YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24374963, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	929 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|24374963, gi|....

Description	E-value	Query Range	Subject Range
gi\|117919558, gi... - gi\|78685811\|ref\|ZP_00850586.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine...	554.0	[0..1]	[929..7]
gi\|114046681, gi... - gi\|114046681\|ref\|YP_737231.1\| hybrid sensory histidine kinase BarA [Shewanella sp. MR-7], gi\|1138881...	553.0	[0..1]	[929..7]
gi\|82404445, gi\|... - gi\|82497522\|ref\|ZP_00883055.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine...	550.0	[0..1]	[929..7]
gi\|68518137, gi\|... - gi\|68544164\|ref\|ZP_00583833.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine...	541.0	[0..1]	[929..53]
gi\|77815282, gi\|... - gi\|77815282\|ref\|ZP_00814520.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine... gi\|120598068, gi... - gi\|120598068\|ref\|YP_962642.1\| hybrid sensory histidine kinase BarA [Shewanella sp. W3-18-1], gi\|1205...	534.0	[0..1]	[929..7]
gi\|82740725, gi\|... - gi\|82740725\|ref\|ZP_00903461.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine...	533.0	[0..1]	[929..1]
gi\|114333518, gi... - gi\|114562225\|ref\|YP_749738.1\| hybrid sensory histidine kinase BarA [Shewanella frigidimarina NCIMB 4...	512.0	[0..1]	[924..7]
gi\|68515450, gi\|... - gi\|68546861\|ref\|ZP_00586405.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine...	511.0	[0..1]	[921..7]
gi\|69159149, gi\|... - gi\|91792549\|ref\|YP_562200.1\| ATP-binding region, ATPase-like protein [Shewanella denitrificans OS217...	510.0	[0..1]	[924..29]
gi\|78362286, gi\|... - gi\|78365750\|ref\|ZP_00836035.1\| Response regulator receiver:ATP-binding region, ATPase-like:Histidine...	506.0	[0..13]	[917..2]

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Predicted Domain #1

Region A:
Residues: [1-136]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTKYSLRSWV LVLALAPTIL VGILLGSYFT INRFYELEDT LIEQGSNIIE PLAIASEVGL  60
   61 VGNDREATKR LLAAAQLNKS TLVKSIAIFD IHNQLFVTSH YHKDFEIMRY KEALTNLQKT 120
  121 EIEHVGDSLI LRTPIF

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [137-268]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ATATPTGSEP ANVDIQTDNG ELLGYISVII NKERALLEQH RAAVAAFIIV LIGVQLNLLF  60
   61 TFRLVKNVTQ PITEMVRVVA KIREGKLDAR LQGNLIGELD LLKRGINAMA GSLSEYHDEM 120
  121 QQNIDQATSD LR

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.74
Match:	2f95B
Description:	M intermediate structure of sensory rhodopsin II/transducer complex in combination with the ground state structure
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [269-530]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETLEQIEIQN VELDLAKKRA LEASRIKSEF LANMSHELRT PLNGVIGFAR QLVKTPLHSS  60
   61 QVDYINTIER SATNLLAIIN DILDFSKLEA GKMVLESMPF GLRETLGETI TLISGSAQAK 120
  121 GLELVVDIAP NVPDNVNGDS MRVCQIINNL VGNAIKFTDS GSVLVKLELQ AQTDEQVVLR 180
  181 CDVIDTGIGI DESQQDFLFQ AFGQADSSIS RRFGGTGLGL VITKRLVNQM GGQIGFTSSV 240
  241 DKGSNFWFTL PLGLGQFQIG DS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.30103
Match:	2c2aA
Description:	Structure of the entire cytoplasmic portion of a sensor histidine kinase protein
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [531-811]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPLEKLQNKT VLFYEPRVLT HSVISRQLKQ WDTKVTHHQH IPSLQTTLST TEHQFDYVLL  60
   61 SCHGFNNPNH LVSTLIQAKA KTDCLIVLFD CQEQDMLSQF IRPNADVVLS LPVSEHQLAR 120
  121 NMLYPPMEYD LLPPVSIAVP AARQSLTVLA VDDNFANLKL IDTLLNELVT TVIAVNSGEE 180
  181 AVKQAKTRTF DLIFMDIQMP GTDGISATKQ IRQGSMNRNT PIIAVTAHAI AEERELILGS 240
  241 GMDGYLPKPI DEAALKAEIN RWITRPKFTH FDLHTLNWDL C

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	27.0
Match:	1w25A
Description:	Response regulator PleD in complex with c-diGMP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
two-component response regulator activity	7.02872640261738	bayes_pls_golite062009
signal transducer activity	4.51666042720644	bayes_pls_golite062009
molecular transducer activity	4.51666042720644	bayes_pls_golite062009
transcription regulator activity	3.44888100104099	bayes_pls_golite062009
protein histidine kinase activity	2.35011582062573	bayes_pls_golite062009
two-component sensor activity	2.32303301074957	bayes_pls_golite062009
phosphotransferase activity, nitrogenous group as acceptor	2.28838869071567	bayes_pls_golite062009
protein kinase activity	2.08303977202039	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	1.84345371541189	bayes_pls_golite062009
kinase activity	1.7325547043888	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.47952516519975	bayes_pls_golite062009
binding	1.22427537074115	bayes_pls_golite062009
DNA binding	1.11037597107903	bayes_pls_golite062009
nucleic acid binding	1.05519146337499	bayes_pls_golite062009
transferase activity	0.826951625983535	bayes_pls_golite062009
transcription factor activity	0.62886970109503	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [812-929]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LTQANHKSGL ALDMLRMLLD SLPQTVSAIE AALSQNDQVT MLSTIHKLHG ASCYCGVPTT  60
   61 QRLCQEIESA LKREARVEDL EPEILELLDE LTKVESAAKQ VLSQLSAEIT DDQKNGLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	45.045757
Match:	2oqrA
Description:	No description for 2oqrA was found.

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: