YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24376232, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	293 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|24376232, gi|....

Description	E-value	Query Range	Subject Range
gi\|45359306, gi\|... - gi\|60115482\|ref\|YP_209274.1\| RepFIB replication protein A [Salmonella enterica subsp. enterica serov... gi\|12060318, gi\|... - gi\|12084948\|ref\|NP_073241.1\| RepA/RepC [Salmonella enterica subsp. enterica serovar Choleraesuis], g...	482.0	[0..1]	[292..1]
gi\|1507732\|gb\|AA... - RepA [Salmonella enteritidis] gi\|1507732 - gi\|1507732\|gb\|AAB53036.1\| RepA [Salmonella enteritidis]	475.0	[0..1]	[291..1]
REP9_ECOLX - RepFIB replication protein A OS=Escherichia coli GN=repA PE=3 SV=1 gi\|144698 - gi\|144698\|gb\|AAA71880.1\| replication protein A [Plasmid ColV]	473.0	[0..16]	[291..2]
REPB_ECOLI - RepFIB replication protein A - Escherichia coli gi\|8918856, gi\|9... - gi\|9507746\|ref\|NP_061412.1\| replication initiator protein [Plasmid F], gi\|8918856\|dbj\|BAA97903.1\| re... gi\|144955 - gi\|144955\|gb\|AAA71886.1\| replication protein A [Plasmid ColVBtrp] gi\|148740 - gi\|148740\|gb\|AAA71885.1\| replication protein A [Plasmid pHH502] tr\|A0A0X8UG00\|A0... - RepFIB replication protein A OS=Escherichia coli (strain K12) GN=repB PE=1 SV=1, RepFIB replication ...	473.0	[0..16]	[291..2]
gi\|256855297\|ref... - IncFIB replication protein RepA [Escherichia coli] gi\|218692795, gi... - gi\|218692795\|ref\|YP_002405907.1\| replication protein [Escherichia coli UMN026], gi\|218349958\|emb\|CAQ... gi\|75236517 - gi\|75236517\|ref\|ZP_00720609.1\| hypothetical protein EcolF_01004239 [Escherichia coli F11] gi\|91206295, gi\|... - gi\|91206295\|ref\|YP_538649.1\| replication protein RepFIB (P307 replicon) [Escherichia coli UTI89], gi...	473.0	[0..16]	[291..2]
gi\|75234760 - gi\|75234760\|ref\|ZP_00719070.1\| hypothetical protein EcolE1_01003398 [Escherichia coli E110019] REP10_ECOLX - RepFIB replication protein A OS=Escherichia coli GN=repA PE=3 SV=1 gi\|148738 - gi\|148738\|gb\|AAA71882.1\| replication protein A [Plasmid pHH507]	472.0	[0..16]	[291..2]
gi\|41223296 - gi\|41223296\|ref\|NP_052630.2\| RepFIB [Escherichia coli O157:H7] gi\|37695781, gi\|... - pir\|\|T00233 replication protein RepFIB - Escherichia coli plasmid pO157, gi\|37695783\|gb\|AAR00445.1\|... gi\|254667474, gi... - gi\|254667474\|ref\|YP_003082160.1\| replication protein [Escherichia coli O157:H7 str. TW14359], gi\|254... gi\|161367664 - gi\|161367664\|ref\|YP_325616.2\| replication protein [Escherichia coli O157:H7 EDL933] gi\|217329853, gi... - gi\|217329853\|ref\|ZP_03445928.1\| repFIB replication protein A [Escherichia coli O157:H7 str. TW14588]... gi\|208730620, gi... - gi\|208817443\|ref\|ZP_03258472.1\| initiator RepB protein [Escherichia coli O157:H7 str. EC4045], gi\|20... gi\|209157037, gi... - gi\|209395582\|ref\|YP_002268410.1\| initiator RepB protein [Escherichia coli O157:H7 str. EC4115], gi\|2... gi\|189375455, gi... - gi\|189375455\|gb\|EDU93871.1\| repFIB replication protein A [Escherichia coli O157:H7 str. EC508], gi\|1... gi\|195940322 - gi\|195940322\|ref\|ZP_03085704.1\| RepFIB [Escherichia coli O157:H7 str. EC4024] gi\|168762991, gi... - gi\|189366768\|gb\|EDU85184.1\| repFIB replication protein A [Escherichia coli O157:H7 str. EC4501], gi\|... gi\|168769340, gi... - gi\|189361722\|gb\|EDU80141.1\| repFIB replication protein A [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|41223296 - gi\|41223296\|ref\|NP_052630.2\| RepFIB [Escherichia coli O157:H7 str. Sakai]	471.0	[0..16]	[291..2]

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Predicted Domain #1

Region A:
Residues: [1-293]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDRSENALLP IPVTENLNSG KLLTISSTTS VQPNVLLRTG VFTPVGRRTN ANDVKAQDLS  60
   61 NDLVNLDVCQ KEGYDLVTVR GQRLNIETDF KVWCGIVLVF SKYGYSSNTV KLTFSEFAKF 120
  121 CSYPSRRFDK NLRKQIGDSL GRIQSQSLSF RRKNSEKAVH TGMLLRAMYD GEEDIVELMA 180
  181 DETLWDLYRL DYQVLVSLRV LEKLPRAEVA QCLYLYFTSL PENPHPVSFE RLRERLRLET 240
  241 SKKEANRKIK TGIQKLESIG YLSGSFAVKN GEQYYLIDQR YKKLEAAITG SLF

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.78
Match:	1repC
Description:	RepE54
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	2.85334044543318	bayes_pls_golite062009
nucleic acid binding	2.8293727459515	bayes_pls_golite062009
DNA binding	2.66906990480864	bayes_pls_golite062009
binding	2.14387047687719	bayes_pls_golite062009
transcription factor activity	1.97506348695089	bayes_pls_golite062009
sequence-specific DNA binding	0.665091289283954	bayes_pls_golite062009
transcription activator activity	0.542530812773621	bayes_pls_golite062009
transcription repressor activity	0.423955395883599	bayes_pls_golite062009
protein binding	0.0300097532511948	bayes_pls_golite062009

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: