YRC Public Data Repository - Protein Structure Prediction

Protein:	CDD1
Organism:	Saccharomyces cerevisiae
Length:	142 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 CDD1.

Description	E-value	Query Range	Subject Range
CDA - cytidine deaminase gi\|114554458 - gi\|114554458\|ref\|XP_001161389.1\| PREDICTED: cytidine deaminase isoform 2 [Pan troglodytes]	2.0E-45	[6..141]	[10..142]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	4.0E-45	[6..141]	[9..141]
gi\|190405307 - gi\|190405307\|gb\|EDV08574.1\| cytidine deaminase [Saccharomyces cerevisiae RM11-1a] gi\|151941081 - gi\|151941081\|gb\|EDN59461.1\| cytidine deaminase [Saccharomyces cerevisiae YJM789] CDD_YEAST - Cytidine deaminase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CDD1 PE=1 SV=1 CDD1 - Cytidine deaminase; catalyzes the modification of cytidine to uridine in vitro but native RNA substr...	5.0E-44	[1..142]	[1..142]
gi\|6478520, gi\|5... - gi\|6478520\|gb\|AAF13876.1\|AF187304_1 cytidine deaminase [Bacillus caldolyticus], gi\|5689607\|emb\|CAB51...	2.0E-43	[11..142]	[3..131]
CDD_MOUSE - Cytidine deaminase OS=Mus musculus GN=Cda PE=1 SV=2	2.0E-43	[7..141]	[11..142]
gi\|25290255 - pir\|\|D97090 cytidine deaminase, cdd [imported] - Clostridium acetobutylicum gi\|15024494, gi\|... - gi\|15894822\|ref\|NP_348171.1\| cytidine deaminase [Clostridium acetobutylicum ATCC 824], gi\|15024494\|g...	2.0E-42	[10..141]	[2..130]
gi\|221323977 - gi\|221323977\|ref\|ZP_03605271.1\| cytidine/deoxycytidine deaminase [Bacillus subtilis subsp. subtilis ... gi\|221314777 - gi\|221314777\|ref\|ZP_03596582.1\| cytidine/deoxycytidine deaminase [Bacillus subtilis subsp. subtilis ... gi\|221319700 - gi\|221319700\|ref\|ZP_03600994.1\| cytidine/deoxycytidine deaminase [Bacillus subtilis subsp. subtilis ... CDD_BACSU - Cytidine deaminase OS=Bacillus subtilis (strain 168) GN=cdd PE=1 SV=1 CDD_BACSU - Cytidine deaminase OS=Bacillus subtilis GN=cdd PE=1 SV=1	2.0E-42	[12..142]	[4..131]
CDD_SPOPS - Cytidine deaminase OS=Sporosarcina psychrophila GN=cdd PE=3 SV=1	1.0E-41	[10..141]	[2..130]
gi\|153183818, gi... - gi\|254898371\|ref\|ZP_05258295.1\| cytidine deaminase [Listeria monocytogenes J0161], gi\|153183818\|ref\|... gi\|254829778, gi... - gi\|254829778\|ref\|ZP_05234433.1\| cytidine deaminase [Listeria monocytogenes 10403S], gi\|153196241\|ref... gi\|153190885, gi... - gi\|254912137\|ref\|ZP_05262149.1\| cytidine deaminase [Listeria monocytogenes J2818], gi\|153190885\|ref\|... gi\|225876526, gi... - gi\|226224064\|ref\|YP_002758171.1\| cytidine deaminase [Listeria monocytogenes Clip81459], gi\|225876526... gi\|153166871, gi... - gi\|153166871\|ref\|ZP_01927339.1\| cytidine deaminase [Listeria monocytogenes FSL N1-017], gi\|133727277... gi\|224501597 - gi\|224501597\|ref\|ZP_03669904.1\| cytidine deaminase [Listeria monocytogenes FSL R2-561] gi\|254824478 - gi\|254824478\|ref\|ZP_05229479.1\| cytidine deaminase [Listeria monocytogenes FSL J1-194] gi\|133730194, gi... - gi\|254827751\|ref\|ZP_05232438.1\| cytidine deaminase [Listeria monocytogenes FSL N3-165], gi\|153174590... gi\|254852088 - gi\|254852088\|ref\|ZP_05241436.1\| cytidine deaminase [Listeria monocytogenes FSL R2-503] gi\|153179515, gi... - gi\|254936465\|ref\|ZP_05268162.1\| cytidine deaminase [Listeria monocytogenes F6900], gi\|153179515\|ref\|... gi\|254879772 - gi\|254879772\|ref\|ZP_05252482.1\| cytidine deaminase [Listeria monocytogenes FSL J2-071] gi\|133735581, gi... - gi\|254932648\|ref\|ZP_05266007.1\| cytidine deaminase [Listeria monocytogenes HPB2262], gi\|153202298\|re... gi\|254991893 - gi\|254991893\|ref\|ZP_05274083.1\| cytidine deaminase [Listeria monocytogenes FSL J2-064] gi\|255018413 - gi\|255018413\|ref\|ZP_05290539.1\| cytidine deaminase [Listeria monocytogenes FSL F2-515] gi\|255521278 - gi\|255521278\|ref\|ZP_05388515.1\| cytidine deaminase [Listeria monocytogenes FSL J1-175] gi\|16410892, gi\|... - pir\|\|AG1257 cytidine deaminase homolog lmo1463 [imported] - Listeria monocytogenes (strain EGD-e), g... gi\|46907691, gi\|... - gi\|46907691\|ref\|YP_014080.1\| cytidine deaminase [Listeria monocytogenes str. 4b F2365], gi\|46880960\|... gi\|16803503 - gi\|16803503\|ref\|NP_464988.1\| hypothetical protein lmo1463 [Listeria monocytogenes EGD-e] gi\|47095414, gi\|... - gi\|47095414\|ref\|ZP_00233024.1\| cytidine deaminase [Listeria monocytogenes str. 1/2a F6854], gi\|47016... gi\|224500517 - gi\|224500517\|ref\|ZP_03668866.1\| cytidine deaminase [Listeria monocytogenes Finland 1988] gi\|47093469, gi\|... - gi\|47093469\|ref\|ZP_00231232.1\| cytidine deaminase [Listeria monocytogenes str. 4b H7858], gi\|4701814...	2.0E-41	[15..141]	[7..130]

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Predicted Domain #1

Region A:
Residues: [1-142]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKVGGIEDRQ LEALKRAALK ACELSYSPYS HFRVGCSILT NNDVIFTGAN VENASYSNCI  60
   61 CAERSAMIQV LMAGHRSGWK CMVICGDSED QCVSPCGVCR QFINEFVVKD FPIVMLNSTG 120
  121 SRSKVMTMGE LLPMAFGPSH LN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	253.9691
Match:	1jtkA_
Description:	mono-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
binding	1.64474382695496	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	1.51294035758003	bayes_pls_golite062009
IMP cyclohydrolase activity	1.34771936728813	bayes_pls_golite062009
hydrolase activity	1.20889076546073	bayes_pls_golite062009
phosphoribosylaminoimidazolecarboxamide formyltransferase activity	1.06178740854563	bayes_pls_golite062009
nucleoside binding	0.66793245260795	bayes_pls_golite062009
hydroxymethyl-, formyl- and related transferase activity	0.36832789692523	bayes_pls_golite062009
cyclohydrolase activity	0.308525511259279	bayes_pls_golite062009
protein binding	0.072557222523031	bayes_pls_golite062009
glycine hydroxymethyltransferase activity	0.0520808212384716	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: