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D2RNY5

- D2RNY5_ACIFV

UniProt

D2RNY5 - D2RNY5_ACIFV

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Protein
Riboflavin biosynthesis protein RibBA
Gene
ribBA, Acfer_0355
Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
Unreviewed - Annotation score: 4 out of 5 - Protein inferred from homologyi

Functioni

Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate By similarity.UniRule annotationSAAS annotations
Catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate By similarity.UniRule annotationSAAS annotations

Catalytic activityi

D-ribulose 5-phosphate = formate + L-3,4-dihydroxybutan-2-one 4-phosphate.UniRule annotation
GTP + 3 H2O = formate + 2,5-diamino-6-hydroxy-4-(5-phospho-D-ribosylamino)pyrimidine + diphosphate.UniRule annotationSAAS annotations

Cofactori

Binds 1 zinc ion per subunit By similarity.UniRule annotationSAAS annotations
Binds 2 divalent metal cations per subunit. Magnesium or manganese By similarity.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi32 – 321Magnesium or manganese 1 By similarityUniRule annotation
Metal bindingi32 – 321Magnesium or manganese 2 By similarityUniRule annotation
Binding sitei36 – 361D-ribulose 5-phosphate By similarityUniRule annotation
Sitei129 – 1291Essential for DHBP synthase activity By similarityUniRule annotation
Metal bindingi146 – 1461Magnesium or manganese 2 By similarityUniRule annotation
Binding sitei167 – 1671D-ribulose 5-phosphate By similarityUniRule annotation
Sitei167 – 1671Essential for DHBP synthase activity By similarityUniRule annotation
Metal bindingi260 – 2601Zinc; catalytic By similarityUniRule annotation
Metal bindingi271 – 2711Zinc; catalytic By similarityUniRule annotation
Metal bindingi273 – 2731Zinc; catalytic By similarityUniRule annotation
Binding sitei276 – 2761GTP By similarityUniRule annotation
Binding sitei320 – 3201GTP By similarityUniRule annotation
Active sitei332 – 3321Proton acceptor; for GTP cyclohydrolase activity By similarityUniRule annotation
Active sitei334 – 3341Nucleophile; for GTP cyclohydrolase activity By similarityUniRule annotation
Binding sitei355 – 3551GTP By similarityUniRule annotation
Binding sitei360 – 3601GTP By similarityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi255 – 2595GTP By similarityUniRule annotation
Nucleotide bindingi298 – 3003GTP By similarityUniRule annotation

GO - Molecular functioni

  1. 3,4-dihydroxy-2-butanone-4-phosphate synthase activity Source: UniProtKB-HAMAP
  2. GTP binding Source: UniProtKB-KW
  3. GTP cyclohydrolase II activity Source: UniProtKB-HAMAP
  4. magnesium ion binding Source: UniProtKB-HAMAP
  5. manganese ion binding Source: UniProtKB-HAMAP
  6. zinc ion binding Source: UniProtKB-HAMAP
Complete GO annotation...

GO - Biological processi

  1. riboflavin biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

HydrolaseUniRule annotation, LyaseUniRule annotation

Keywords - Biological processi

Riboflavin biosynthesisUniRule annotationSAAS annotations

Keywords - Ligandi

GTP-bindingUniRule annotationSAAS annotations, MagnesiumUniRule annotation, ManganeseUniRule annotation, Metal-bindingUniRule annotationSAAS annotations, Nucleotide-binding, ZincUniRule annotationSAAS annotations

Enzyme and pathway databases

BioCyciAFER591001:GHUL-373-MONOMER.
UniPathwayiUPA00275; UER00399.
UPA00275; UER00400.

Names & Taxonomyi

Protein namesi
Recommended name:
Riboflavin biosynthesis protein RibBAUniRule annotation
Gene namesi
Name:ribBAUniRule annotation
Ordered Locus Names:Acfer_0355Imported
OrganismiAcidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)Imported
Taxonomic identifieri591001 [NCBI]
Taxonomic lineageiBacteriaFirmicutesNegativicutesSelenomonadalesAcidaminococcaceaeAcidaminococcus
ProteomesiUP000001902: Chromosome

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 204204DHBP synthase By similarityUniRule annotation
Add
BLAST
Regioni31 – 322D-ribulose 5-phosphate binding By similarityUniRule annotation
Regioni143 – 1475D-ribulose 5-phosphate binding By similarityUniRule annotation
Regioni205 – 408204GTP cyclohydrolase II By similarityUniRule annotation
Add
BLAST

Sequence similaritiesi

In the C-terminal section; belongs to the GTP cyclohydrolase II family.UniRule annotation
In the N-terminal section; belongs to the DHBP synthase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000115440.
KOiK14652.
OMAiGKGLICM.

Family and domain databases

Gene3Di3.90.870.10. 1 hit.
HAMAPiMF_00179. RibA.
MF_00180. RibB.
MF_01283. RibBA.
InterProiIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
IPR000926. GTP_CycHdrlaseII_RibA.
IPR016299. Riboflavin_synth_RibBA.
[Graphical view]
PfamiPF00926. DHBP_synthase. 1 hit.
PF00925. GTP_cyclohydro2. 1 hit.
[Graphical view]
PIRSFiPIRSF001259. RibA. 1 hit.
SUPFAMiSSF55821. SSF55821. 1 hit.
TIGRFAMsiTIGR00505. ribA. 1 hit.
TIGR00506. ribB. 1 hit.

Sequencei

Sequence statusi: Complete.

D2RNY5-1 [UniParc]FASTAAdd to Basket

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MDKKFQFAPI EQAIEDIRAG KMVLVTDDPD RENEGDLIMS AEYVTPDDIN    50
FMATHAKGLI CMPCDGAILD RLQMEPMVAN NTDNHETAFT VSIDHKDTTT 100
GISAVERAYT IKKCTDESAK PEDFRRPGHV FPLRSREGGV LRRTGHTETT 150
TDLCRLAGLK PVGICCEIMS ADGTMARTPE LIEFARKFNL TFITVADLIA 200
YRKKNEKMVH RIANVALPSK YGTFRAIGYE NDLDDKCHVA IIKGDVAGKK 250
DVLVRVHSEC LTGDALGSLR CDCGDQLATS LKMIEKEGCG VVLYMQQEGR 300
GIGLANKLRA YELQDQGLDT VDANVKLGFK PDMRDYGIGA QILADLGLTS 350
IRLMTNNPAK RAGLSGYGIT ITETVPIIMK DNCYNHRYMV TKQVRMGHEL 400
HEDVEDAK 408
Length:408
Mass (Da):45,199
Last modified:March 2, 2010 - v1
Checksum:iE9C03148F8FE9109
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001859 Genomic DNA. Translation: ADB46761.1.
RefSeqiWP_012937751.1. NC_013740.1.
YP_003398076.1. NC_013740.1.

Genome annotation databases

EnsemblBacteriaiADB46761; ADB46761; Acfer_0355.
GeneIDi8736803.
KEGGiafn:Acfer_0355.
PATRICi31907259. VBIAciFer109666_0376.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001859 Genomic DNA. Translation: ADB46761.1 .
RefSeqi WP_012937751.1. NC_013740.1.
YP_003398076.1. NC_013740.1.

3D structure databases

ModBasei Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADB46761 ; ADB46761 ; Acfer_0355 .
GeneIDi 8736803.
KEGGi afn:Acfer_0355.
PATRICi 31907259. VBIAciFer109666_0376.

Phylogenomic databases

HOGENOMi HOG000115440.
KOi K14652.
OMAi GKGLICM.

Enzyme and pathway databases

UniPathwayi UPA00275 ; UER00399 .
UPA00275 ; UER00400 .
BioCyci AFER591001:GHUL-373-MONOMER.

Family and domain databases

Gene3Di 3.90.870.10. 1 hit.
HAMAPi MF_00179. RibA.
MF_00180. RibB.
MF_01283. RibBA.
InterProi IPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
IPR000926. GTP_CycHdrlaseII_RibA.
IPR016299. Riboflavin_synth_RibBA.
[Graphical view ]
Pfami PF00926. DHBP_synthase. 1 hit.
PF00925. GTP_cyclohydro2. 1 hit.
[Graphical view ]
PIRSFi PIRSF001259. RibA. 1 hit.
SUPFAMi SSF55821. SSF55821. 1 hit.
TIGRFAMsi TIGR00505. ribA. 1 hit.
TIGR00506. ribB. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 25085 / DSM 20731 / VR4.

Entry informationi

Entry nameiD2RNY5_ACIFV
AccessioniPrimary (citable) accession number: D2RNY5
Entry historyi
Integrated into UniProtKB/TrEMBL: March 2, 2010
Last sequence update: March 2, 2010
Last modified: September 3, 2014
This is version 30 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzymeUniRule annotation

External Data

Dasty 3

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