YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24348909, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	560 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|24348909, gi|....

Description	E-value	Query Range	Subject Range
gi\|90414896, gi\|... - gi\|90414896\|ref\|ZP_01222861.1\| hypothetical LytS, regulator of cell autolysis [Photobacterium profun...	346.0	[0..1]	[552..1]
gi\|46914576, gi\|... - gi\|54310137\|ref\|YP_131157.1\| cell autolysis regulator LytS [Photobacterium profundum SS9], gi\|469145...	345.0	[0..1]	[552..1]
gi\|75854861, gi\|... - gi\|75854861\|ref\|ZP_00762531.1\| COG3275: Putative regulator of cell autolysis [Vibrio sp. Ex25], gi\|2...	344.0	[0..1]	[552..1]
gi\|91227664, gi\|... - gi\|91227664\|ref\|ZP_01261941.1\| hypothetical protein V12G01_13304 [Vibrio alginolyticus 12G01], gi\|91...	344.0	[0..1]	[552..1]
gi\|49613598, gi\|... - gi\|50123072\|ref\|YP_052239.1\| putative two-component system sensor kinase [Pectobacterium atrosepticu...	341.0	[0..1]	[559..5]
gi\|48763583 - ref\|ZP_00268137.1\| COG3275: Putative regulator of cell autolysis [Rhodospirillum rubrum] gi\|83591717, gi\|... - gi\|83591717\|ref\|YP_425469.1\| Signal transduction histidine kinase (STHK), LytS [Rhodospirillum rubru...	340.0	[0..1]	[557..6]
gi\|28805522 - gi\|28805522\|dbj\|BAC58802.1\| conserved hypothetical protein [Vibrio parahaemolyticus RIMD 2210633] gi\|28897313, gi\|... - gi\|28897313\|ref\|NP_796918.1\| hypothetical protein VP0539 [Vibrio parahaemolyticus RIMD 2210633], gi\|...	340.0	[0..1]	[552..1]
gi\|37678876, gi\|... - gi\|37678876\|ref\|NP_933485.1\| putative regulator of cell autolysis [Vibrio vulnificus YJ016], gi\|3719...	340.0	[0..1]	[552..1]
gi\|27363966, gi\|... - gi\|27363966\|ref\|NP_759494.1\| putative regulator of cell autolysis [Vibrio vulnificus CMCP6], gi\|2736...	339.0	[0..1]	[552..1]
gi\|59711756, gi\|... - gi\|59711756\|ref\|YP_204532.1\| sensory kinase in two-component system with YehT [Vibrio fischeri ES114...	337.0	[0..1]	[559..1]

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Predicted Domain #1

Region A:
Residues: [1-134]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLILLLTQQ MSLYLVIVYL VSKTPLFKLF AETSPRLPHK IFIYLVFSSF CIMATYFGEQ  60
   61 TSGAIANTRA MGAVLGGLLG GPVTGFLVGL TGGLHRYSMG GFTDLACAIS TTLEGLSAGM 120
  121 ISFYLRRAGK SELI

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	35.443697
Match:	PF07694.3
Description:	No description for PF07694.3 was found.

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: [135-341]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YNPLLVCLVT FYAEIMQMSL ILLIACPFDA AWELVRQIAP PMLLVNSIGA ALFMSMIRDQ  60
   61 KTMFDKLSSS FSTKALKIAE RSVGLLSKGF NEESSGKVAQ IVIEETNVGA VAITDREKLL 120
  121 AFIGIGADHH IPGTPISSQI TLEAINQNKV MFADGVEIPY SCSISSQCKL GSSLVIPLRS 180
  181 DTEVIGTIKL YEPKNKLFLN INRTLGE

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.92
Match:	1vhmA
Description:	Crystal structure of an hypothetical protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	1.95758588715202	bayes_pls_golite062009
signal transducer activity	1.13344214754837	bayes_pls_golite062009
molecular transducer activity	1.13344214754837	bayes_pls_golite062009
DNA binding	0.782169600399986	bayes_pls_golite062009
nucleic acid binding	0.68885051853759	bayes_pls_golite062009
transcription factor activity	0.627985657557994	bayes_pls_golite062009
two-component response regulator activity	0.508776074549631	bayes_pls_golite062009
receptor activity	0.397102537009968	bayes_pls_golite062009
protein binding	0.337226924882729	bayes_pls_golite062009
protein histidine kinase activity	0.195168640304713	bayes_pls_golite062009
phosphotransferase activity, nitrogenous group as acceptor	0.0600535298662946	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [342-560]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GIARLLSNQI LYGRFEQQQN LLTQAELKLL QAQVNPHFLF NALNTISAII KRDPDMSKQL  60
   61 LQQLSQFLRI NLKRTTGLVT LGDELDHIAS YLTIEKARFI NKLQVNIAIP ESLYHCKVPA 120
  121 FTLQPIIENA VKHGTSHMID QGQIKVTGRL DEHVLALEVI DNAGLYQPST DSEGLGMNLV 180
  181 HKRIQNLFGE QYGLQVECEP DEYTKVIIRL PIEKTETST

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	38.39794
Match:	2c2aA
Description:	Structure of the entire cytoplasmic portion of a sensor histidine kinase protein
Matching Structure (courtesy of the PDB):

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: