YRC Public Data Repository - Protein Structure Prediction

Protein:	YCGF_ECOLI
Organism:	Escherichia coli
Length:	403 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 YCGF_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|48859207, gi\|... - gi\|67875521\|ref\|ZP_00504817.1\| PAS:GGDEF [Clostridium thermocellum ATCC 27405], gi\|67850552\|gb\|EAM46...	422.0	[0..2]	[403..465]
gi\|88947158, gi\|... - gi\|88947158\|ref\|ZP_01150169.1\| PAS:GGDEF [Desulfotomaculum reducens MI-1], gi\|88923371\|gb\|EAR42405.1...	415.0	[0..2]	[400..555]
gi\|89519310 - gi\|89519310\|gb\|ABD75787.1\| sensory box/GGDEF family protein [uncultured bacterium]	413.0	[0..3]	[402..488]
gi\|78195532, gi\|... - gi\|78224277\|ref\|YP_386024.1\| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s) [Geobacter...	409.0	[0..2]	[403..500]
gi\|118581402, gi... - gi\|71839449\|ref\|ZP_00679198.1\| PAS:GGDEF [Pelobacter propionicus DSM 2379], gi\|71740145\|gb\|EAO35314....	404.0	[0..2]	[401..473]
gi\|39997142, gi\|... - gi\|39997142\|ref\|NP_953093.1\| sensory box/GGDEF family protein [Geobacter sulfurreducens PCA], gi\|399...	404.0	[0..2]	[396..364]
gi\|77918947, gi\|... - gi\|77918947\|ref\|YP_356762.1\| EAL and GGDEF domain-containing protein [Pelobacter carbinolicus DSM 23...	401.0	[0..2]	[403..851]
gi\|68540985, gi\|... - gi\|68540985\|ref\|ZP_00580733.1\| PAS:GGDEF [Shewanella baltica OS155], gi\|68521370\|gb\|EAN44864.1\| PAS:...	400.0	[0..2]	[402..1117]
gi\|27355863, gi\|... - gi\|27382691\|ref\|NP_774220.1\| hypothetical protein bll7580 [Bradyrhizobium japonicum USDA 110], gi\|27...	400.0	[0..2]	[400..975]

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Predicted Domain #1

Region A:
Residues: [1-121]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLTTLIYRSH IRDDEPVKKI EEMVSIANRR NMQSDVTGIL LFNGSHFFQL LEGPEEQVKM  60
   61 IYRAICQDPR HYNIVELLCD YAPARRFGKA GMELFDLRLH ERDDVLQAVF DKGTSKFQLT 120
  121 Y

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.09691
Match:	1w25A
Description:	Response regulator PleD in complex with c-diGMP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	0.899732139081553	bayes_pls_golite062009
signal transducer activity	0.895509686942211	bayes_pls_golite062009
molecular transducer activity	0.895509686942211	bayes_pls_golite062009
binding	0.145546551776301	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [122-403]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DDRALQFFRT FVLATEQSTY FEIPAEDSWL FIADGSDKEL DSCALSPTIN DHFAFHPIVD  60
   61 PLSRRIIAFE AIVQKNEDSP SAIAVGQRKD GEIYTADLKS KALAFTMAHA LELGDKMISI 120
  121 NLLPMTLVNE PDAVSFLLNE IKANALVPEQ IIVEFTESEV ISRFDEFAEA IKSLKAAGIS 180
  181 VAIDHFGAGF AGLLLLSRFQ PDRIKISQEL ITNVHKSGPR QAIIQAIIKC CTSLEIQVSA 240
  241 MGVATPEEWM WLESAGIEMF QGDLFAKAKL NGIPSIAWPE KK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	73.0
Match:	2r6oA
Description:	No description for 2r6oA was found.

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: