YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|214003425
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E98-3139
Length:	614 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|214003425.

Description	E-value	Query Range	Subject Range
gi\|62130222, gi\|... - gi\|62182589\|ref\|YP_219006.1\| vitamin B12/cobalamin outer membrane transporter [Salmonella enterica s...	1.0E-89	[1..614]	[15..628]
gi\|14252934 - gi\|14252934\|emb\|CAC39289.1\| hypothetical protein [Escherichia coli]	1.0E-89	[8..614]	[60..666]
BTUB_SALPA - Vitamin B12 transporter BtuB OS=Salmonella paratyphi A GN=btuB PE=3 SV=1 gi\|205323764, gi... - gi\|205323764\|gb\|EDZ11603.1\| TonB-dependent vitamin B12 receptor [Salmonella enterica subsp. enterica... BTUB_SALCH - Vitamin B12 transporter BtuB OS=Salmonella choleraesuis (strain SC-B67) GN=btuB PE=3 SV=2 BTUB_SALPA - Vitamin B12 transporter BtuB OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=btuB PE=3 SV=1 gi\|205341846, gi... - gi\|205341846\|gb\|EDZ28610.1\| TonB-dependent vitamin B12 receptor [Salmonella enterica subsp. enterica... gi\|168262958, gi... - gi\|205348100\|gb\|EDZ34731.1\| TonB-dependent vitamin B12 receptor [Salmonella enterica subsp. enterica... BTUB_SALCH - Vitamin B12 transporter btuB OS=Salmonella choleraesuis GN=btuB PE=3 SV=2 BTUB_SALCH - Vitamin B12 transporter BtuB OS=Salmonella choleraesuis GN=btuB PE=3 SV=2 gi\|197364894, gi... - gi\|197364894\|ref\|YP_002144531.1\| vitamin B12/cobalamin outer membrane transporter [Salmonella enteri... gi\|197249135, gi... - gi\|197249135\|ref\|YP_002149051.1\| TonB-dependent vitamin B12 receptor [Salmonella enterica subsp. ent... gi\|224470471, gi... - gi\|224585943\|ref\|YP_002639742.1\| vitamin B12 receptor protein [Salmonella enterica subsp. enterica s... gi\|200388778, gi... - gi\|200388778\|ref\|ZP_03215390.1\| TonB-dependent vitamin B12 receptor [Salmonella enterica subsp. ente...	6.0E-88	[1..614]	[1..614]
BTUB_SALTY - Vitamin B12 transporter BtuB OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=btuB... BTUB_SALTY - Vitamin B12 transporter btuB OS=Salmonella typhimurium GN=btuB PE=3 SV=2 gi\|197263379, gi... - gi\|197263379\|ref\|ZP_03163453.1\| TonB-dependent vitamin B12 receptor [Salmonella enterica subsp. ente... BTUB_SALTY - Vitamin B12 transporter BtuB OS=Salmonella typhimurium GN=btuB PE=3 SV=2 lcl\|NC_016856.1_... - [gene=btuB] [protein=vitamin B12/cobalamin outer membrane transporter] [protein_id=YP_005240417.1] [...	7.0E-88	[1..614]	[1..614]
gi\|153891 - gi\|153891\|gb\|AAA27031.1\| vitamin B12 transport protein gi\|153891\|gb\|AAA... - vitamin B12 transport protein	2.0E-87	[1..614]	[1..614]
gi\|110617373, gi... - gi\|110807825\|ref\|YP_691345.1\| vitamin B12/cobalamin outer membrane transporter [Shigella flexneri 5 ...	3.0E-87	[1..614]	[16..629]
gi\|91213518, gi\|... - gi\|91213518\|ref\|YP_543504.1\| vitamin B12/cobalamin outer membrane transporter [Escherichia coli UTI8...	3.0E-87	[1..614]	[16..629]
gi\|110644310, gi... - gi\|110644310\|ref\|YP_672040.1\| vitamin B12/cobalamin outer membrane transporter [Escherichia coli 536...	4.0E-87	[1..614]	[15..628]
gi\|226902944, gi... - gi\|237703007\|ref\|ZP_04533488.1\| vitamin B12/cobalamin outer membrane transporter [Escherichia sp. 3_... gi\|115515363, gi... - gi\|117626239\|ref\|YP_859562.1\| vitamin B12/cobalamin outer membrane transporter [Escherichia coli APE...	4.0E-87	[1..614]	[15..628]
gi\|26111174, gi\|... - gi\|26250743\|ref\|NP_756783.1\| vitamin B12/cobalamin outer membrane transporter [Escherichia coli CFT0...	6.0E-87	[1..614]	[16..629]

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Predicted Domain #1

Region A:
Residues: [1-614]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIKKATLLTA FSVTAFSAWA QDTSPDTLVV TANRFQQPRS AVLAPVTIVT RQDIERWQST  60
   61 SVNDVLRRLP GVDIAQSGGT GQNSSIFIRG TNSSHVLVLI DGVRLNLAGV SGSADLSQFP 120
  121 VSLVQRIEYI RGPRSAIYGS DAIGGVVNII TTRDNPGTEL TAGWGSNSYQ NYDLSTQQQL 180
  181 GENTRATLIG DYEYTKGFDV VAKGGTGMQA QPDRDGFLSK TLYGALEHTF SDRWSGFVRG 240
  241 YGYDNRTDYD AYYSPGSPLI DTRKLYSQSW DAGLRFNGER IQSQLVSSYS HSKDYNYDPH 300
  301 YGRYDTSATL DEMKQYNVQW TNSVVVGHGN VGAGVDWQKQ TTTPGTGYVP EGYDQRNTGV 360
  361 YLTGLQQLGD FTLEAAARSD DNSQFGRHGT WQTSAGWEFI EGYRFIASYG TSYKAPNLGQ 420
  421 LYGYYGNPNL NPEKSKQWEG AFEGLTAGVS WRISGYRNDI NDMIDYDDHL QKYYNEGKAR 480
  481 IKGIEATANF DTGPLTHTVS YDYVDARNAI TDTPLPRRSK QMAKYQLDWD VYDFDWGVTY 540
  541 QYLGSRYDSD YSAYPYRTVK MGGVSLWDLT VAYPVTSHLT VRGKIANLFD KDYETVYGYQ 600
  601 TAGREYTLSG SYTF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	83.39794
Match:	1nqfA
Description:	Outer membrane cobalamin transporter BtuB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transporter activity	4.15398171369398	bayes_pls_golite062009
substrate-specific transporter activity	2.43332676180972	bayes_pls_golite062009
transmembrane transporter activity	1.99898520864149	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.37880749517427	bayes_pls_golite062009
ion transmembrane transporter activity	0.9810521942815	bayes_pls_golite062009
cobalamin binding	0.937576452004179	bayes_pls_golite062009
cation transmembrane transporter activity	0.89213734347785	bayes_pls_golite062009
metal ion transmembrane transporter activity	0.70757821289609	bayes_pls_golite062009
binding	0.643879907209189	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	0.60516455096546	bayes_pls_golite062009
di-, tri-valent inorganic cation transmembrane transporter activity	0.17491456011246	bayes_pls_golite062009
lipid transporter activity	0.10911346172326	bayes_pls_golite062009
protein binding	0.0112080975548029	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: