YRC Public Data Repository - Protein Structure Prediction

Protein:	YFGA_ECOLI
Organism:	Escherichia coli
Length:	337 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 YFGA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|195936658 - gi\|195936658\|ref\|ZP_03082040.1\| hypothetical protein EscherichcoliO157_09380 [Escherichia coli O157:... gi\|208729384, gi... - gi\|208809583\|ref\|ZP_03251920.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H... gi\|208733780, gi... - gi\|208812503\|ref\|ZP_03253832.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H... gi\|208819924, gi... - gi\|208819924\|ref\|ZP_03260244.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H... gi\|254593862, gi... - gi\|254794462\|ref\|YP_003079299.1\| hypothetical protein ECSP_3456 [Escherichia coli O157:H7 str. TW143... gi\|187770742, gi... - gi\|187770742\|gb\|EDU34586.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|168778482, gi... - gi\|189003320\|gb\|EDU72306.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|189372257, gi... - gi\|189372257\|gb\|EDU90673.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|13362848, gi\|... - gi\|15832632\|ref\|NP_311405.1\| hypothetical protein ECs3378 [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|189378633, gi... - gi\|189378633\|gb\|EDU97049.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|188017023, gi... - gi\|188017023\|gb\|EDU55145.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|189356594, gi... - gi\|189356594\|gb\|EDU75013.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|189368465, gi... - gi\|189368465\|gb\|EDU86881.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... gi\|168768608, gi... - gi\|189362221\|gb\|EDU80640.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H7 st... RODZ_ECO5E - Cytoskeleton protein RodZ OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=rodZ PE=3 SV=1 gi\|217326731, gi... - gi\|217326731\|ref\|ZP_03442814.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli O157:H... gi\|209763376, gi... - pir\|\|B91051 probable membrane protein [imported] - Escherichia coli (strain O157:H7, substrain RIMD... RODZ_ECO57 - Cytoskeleton protein RodZ OS=Escherichia coli O157:H7 GN=rodZ PE=3 SV=1	251.0	[0..1]	[337..1]
RODZ_SHIDS - Cytoskeleton protein RodZ OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=rodZ PE=3 SV=1	251.0	[0..1]	[337..1]
RODZ_ECO24 - Cytoskeleton protein RodZ OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=rodZ PE=3 SV=1	251.0	[0..1]	[337..1]
RODZ_ECOLC - Cytoskeleton protein RodZ OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=rodZ PE=3 SV... RODZ_ECOSE - Cytoskeleton protein RodZ OS=Escherichia coli (strain SE11) GN=rodZ PE=3 SV=1 gi\|188487503, gi... - gi\|75515855\|ref\|ZP_00737990.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|254289251, gi... - gi\|254289251\|ref\|YP_003054999.1\| hypothetical protein ECD_02408 [Escherichia coli BL21(DE3)], gi\|253... RODZ_ECOHS - Cytoskeleton protein RodZ OS=Escherichia coli O9:H4 (strain HS) GN=rodZ PE=3 SV=1 gi\|242378114, gi... - gi\|251785841\|ref\|YP_003000145.1\| hypothetical protein B21_02370 [Escherichia coli BL21], gi\|24237811... RODZ_SHIB3 - Cytoskeleton protein RodZ OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=rodZ PE=3 S... gi\|83586835, gi\|... - gi\|83586835\|ref\|ZP_00925466.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|254162490, gi... - gi\|254162490\|ref\|YP_003045598.1\| hypothetical protein ECB_02408 [Escherichia coli B str. REL606], gi... gi\|194432192, gi... - gi\|83570736\|ref\|ZP_00922179.1\| COG1426: Uncharacterized protein conserved in bacteria [Shigella dyse... gi\|124531246, gi... - gi\|124531246\|ref\|ZP_01701588.1\| transcriptional regulator, XRE family [Escherichia coli B], gi\|12449...	251.0	[0..1]	[337..1]
gi\|24052936, gi\|... - gi\|24113845\|ref\|NP_708355.1\| hypothetical protein SF2562 [Shigella flexneri 2a str. 301], gi\|2405293... RODZ_SHIF8 - Cytoskeleton protein RodZ OS=Shigella flexneri serotype 5b (strain 8401) GN=rodZ PE=3 SV=1 gi\|30063908, gi\|... - gi\|30063908\|ref\|NP_838079.1\| hypothetical protein S2734 [Shigella flexneri 2a str. 2457T], gi\|300421... RODZ_SHISS - Cytoskeleton protein RodZ OS=Shigella sonnei (strain Ss046) GN=rodZ PE=3 SV=1 RODZ_SHIFL - Cytoskeleton protein RodZ OS=Shigella flexneri GN=rodZ PE=3 SV=1	251.0	[0..1]	[337..1]
RODZ_ECO55 - Cytoskeleton protein RodZ OS=Escherichia coli (strain 55989 / EAEC) GN=rodZ PE=3 SV=1 RODZ_ECO8A - Cytoskeleton protein RodZ OS=Escherichia coli O8 (strain IAI1) GN=rodZ PE=3 SV=1 gi\|75257940, gi\|... - gi\|75257940\|ref\|ZP_00729414.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|75237738, gi\|... - gi\|75237738\|ref\|ZP_00721754.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|191167666, gi... - gi\|75229152\|ref\|ZP_00715724.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|75211482, gi\|... - gi\|75211482\|ref\|ZP_00711572.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c...	250.0	[0..1]	[337..1]
gi\|15803039, gi\|... - gi\|15803039\|ref\|NP_289069.1\| hypothetical protein Z3779 [Escherichia coli O157:H7 EDL933], gi\|125169... gi\|25367854 - pir\|\|F85895 probable membrane protein yfgA [imported] - Escherichia coli (strain O157:H7, substrain ...	248.0	[0..1]	[337..1]
gi\|75240459, gi\|... - gi\|75240459\|ref\|ZP_00724393.1\| COG1426: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|227887551, gi... - gi\|227887551\|ref\|ZP_04005356.1\| helix-turn-helix DNA-binding domain protein [Escherichia coli 83972]... gi\|237705026, gi... - gi\|237705026\|ref\|ZP_04535507.1\| conserved hypothetical protein [Escherichia sp. 3_2_53FAA], gi\|22690... RODZ_ECOUT - Cytoskeleton protein RodZ OS=Escherichia coli (strain UTI89 / UPEC) GN=rodZ PE=3 SV=1 RODZ_ECOK1 - Cytoskeleton protein RodZ OS=Escherichia coli O1:K1 / APEC GN=rodZ PE=3 SV=1 sp\|B7UGW2\|RODZ_ECO27 - Cytoskeleton protein rodZ OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=rodZ PE=3 SV=1 RODZ_ECO27 - Cytoskeleton protein RodZ OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=rodZ PE=3 SV=1 RODZ_ECO45 - Cytoskeleton protein RodZ OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=rodZ PE=3 SV=1	246.0	[0..1]	[337..1]
RODZ_ECOL6 - Cytoskeleton protein RodZ OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=rodZ PE=... RODZ_ECOL6 - Cytoskeleton protein rodZ OS=Escherichia coli O6 GN=rodZ PE=3 SV=1	244.0	[0..1]	[337..1]
RODZ_ECOL5 - Cytoskeleton protein RodZ OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=rodZ PE=3 SV=1	243.0	[0..1]	[337..1]

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Predicted Domain #1

Region A:
Residues: [1-111]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNTEATHDQN EALTTGARLR NAREQLGLSQ QAVAERLCLK VSTVRDIEED KAPADLASTF  60
   61 LRGYIRSYAR LVHIPEEELL PGLEKQAPLR AAKVAPMQSF SLGKRRKKRD G

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.0
Match:	1b0nA
Description:	SinR repressor dimerisation domain; SinR repressor, DNA-binding domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	2.61704321965245	bayes_pls_golite062009
DNA binding	2.5830294896479	bayes_pls_golite062009
binding	2.32539337034365	bayes_pls_golite062009
transcription regulator activity	2.02090839306316	bayes_pls_golite062009
transcription factor activity	1.1817223971636	bayes_pls_golite062009
catalytic activity	0.374904657353081	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [112-261]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WLMTFTWLVL FVVIGLSGAW WWQDRKAQQE EITTMADQSS AELSSNSEQG QSVPLNTSTT  60
   61 TDPATTSTPP ASVDTTATNT QTPAVTAPAP AVDPQQNAVV SPSQANVDTA ATPAPTAATT 120
  121 PDGAAPLPTD QAGVTTPVAD PNALVMNFTA

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.01
Match:	2j63A
Description:	No description for 2j63A was found.

Predicted Domain #3

Region A:
Residues: [262-337]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DCWLEVTDAT GKKLFSGMQR KDGNLNLTGQ APYKLKIGAP AAVQIQYQGK PVDLSRFIRT  60
   61 NQVARLTLNA EQSPAQ

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.665	0.449	DNA binding	d.129.1	TATA-box binding protein-like
View	Download	0.628	0.002	DNA binding	b.43.4	Riboflavin synthase domain-like
View	Download	0.622	0.000	DNA binding	d.205.1	GTP cyclohydrolase I feedback regulatory protein, GFRP
View	Download	0.623	N/A	N/A	d.129.1	TATA-box binding protein-like
View	Download	0.585	N/A	N/A	d.205.1	GTP cyclohydrolase I feedback regulatory protein, GFRP

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: