UniProtKB - D2RNY5 (D2RNY5_ACIFV)
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Protein
Riboflavin biosynthesis protein RibBA
Gene
ribBA
Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
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 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
Mg2+UniRule annotation, Mn2+UniRule annotationNote: Binds 2 divalent metal cations per subunit. Magnesium or manganese.UniRule annotation
: riboflavin biosynthesis Pathwayi
This protein is involved in step 1 of the subpathway that synthesizes 2-hydroxy-3-oxobutyl phosphate from D-ribulose 5-phosphate.UniRule annotationProteins known to be involved in this subpathway in this organism are:
- Riboflavin biosynthesis protein RibBA (ribBA)
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 2-hydroxy-3-oxobutyl phosphate from D-ribulose 5-phosphate, the pathway riboflavin biosynthesis and in Cofactor biosynthesis.
: riboflavin biosynthesis Pathwayi
This protein is involved in step 1 of the subpathway that synthesizes 5-amino-6-(D-ribitylamino)uracil from GTP.SAAS annotationProteins known to be involved in the 4 steps of the subpathway in this organism are:
- Riboflavin biosynthesis protein RibBA (ribBA)
- Riboflavin biosynthesis protein RibD (Acfer_0353)
- Riboflavin biosynthesis protein RibD (Acfer_0353)
- no protein annotated in this organism
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 5-amino-6-(D-ribitylamino)uracil from GTP, the pathway riboflavin biosynthesis and in Cofactor biosynthesis.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 32 | Magnesium or manganese 1UniRule annotation | 1 | |
Metal bindingi | 32 | Magnesium or manganese 2UniRule annotation | 1 | |
Binding sitei | 36 | D-ribulose 5-phosphateUniRule annotation | 1 | |
Sitei | 129 | Essential for DHBP synthase activityUniRule annotation | 1 | |
Metal bindingi | 146 | Magnesium or manganese 2UniRule annotation | 1 | |
Binding sitei | 167 | D-ribulose 5-phosphateUniRule annotation | 1 | |
Sitei | 167 | Essential for DHBP synthase activityUniRule annotation | 1 | |
Metal bindingi | 260 | Zinc; catalyticUniRule annotation | 1 | |
Metal bindingi | 271 | Zinc; catalyticUniRule annotation | 1 | |
Metal bindingi | 273 | Zinc; catalyticUniRule annotation | 1 | |
Binding sitei | 276 | GTPUniRule annotation | 1 | |
Binding sitei | 320 | GTPUniRule annotation | 1 | |
Active sitei | 332 | Proton acceptor; for GTP cyclohydrolase activityUniRule annotation | 1 | |
Active sitei | 334 | Nucleophile; for GTP cyclohydrolase activityUniRule annotation | 1 | |
Binding sitei | 355 | GTPUniRule annotation | 1 | |
Binding sitei | 360 | GTPUniRule annotation | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 255 – 259 | GTPUniRule annotation | 5 | |
Nucleotide bindingi | 298 – 300 | GTPUniRule annotation | 3 |
GO - Molecular functioni
- 3,4-dihydroxy-2-butanone-4-phosphate synthase activity Source: UniProtKB-UniRule
- GTP binding Source: UniProtKB-KW
- GTP cyclohydrolase II activity Source: UniProtKB-UniRule
- magnesium ion binding Source: UniProtKB-UniRule
- manganese ion binding Source: UniProtKB-UniRule
- zinc ion binding Source: UniProtKB-UniRule
GO - Biological processi
- riboflavin biosynthetic process Source: UniProtKB-UniRule
Keywordsi
Molecular function | HydrolaseUniRule annotation, LyaseUniRule annotationSAAS annotation, Multifunctional enzymeUniRule annotation |
Biological process | Riboflavin biosynthesisUniRule annotationSAAS annotation |
Ligand | GTP-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotation, ManganeseUniRule annotation, Metal-bindingUniRule annotationSAAS annotation, Nucleotide-binding, ZincUniRule annotationSAAS annotation |
Enzyme and pathway databases
BioCyci | AFER591001:G1GH7-375-MONOMER. |
UniPathwayi | UPA00275; UER00399. UPA00275; UER00400. |
Names & Taxonomyi
Protein namesi | Recommended name: Riboflavin biosynthesis protein RibBAUniRule annotationIncluding the following 2 domains: |
Gene namesi | Name:ribBAUniRule annotation Ordered Locus Names:Acfer_0355Imported |
Organismi | Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)Imported |
Taxonomic identifieri | 591001 [NCBI] |
Taxonomic lineagei | Bacteria › Firmicutes › Negativicutes › Acidaminococcales › Acidaminococcaceae › Acidaminococcus › |
Proteomesi |
|
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 211 – 376 | GTP_cyclohydro2InterPro annotationAdd BLAST | 166 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 204 | DHBP synthaseUniRule annotationAdd BLAST | 204 | |
Regioni | 31 – 32 | D-ribulose 5-phosphate bindingUniRule annotation | 2 | |
Regioni | 143 – 147 | D-ribulose 5-phosphate bindingUniRule annotation | 5 | |
Regioni | 205 – 408 | GTP cyclohydrolase IIUniRule annotationAdd BLAST | 204 |
Sequence similaritiesi
In the C-terminal section; belongs to the GTP cyclohydrolase II family.UniRule annotationSAAS annotation
Phylogenomic databases
eggNOGi | ENOG4105C66. Bacteria. COG0108. LUCA. COG0807. LUCA. |
HOGENOMi | HOG000115440. |
KOi | K14652. |
OMAi | GCTTGIS. |
OrthoDBi | POG091H008U. |
Family and domain databases
CDDi | cd00641. GTP_cyclohydro2. 1 hit. |
Gene3Di | 3.40.50.10990. 1 hit. |
HAMAPi | MF_00179. RibA. 1 hit. MF_00180. RibB. 1 hit. MF_01283. RibBA. 1 hit. |
InterProi | View protein in InterPro IPR017945. DHBP_synth_RibB-like_a/b_dom. IPR000422. DHBP_synthase_RibB. IPR032677. GTP_cyclohydro_II. IPR000926. RibA. IPR036144. RibA-like_sf. IPR016299. Riboflavin_synth_RibBA. |
Pfami | View protein in Pfam PF00926. DHBP_synthase. 1 hit. PF00925. GTP_cyclohydro2. 1 hit. |
SUPFAMi | SSF142695. SSF142695. 1 hit. SSF55821. SSF55821. 1 hit. |
TIGRFAMsi | TIGR00505. ribA. 1 hit. TIGR00506. ribB. 1 hit. |
i Sequence
Sequence statusi: Complete.
D2RNY5-1 [UniParc]FASTAAdd to basket
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
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | CP001859 Genomic DNA. Translation: ADB46761.1. |
RefSeqi | WP_012937751.1. NC_013740.1. |
Genome annotation databases
EnsemblBacteriai | ADB46761; ADB46761; Acfer_0355. |
KEGGi | afn:Acfer_0355. |
Similar proteinsi
Entry informationi
Entry namei | D2RNY5_ACIFV | |
Accessioni | D2RNY5Primary (citable) accession number: D2RNY5 | |
Entry historyi | Integrated into UniProtKB/TrEMBL: | March 2, 2010 |
Last sequence update: | March 2, 2010 | |
Last modified: | March 28, 2018 | |
This is version 66 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Unreviewed (UniProtKB/TrEMBL) |