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B5FEN2

- CDD_VIBFM

UniProt

B5FEN2 - CDD_VIBFM

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Protein

Cytidine deaminase

Gene

cdd

Organism
Vibrio fischeri (strain MJ11)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis.UniRule annotation

Catalytic activityi

Cytidine + H2O = uridine + NH3.UniRule annotation
2'deoxycytidine + H2O = 2'-deoxyuridine + NH3.UniRule annotation

Cofactori

Binds 1 zinc ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi104 – 1041Zinc; catalyticUniRule annotation
Active sitei106 – 1061Proton donorUniRule annotation
Metal bindingi131 – 1311Zinc; catalyticUniRule annotation
Metal bindingi134 – 1341Zinc; catalyticUniRule annotation

GO - Molecular functioni

  1. cytidine deaminase activity Source: UniProtKB-HAMAP
  2. zinc ion binding Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Cytidine deaminaseUniRule annotation (EC:3.5.4.5UniRule annotation)
Alternative name(s):
Cytidine aminohydrolaseUniRule annotation
Short name:
CDAUniRule annotation
Gene namesi
Name:cddUniRule annotation
Ordered Locus Names:VFMJ11_1578
OrganismiVibrio fischeri (strain MJ11)
Taxonomic identifieri388396 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
ProteomesiUP000001857: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 297297Cytidine deaminasePRO_1000147118Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi388396.VFMJ11_1578.

Structurei

3D structure databases

ProteinModelPortaliB5FEN2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini62 – 14483CMP/dCMP deaminase zinc-bindingAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni91 – 933Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the cytidine and deoxycytidylate deaminase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0295.
HOGENOMiHOG000218617.
KOiK01489.
OMAiNRSHAPY.
OrthoDBiEOG6XDH25.

Family and domain databases

HAMAPiMF_01558. Cyt_deam.
InterProiIPR016192. APOBEC/CMP_deaminase_Zn-bd.
IPR002125. CMP_dCMP_Zn-bd.
IPR013171. Cyd/dCyd_deaminase_Zn-bd.
IPR006263. Cyt_deam_dimer.
IPR016193. Cytidine_deaminase-like.
IPR020797. Cytidine_deaminase_bacteria.
[Graphical view]
PfamiPF00383. dCMP_cyt_deam_1. 1 hit.
PF08211. dCMP_cyt_deam_2. 1 hit.
[Graphical view]
PIRSFiPIRSF006334. Cdd_plus_pseudo. 1 hit.
SUPFAMiSSF53927. SSF53927. 2 hits.
TIGRFAMsiTIGR01355. cyt_deam_dimer. 1 hit.
PROSITEiPS00903. CYT_DCMP_DEAMINASES. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B5FEN2-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTRLQQRLEE ALANLPDALR TSLTPIINAE FKGVISKEQF QSLQADSELS
60 70 80 90 100
DKELRLALLP LAAAFSVAPI SNFYVGAIAR GLTGNLYFGA NMEYNDVQLG
110 120 130 140 150
QTIHAEQSAI SHAWIQGETG ISDITINFSP CGHCRQFMNE LTTADSLMVQ
160 170 180 190 200
LPERNEKSLQ EYLPESFGPK DLGIEGGLLA PLSHNLALET DSPLLRKALE
210 220 230 240 250
AANRSHAPYS HNLSGIALEM ESGEVYYGMY AENAAFNPSL PPLQVALVHA
260 270 280 290
NMSREDILTV KSAALVEDHK GAISHLAITQ STLEALNPDV TLEYASL
Length:297
Mass (Da):32,305
Last modified:October 14, 2008 - v1
Checksum:i9AE3EFF4FB9EBC18
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001139 Genomic DNA. Translation: ACH66513.1.
RefSeqiYP_002156297.1. NC_011184.1.

Genome annotation databases

EnsemblBacteriaiACH66513; ACH66513; VFMJ11_1578.
GeneIDi6806252.
KEGGivfm:VFMJ11_1578.
PATRICi20121616. VBIVibFis37164_1523.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001139 Genomic DNA. Translation: ACH66513.1 .
RefSeqi YP_002156297.1. NC_011184.1.

3D structure databases

ProteinModelPortali B5FEN2.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 388396.VFMJ11_1578.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACH66513 ; ACH66513 ; VFMJ11_1578 .
GeneIDi 6806252.
KEGGi vfm:VFMJ11_1578.
PATRICi 20121616. VBIVibFis37164_1523.

Phylogenomic databases

eggNOGi COG0295.
HOGENOMi HOG000218617.
KOi K01489.
OMAi NRSHAPY.
OrthoDBi EOG6XDH25.

Family and domain databases

HAMAPi MF_01558. Cyt_deam.
InterProi IPR016192. APOBEC/CMP_deaminase_Zn-bd.
IPR002125. CMP_dCMP_Zn-bd.
IPR013171. Cyd/dCyd_deaminase_Zn-bd.
IPR006263. Cyt_deam_dimer.
IPR016193. Cytidine_deaminase-like.
IPR020797. Cytidine_deaminase_bacteria.
[Graphical view ]
Pfami PF00383. dCMP_cyt_deam_1. 1 hit.
PF08211. dCMP_cyt_deam_2. 1 hit.
[Graphical view ]
PIRSFi PIRSF006334. Cdd_plus_pseudo. 1 hit.
SUPFAMi SSF53927. SSF53927. 2 hits.
TIGRFAMsi TIGR01355. cyt_deam_dimer. 1 hit.
PROSITEi PS00903. CYT_DCMP_DEAMINASES. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete sequence of Vibrio fischeri strain MJ11."
    Mandel M.J., Stabb E.V., Ruby E.G., Ferriera S., Johnson J., Kravitz S., Beeson K., Sutton G., Rogers Y.-H., Friedman R., Frazier M., Venter J.C.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MJ11.

Entry informationi

Entry nameiCDD_VIBFM
AccessioniPrimary (citable) accession number: B5FEN2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 14, 2008
Last modified: October 29, 2014
This is version 42 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3