YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|11355746
Organism:	Vibrio cholerae
Length:	296 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|11355746.

Description	E-value	Query Range	Subject Range
gi\|84388933, gi\|... - gi\|84388933\|ref\|ZP_00991141.1\| outer membrane protein OmpK precursor [Vibrio splendidus 12B01], gi\|8...	335.0	[0..31]	[296..1]
OMK1_VIBPA, OMPK... - Outer membrane protein ompK OS=Vibrio parahaemolyticus GN=ompK PE=3 SV=1, (P59570) Outer membrane pr... gi\|217314599 - gi\|217314599\|gb\|ACK36937.1\| OmpK [Vibrio fluvialis] OMPK_VIBPA - Outer membrane protein OmpK OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=ompK ...	319.0	[0..31]	[296..1]
gi\|229607128, gi... - gi\|229607128\|ref\|YP_002877776.1\| outer membrane protein OmpK [Vibrio cholerae MJ-1236], gi\|229369783... gi\|229344007, gi... - gi\|229519318\|ref\|ZP_04408761.1\| outer membrane protein OmpK [Vibrio cholerae RC9], gi\|229344007\|gb\|E... gi\|229512182, gi... - gi\|229512182\|ref\|ZP_04401661.1\| outer membrane protein OmpK [Vibrio cholerae B33], gi\|229352147\|gb\|E... gi\|229355127, gi... - gi\|229507622\|ref\|ZP_04397127.1\| outer membrane protein OmpK [Vibrio cholerae BX 330286], gi\|22935512... gi\|75827591 - gi\|75827591\|ref\|ZP_00757026.1\| COG3248: Nucleoside-binding outer membrane protein [Vibrio cholerae O... gi\|116188790, gi... - gi\|75830023\|ref\|ZP_00759309.1\| COG3248: Nucleoside-binding outer membrane protein [Vibrio cholerae M... gi\|75816395 - gi\|75816395\|ref\|ZP_00746867.1\| COG3248: Nucleoside-binding outer membrane protein [Vibrio cholerae V...	317.0	[0..31]	[296..1]
gi\|33187985 - gi\|33187985\|gb\|AAP97839.1\| outer membrane protein precursor [Vibrio harveyi]	317.0	[0..31]	[296..1]
gi\|27361310, gi\|... - gi\|27365163\|ref\|NP_760691.1\| Outer membrane protein OmpK [Vibrio vulnificus CMCP6], gi\|27361310\|gb\|A...	310.0	[0..31]	[296..1]
gi\|91191506, gi\|... - gi\|91223420\|ref\|ZP_01258685.1\| outer membrane protein OmpK precursor [Vibrio alginolyticus 12G01], g...	300.0	[0..31]	[296..1]
OMPK_VIBPH - Outer membrane protein OmpK OS=Vibrio parahaemolyticus GN=ompK PE=3 SV=1	300.0	[0..31]	[296..1]
gi\|54308009, gi\|... - gi\|54308009\|ref\|YP_129029.1\| putative outer membrane protein OmpK [Photobacterium profundum SS9], gi...	298.0	[0..31]	[296..1]
gi\|62821757 - gi\|62821757\|dbj\|BAD95799.1\| poliovirus-binding protein [uncultured bacterium]	297.0	[0..31]	[296..1]

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Predicted Domain #1

Region A:
Residues: [1-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRFLSLLCPP VERAAVMRPP YTTHLQRVPL MRKSLLALSL LAATSAPVLA ADYSDGDIHK  60
   61 NDYKWMQFNL MGAFDELPGK SSHDYLEMEF GGRSGIFDLY GYVDVFNLAT NKSSDKVGDP 120
  121 KIFMKFAPRM SLDAFTGVDM SFGPVQEVYV ASLFEWDGTD FKTNAFSVNN QKIGLGSDVM 180
  181 VPWFGKVGLN LYGTYDGNRK DWNGFQISTN WFKPFYFFEN GSFISYQGYI DYQFGLKDEY 240
  241 STASNGGAMF NGIYWHSDRF AVGYGLKGYK DVYGIKDTDG FKSTGFGHYV AVTYKF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	62.221849
Match:	1tlwA
Description:	Tsx structure complexed with thymidine
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleoside transmembrane transporter activity	10.4297934011355	bayes_pls_golite062009
nucleobase, nucleoside, nucleotide and nucleic acid transmembrane transporter activity	5.73088734190731	bayes_pls_golite062009
transporter activity	2.55928656852707	bayes_pls_golite062009
transmembrane transporter activity	2.44072409024655	bayes_pls_golite062009
substrate-specific transporter activity	2.14215782778459	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.06465400776497	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: