YRC Public Data Repository - Protein Structure Prediction

Protein:	YNCD_ECOLI
Organism:	Escherichia coli
Length:	700 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 YNCD_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|237705431, gi... - gi\|237705431\|ref\|ZP_04535912.1\| tonB-dependent receptor YncD [Escherichia sp. 3_2_53FAA], gi\|2269001... gi\|115512816, gi... - gi\|117623692\|ref\|YP_852605.1\| iron outer membrane transporter [Escherichia coli APEC O1], gi\|1155128... gi\|91210693, gi\|... - gi\|91210693\|ref\|YP_540679.1\| tonB-dependent receptor YncD precursor [Escherichia coli UTI89], gi\|910...	435.0	[0..1]	[700..1]
gi\|83570848 - gi\|83570848\|ref\|ZP_00922290.1\| COG1629: Outer membrane receptor proteins, mostly Fe transport [Shige...	434.0	[0..1]	[700..1]
gi\|254792996, gi... - gi\|254792996\|ref\|YP_003077833.1\| predicted iron outer membrane transporter [Escherichia coli O157:H7... gi\|13361521, gi\|... - gi\|15831309\|ref\|NP_310082.1\| putative outer membrane receptor for iron transport [Escherichia coli O... gi\|217317765, gi... - gi\|217329326\|ref\|ZP_03445406.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. TW14588], gi\|... gi\|13361521, gi\|... - gi\|15831309\|ref\|NP_310082.1\| putative outer membrane receptor for iron transport [Escherichia coli O... gi\|208816089, gi... - gi\|208816089\|ref\|ZP_03257268.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4045], gi\|2... gi\|25300754, gi\|... - pir\|\|G90885 hypothetical protein ECs2055 [imported] - Escherichia coli (strain O157:H7, substrain R... gi\|208724651, gi... - gi\|208811145\|ref\|ZP_03252978.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4206], gi\|2... gi\|209398339, gi... - gi\|209398339\|ref\|YP_002270458.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4115], gi\|... gi\|208738394, gi... - gi\|208818271\|ref\|ZP_03258591.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4042], gi\|2... gi\|168788491, gi... - gi\|189371777\|gb\|EDU90193.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC869], gi\|168788... gi\|189000894, gi... - gi\|189000894\|gb\|EDU69880.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4076], gi\|16878... gi\|195936942 - gi\|195936942\|ref\|ZP_03082324.1\| putative outer membrane receptor for iron transport [Escherichia col... gi\|189378174, gi... - gi\|189378174\|gb\|EDU96590.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC508], gi\|168799... gi\|168761455, gi... - gi\|189368129\|gb\|EDU86545.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4501], gi\|16876... gi\|168756095, gi... - gi\|189356662\|gb\|EDU75081.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4401], gi\|16875... gi\|168774314, gi... - gi\|187769990\|gb\|EDU33834.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4196], gi\|16877... gi\|189361986, gi... - gi\|189361986\|gb\|EDU80405.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4486], gi\|16876... gi\|188016685, gi... - gi\|188016685\|gb\|EDU54807.1\| TonB-dependent receptor [Escherichia coli O157:H7 str. EC4113], gi\|16874...	434.0	[0..1]	[700..1]
gi\|81245499, gi\|... - gi\|82544088\|ref\|YP_408035.1\| putative outer membrane receptor for iron transport [Shigella boydii Sb... gi\|157156568, gi... - gi\|157156568\|ref\|YP_001462725.1\| TonB-dependent receptor [Escherichia coli E24377A], gi\|157078598\|gb... gi\|218553977, gi... - gi\|218553977\|ref\|YP_002386890.1\| putative iron outer membrane receptor [Escherichia coli IAI1], gi\|2...	434.0	[0..1]	[700..1]
gi\|74312192, gi\|... - gi\|74312192\|ref\|YP_310611.1\| putative outer membrane receptor for iron transport [Shigella sonnei Ss...	434.0	[0..1]	[700..1]
gi\|75240197, gi\|... - gi\|75240197\|ref\|ZP_00724149.1\| COG1629: Outer membrane receptor proteins, mostly Fe transport [Esche... gi\|110343222, gi... - gi\|110641630\|ref\|YP_669360.1\| tonB-dependent receptor YncD precursor [Escherichia coli 536], gi\|1103...	433.0	[0..1]	[700..1]
lcl\|NC_016856.1_... - [gene=yncD] [protein=putative outer membrane receptor] [protein_id=YP_005237487.1] [location=1683887... gi\|16420110, gi\|... - gi\|16764931\|ref\|NP_460546.1\| putative outer membrane receptor [Salmonella typhimurium LT2], gi\|16420...	433.0	[0..1]	[700..1]
gi\|213650247 - gi\|213650247\|ref\|ZP_03380300.1\| TonB-dependent receptor [Salmonella enterica subsp. enterica serovar... gi\|213426235 - gi\|213426235\|ref\|ZP_03358985.1\| TonB-dependent receptor [Salmonella enterica subsp. enterica serovar... gi\|16760292 - gi\|16760292\|ref\|NP_455909.1\| TonB-dependent receptor YncD precursor [Salmonella enterica subsp. ente... gi\|16502587, gi\|... - gi\|25300759\|pir\|\|AH0670 probable TonB-dependent receptor YncD precursor [imported] - Salmonella ente... gi\|214000769 - gi\|214000769\|ref\|ZP_03411504.1\| TonB-dependent receptor [Salmonella enterica subsp. enterica serovar... gi\|29141941, gi\|... - gi\|29141941\|ref\|NP_805283.1\| TonB-dependent receptor [Salmonella enterica subsp. enterica serovar Ty... gi\|213859458 - gi\|213859458\|ref\|ZP_03385162.1\| TonB-dependent receptor [Salmonella enterica subsp. enterica serovar...	433.0	[0..1]	[700..1]
gi\|15801692, gi\|... - gi\|15801692\|ref\|NP_287710.1\| putative outer membrane receptor for iron transport [Escherichia coli O... gi\|25300756 - pir\|\|H85732 hypothetical protein Z2268 [imported] - Escherichia coli (strain O157:H7, substrain EDL...	433.0	[0..1]	[700..1]
gi\|56127724, gi\|... - gi\|56413467\|ref\|YP_150542.1\| TonB-dependent receptor [Salmonella enterica subsp. enterica serovar Pa... gi\|197362391, gi... - gi\|197362391\|ref\|YP_002142028.1\| probable TonB-dependent receptor [Salmonella enterica subsp. enteri...	432.0	[0..1]	[700..1]

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Predicted Domain #1

Region A:
Residues: [1-700]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKIFSVRQTV LPALLVLSPV VFAADEQTMI VSAAPQVVSE LDTPAAVSVV DGEEMRLATP  60
   61 RINLSESLTG VPGLQVQNRQ NYAQDLQLSI RGFGSRSTYG IRGIRLYVDG IPATMPDGQG 120
  121 QTSNIDLSSV QNVEVLRGPF SALYGNASGG VMNVTTQTGQ QPPTIEASSY YGSFGSWRYG 180
  181 LKATGATGDG TQPGDVDYTV STTRFTTHGY RDHSGAQKNL ANAKLGVRID EASKLSLIFN 240
  241 SVDIKADDPG GLTKAEWKAN PQQAPRAEQY DTRKTIKQTQ AGLRYERSLS SRDDMSVMMY 300
  301 AGERETTQYQ SIPMAPQLNP SHAGGVITLQ RHYQGIDSRW THRGELGVPV TFTTGLNYEN 360
  361 MSENRKGYNN FRLNSGMPEY GQKGELRRDE RNLMWNIDPY LQTQWQLSEK LSLDAGVRYS 420
  421 SVWFDSNDHY VTPGNGDDSG DASYHKWLPA GSLKYAMTDA WNIYLAAGRG FETPTINELS 480
  481 YRADGQSGMN LGLKPSTNDT IEIGSKTRIG DGLLSLALFQ TDTDDEIVVD SSSGGRTTYK 540
  541 NAGKTRRQGA ELAWDQRFAG DFRVNASWTW LDATYRSNVC NEQDCNGNRM PGIARNMGFA 600
  601 SIGYVPEDGW YAGTEARYMG DIMADDENTA KAPSYTLVGL FTGYKYNYHN LTVDLFGRVD 660
  661 NLFDKEYVGS VIVNESNGRY YEPSPGRNYG VGMNIAWRFE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	88.045757
Match:	1by3A
Description:	Ferric hydroxamate uptake receptor FhuA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
cofactor transporter activity	4.41227788916596	bayes_pls_golite062009
transporter activity	4.15398171369398	bayes_pls_golite062009
heme transporter activity	3.56934074076046	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
porin activity	0.896682978257159	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: