YRC Public Data Repository - Protein Structure Prediction

Protein:	YCDT_ECOLI
Organism:	Escherichia coli
Length:	452 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 YCDT_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|254792283, gi... - gi\|254792283\|ref\|YP_003077120.1\| predicted diguanylate cyclase [Escherichia coli O157:H7 str. TW1435... gi\|195935283 - gi\|195935283\|ref\|ZP_03080665.1\| hypothetical protein EscherichcoliO157_02312 [Escherichia coli O157:... gi\|209748584, gi... - pir\|\|G85647 hypothetical protein ycdT [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|12514390, gi\|... - gi\|15801016\|ref\|NP_287032.1\| hypothetical protein Z1527 [Escherichia coli O157:H7 EDL933], gi\|125143... gi\|15830525, gi\|... - gi\|15830525\|ref\|NP_309298.1\| hypothetical protein ECs1271 [Escherichia coli O157:H7], gi\|13360731\|db... gi\|15830525, gi\|... - gi\|15830525\|ref\|NP_309298.1\| hypothetical protein ECs1271 [Escherichia coli O157:H7 str. Sakai], gi\|...	310.0	[0..1]	[442..1]
gi\|89107874, gi\|... - gi\|89107874\|ref\|AP_001654.1\| predicted diguanylate cyclase [Escherichia coli str. K-12 substr. W3110...	309.0	[0..1]	[442..1]
gi\|218557913, gi... - gi\|218557913\|ref\|YP_002390826.1\| putative diguanylate cyclase [Escherichia coli S88], gi\|218364682\|e... gi\|117623220, gi... - gi\|117623220\|ref\|YP_852133.1\| diguanylate cyclase [Escherichia coli APEC O1], gi\|115512344\|gb\|ABJ004...	308.0	[0..1]	[447..1]
gi\|110641208, gi... - gi\|110641208\|ref\|YP_668938.1\| hypothetical protein ECP_1024 [Escherichia coli 536], gi\|110342800\|gb\|...	308.0	[0..1]	[447..1]
gi\|91210117, gi\|... - gi\|91210117\|ref\|YP_540103.1\| hypothetical protein UTI89_C1088 [Escherichia coli UTI89], gi\|91071691\|... gi\|237706988, gi... - gi\|237706988\|ref\|ZP_04537469.1\| diguanylate cyclase [Escherichia sp. 3_2_53FAA], gi\|226898198\|gb\|EEH...	304.0	[0..1]	[447..42]
gi\|26247049, gi\|... - gi\|26247049\|ref\|NP_753089.1\| hypothetical protein c1164 [Escherichia coli CFT073], gi\|26107449\|gb\|AA...	303.0	[0..1]	[447..42]
gi\|88947158, gi\|... - gi\|88947158\|ref\|ZP_01150169.1\| PAS:GGDEF [Desulfotomaculum reducens MI-1], gi\|88923371\|gb\|EAR42405.1...	242.0	[0..223]	[450..457]
gi\|54294112, gi\|... - gi\|54294112\|ref\|YP_126527.1\| hypothetical protein lpl1176 [Legionella pneumophila str. Lens], gi\|537...	240.0	[0..51]	[447..89]
gi\|78363780, gi\|... - gi\|78485494\|ref\|YP_391419.1\| diguanylate cyclase/phosphodiesterase [Thiomicrospira crunogena XCL-2],...	240.0	[0..246]	[451..1003]
gi\|54297125, gi\|... - gi\|54297125\|ref\|YP_123494.1\| hypothetical protein lpp1170 [Legionella pneumophila str. Paris], gi\|53...	236.0	[0..51]	[447..89]

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Predicted Domain #1

Region A:
Residues: [1-190]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEKDYLRISS TVLVSLLFGL ALVLVNSWFN QPGVEEVVPR STYLMVMIAL FFIDTVAFIF  60
   61 MQLYFIYDRR QFSNCVLSLA FLSCLIYFVI TVIIIQQIIE ERLTSSVVQN DIAIYYLFRQ 120
  121 MSLCILIFLA LVNKVSENTK QRNLFSKKMT LCISLFFVFG GPIVAHILSS HYESYNLHIA 180
  181 ELTNENGQVV

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [191-452]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WKASYVTIMI FMWLTLLSVN LYFNGLRYDI WNGVTVIAFC AVLYNISLLF MSRYSVSTWY  60
   61 ISRTIEVVSK LTVMVIFMCH IFSALRVTKN IAHRDPLTNI FNRNYFFNEL TVQSASAQKT 120
  121 PYCVMIMDID HFKKVNDTWG HPVGDQVIKT VVNIIGKSIR PDDLLARVGG EEFGVLLTDI 180
  181 DTERAKALAE RIRENVERLT GDNPEYAIPQ KVTISIGAVV TQENALNPNE IYRLADNALY 240
  241 EAKETGRNKV VVRDVVNFCE SP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.39794
Match:	1w25A
Description:	Response regulator PleD in complex with c-diGMP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
signal transducer activity	1.69929193323663	bayes_pls_golite062009
molecular transducer activity	1.69929193323663	bayes_pls_golite062009
DNA binding	1.11037597107903	bayes_pls_golite062009
nucleic acid binding	0.93151849951839	bayes_pls_golite062009
transcription factor activity	0.62886970109503	bayes_pls_golite062009
adenylate cyclase activity	0.31215177506461	bayes_pls_golite062009
cyclase activity	0.0777857375349	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: