YRC Public Data Repository - Protein Structure Prediction

Protein:	RTN_ECOLI
Organism:	Escherichia coli
Length:	518 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 RTN_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|89519310 - gi\|89519310\|gb\|ABD75787.1\| sensory box/GGDEF family protein [uncultured bacterium]	468.0	[0..58]	[515..423]
gi\|88947158, gi\|... - gi\|88947158\|ref\|ZP_01150169.1\| PAS:GGDEF [Desulfotomaculum reducens MI-1], gi\|88923371\|gb\|EAR42405.1...	466.0	[0..41]	[508..482]
gi\|48859207, gi\|... - gi\|67875521\|ref\|ZP_00504817.1\| PAS:GGDEF [Clostridium thermocellum ATCC 27405], gi\|67850552\|gb\|EAM46...	462.0	[0..58]	[511..409]
gi\|78195532, gi\|... - gi\|78224277\|ref\|YP_386024.1\| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s) [Geobacter...	459.0	[0..35]	[515..420]
gi\|68540985, gi\|... - gi\|68540985\|ref\|ZP_00580733.1\| PAS:GGDEF [Shewanella baltica OS155], gi\|68521370\|gb\|EAN44864.1\| PAS:...	453.0	[0..33]	[517..1038]
gi\|24371939, gi\|... - gi\|24371939\|ref\|NP_715981.1\| sensory box protein [Shewanella oneidensis MR-1], gi\|24345777\|gb\|AAN534... SO0341 - sensory box protein	452.0	[0..33]	[517..1042]
gi\|160862770, gi... - gi\|160877248\|ref\|YP_001556564.1\| diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s...	451.0	[0..33]	[517..1038]
gi\|78363780, gi\|... - gi\|78485494\|ref\|YP_391419.1\| diguanylate cyclase/phosphodiesterase [Thiomicrospira crunogena XCL-2],...	451.0	[0..32]	[513..972]
gi\|114332895, gi... - gi\|69949915\|ref\|ZP_00637879.1\| PAS:GGDEF [Shewanella frigidimarina NCIMB 400], gi\|69166539\|gb\|EAN755...	451.0	[0..31]	[515..1013]

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Predicted Domain #1

Region A:
Residues: [1-265]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFIRAPNFGR KLLLTCIVAG VMIAILVSCL QFLVAWHKHE VKYDTLITDV QKYLDTYFAD  60
   61 LKSTTDRLQP LTLDTCQQAN PELTARAAFS MNVRTFVLVK DKKTFCSSAT GEMDIPLNEL 120
  121 IPALDINKNV DMAILPGTPM VPNKPAIVIW YRNPLLKNSG VFAALNLNLT PSLFYSSRQE 180
  181 DYDGVALIIG NTALSTFSSR LMNVNELTDM PVRETKIAGI PLTVRLYADD WTWNDVWYAF 240
  241 LLGGMSGTVV GLLCYYLMSV RMRPG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.0
Match:	1w25A
Description:	Response regulator PleD in complex with c-diGMP
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [266-518]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 REIMTAIKRE QFYVAYQPVV DTQALRVTGL EVLLRWRHPV AGEIPPDAFI NFAESQKMIV  60
   61 PLTQHLFELI ARDAAELEKV LPVGVKFGIN IAPDHLHSES FKADIQKLLT SLPAHHFQIV 120
  121 LEITERDMLK EQEATQLFAW LHSVGVEIAI DDFGTGHSAL IYLERFTLDY LKIDRGFINA 180
  181 IGTETITSPV LDAVLTLAKR LNMLTVAEGV ETPEQARWLS ERGVNFMQGY WISRPLPLDD 240
  241 FVRWLKKPYT PQW

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	72.39794
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