YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|165939620, gi...
Organism:	Yersinia pestis biovar Orientalis str. IP275
Length:	294 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|165939620, gi....

Description	E-value	Query Range	Subject Range
gi\|37198892, gi\|... - gi\|37680146\|ref\|NP_934755.1\| cytidine deaminase [Vibrio vulnificus YJ016], gi\|37198892\|dbj\|BAC94726....	1.0E-90	[1..291]	[8..297]
gi\|27365698, gi\|... - gi\|27365698\|ref\|NP_761226.1\| cytidine deaminase [Vibrio vulnificus CMCP6], gi\|27361847\|gb\|AAO10753.1...	2.0E-90	[1..291]	[8..297]
CDD_VIBVU - Cytidine deaminase OS=Vibrio vulnificus (strain CMCP6) GN=cdd PE=3 SV=2 CDD_VIBVU - Cytidine deaminase OS=Vibrio vulnificus GN=cdd PE=3 SV=2	4.0E-90	[1..291]	[1..290]
CDD_YERPS - Cytidine deaminase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=cdd PE=3 SV=1 CDD_YERPS - Cytidine deaminase OS=Yersinia pseudotuberculosis GN=cdd PE=3 SV=1 CDD_YERPB - Cytidine deaminase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=cdd PE=3 SV=1	9.0E-90	[1..294]	[1..294]
CDD_PHOLL - Cytidine deaminase OS=Photorhabdus luminescens subsp. laumondii GN=cdd PE=3 SV=1 CDD_PHOLL - Cytidine deaminase OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 105565 / TT0...	4.0E-89	[1..294]	[1..294]
gi\|149750165, gi... - gi\|153836567\|ref\|ZP_01989234.1\| cytidine deaminase [Vibrio parahaemolyticus AQ3810], gi\|149750165\|gb... CDD_VIBPA - Cytidine deaminase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=cdd PE=3 SV=1 CDD_VIBPA - Cytidine deaminase OS=Vibrio parahaemolyticus GN=cdd PE=3 SV=1	1.0E-88	[1..291]	[1..290]
gi\|205338512, gi... - gi\|205338512\|gb\|EDZ25276.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Heidelbe... gi\|205335640, gi... - gi\|205335640\|gb\|EDZ22404.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Kentucky... gi\|167991110, gi... - gi\|205330501\|gb\|EDZ17265.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar 4,[5],12... CDD_SALHS - Cytidine deaminase OS=Salmonella heidelberg (strain SL476) GN=cdd PE=3 SV=1 gi\|205345128, gi... - gi\|205345128\|gb\|EDZ31892.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Weltevre... gi\|168466137, gi... - gi\|195631358\|gb\|EDX49918.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Newport ... gi\|168259476, gi... - gi\|205350906\|gb\|EDZ37537.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Hadar st... CDD_SALTY - Cytidine deaminase OS=Salmonella typhimurium GN=cdd PE=3 SV=1 lcl\|NC_016856.1_... - [gene=cdd] [protein=cytidine deaminase] [protein_id=YP_005238229.1] [location=2330719..2331603] gi\|238912625 - gi\|238912625\|ref\|ZP_04656462.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Tenn... CDD_SALTY - Cytidine deaminase OS=Salmonella typhimurium GN=cdd PE=3 SV=1 CDD_SALPB - Cytidine deaminase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=cdd PE=3 SV=1 CDD_SALG2 - Cytidine deaminase OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=cdd PE=3 SV=1 gi\|200388921, gi... - gi\|200388921\|ref\|ZP_03215533.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Virc... CDD_SALTY - Cytidine deaminase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=cdd PE=3 SV=1 gi\|197261992, gi... - gi\|197261992\|ref\|ZP_03162066.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Sain... gi\|194472954, gi... - gi\|194472954\|ref\|ZP_03078938.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Kent... CDD_SALPB - Cytidine deaminase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=cdd PE=3 SV=1 CDD_SALPC - Cytidine deaminase OS=Salmonella paratyphi C (strain RKS4594) GN=cdd PE=3 SV=1 CDD_SALEP - Cytidine deaminase OS=Salmonella enteritidis PT4 (strain P125109) GN=cdd PE=3 SV=1	2.0E-88	[1..292]	[1..291]
gi\|213981898 - gi\|213981898\|ref\|ZP_03409157.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typh... CDD_SALTI - Cytidine deaminase OS=Salmonella typhi GN=cdd PE=3 SV=1 gi\|213999840 - gi\|213999840\|ref\|ZP_03410575.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typh... gi\|213023250 - gi\|213023250\|ref\|ZP_03337697.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typh... gi\|213419692 - gi\|213419692\|ref\|ZP_03352758.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typh... gi\|213586756 - gi\|213586756\|ref\|ZP_03368582.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typh... gi\|16761125 - gi\|16761125\|ref\|NP_456742.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typhi s... CDD_SALTI - Cytidine deaminase OS=Salmonella typhi GN=cdd PE=3 SV=1 gi\|29136805, gi\|... - gi\|29141179\|ref\|NP_804521.1\| cytidine deaminase [Salmonella enterica subsp. enterica serovar Typhi s...	4.0E-88	[1..292]	[1..291]
gi\|194540634, gi... - gi\|75856583\|ref\|ZP_00764209.1\| COG0295: Cytidine deaminase [Vibrio sp. Ex25], gi\|254228383\|ref\|ZP_04...	5.0E-88	[1..290]	[1..289]

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Predicted Domain #1

Region A:
Residues: [1-294]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQARFHTSWA ELPASLQFAL EPILSAENFP AMLTAEQVKT VKNISGLDDD ALAFALLPLA  60
   61 TACALTPISH FNVGAIARGK SGNFYFGANM EFRGVPLQQT IHAEQCAVTH AWLRGETNLV 120
  121 AITVNYTPCG HCRQFMNELN SGSELHIHLP GRPPSTLGQY LPDSFGPTDL AITTLLMDPV 180
  181 NHGYTLAETD PLTQAALNAA NHSHAPYSQS HSGVALETTN GKIYAGRYAE NAAFNPSLPP 240
  241 LQAALILANI TGENCASIRR AVLVEGHNAV TSQWDTTLAT LNALGCSAVK RVTF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	88.39794
Match:	1af2A
Description:	Two-domain cytidine deaminase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
cytidine deaminase activity	4.42667374679603	bayes_pls_golite062009
deaminase activity	2.76997916054448	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines	2.27736397496642	bayes_pls_golite062009
catalytic activity	1.70756445127105	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	1.51294035758003	bayes_pls_golite062009
IMP cyclohydrolase activity	1.11605611485835	bayes_pls_golite062009
phosphoribosylaminoimidazolecarboxamide formyltransferase activity	0.827438033765078	bayes_pls_golite062009
hydrolase activity	0.339145951258927	bayes_pls_golite062009
cyclohydrolase activity	0.308525511259279	bayes_pls_golite062009
binding	0.255962198799579	bayes_pls_golite062009
hydroxymethyl-, formyl- and related transferase activity	0.1546696349714	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: