YRC Public Data Repository - Protein Structure Prediction

Protein:	YGHD_ECOLI
Organism:	Escherichia coli
Length:	178 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 YGHD_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|110344783, gi... - gi\|110643191\|ref\|YP_670921.1\| putative general secretion pathway protein YghD [Escherichia coli 536]... gi\|47155026 - gi\|47155026\|emb\|CAE85225.1\| GspM, hypothetical type II secretion protein [Escherichia coli]	175.0	[0..1]	[178..1]
gi\|91073942, gi\|... - gi\|91212368\|ref\|YP_542354.1\| putative general secretion pathway protein YghD [Escherichia coli UTI89... gi\|237706300, gi... - gi\|237706300\|ref\|ZP_04536781.1\| conserved hypothetical protein [Escherichia sp. 3_2_53FAA], gi\|22689... gi\|218366798, gi... - gi\|218560029\|ref\|YP_002392942.1\| putative general secretion pathway protein YghD [Escherichia coli S...	173.0	[0..1]	[178..1]
gi\|194436809, gi... - gi\|83587600\|ref\|ZP_00926227.1\| COG3149: Type II secretory pathway, component PulM [Escherichia coli ...	173.0	[0..1]	[178..1]
gi\|115514384, gi... - gi\|117625260\|ref\|YP_854398.1\| putative general secretion pathway protein YghD [Escherichia coli APEC...	172.0	[0..1]	[178..1]
gi\|57434492 - gi\|57434492\|emb\|CAI43907.1\| putative secretion pathway protein [Escherichia coli]	172.0	[0..1]	[178..1]
gi\|26249534, gi\|... - gi\|26249534\|ref\|NP_755574.1\| putative general secretion pathway protein YghD [Escherichia coli CFT07...	171.0	[0..1]	[178..1]
gi\|191171894, gi... - gi\|75241192\|ref\|ZP_00725054.1\| COG3149: Type II secretory pathway, component PulM [Escherichia coli ...	171.0	[0..1]	[178..1]
gi\|157162429, gi... - gi\|75196916\|ref\|ZP_00706986.1\| COG3149: Type II secretory pathway, component PulM [Escherichia coli ...	170.0	[0..1]	[178..1]
gi\|192959400, gi... - gi\|75239463\|ref\|ZP_00723434.1\| COG3149: Type II secretory pathway, component PulM [Escherichia coli ...	170.0	[0..1]	[178..1]
gi\|18139882 - gi\|18139882\|gb\|AAL60193.1\|AF426313_13 hypothetical type II secretion protein GspM [Escherichia coli] gi\|75259899, gi\|... - gi\|75259899\|ref\|ZP_00731177.1\| COG3149: Type II secretory pathway, component PulM [Escherichia coli ... gi\|157076844, gi... - gi\|75187775\|ref\|ZP_00701042.1\| COG3149: Type II secretory pathway, component PulM [Escherichia coli ... gi\|218696664, gi... - gi\|218696664\|ref\|YP_002404331.1\| putative general secretion pathway protein YghD [Escherichia coli 5... gi\|218555527, gi... - gi\|218555527\|ref\|YP_002388440.1\| putative general secretion pathway protein YghD [Escherichia coli I...	167.0	[0..1]	[178..1]

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Predicted Domain #1

Region A:
Residues: [1-70]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLRDKFIHYF QQWRERQLSR GEHWLAQHLA GRSPREKGML LAAVVFLFSV GYYVLIWQPL  60
   61 SERIEQQETI

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [71-178]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LQQLVAMNTR LKNAAPDIIA ARKSATTTPA QVSRVISDSA SAHSVVIRRI ADRGENIQVW  60
   61 IEPVVFNDLL KWLNALDEKY ALRVTQIDVS AAEKPGMVNV QRLEFGRG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	20.0
Match:	1uv7A
Description:	periplasmic domain of EpsM from Vibrio cholerae
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein transporter activity	1.78637125929635	bayes_pls_golite062009
transporter activity	1.0103803313803	bayes_pls_golite062009
substrate-specific transporter activity	0.56992532298404	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: