASVTLTAW
Propioniba      STVILDLSNRDNFLLFNLASTSGVVIDPAT-KDLATRPQGSGPYVVTEFTPGHSVTLSPS
Kytococcus      HTVEVTLSEPSNSWLYAMTTRVGAIFPSETDAELATDPVGSGPYDVTDWKRGDRITLERR
Streptomyc      EHARVVLSKPSNGWLFSLTSRLGAMFSPTGVADLANHPVGTGPYEVASRRRGDSIVLRQN
                                                                            

GOS_106407      ------------------------------------------------------------
Rhodobacte      DAYW--GDAPA-LETATFKFISDPTAAFAAVMAQDVDVFAGFPAPENLPQFEADPRFQVL
Roseobacte      ADYW--GTPAH-LEKATFKFISDPTAAFAAMMAEDIDAFSGFPAPENLPQFDADPRFQVL
Phaeobacte      PDYW--GEAPA-LSAATFKFISDPTAAFAAMMAEDIDAFSAFPAPENLPQFEADPRFQVL
Ruegeria_p      PNYW--GEAPA-LSAATFKFISDPTAAFAAMMAEDVDAFSGFPAPENLPQFEADPRFQVL
Verminephr      EGFR--NPAAIKIKRASFRFISDPAAQVAALLAGDVDAFPRI-TNRGVAQFKSDPRFQVV
Acidovorax      DGYR--TPGTAKIRRAVFRFISDPAAQVAALMAGDVDAFPRV-APRSVPQFKANPRFQVI
Comamonas       PGYR--SATGIRIKRAVFRFIPDPAAQVAALLAGDVDAFPRV-SPRSVPQFKANARFQVV
Delftia_ac      PQHR--MASGLRIRRASFRFISDPAAQVAALLAGDVDAFPRV-TPRSVAQFKANGRFQVV
Propioniba      PRPWHEGNRP----TVRFAYYSDPTSQTAALLSGDLDVVSDMTTPQALSRFTGNPNYRVL
Kytococcus      EDFM--GEKPH-FATAVFRYFKDGTALNNAMLTGDIDIETTVQAPESLSQFEGKDGLQVI
Streptomyc      PQYW--GRKPA-YRTVVLKYFADPTALNNALLSNGIDVISNLTSADSIPQFQGDDRFTVQ
                                                                            

GOS_106407      -----------------------------------------MFGYGTPIGTHFAPHNPDY
Rhodobacte      VGSSEGETILSTNNKMPPFDNVKVRQAVAHAIDRQAIIDGAMFGYGTPIGTHFAPHNPDY
Roseobacte      VGSTEGETILSTNNKQAPFDNVKVREALAHAIDRQAIIDGAMFGYGTPIGSHFAPHNPAY
Phaeobacte      IGSTEGETILSINNKQAPFDNPKVRAAVAHAIDRQAIIDGAMFGYGTPIGTHFAPHNPAY
Ruegeria_p      VGSTEGETILSINNKQAPFDNPKVRAAVAHAIDRQAIIDGAMFGYGTPIGTHFAPHNPAY
Verminephr      IGGSRAKTILAINNARKPLDDLRVRRAIAAAIDRKAVIAAATEGYGVPIGSHYVPGAFGY
Acidovorax      VSGSRAKTILAINNQRKPLDDVRVRRAIAAAIDRKAVIQGGADGLGVPIGSHYVPGAFGY
Comamonas       VSNSRAKTILAINNARKPLNDIRVRRAIAAAIDRKAVIAGAADGYGVPIGSYYVPTAFGY
Delftia_ac      VSGSRAKTILAMNNARKPLGDARVRRAIAAAIDRKAVIDGAGDGYGLPIGSYYVPTAFGY
Propioniba      RGTTNGEVVLGMNNTSKALSDRRVRQAILMAIDRKGLLDVVWNGQGTLIGSMVPPTDPWY
Kytococcus      EGTTNGEVVLSFNHGNATMQSEPLRQAIRHAIDHQALLDTCWAGKGELIGSMVPPTDPWY
Streptomyc      QGTTNSEVTLAFNGRRAPLNDVRVRRALTYAIDRKAVLDLVFSGRGTLIGSMVPPTDPWY
                                                           * *  **:   *    *

GOS_106407      VDLTGNSNYDPELSKKLLAEAGLSDGFTTTLKLPPPSYARRGGEIIASQLRAVGIETEIS
Rhodobacte      VDLTADSAHDPAKAKALLAEAGMADGFETTLHLPPPSYARRGGEIIAAQLAEVGIKAEII
Roseobacte      KDLTGNSGYDPERAKALLAEAGLADGFETTLHLPPPSYARRGGEIIAAQLAQVGIKAEII
Phaeobacte      VDLTGTSAHDPEKSRALLAEAGLADGFTTTLHLPPPSYARRGGEIIAAQLAEVGITAEII
Ruegeria_p      VDLTGTSAHDPEKARALLAEAGLADGFTTTLHLPPPSYARRGGEIIAAQLAEVGITAEII
Verminephr      VDTTGVNPYDPGKAIRLLAEAGVKTPLTLGMTLPPTPYARLGGEVIAAQLAKVGIIAKME
Acidovorax      VDTTGVNPYDPDKARRLLAEAGVKTPLELTMTLPPTPYARQGGEVIAAQLAKVGIVAKPR
Comamonas       VDTTGVNPFDLEKAKALMAEAGIKTPLTLTMTLPPAPYARQGGELVAAQLAKIGIQLKLQ
Delftia_ac      VDTTGINPFDVEKAKALLAEAGVKTPLELTMTLPPTPYARQGGEVIAAQLAKIGIRAKLQ
Propioniba      TDLSHTWPHDPVRARKLLADAGYGNGLTLRLRTAALPYATAASRVVASELAQVGINVVTD
Kytococcus      TDRTGDFPHDLEKAKALVEEAGVDRPLRLRV--PTLPYATECGQVVKSQLEEAGLQVTLD
Streptomyc      EDLSKVYPYDPAKAKQLLAEAGVHD-LKLRLRIPNLPYAVSAAQVVQSQLADVGVTATIE
                 * :    .*   :  *: :**    :   :  .  .**   . :: ::*   *:     

GOS_106407      NLEW-AQWLEQVFRGKDYGLTIVSHTEPMDIGI-YARPDYYFQYDNPEFQSLMTELNGTT
Rhodobacte      NVEW-AQWLETVFRGKDFGLTIVSHTEPFDIGI-YARPDYYFQYDNPEFQALMTKLNATA
Roseobacte      NVEW-AQWLETVFRGKDFGLTIVSHTEPMDIGI-YARPEYYFQYDNPAFQALMEKLNGTT
Phaeobacte      NVEW-AQWLETVFRGKNFGLSIVSHTEPMDIGI-YARPDYYFQYDNAAFQDLMAELTGTT
Ruegeria_p      NVEW-AQWLETVFRGKNFGLSIVSHTEPMDIGI-YARPDYYFQYDNAAFQDLMAELTGTT
Verminephr      NVEW-AQWLSGTYGGKNYDLTVIAHVEPFDLNN-FANPDYYWGYQSPAFNALFDQIKNTA
Acidovorax      NVEW-AQWLSGTYANRNYDLTLISHVEPFDLGN-FAKPDYYWGYRSPRFDALYEQIRNAA
Comamonas       NVEW-AQWLSGTYTNKNYDLTIISHVEPFDLGN-FAKPDYYWGYQSKEFNELFDKIKSTP
Delftia_ac      NVEW-AQWLSGTYTLKNYDLTLISHVEPFDLGN-FAKPDYYWGYQSSQFNELYDKIKNAS
Propioniba      ELEFPARWLDVVYTHADYDLTIVAHVEARDIVN-WANPDYYWRYHNKEFNRLIESAR--T
Kytococcus      QLEFPASWLEQVYSSADYDLSIVAHVEPRDLGNVFGNPEYYLRYENPELTKALQAADAGT
Streptomyc      PLDFPAVWLKQVFTDHDFDLSIIQHVEARDIST-FGKPKYYWGYDNKRVQQLLAAADSGT
                 ::: * **. .:   ::.*::: *.*. *:   :..*.**  * .  .          .

GOS_106407      DPSKRS-SMLKKAQRMISNDYVNGYLFELAYTTVANAKVRGLWKNAPTQATDLTGVSWAD
Rhodobacte      DPSMRT-DMIAQAQTTISQDYVNGYLFQLAFPTVADAKVQGLWENAPTQATDLTGVSWSN
Roseobacte      DPAMRQ-SMLQEAQETISKDYVNGYLFQLAALSVANAKLQGLWANAPTQATDLTSVSWAE
Phaeobacte      DPDART-KMLQQAQEIIANDYVNGYLFQLAALSVAKADLQGLWANAPTQATDLTVVSWAK
Ruegeria_p      DPDART-KMLQQAQEIIANDYVNGFLFQLASLSVAKADLQGLWANAPTQATDLTAVSWAK
Verminephr      RPAERA-RLLGQAQRLLADDAVHAFLYQGQWVTVANKNLKGLWKDMPVFVNDISALSWS-
Acidovorax      QPADRA-RLLGDAQRLLAEDCVHAFLYQAQWATVANRNLRGLWKDMPIFANDLSALSWA-
Comamonas       RPADRA-RLLGDAQRLLAHDSVHGFLYTPQWVTVANQKLRGLWKDMPVFVNDLSALSWG-
Delftia_ac      RPADRS-RLLGDAQRLLAQDCVHAFLYTPQWVTVANKNLRGLWKDMPIFVNDLSALSWAT
Propioniba      GPADRTNETMMQASRILATDAAGGFLFLMPKITISKSGITGLQRNSTSMSFDLTKVRRSK
Kytococcus      -QEEQT-EQMRKAAEIISTDAAADFLFLLPNLVVADADIQGIPTNAVTEGFDLTALRR--
Streptomyc      -PQEQV-SDMKEVARQLNADAAADWLFLFPNVVVAKKKVTGLARNQVSESFDLTSVRPA-
                    .    : ..   :  * .  :*:      ::.  : *:  :      *:: :

Domaines Protéiques

PROTOCOLE:


ANALYSE DES RÉSULTATS:


1 domaine protéique trouvé : Bacterial extracellular solute-binding protein en position 1-123 


RÉSULTATS BRUTS:

GOS_1064070	5BCC4E2981A4101B	196	superfamily	SSF53850	Periplasmic binding protein-like II	1	194	2.1e-35	T	03-Dec-2009	NULL	NULL	
GOS_1064070	5BCC4E2981A4101B	196	Gene3D	G3DSA:3.10.105.10	no description	1	162	3.5e-26	T	03-Dec-2009	NULL	NULL	
GOS_1064070	5BCC4E2981A4101B	196	HMMPfam	PF00496	SBP_bac_5	1	123	1e-12	T	03-Dec-2009	IPR000914	Bacterial extracellular solute-binding protein, family 5	Molecular Function: transporter activity (GO:0005215), Biological Process: transport (GO:0006810)


InterPro
IPR000914
Family
	
Bacterial extracellular solute-binding protein, family 5
PFAM 	PF00496 	SBP_bac_5 	1e-12 [1-123]T
Parent 	no parent
Children 	IPR011980 IPR016880
Found in 	no entries
Contains 	no entries
GO terms 	Molecular Function: transporter activity (GO:0005215)
                Biological Process: transport (GO:0006810)


noIPR
unintegrated 	
unintegrated
GENE3D 	G3DSA:3.10.105.10 	no description 	3.5e-26 [1-162]T
SUPERFAMILY 	SSF53850 	Periplasmic binding protein-like II 	2.1e-35 [1-194]T
Parent 	no parent
Children 	no children
Found in 	no entries
Contains 	no entries
GO terms 	none

Phylogénie

PROTOCOLE:


ANALYSE DES RÉSULTATS:


la séquence étudiée est reliée spécifiquement au groupe des alpha protéobactéries (sans émerger à l’intérieur). On peut donc conclure que la séquence est proche de ce groupe, même si on ne peut pas conclure qu’elle appartient au groupe. Il s’agit soit du représentant d’une lignée inconnue appartenant au groupe des alpha protéobactéries, soit du représentant d’une lignée inconnue proche parente.


De plus, en prenant en compte les informations fournies par INTERPRO (domaine dont l'activité serait une activité de transport), on peut émettre l'hypothèse que le groupe dans lequel ferait partit notre séquence soit orthologue au groupe des alpha-protéobactéries. La séquence coderait alors pour un transporteur ABC.


On aurait donc, le groupe 1 paralogue au groupe 2 et le groupe 3 paralogue au groupe 4. 

RÉSULTATS BRUTS:


                                                                                                      ------0.2----
 
                        +---------------------Propionibacterium.acnes_ABCtransporter-substrate-binding-prot (HighGCgram+)
                   +----+
        1          |    +-----------------------Streptomyces_ABC-type_transport_system_substrate-binding_comp (HighGCgram+)
 +-----------------+
 |                 |
 |                 +-------------------Kytococcus.sedentarius_ABC-type_dipeptide_transport_system (HighGCgram+)
 |
 |                                            +--------Verminephrobacter.eiseniae_extracel_solute-binding_protein (b-prot)
 |                                          +-+
 |                          3               | +-----Acidovorax.avenae_extracellular_solute-binding_protein (b-prot)
 |             +----------------------------+
 |             |                            |    +------Comamonas.testosteroni_KF-1_extracel_solute-binding_prot (b-prot)
 |             |                            +----+
 |             |                                 |
 |       2     |                                 +--Delftia.acidovorans_extracel_solute-binding-prot (b-proteobacterie)
 +-------------+
               |          +-----GOS_1064070
               |          |
               |    4     |      +---Roseobacter_peptide/opine/nickel_ABCtransporter (a-proteobacterie)
               +----------+      |
                          |   +--+    +Phaeobacter.gal_peptide/opine/nickel_ABCtransporter (a-proteobacterie)
                          |   |  |    |
                          +---+  +----+
                              |       +Ruegeria_peptide/opine/nickel_ABC_transporter (a-proteobacterie)
                              |
                              +-----Rhodobacterales_peptide/opine/nickel_ABCtransporter (a-proteobacterie)

Rapport taxonomique

PROTOCOLE:


ANALYSE DES RÉSULTATS:


On trouve exclusivement des bactéries. Les séquences ont été choisies (notée dans le bloc note)en fonction du pourcentage d'identité (supérieur à 25%), de l'e-value(supérieur à 0.001) et de la longueur sur lequel l'alignement est basé. Les séquences choisies pour effectuer l'alignement multiple sont notées dans le bloc note. 

RÉSULTATS BRUTS:

Lineage Report

Bacteria            [bacteria]
. Proteobacteria      [proteobacteria]
. . Alphaproteobacteria [a-proteobacteria]
. . . Rhodobacterales     [a-proteobacteria]
. . . . Rhodobacteraceae    [a-proteobacteria]
. . . . . Labrenzia           [a-proteobacteria]
. . . . . . Labrenzia alexandrii DFL-11 ------------  347 2 hits [a-proteobacteria]  Bacterial extracellular solute-binding protein, family 5 [L
. . . . . . Labrenzia aggregata IAM 12614 ..........  343 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Roseobacter sp. SK209-2-6 ----------------  335 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Phaeobacter gallaeciensis 2.10 ...........  325 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Roseovarius sp. HTCC2601 .................  325 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Ruegeria sp. R11 .........................  325 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Roseobacter sp. MED193 ...................  324 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Oceanibulbus indolifex HEL-45 ............  323 4 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Phaeobacter gallaeciensis BS107 ..........  322 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Octadecabacter antarcticus 238 ...........  322 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Sagittula stellata E-37 ..................  322 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Loktanella vestfoldensis SKA53 ...........  320 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Octadecabacter antarcticus 307 ...........  320 2 hits [a-proteobacteria]  Bacterial extracellular solute-binding protein, family 5 [O
. . . . . Roseobacter sp. GAI101 ...................  319 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Citreicella sp. SE45 .....................  319 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Roseobacter sp. CCS2 .....................  317 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Rhodobacteraceae bacterium KLH11 .........  316 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Silicibacter lacuscaerulensis ITI-1157 ...  313 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Ruegeria pomeroyi DSS-3 ..................  312 2 hits [a-proteobacteria]  peptide/opine/nickel uptake ABC transporter periplasmic sub
. . . . . Silicibacter sp. TrichCH4B ...............  312 2 hits [a-proteobacteria]  extracellular solute-binding protein, family 5 [Silicibacte
. . . . . Ruegeria sp. TM1040 ......................  311 2 hits [a-proteobacteria]  extracellular solute-binding protein [Silicibacter sp. TM10
. . . . . Sulfitobacter sp. NAS-14.1 ...............  308 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Sulfitobacter sp. EE-36 ..................  305 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family protein ABC transporter,
. . . . . Jannaschia sp. CCS1 ......................  303 2 hits [a-proteobacteria]  extracellular solute-binding protein [Jannaschia sp. CCS1] 
. . . . . Oceanicola batsensis HTCC2597 ............  288 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . . Paracoccus denitrificans PD1222 ..........  283 2 hits [a-proteobacteria]  extracellular solute-binding protein [Paracoccus denitrific
. . . . . Pseudovibrio sp. JE062 ...................  254 2 hits [a-proteobacteria]  extracellular solute-binding protein, family 5 [Pseudovibri
. . . . Rhodobacterales bacterium HTCC2083 ---------  322 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . Rhodobacterales bacterium Y4I ..............  299 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . . Rhodobacterales bacterium HTCC2654 .........  297 2 hits [a-proteobacteria]  peptide/opine/nickel uptake family ABC transporter, peripla
. . . Hoeflea phototrophica DFL-43 -----------------  298 2 hits [a-proteobacteria]  extracellular solute-binding protein, family 5 [Hoeflea pho
. . . Chelativorans sp. BNC1 .......................  249 4 hits [a-proteobacteria]  extracellular solute-binding protein [Mesorhizobium sp. BNC
. . . Mesorhizobium opportunistum WSM2075 ..........  242 2 hits [a-proteobacteria]  extracellular solute-binding protein family 5 [Mesorhizobiu
. . . Mesorhizobium loti MAFF303099 ................  231 2 hits [a-proteobacteria]  dipeptide-binding protein of ABC transporter [Mesorhizobium
. . . Bradyrhizobium japonicum USDA 110 ............  193 2 hits [a-proteobacteria]  ABC transporter substrate-binding protein [Bradyrhizobium j
. . . Ochrobactrum intermedium LMG 3301 ............  193 4 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Ochrobactrum in
. . . Ochrobactrum anthropi ATCC 49188 .............  193 4 hits [a-proteobacteria]  extracellular solute-binding protein [Ochrobactrum anthropi
. . . Bradyrhizobium sp. ORS278 ....................  191 2 hits [a-proteobacteria]  putative oligopeptide ABC transporter (substrate-binding pr
. . . Bradyrhizobium sp. BTAi1 .....................  188 2 hits [a-proteobacteria]  putative oligopeptide ABC transporter (substrate-binding pr
. . . Brucella neotomae 5K33 .......................  187 3 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella neotom
. . . Brucella sp. 83/13 ...........................  186 3 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella sp. 83
. . . Brucella ovis ATCC 25840 .....................  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella ceti M644/93/1 ......................  186 3 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella ceti M
. . . Brucella ceti M13/05/1 .......................  186 3 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella ceti M
. . . Brucella abortus bv. 1 str. 9-941 ............  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella abortus bv. 2 str. 86/8/59 ..........  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella abortus bv. 4 str. 292 ..............  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella melitensis bv. 1 str. Rev.1 .........  186 3 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella melite
. . . Brucella melitensis bv. 1 str. 16M ...........  186 4 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella melite
. . . Brucella ceti str. Cudo ......................  186 2 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella ceti s
. . . Brucella suis 1330 ...........................  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella canis ATCC 23365 ....................  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella melitensis ATCC 23457 ...............  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella suis bv. 5 str. 513 .................  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella suis bv. 3 str. 686 .................  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella pinnipedialis M163/99/10 ............  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella pinnipedialis B2/94 .................  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella microti CCM 4915 ....................  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella pinnipedialis M292/94/1 .............  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella melitensis bv. 3 str. Ether .........  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella ceti M490/95/1 ......................  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella ceti B1/94 ..........................  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella melitensis bv. 2 str. 63/9 ..........  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella sp. F5/99 ...........................  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella suis bv. 4 str. 40 ..................  186 2 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella melitensis biovar Abortus 2308 ......  186 2 hits [a-proteobacteria]  solute-binding family 5 protein [Brucella melitensis biovar
. . . Brucella abortus S19 .........................  186 2 hits [a-proteobacteria]  solute-binding family 5 protein [Brucella melitensis biovar
. . . Brucella abortus NCTC 8038 ...................  186 2 hits [a-proteobacteria]  solute-binding family 5 protein [Brucella melitensis biovar
. . . Brucella abortus str. 2308 A .................  186 2 hits [a-proteobacteria]  Glutathione-binding protein gsiB precursor [Brucella abortu
. . . Brucella abortus bv. 6 str. 870 ..............  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella abortus bv. 9 str. C68 ..............  186 3 hits [a-proteobacteria]  ABC transporter, periplasmic substrate-binding protein [Bru
. . . Brucella suis ATCC 23445 .....................  183 2 hits [a-proteobacteria]  hypothetical protein BSUIS_B1007 [Brucella suis ATCC 23445]
. . . Zymomonas mobilis subsp. mobilis ATCC 10988 ..  182 2 hits [a-proteobacteria]  binding-protein-dependent transport systems inner membrane 
. . . Zymomonas mobilis subsp. mobilis NCIMB 11163 .  182 2 hits [a-proteobacteria]  extracellular solute-binding protein family 5 [Zymomonas mo
. . . Brucella abortus bv. 3 str. Tulya ............  177 3 hits [a-proteobacteria]  Bacterial extracellular solute-binding protein, family 5 [B
. . . Rhizobium leguminosarum bv. trifolii WSM1325 .  174 2 hits [a-proteobacteria]  extracellular solute-binding protein family 5 [Rhizobium le
. . . Agrobacterium vitis S4 .......................  174 2 hits [a-proteobacteria]  ABC transporter substrate binding protein (oligopeptide) [A
. . . Rhizobium leguminosarum bv. viciae 3841 ......  172 2 hits [a-proteobacteria]  putative solute-binding component of ABC transporter [Rhizo
. . . Rhizobium etli GR56 ..........................  172 1 hit  [a-proteobacteria]  probable ABC transporter, substrate-binding protein [Rhizob
. . . Rhizobium etli CIAT 652 ......................  169 2 hits [a-proteobacteria]  probable ABC transporter, substrate-binding protein [Rhizob
. . . Rhizobium etli 8C-3 ..........................  169 1 hit  [a-proteobacteria]  probable ABC transporter, substrate-binding protein [Rhizob
. . . Rhizobium etli CFN 42 ........................  169 2 hits [a-proteobacteria]  peptide ABC transporter substrate-binding protein [Rhizobiu
. . . Rhizobium leguminosarum bv. trifolii WSM2304 .  168 2 hits [a-proteobacteria]  extracellular solute-binding protein family 5 [Rhizobium le
. . . Agrobacterium tumefaciens str. C58 ...........  165 2 hits [a-proteobacteria]  ABC transporter, substrate binding protein (oligopeptide) [
. . . Agrobacterium radiobacter K84 ................  162 2 hits [a-proteobacteria]  dipeptide ABC transporter [Agrobacterium radiobacter K84] >
. . . Azorhizobium caulinodans ORS 571 .............  159 2 hits [a-proteobacteria]  ABC transporter substrate binding protein [Azorhizobium cau
. . . Gluconobacter oxydans 621H ...................  158 2 hits [a-proteobacteria]  peptide ABC transporter [Gluconobacter oxydans 621H] >gi|58
. . Comamonas testosteroni KF-1 --------------------  201 2 hits [b-proteobacteria]  extracellular solute-binding protein family 5 [Comamonas te
. . Comamonas testosteroni CNB-2 ...................  199 2 hits [b-proteobacteria]  putative binding protein yliB precursor [Comamonas testoste
. . Variovorax paradoxus S110 ......................  199 4 hits [b-proteobacteria]  extracellular solute-binding protein family 5 [Variovorax p
. . Acidovorax citrulli AAC00-1 ....................  199 2 hits [b-proteobacteria]  extracellular solute-binding protein [Acidovorax avenae sub
. . Verminephrobacter eiseniae EF01-2 ..............  196 2 hits [b-proteobacteria]  extracellular solute-binding protein [Verminephrobacter eis
. . Acidovorax sp. JS42 ............................  193 2 hits [b-proteobacteria]  extracellular solute-binding protein [Acidovorax sp. JS42] 
. . Diaphorobacter sp. TPSY ........................  193 4 hits [b-proteobacteria]  extracellular solute-binding protein [Acidovorax sp. JS42] 
. . Delftia acidovorans SPH-1 ......................  192 2 hits [b-proteobacteria]  extracellular solute-binding protein [Delftia acidovorans S
. . Acidovorax delafieldii 2AN .....................  184 2 hits [b-proteobacteria]  extracellular solute-binding protein family 5 [Acidovorax d
. Propionibacterium acnes SK137 --------------------  129 2 hits [high GC Gram+]     ABC transporter, substrate binding protein [Propionibacteri
. Kytococcus sedentarius DSM 20547 .................  129 2 hits [high GC Gram+]     ABC-type dipeptide transport system, periplasmic component 
. Propionibacterium acnes KPA171202 ................  128 2 hits [high GC Gram+]     ABC transporter, substrate binding protein [Propionibacteri
. Streptomyces sp. AA4 .............................  125 1 hit  [high GC Gram+]     ABC-type transport system, substrate-binding component [Str
. Streptomyces hygroscopicus ATCC 53653 ............  119 1 hit  [high GC Gram+]     ABC transporter solute-binding protein [Streptomyces hygros
. Streptomyces hygroscopicus subsp. yingchengensis .  117 1 hit  [high GC Gram+]     Shy13 [Streptomyces hygroscopicus subsp. yingchengensis]
. Meiothermus silvanus DSM 9946 ....................  116 2 hits [bacteria]          ABC-type dipeptide transport system, periplasmic component 
. Geobacillus sp. Y412MC10 .........................  112 2 hits [firmicutes]        extracellular solute-binding protein family 5 [Geobacillus 
. Kribbella flavida DSM 17836 ......................  112 2 hits [high GC Gram+]     ABC-type dipeptide transport system, periplasmic component 
. Xylanimonas cellulosilytica DSM 15894 ............  110 2 hits [high GC Gram+]     extracellular solute-binding protein family 5 [Xylanimonas 
. Bifidobacterium gallicum DSM 20093 ...............  110 1 hit  [high GC Gram+]     ABC-type dipeptide transport system periplasmic component [
. Brevibacterium linens BL2 ........................  109 1 hit  [high GC Gram+]     ABC transporter solute-binding protein [Brevibacterium line
. Meiothermus ruber DSM 1279 .......................  108 2 hits [bacteria]          ABC-type dipeptide transport system, periplasmic component 
. Streptomyces albus J1074 .........................  107 1 hit  [high GC Gram+]     extracellular solute-binding protein [Streptomyces albus J1
. Streptomyces flavogriseus ATCC 33331 .............  107 2 hits [high GC Gram+]     extracellular solute-binding protein family 5 [Streptomyces
. Renibacterium salmoninarum ATCC 33209 ............  105 2 hits [high GC Gram+]     dipeptide-binding protein [Renibacterium salmoninarum ATCC 
. Bifidobacterium animalis subsp. lactis AD011 .....  102 2 hits [high GC Gram+]     solute binding protein of ABC transporter system for peptid
. Bifidobacterium animalis subsp. lactis HN019 .....  102 2 hits [high GC Gram+]     solute binding protein of ABC transporter system for peptid
. Bifidobacterium animalis subsp. lactis Bl-04 .....  102 2 hits [high GC Gram+]     solute binding protein of ABC transporter system for peptid
. Bifidobacterium animalis subsp. lactis DSM 10140 .  102 2 hits [high GC Gram+]     solute binding protein of ABC transporter system for peptid
. Corynebacterium matruchotii ATCC 14266 ...........  101 2 hits [high GC Gram+]     ABC-type dipeptide/oligopeptide/nickel transport system, se
. Bifidobacterium bifidum NCIMB 41171 ..............  100 1 hit  [high GC Gram+]     ABC-type dipeptide transport system periplasmic component [

BLAST

PROTOCOLE:a) Blastp contre swissprot

b) blastp contre n/r

ANALYSE DES RÉSULTATS:


Les résultats sont peu concluant avec swissprot. En effet, sur les 47 hits seuls 3 hits seraient exploitables (e-value inférieure à 0.001).

Par contre, le blastp contre n/r donne de nombreux hits (100hits) dont les e-values sont comprises entre 5e-94 et 4e-20.

Les séquences homologues détectées par blast s'alignent sur toute la longueur de la séquence protéique. Inversement, la séquence étudiée s'aligne sur la seconde moitié des séquences homologues trouvées (avec des pourcentages d'identités toujours supérieurs à 50%). On note également que les séquences homologues sont toutes plus longues que la query (entre 580 et 480).

On trouve deux sortes d'homologues : les séquences homologues codant pour des extracellular solute-binding protein et les séquences homologues codant pour des transporteur ABC.


Les analyses suivantes (phylogénie : arbre, alignements multiples) seront basés sur les résultats obtenus par le blastp contre n/r. 




RÉSULTATS BRUTS:

a)
                                                                   Score     E
Sequences producing significant alignments:                       (Bits)  Value

sp|P33950.2|HBPA_HAEIN  RecName: Full=Heme-binding protein A; ...  59.3    2e-08
sp|P23847.1|DPPA_ECOLI  RecName: Full=Periplasmic dipeptide tr...  53.9    6e-07
sp|Q32IB6.1|GSIB_SHIDS  RecName: Full=Glutathione-binding prot...  44.3    5e-04 Gene info
sp|Q5PGP4.1|GSIB_SALPA  RecName: Full=Glutathione-binding prot...  42.7    0.001
sp|Q57RB1.1|GSIB_SALCH  RecName: Full=Glutathione-binding prot...  42.7    0.001
sp|P76128.1|DDPA_ECOLI  RecName: Full=Probable D,D-dipeptide-b...  42.7    0.001
sp|Q8Z863.1|GSIB_SALTI  RecName: Full=Glutathione-binding prot...  42.4    0.002
sp|P75797.1|GSIB_ECOLI  RecName: Full=Glutathione-binding prot...  42.4    0.002
sp|Q3Z3V3.1|GSIB_SHISS  RecName: Full=Glutathione-binding prot...  42.4    0.002 Gene info
sp|A1A968.2|GSIB_ECOK1  RecName: Full=Glutathione-binding prot...  42.4    0.002
sp|Q323W4.1|GSIB_SHIBS  RecName: Full=Glutathione-binding prot...  42.4    0.002 Gene info
sp|Q8X6V9.1|GSIB_ECO57  RecName: Full=Glutathione-binding prot...  42.4    0.002
sp|Q821B3.4|GSIB_SHIFL  RecName: Full=Glutathione-binding prot...  42.4    0.002
sp|P23843.2|OPPA_ECOLI  RecName: Full=Periplasmic oligopeptide...  42.4    0.002
sp|Q8ZQM3.1|GSIB_SALTY  RecName: Full=Glutathione-binding prot...  42.0    0.002
sp|Q6D3B0.1|GSIB_ERWCT  RecName: Full=Glutathione-binding prot...  42.0    0.002
sp|Q0TJL8.2|GSIB_ECOL5  RecName: Full=Glutathione-binding prot...  40.8    0.005
sp|P42061.2|APPA_BACSU  RecName: Full=Oligopeptide-binding pro...  39.7    0.010
sp|Q0T6D2.1|GSIB_SHIF8  RecName: Full=Glutathione-binding prot...  39.7    0.012 Gene info
sp|P24141.1|OPPA_BACSU  RecName: Full=Oligopeptide-binding pro...  38.5    0.027
sp|P26906.4|DPPE_BACSU  RecName: Full=Dipeptide-binding protei...  35.8    0.18 
sp|P06202.2|OPPA_SALTY  RecName: Full=Periplasmic oligopeptide...  35.0    0.26 
sp|Q60354.1|Y046_METJA  RecName: Full=Putative methyltransfera...  34.7    0.37 
sp|P55669.1|Y4TO_RHISN  RecName: Full=Probable peptide ABC tra...  34.3    0.47  Gene info
sp|A6LUA1.1|GPMA_CLOB8  RecName: Full=2,3-bisphosphoglycerate-...  33.9    0.56  Gene info
sp|Q8TIU5.1|SYM_METAC  RecName: Full=Methionyl-tRNA synthetase...  33.5    0.72 
sp|B7H7P4.1|GPMA_BACC4  RecName: Full=2,3-bisphosphoglycerate-...  32.3    1.7   Gene info
sp|Q737X5.1|GPMA1_BACC1  RecName: Full=2,3-bisphosphoglycerate...  32.0    2.2   Gene info
sp|A9VFW9.1|GPMA_BACWK  RecName: Full=2,3-bisphosphoglycerate-...  32.0    2.2   Gene info
sp|Q81DD2.1|GPMA_BACCR  RecName: Full=2,3-bisphosphoglycerate-...  32.0    2.3   Gene info
sp|A0RE96.1|GPMA_BACAH  RecName: Full=2,3-bisphosphoglycerate-...  32.0    2.3   Gene info
sp|Q63B92.1|GPMA_BACCZ  RecName: Full=2,3-bisphosphoglycerate-...  32.0    2.4   Gene info
sp|Q6KSL4.1|GPMA_BACAN  RecName: Full=2,3-bisphosphoglycerate-...  32.0    2.4  
sp|Q6HIL9.1|GPMA_BACHK  RecName: Full=2,3-bisphosphoglycerate-...  32.0    2.4  
sp|Q03278.2|PO21_NASVI  RecName: Full=Retrovirus-related Pol p...  31.6    2.9  
sp|P09497.1|CLCB_HUMAN  RecName: Full=Clathrin light chain B; ...  31.6    3.3   Gene info
sp|B8GFF8.1|GPMA_METPE  RecName: Full=2,3-bisphosphoglycerate-...  31.6    3.3  
sp|A5DQ50.2|CAF17_PICGU  RecName: Full=Putative transferase CA...  31.2    4.2  
sp|Q4JVE8.1|SYH_CORJK  RecName: Full=Histidyl-tRNA synthetase;...  30.8    5.7   Gene info
sp|P71370.1|OPPA_HAEIN  RecName: Full=Periplasmic oligopeptide...  30.4    6.0  
sp|A7GPN5.1|GPMA_BACCN  RecName: Full=2,3-bisphosphoglycerate-...  30.4    6.6   Gene info
sp|Q5QYC3.1|Y943_IDILO  RecName: Full=Putative metalloprotease...  30.4    7.5  
sp|Q803E1.1|CQ085_DANRE  RecName: Full=Uncharacterized protein...  30.4    7.6   Gene info
sp|B7HS46.1|GPMA_BACC7  RecName: Full=2,3-bisphosphoglycerate-...  30.0    8.6   Gene info
sp|Q38893.3|ZDS_ARATH  RecName: Full=Zeta-carotene desaturase,...  30.0    9.1   Gene info
sp|A4T063.1|Y1915_POLSQ  RecName: Full=UPF0042 nucleotide-bind...  30.0    9.2   Gene info
sp|Q5WAX6.1|TOP3_BACSK  RecName: Full=DNA topoisomerase 3; Alt...  30.0    9.5   



>sp|P33950.2|HBPA_HAEIN  RecName: Full=Heme-binding protein A; AltName: Full=Hemin-binding 
lipoprotein; Flags: Precursor
Length=547

 Score = 59.3 bits (142),  Expect = 2e-08, Method: Compositional matrix adjust.
 Identities = 50/173 (28%), Positives = 77/173 (44%), Gaps = 26/173 (15%)

Query  3    GYGTPIGTHFAPHNPDYVDLTGNSNYDPELSKKLLAEAGLSDGFTTTLKLPPPSYA----  58
            G GT       P    Y D   +  YDPE +K+LLAEAG  +GF T   + P   A    
Sbjct  340  GAGTSAKNPLPPTIWSYNDEIQDYPYDPEKAKQLLAEAGYPNGFETDFWIQPVIRASNPN  399

Query  59   -RRGGEIIASQLRAVGIETEISNLEWAQWLEQVFRGKDYGLTIVSHTEPMDIGIYARPDY  117
             +R  E+I +    +G++T     EWA + +   R K+  LT        D G    PD 
Sbjct  400  PKRMAELIMADWAKIGVKTNPVTYEWADYRK---RAKEGELTAGIFGWSGDNG---DPDN  453

Query  118  YF---------------QYDNPEFQSLMTELNGTTDPSKRSSMLKKAQRMISN  155
            +                +++N EF +L+ E  G T+  +R+ + K+AQ ++ N
Sbjct  454  FLSPLLGSSNIGNSNMARFNNSEFDALLNEAIGLTNKEERAKLYKQAQVIVHN  506


>sp|P23847.1|DPPA_ECOLI  RecName: Full=Periplasmic dipeptide transport protein; AltName: 
Full=Dipeptide-binding protein; Short=DBP; Flags: Precursor
Length=535

 Score = 53.9 bits (128),  Expect = 6e-07, Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 69/158 (43%), Gaps = 27/158 (17%)

Query  19   YVDLTGNSNYDPELSKKLLAEAGLSDGFTTTL-----KLPPPSYARRGGEIIASQLRAVG  73
            Y D   +  YDPE +K LL EAGL  GF+  L     + P    ARR  E+I +    VG
Sbjct  345  YNDDVQDYTYDPEKAKALLKEAGLEKGFSIDLWAMPVQRPYNPNARRMAEMIQADWAKVG  404

Query  74   IETEISNLEWAQWLEQVFRGKDYGLTIVSHTEPMDIGIYARPDYYF--------------  119
            ++ +I   EW ++L+   R KD     V      D G    PD +F              
Sbjct  405  VQAKIVTYEWGEYLK---RAKDGEHQTVMMGWTGDNG---DPDNFFATLFSCAASEQGSN  458

Query  120  --QYDNPEFQSLMTELNGTTDPSKRSSMLKKAQRMISN  155
              ++    F+ L+     T D +KR  + K+AQ ++ +
Sbjct  459  YSKWCYKPFEDLIQPARATDDHNKRVELYKQAQVVMHD  496


>sp|Q32IB6.1|GSIB_SHIDS Gene info RecName: Full=Glutathione-binding protein gsiB; Flags: Precursor
Length=512

 GENE ID: 3799302 SDY_0757 | putative transport protein
[Shigella dysenteriae Sd197] (10 or fewer PubMed links)

 Score = 44.3 bits (103),  Expect = 5e-04, Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 77/168 (45%), Gaps = 18/168 (10%)

Query  3    GYGTPIGTHFAPHNPDYVDLTGNSNYDPELSKKLLAEAGLSDGFTTTL-KLPPPSYARRG  61
            GY TP  T   P +  Y        YDP  +++LL EAG  +GF+TTL      S A++ 
Sbjct  305  GYATP-ATGVVPPSIAYAQSYKPWPYDPVKARELLKEAGYPNGFSTTLWSSHNHSTAQKV  363

Query  62   GEIIASQLRAVGIETEISNLEWAQWLEQVF-RG-KDYGLTIVSHTEPMDIG--------I  111
             +    QL  VGI+ +++ ++  Q   +V  +G K+ G+ +         G        +
Sbjct  364  LQFTQQQLAQVGIKAQVTAMDAGQRAAEVEGKGQKESGVRMFYTGWSASTGEADWALSPL  423

Query  112  YAR---PDYYFQ---YDNPEFQSLMTELNGTTDPSKRSSMLKKAQRMI  153
            +A    P   F    Y N +    + +   T DP++++S+ K AQ +I
Sbjct  424  FASQNWPPTLFNTAFYSNKQVDDFLAQALKTNDPAEKTSLYKAAQDII  471



b)

                                                                   Score     E
Sequences producing significant alignments:                       (Bits)  Value

ref|ZP_05116287.1|  Bacterial extracellular solute-binding pro...   347    5e-94
ref|ZP_01545268.1|  peptide/opine/nickel uptake family ABC tra...   343    8e-93
ref|ZP_01756643.1|  peptide/opine/nickel uptake family ABC tra...   335    2e-90
ref|ZP_02149481.1|  peptide/opine/nickel uptake family ABC tra...   325    1e-87
ref|ZP_01443752.1|  peptide/opine/nickel uptake family ABC tra...   325    2e-87
ref|ZP_05090487.1|  peptide/opine/nickel uptake family ABC tra...   325    2e-87
ref|ZP_01055587.1|  peptide/opine/nickel uptake family ABC tra...   324    2e-87
ref|ZP_02152553.1|  peptide/opine/nickel uptake family ABC tra...   323    5e-87
ref|ZP_02146743.1|  peptide/opine/nickel uptake family ABC tra...   322    1e-86
ref|ZP_05073033.1|  peptide/opine/nickel uptake family ABC tra...   322    1e-86
ref|ZP_05067693.1|  peptide/opine/nickel uptake family ABC tra...   322    1e-86
ref|ZP_01744080.1|  peptide/opine/nickel uptake family ABC tra...   322    1e-86
ref|ZP_01002355.1|  peptide/opine/nickel uptake family ABC tra...   320    3e-86
ref|ZP_05050470.1|  Bacterial extracellular solute-binding pro...   320    4e-86
ref|ZP_05101519.1|  peptide/opine/nickel uptake family ABC tra...   319    8e-86
ref|ZP_05779967.1|  peptide/opine/nickel uptake family ABC tra...   319    1e-85
ref|ZP_01749927.1|  peptide/opine/nickel uptake family ABC tra...   317    5e-85
ref|ZP_05124491.1|  peptide/opine/nickel uptake family ABC tra...   316    7e-85
ref|ZP_05786087.1|  peptide/opine/nickel uptake family ABC tra...   313    5e-84
ref|YP_165375.1|  peptide/opine/nickel uptake ABC transporter ...   312    1e-83 Gene info
ref|ZP_05739517.1|  extracellular solute-binding protein, fami...   312    1e-83
ref|YP_611671.1|  extracellular solute-binding protein [Silici...   311    3e-83 Gene info
ref|ZP_00961735.1|  peptide/opine/nickel uptake family ABC tra...   308    2e-82
ref|ZP_00954426.1|  peptide/opine/nickel uptake family protein...   305    1e-81
ref|YP_508724.1|  extracellular solute-binding protein [Jannas...   303    9e-81 Gene info
ref|ZP_05079347.1|  peptide/opine/nickel uptake family ABC tra...   299    1e-79
ref|ZP_02164649.1|  extracellular solute-binding protein, fami...   298    2e-79
ref|ZP_01012232.1|  peptide/opine/nickel uptake family ABC tra...   297    5e-79
ref|ZP_00998730.1|  peptide/opine/nickel uptake family ABC tra...   288    3e-76
ref|YP_914618.1|  extracellular solute-binding protein [Paraco...   283    8e-75 Gene info
ref|ZP_05085058.1|  extracellular solute-binding protein, fami...   254    3e-66
ref|YP_673874.1|  extracellular solute-binding protein [Mesorh...   249    1e-64 Gene info
ref|ZP_05807954.1|  extracellular solute-binding protein famil...   242    2e-62
ref|NP_102835.1|  dipeptide-binding protein of ABC transporter...   231    4e-59 Gene info
ref|ZP_03545030.1|  extracellular solute-binding protein famil...   201    4e-50
ref|YP_003276848.1|  putative binding protein yliB precursor [...   199    1e-49 Gene info
ref|YP_002946232.1|  extracellular solute-binding protein fami...   199    1e-49 Gene info
ref|YP_971944.1|  extracellular solute-binding protein [Acidov...   199    1e-49 Gene info
ref|YP_994949.1|  extracellular solute-binding protein [Vermin...   196    1e-48 Gene info
ref|NP_769874.1|  ABC transporter substrate-binding protein [B...   193    6e-48 Gene info
ref|YP_985205.1|  extracellular solute-binding protein [Acidov...   193    7e-48 Gene info
ref|ZP_04681036.1|  Glutathione-binding protein gsiB precursor...   193    9e-48
ref|YP_001369834.1|  extracellular solute-binding protein [Och...   193    9e-48 Gene info
ref|YP_001566455.1|  extracellular solute-binding protein [Del...   192    2e-47 Gene info
ref|YP_001203699.1|  putative oligopeptide ABC transporter (su...   191    3e-47 Gene info
ref|YP_001242287.1|  putative oligopeptide ABC transporter (su...   188    3e-46 Gene info
ref|ZP_05449042.1|  Glutathione-binding protein gsiB precursor...   187    4e-46
ref|ZP_05182408.1|  Glutathione-binding protein gsiB precursor...   186    8e-46
ref|YP_001257925.1|  ABC transporter, periplasmic substrate-bi...   186    9e-46 Gene info
ref|ZP_05174580.1|  Glutathione-binding protein gsiB precursor...   186    9e-46
ref|YP_223695.1|  ABC transporter, periplasmic substrate-bindi...   186    9e-46 Gene info
ref|ZP_05446802.1|  Glutathione-binding protein gsiB precursor...   186    9e-46
ref|NP_541262.1|  periplasmic dipeptide transport protein prec...   186    9e-46 Gene info
ref|ZP_03787496.1|  Glutathione-binding protein gsiB precursor...   186    9e-46
ref|NP_700175.1|  ABC transporter, periplasmic substrate-bindi...   186    9e-46 Gene info
ref|YP_419112.1|  solute-binding family 5 protein [Brucella me...   186    1e-45 Gene info
ref|ZP_04596376.1|  Glutathione-binding protein gsiB precursor...   186    1e-45
ref|ZP_05153924.1|  ABC transporter, periplasmic substrate-bin...   186    1e-45
ref|ZP_04765305.1|  extracellular solute-binding protein famil...   184    4e-45
ref|YP_001622781.1|  hypothetical protein BSUIS_B1007 [Brucell...   183    8e-45 Gene info
ref|ZP_04759888.1|  binding-protein-dependent transport system...   182    1e-44
ref|YP_003225455.1|  extracellular solute-binding protein fami...   182    1e-44 Gene info
ref|ZP_05157853.1|  Bacterial extracellular solute-binding pro...   177    6e-43
ref|YP_002946231.1|  extracellular solute-binding protein fami...   175    3e-42 Gene info
ref|YP_002978268.1|  extracellular solute-binding protein fami...   174    4e-42 Gene info
ref|YP_002547446.1|  ABC transporter substrate binding protein...   174    5e-42 Gene info
ref|YP_765833.1|  putative solute-binding component of ABC tra...   172    1e-41 Gene info
ref|ZP_03521915.1|  probable ABC transporter, substrate-bindin...   172    1e-41
ref|ZP_02152371.1|  extracellular solute-binding protein, fami...   169    2e-40
ref|YP_001976437.1|  probable ABC transporter, substrate-bindi...   169    2e-40 Gene info
ref|YP_467772.1|  peptide ABC transporter substrate-binding pr...   169    2e-40 Gene info
ref|YP_002283689.1|  extracellular solute-binding protein fami...   168    3e-40 Gene info
ref|NP_356217.2|  ABC transporter, substrate binding protein (...   165    2e-39 Gene info
ref|YP_002543013.1|  dipeptide ABC transporter [Agrobacterium ...   162    2e-38 Gene info
ref|YP_001525614.1|  ABC transporter substrate binding protein...   159    2e-37 Gene info
ref|YP_192515.1|  peptide ABC transporter [Gluconobacter oxyda...   158    3e-37 Gene info
ref|YP_002554482.1|  extracellular solute-binding protein fami...   134    6e-30 Gene info
ref|ZP_03388296.1|  ABC transporter, substrate binding protein...   129    2e-28
ref|YP_003150351.1|  ABC-type dipeptide transport system, peri...   129    2e-28 Gene info
ref|YP_055983.1|  ABC transporter, substrate binding protein [...   128    3e-28 Gene info
ref|ZP_05484376.1|  ABC-type transport system, substrate-bindi...   125    2e-27
ref|ZP_05520597.1|  ABC transporter solute-binding protein [St...   119    2e-25
ref|YP_673028.1|  extracellular solute-binding protein [Mesorh...   118    4e-25 Gene info
gb|AAP21660.1|  Shy13 [Streptomyces hygroscopicus subsp. yingc...   117    6e-25
ref|ZP_04035137.1|  ABC-type dipeptide transport system, perip...   116    1e-24
ref|YP_003243172.1|  extracellular solute-binding protein fami...   112    2e-23 Gene info
ref|ZP_03866314.1|  ABC-type dipeptide transport system, perip...   112    3e-23
ref|YP_003327711.1|  extracellular solute-binding protein fami...   110    8e-23
ref|ZP_05965985.1|  ABC-type dipeptide transport system peripl...   110    9e-23
ref|YP_001371307.1|  extracellular solute-binding protein [Och...   110    1e-22 Gene info
ref|ZP_05914500.1|  ABC transporter solute-binding protein [Br...   109    1e-22
ref|ZP_04683416.1|  Glutathione-binding protein gsiB precursor...   108    2e-22
ref|ZP_04038134.1|  ABC-type dipeptide transport system, perip...   108    3e-22
ref|ZP_04705150.1|  extracellular solute-binding protein [Stre...   107    8e-22
ref|ZP_05806577.1|  extracellular solute-binding protein famil...   107    9e-22
ref|YP_001625466.1|  dipeptide-binding protein [Renibacterium ...   105    3e-21 Gene info
ref|YP_002469954.1|  solute binding protein of ABC transporter...   102    2e-20 Gene info
ref|ZP_02963892.1|  solute binding protein of ABC transporter ...   102    2e-20
ref|ZP_04836024.1|  ABC-type dipeptide/oligopeptide/nickel tra...   101    4e-20
ref|ZP_03647231.1|  ABC-type dipeptide transport system peripl...   100    6e-20



>ref|ZP_05116287.1|  Bacterial extracellular solute-binding protein, family 5 [Labrenzia 
alexandrii DFL-11]
 gb|EEE46886.1|  Bacterial extracellular solute-binding protein, family 5 [Labrenzia 
alexandrii DFL-11]
Length=494

 Score =  347 bits (889),  Expect = 5e-94, Method: Compositional matrix adjust.
 Identities = 161/196 (82%), Positives = 171/196 (87%), Gaps = 0/196 (0%)

Query  1    MFGYGTPIGTHFAPHNPDYVDLTGNSNYDPELSKKLLAEAGLSDGFTTTLKLPPPSYARR  60
            MFGYGTPIGTHFAPHNPDYVDLT NS YDPELSKKLLAEAG  DGFTTTLKLPPPSYARR
Sbjct  299  MFGYGTPIGTHFAPHNPDYVDLTANSAYDPELSKKLLAEAGYPDGFTTTLKLPPPSYARR  358

Query  61   GGEIIASQLRAVGIETEISNLEWAQWLEQVFRGKDYGLTIVSHTEPMDIGIYARPDYYFQ  120
            GGEIIA+QLRAVGIETEISNLEWAQWLEQVFRGKDYGLTIVSH EPMDIGIYARPDYYFQ
Sbjct  359  GGEIIAAQLRAVGIETEISNLEWAQWLEQVFRGKDYGLTIVSHVEPMDIGIYARPDYYFQ  418

Query  121  YDNPEFQSLMTELNGTTDPSKRSSMLKKAQRMISNDYVNGYLFELAYTTVANAKVRGLWK  180
            YDNPEFQ L   L    DP KRS +LK+AQ M+S DYVNGYLF+LA+ TVANAK++GLW 
Sbjct  419  YDNPEFQKLFENLTAENDPEKRSELLKQAQEMLSKDYVNGYLFQLAFPTVANAKIKGLWV  478

Query  181  NAPTQATDLTGVSWAD  196
            N PT A D+T V W +
Sbjct  479  NQPTPAADMTAVYWEE  494


>ref|ZP_01545268.1|  peptide/opine/nickel uptake family ABC transporter, periplasmic 
substrate-binding protein [Stappia aggregata IAM 12614]
 gb|EAV46111.1|  peptide/opine/nickel uptake family ABC transporter, periplasmic 
substrate-binding protein [Stappia aggregata IAM 12614]
Length=475

 Score =  343 bits (879),  Expect = 8e-93, Method: Compositional matrix adjust.
 Identities = 157/196 (80%), Positives = 175/196 (89%), Gaps = 0/196 (0%)

Query  1    MFGYGTPIGTHFAPHNPDYVDLTGNSNYDPELSKKLLAEAGLSDGFTTTLKLPPPSYARR  60
            MFGYGTPIGTHFAPH+PDYVDLT NS YDPEL+KKLLAEAG ++GFTTTLKLPPPSYARR
Sbjct  280  MFGYGTPIGTHFAPHSPDYVDLTANSQYDPELAKKLLAEAGYAEGFTTTLKLPPPSYARR  339

Query  61   GGEIIASQLRAVGIETEISNLEWAQWLEQVFRGKDYGLTIVSHTEPMDIGIYARPDYYFQ  120
            GGEIIA+QLRAVGIETEISNLEWAQWLEQVF+GKD+GLTIVSHTEPMDIGIYARPDYYFQ
Sbjct  340  GGEIIAAQLRAVGIETEISNLEWAQWLEQVFKGKDFGLTIVSHTEPMDIGIYARPDYYFQ  399

Query  121  YDNPEFQSLMTELNGTTDPSKRSSMLKKAQRMISNDYVNGYLFELAYTTVANAKVRGLWK  180
            YDN +FQ L  +L    DP KRS +LK+AQ MIS DYVN YLF+LA+ T+A+AK++GLW+
Sbjct  400  YDNADFQKLFADLTAEDDPEKRSVLLKQAQEMISKDYVNTYLFQLAFPTIADAKIKGLWE  459

Query  181  NAPTQATDLTGVSWAD  196
            N PTQATDLT V W D
Sbjct  460  NQPTQATDLTAVYWED  475
Retrieved from "http://annotathon.org/Metagenes/index.php/GOS_1064070"
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