YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24350835, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	500 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|24350835, gi|....

Description	E-value	Query Range	Subject Range
gi\|73668585, gi\|... - gi\|73668585\|ref\|YP_304600.1\| sensory transduction histidine kinase [Methanosarcina barkeri str. Fusa...	260.0	[0..46]	[500..270]
gi\|51974390, gi\|... - gi\|52140921\|ref\|YP_085908.1\| phosphate regulon sensor protein [Bacillus cereus E33L], gi\|51974390\|gb...	259.0	[0..90]	[498..186]
gi\|47557784, gi\|... - gi\|47564998\|ref\|ZP_00236041.1\| sensory box histidine kinase PhoR [Bacillus cereus G9241], gi\|4755778...	259.0	[0..90]	[498..186]
gi\|89154470, gi\|... - gi\|89207576\|ref\|ZP_01186114.1\| PAS [Bacillus weihenstephanensis KBAB4], gi\|89154470\|gb\|EAR74501.1\| P...	258.0	[0..90]	[498..186]
gi\|42783765, gi\|... - gi\|42783765\|ref\|NP_981012.1\| sensory box histidine kinase PhoR [Bacillus cereus ATCC 10987], gi\|4273...	257.0	[0..90]	[498..186]
gi\|49330250, gi\|... - gi\|49478694\|ref\|YP_038633.1\| phosphate regulon sensor protein [Bacillus thuringiensis serovar konkuk...	257.0	[0..90]	[498..186]
gi\|30264658, gi\|... - gi\|30264658\|ref\|NP_847035.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. Ames], gi\|30... gi\|65321955, gi\|... - gi\|65321955\|ref\|ZP_00394914.1\| COG0642: Signal transduction histidine kinase [Bacillus anthracis str... gi\|165869708, gi... - gi\|165869708\|ref\|ZP_02214366.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0488], g... gi\|167530779, gi... - gi\|167633978\|ref\|ZP_02392301.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0442], g... gi\|167513830, gi... - gi\|167638013\|ref\|ZP_02396291.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0193], g... gi\|47530128, gi\|... - gi\|47530128\|ref\|YP_021477.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. 'Ames Ancest... gi\|170685740, gi... - gi\|170685740\|ref\|ZP_02876963.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0465], g... gi\|254757502 - gi\|254757502\|ref\|ZP_05209529.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. Australia... gi\|254754670 - gi\|254754670\|ref\|ZP_05206705.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. Vollum] gi\|254741732 - gi\|254741732\|ref\|ZP_05199419.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. Kruger B] gi\|254736695 - gi\|254736695\|ref\|ZP_05194401.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. Western N... gi\|254724958 - gi\|254724958\|ref\|ZP_05186741.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A1055] gi\|254687395 - gi\|254687395\|ref\|ZP_05151251.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. CNEVA-906... gi\|229264805, gi... - gi\|229600397\|ref\|YP_002868867.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0248], ... gi\|170705359, gi... - gi\|170705359\|ref\|ZP_02895823.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0389], g... gi\|227004296, gi... - gi\|227817372\|ref\|YP_002817381.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. CDC 684]... gi\|177651147, gi... - gi\|177651147\|ref\|ZP_02933978.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. A0174], g... gi\|190559871, gi... - gi\|190569089\|ref\|ZP_03021989.1\| sensory box histidine kinase PhoR [Bacillus anthracis Tsiankovskii-I... gi\|196032783, gi... - gi\|196032783\|ref\|ZP_03100196.1\| sensory box histidine kinase PhoR [Bacillus cereus W], gi\|195994212\|... gi\|218905815, gi... - gi\|218905815\|ref\|YP_002453649.1\| sensory box histidine kinase PhoR [Bacillus cereus AH820], gi\|21854...	257.0	[0..90]	[498..186]
gi\|74490501, gi\|... - gi\|75762015\|ref\|ZP_00741929.1\| Phosphate regulon sensor protein phoR [Bacillus thuringiensis serovar... gi\|218899741, gi... - gi\|218899741\|ref\|YP_002448152.1\| sensory box histidine kinase PhoR [Bacillus cereus G9842], gi\|21854...	257.0	[0..90]	[498..186]
gi\|30022663, gi\|... - gi\|30022663\|ref\|NP_834294.1\| phosphate regulon sensor protein phoR [Bacillus cereus ATCC 14579], gi\|...	257.0	[0..90]	[498..186]
gi\|49187478, gi\|... - gi\|49187478\|ref\|YP_030730.1\| sensory box histidine kinase PhoR [Bacillus anthracis str. Sterne], gi\|...	256.0	[0..90]	[498..186]

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Predicted Domain #1

Region A:
Residues: [1-142]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTQNYEHYLF LFVIITGLIM GVISYFGFRA LTQESTLNEY QTQQLAKSHV AQTQSFILQQ  60
   61 LNQKQVRLDA MLAYLSLDKN ALHTLISQDS DIENIFVLQK NKLAFPDISQ PLSLKDQTLA 120
  121 ELIMPISHDP TLLMAKQPTS ED

[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	0.374	c.51.1	Anticodon-binding domain of Class II aaRS
View	Download	0.310	a.4.3	ARID-like
View	Download	0.280	a.77.1	DEATH domain
View	Download	0.278	c.15.1	BRCT domain
View	Download	0.267	c.30.1	PreATP-grasp domain

Predicted Domain #2

Region A:
Residues: [143-266]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KSPNSGWLVL QDNNYPALIY WRKTDEDTVG IKLSYVKFLA DVISALDTNF TPDGIKISDN  60
   61 GQVLYQLSPE PIGNNQTPSY SQNLPFPLHG WQIDYYTAPV KGQSLYYLGT ILIVTIILAV 120
  121 GFMA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.045757
Match:	1d06A
Description:	Histidine kinase FixL heme domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ion transmembrane transporter activity	1.94020112661684	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
two-component response regulator activity	1.45691562840107	bayes_pls_golite062009
metal ion transmembrane transporter activity	1.31850321187865	bayes_pls_golite062009
transcription regulator activity	1.13913685347546	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
DNA binding	0.73243452463464	bayes_pls_golite062009
gated channel activity	0.67217953143815	bayes_pls_golite062009
substrate-specific channel activity	0.650205954115699	bayes_pls_golite062009
channel activity	0.64202076714636	bayes_pls_golite062009
passive transmembrane transporter activity	0.64202076714636	bayes_pls_golite062009
two-component sensor activity	0.58151911764083	bayes_pls_golite062009
protein histidine kinase activity	0.56538125817883	bayes_pls_golite062009
nucleic acid binding	0.5545839402512	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
transcription factor activity	0.36759096137141	bayes_pls_golite062009
transporter activity	0.360938622392148	bayes_pls_golite062009
catalytic activity	0.285447488878019	bayes_pls_golite062009
transmembrane transporter activity	0.217804199010847	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [267-500]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FMLYREFNRA TRLASQQVSF VGQVSHELKT PLTNITLYAE MLNEMEAEEN DQRAHYLGVI  60
   61 ISESQRLSRL IQNVLTFTKL PQICIRQVDI NQLMNQIYTA FKPVFEAKEI HLNLNINGQL 120
  121 STKTDVDLVT QIISNLLSNA EKYAATGKQV DLNVEQDNDN IFIHIRDYGN GITAKELKQI 180
  181 FQPFYRVRSS ITEGVSGTGI GLTIARQLAE TLSGEINAIN NEPGMTFTLR LPKR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	45.69897
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: