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D0CB74 (D0CB74_ACIBA) Unreviewed, UniProtKB/TrEMBL

Last modified March 19, 2014. Version 28. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Riboflavin biosynthesis protein RibD PIRNR PIRNR006769
Gene names
Name:ribD EMBL EEX03756.1
ORF Names:F911_03682 EMBL ENW73393.1, HMPREF0010_02004 EMBL EEX03756.1
OrganismAcinetobacter baumannii ATCC 19606 = CIP 70.34 EMBL EEX03756.1
Taxonomic identifier575584 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesMoraxellaceaeAcinetobacterAcinetobacter calcoaceticus/baumannii complex

Protein attributes

Sequence length361 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'-phosphate By similarity. PIRNR PIRNR006769

Cofactor

Binds 1 zinc ion By similarity. PIRNR PIRNR006769

Pathway

Cofactor biosynthesis; riboflavin biosynthesis; 5-amino-6-(D-ribitylamino)uracil from GTP: step 2/4. PIRNR PIRNR006769

Cofactor biosynthesis; riboflavin biosynthesis; 5-amino-6-(D-ribitylamino)uracil from GTP: step 3/4. PIRNR PIRNR006769

Sequence similarities

In the C-terminal section; belongs to the HTP reductase family. PIRNR PIRNR006769

In the N-terminal section; belongs to the cytidine and deoxycytidylate deaminase family. PIRNR PIRNR006769

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Regions

Region54 – 563Cacodylate binding PDB 3ZPG
Region81 – 855Phosphate 1 binding
Region84 – 852Sulfate 1 binding PDB 3ZPG
Region137 – 1404Acetate binding PDB 3ZPG PDB 3ZPC
Region207 – 2115Phosphate 2 binding
Region207 – 2115Sulfate 2 binding PDB 3ZPG

Sites

Metal binding541Zinc; via pros nitrogen PDB 3ZPG PDB 3ZPC
Metal binding791Zinc PDB 3ZPG PDB 3ZPC
Metal binding881Zinc PDB 3ZPG PDB 3ZPC
Binding site281Phosphate 1
Binding site461Oxalic acid 1 PDB 3ZPG
Binding site541Phosphate 1
Binding site581Oxalic acid 1 PDB 3ZPG
Binding site791Cacodylate; via amide nitrogen PDB 3ZPG
Binding site1541Acetate
Binding site1811Phosphate 2
Binding site1881Phosphate 2
Binding site1881Sulfate 2 PDB 3ZPG
Binding site2001Chloride PDB 3ZPG
Binding site2311Oxalic acid 2 PDB 3ZPG
Binding site2861Acetate PDB 3ZPG PDB 3ZPC
Binding site2921Chloride; via amide nitrogen PDB 3ZPG

Sequences

Sequence LengthMass (Da)Tools
D0CB74 [UniParc].

Last modified November 24, 2009. Version 1.
Checksum: 13F6A01D4B132ACA

FASTA36139,633
        10         20         30         40         50         60 
MSELKQDQYW MQQAIELAKR GLYSTKPNPN VGCVIVKDDQ LIGEGFHPKA GQPHAEVFAL 

        70         80         90        100        110        120 
RQAGEQAQGA TAYVTLEPCA HYGRTPPCAE ALVKAQVKKV VVACPDPNPL VAGKGVQILK 

       130        140        150        160        170        180 
NAGIEVEIGI CEDLAAKLNQ GFLKAMSTGM PYVRLKVASS LDGRTAMASG ESKWITGSAA 

       190        200        210        220        230        240 
RQDVQHWRAI SGAVITGIDT VIADDCQLNV RSLHNIDIET VAQPKRVILD RRGRLPLTAK 

       250        260        270        280        290        300 
ILENPETVMV MGPYRQELAD LGVIQLEIQP LKTLLQTLSK QYQIYDVLIE AGATLSSAFL 

       310        320        330        340        350        360 
QEGLIDEMIS YVAPTLLGQS ARAMFNADFE YMAQQLRFKL LDVIQLDQDI RLRLIPTQEK 


V 

« Hide

References

[1]"The Genome Sequence of Acinetobacter baumannii strain ATCC 19606."
The Broad Institute Genome Sequencing Platform
Ward D., Feldgarden M., Earl A., Young S.K., Zeng Q., Koehrsen M., Alvarado L., Berlin A., Bochicchio J., Borenstein D., Chapman S., Chen Z., Engels R., Freedman E., Gellesch M., Goldberg J., Griggs A., Gujja S. expand/collapse author list , Heilman E., Heiman D., Hepburn T., Howarth C., Jen D., Larson L., Lewis B., Mehta T., Park D., Pearson M., Roberts A., Saif S., Shea T., Shenoy N., Sisk P., Stolte C., Sykes S., Thomson T., Walk T., White J., Yandava C., Peleg A., Haas B., Nusbaum C., Birren B.
Submitted (AUG-2009) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE.
Strain: ATCC 19606 EMBL EEX03756.1.
[2]"Structure of diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase from Acinetobacter baumannii."
Dawson A., Trumper P., Chrysostomou G., Hunter W.N.
Acta Crystallogr. F 69:611-617(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.99 ANGSTROMS) IN COMPLEX WITH ACETATE; CACODYLATE; CHLORIDE; OXALIC ACID; PHOSPHATE; SULFATE AND ZINC.
[3]"The Genome Sequence of Acinetobacter baumannii CIP 70.34T."
The Broad Institute Genome Sequencing Platform, The Broad Institute Genome Sequencing Center for Infectious Disease
Cerqueira G., Feldgarden M., Courvalin P., Perichon B., Grillot-Courvalin C., Clermont D., Rocha E., Yoon E.-J., Nemec A., Walker B., Young S.K., Zeng Q., Gargeya S., Fitzgerald M., Haas B., Abouelleil A., Alvarado L., Arachchi H.M. expand/collapse author list , Berlin A.M., Chapman S.B., Dewar J., Goldberg J., Griggs A., Gujja S., Hansen M., Howarth C., Imamovic A., Larimer J., McCowan C., Murphy C., Neiman D., Pearson M., Priest M., Roberts A., Saif S., Shea T., Sisk P., Sykes S., Wortman J., Nusbaum C., Birren B.
Submitted (FEB-2013) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE.
Strain: CIP 70.34 EMBL ENW73393.1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
GG704574 Genomic DNA. Translation: EEX03756.1.
APRG01000018 Genomic DNA. Translation: ENW73393.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
3ZPCX-ray2.20A/B1-361[»]
3ZPGX-ray1.99A1-361[»]
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaEEX03756; EEX03756; HMPREF0010_02004.
ENW73393; ENW73393; F911_03682.
PATRIC24333545. VBIAciBau3967_1967.

Enzyme and pathway databases

UniPathwayUPA00275; UER00401.
UPA00275; UER00402.

Family and domain databases

Gene3D3.40.430.10. 1 hit.
InterProIPR016192. APOBEC/CMP_deaminase_Zn-bd.
IPR002125. CMP_dCMP_Zn-bd.
IPR016193. Cytidine_deaminase-like.
IPR024072. DHFR-like_dom.
IPR004794. Eubact_RibD.
IPR011549. RibD_C.
IPR002734. RibDG_C.
[Graphical view]
PfamPF00383. dCMP_cyt_deam_1. 1 hit.
PF01872. RibD_C. 1 hit.
[Graphical view]
PIRSFPIRSF006769. RibD. 1 hit.
SUPFAMSSF53597. SSF53597. 1 hit.
SSF53927. SSF53927. 1 hit.
TIGRFAMsTIGR00326. eubact_ribD. 1 hit.
TIGR00227. ribD_Cterm. 1 hit.
PROSITEPS00903. CYT_DCMP_DEAMINASES. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameD0CB74_ACIBA
AccessionPrimary (citable) accession number: D0CB74
Entry history
Integrated into UniProtKB/TrEMBL: November 24, 2009
Last sequence update: November 24, 2009
Last modified: March 19, 2014
This is version 28 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)