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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.891	a.47.2	t-snare proteins
View	Download	0.634	a.24.17	Group V grass pollen allergen
View	Download	0.628	a.118.1	ARM repeat
View	Download	0.603	a.64.1	Saposin
View	Download	0.594	a.45.1	Glutathione S-transferase (GST), C-terminal domain

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: