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D2RNY5

- D2RNY5_ACIFV

UniProt

D2RNY5 - D2RNY5_ACIFV

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Protein

Riboflavin biosynthesis protein RibBA

Gene

ribBA

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.UniRule annotationSAAS annotation
Catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate.UniRule annotationSAAS annotation

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 annotation

Cofactori

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

Pathwayi

Sites

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi255 – 2595GTPUniRule annotation
Nucleotide bindingi298 – 3003GTPUniRule 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

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 annotation

Keywords - Ligandi

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

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 synthaseUniRule annotationAdd
BLAST
Regioni31 – 322D-ribulose 5-phosphate bindingUniRule annotation
Regioni143 – 1475D-ribulose 5-phosphate bindingUniRule annotation
Regioni205 – 408204GTP cyclohydrolase IIUniRule annotationAdd
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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        10         20         30         40         50
MDKKFQFAPI EQAIEDIRAG KMVLVTDDPD RENEGDLIMS AEYVTPDDIN
60 70 80 90 100
FMATHAKGLI CMPCDGAILD RLQMEPMVAN NTDNHETAFT VSIDHKDTTT
110 120 130 140 150
GISAVERAYT IKKCTDESAK PEDFRRPGHV FPLRSREGGV LRRTGHTETT
160 170 180 190 200
TDLCRLAGLK PVGICCEIMS ADGTMARTPE LIEFARKFNL TFITVADLIA
210 220 230 240 250
YRKKNEKMVH RIANVALPSK YGTFRAIGYE NDLDDKCHVA IIKGDVAGKK
260 270 280 290 300
DVLVRVHSEC LTGDALGSLR CDCGDQLATS LKMIEKEGCG VVLYMQQEGR
310 320 330 340 350
GIGLANKLRA YELQDQGLDT VDANVKLGFK PDMRDYGIGA QILADLGLTS
360 370 380 390 400
IRLMTNNPAK RAGLSGYGIT ITETVPIIMK DNCYNHRYMV TKQVRMGHEL

HEDVEDAK
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.
RefSeqiYP_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 YP_003398076.1. NC_013740.1.

3D structure databases

ModBasei Search...
MobiDBi 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 / VR4Imported.

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: October 29, 2014
This is version 32 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzymeUniRule annotation, Reference proteomeImported

External Data

Dasty 3