YRC Public Data Repository - Protein Structure Prediction

Protein:	ATOS_ECOLI
Organism:	Escherichia coli
Length:	608 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 ATOS_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|238794689, gi... - gi\|77976385\|ref\|ZP_00831878.1\| COG0642: Signal transduction histidine kinase [Yersinia intermedia AT...	362.0	[0..5]	[604..31]
gi\|91073087, gi\|... - gi\|91211513\|ref\|YP_541499.1\| sensory histidine kinase AtoS [Escherichia coli UTI89], gi\|91073087\|gb\|...	362.0	[0..1]	[608..5]
gi\|190909622, gi... - gi\|191170106\|ref\|ZP_03031660.1\| sensory box histidine kinase AtoS [Escherichia coli F11], gi\|1909096... gi\|110344021, gi... - gi\|110642429\|ref\|YP_670159.1\| sensory histidine kinase AtoS [Escherichia coli 536], gi\|110344021\|gb\|...	362.0	[0..1]	[608..1]
gi\|26109013, gi\|... - gi\|26248608\|ref\|NP_754648.1\| sensory histidine kinase AtoS [Escherichia coli CFT073], gi\|26109013\|gb...	362.0	[0..1]	[608..5]
gi\|117624413, gi... - gi\|117624413\|ref\|YP_853326.1\| sensory histidine kinase AtoS [Escherichia coli APEC O1], gi\|115513537... gi\|215265510, gi... - gi\|215487438\|ref\|YP_002329869.1\| sensory histidine kinase AtoS [Escherichia coli O127:H6 str. E2348/... gi\|218365906, gi... - gi\|218559137\|ref\|YP_002392050.1\| sensory histidine kinase AtoS [Escherichia coli S88], gi\|218365906\|...	362.0	[0..1]	[608..1]
gi\|74312741, gi\|... - gi\|74312741\|ref\|YP_311160.1\| sensory histidine kinase AtoS [Shigella sonnei Ss046], gi\|73856218\|gb\|A...	361.0	[0..1]	[608..1]
gi\|83588204 - gi\|83588204\|ref\|ZP_00926829.1\| COG0642: Signal transduction histidine kinase [Escherichia coli 101-1...	358.0	[0..4]	[608..1]
gi\|75196262 - gi\|75196262\|ref\|ZP_00706332.1\| COG0642: Signal transduction histidine kinase [Escherichia coli HS]	357.0	[0..4]	[608..1]
gi\|75243035 - gi\|75243035\|ref\|ZP_00726741.1\| COG0642: Signal transduction histidine kinase [Escherichia coli F11]	356.0	[0..4]	[608..1]
gi\|238789934, gi... - gi\|77972821\|ref\|ZP_00828378.1\| COG0642: Signal transduction histidine kinase [Yersinia frederiksenii...	350.0	[0..16]	[604..1]

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Predicted Domain #1

Region A:
Residues: [1-108]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MHYMKWIYPR RLRNQMILMA ILMVIVPTLT IGYIVETEGR SAVLSEKEKK LSAVVNLLNQ  60
   61 ALGDRYDLYI DLPREERIRA LNAELAPITE NITHAFPGIG AGYYNKML

[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.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.891	a.47.2	t-snare proteins

Predicted Domain #2

Region A:
Residues: [109-241]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DAIITYAPSA LYQNNVGVTI AADHPGREVM RTNTPLVYSG RQVRGDILNS MLPIERNGEI  60
   61 LGYIWANELT EDIRRQAWKM DVRIIIVLTA GLLISLLLIV LFSRRLSANI DIITDGLSTL 120
  121 AQNIPTRLPQ LPG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.37
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: [242-379]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EMGQISQSVN NLAQALRETR TLNDLIIENA ADGVIAIDRQ GDVTTMNPAA EVITGYQRHE  60
   61 LVGQPYSMLF DNTQFYSPVL DTLEHGTEHV ALEISFPGRD RTIELSVTTS RIHNTHGEMI 120
  121 GALVIFSDLT ARKETQRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.522879
Match:	1v9yA
Description:	Crystal Structure of the heme PAS sensor domain of Ec DOS (ferric form)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ion transmembrane transporter activity	1.94020112661684	bayes_pls_golite062009
transcription regulator activity	1.88422125389203	bayes_pls_golite062009
binding	1.79230776794479	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.70629448457771	bayes_pls_golite062009
cation transmembrane transporter activity	1.55042643398568	bayes_pls_golite062009
DNA binding	1.54206275665781	bayes_pls_golite062009
two-component response regulator activity	1.45691562840107	bayes_pls_golite062009
nucleic acid binding	1.41817054839611	bayes_pls_golite062009
metal ion transmembrane transporter activity	1.31850321187865	bayes_pls_golite062009
transcription factor activity	1.12946889905444	bayes_pls_golite062009
protein binding	1.0133195984081	bayes_pls_golite062009
potassium channel activity	0.93265112299626	bayes_pls_golite062009
voltage-gated ion channel activity	0.92661046549451	bayes_pls_golite062009
voltage-gated cation channel activity	0.926512767264521	bayes_pls_golite062009
voltage-gated potassium channel activity	0.92204538811959	bayes_pls_golite062009
voltage-gated channel activity	0.91469735366704	bayes_pls_golite062009
ion channel activity	0.75430461252947	bayes_pls_golite062009
cation channel activity	0.73262554730695	bayes_pls_golite062009
gated channel activity	0.67217953143815	bayes_pls_golite062009
substrate-specific channel activity	0.650205954115699	bayes_pls_golite062009
passive transmembrane transporter activity	0.64202076714636	bayes_pls_golite062009
channel activity	0.64202076714636	bayes_pls_golite062009
two-component sensor activity	0.58151911764083	bayes_pls_golite062009
protein histidine kinase activity	0.56538125817883	bayes_pls_golite062009
phosphotransferase activity, nitrogenous group as acceptor	0.518111391350209	bayes_pls_golite062009
signal transducer activity	0.441034662376355	bayes_pls_golite062009
molecular transducer activity	0.441034662376355	bayes_pls_golite062009
transporter activity	0.360938622392148	bayes_pls_golite062009
catalytic activity	0.285447488878019	bayes_pls_golite062009
transcription factor binding	0.24293756478811	bayes_pls_golite062009
transmembrane transporter activity	0.217804199010847	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [380-608]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAQAERLATL GELMAGVAHE VRNPLTAIRG YVQILRQQTS DPIHQEYLSV VLKEIDSINK  60
   61 VIQQLLEFSR PRHSQWQQVS LNALVEETLV LVQTAGVQAR VDFISELDNE LSPINADREL 120
  121 LKQVLLNILI NAVQAISARG KIRIQTWQYS DSQQAISIED NGCGIDLSLQ KKIFDPFFTT 180
  181 KASGTGLGLA LSQRIINAHQ GDIRVASLPG YGATFTLILP INPQGNQTV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.154902
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: