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Protein

Inosine-5'-monophosphate dehydrogenase 1b

Gene

impdh1b

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Catalyzes the conversion of inosine 5'-phosphate (IMP) to xanthosine 5'-phosphate (XMP), the first committed and rate-limiting step in the de novo synthesis of guanine nucleotides, and therefore plays an important role in the regulation of cell growth.UniRule annotation

Catalytic activityi

Inosine 5'-phosphate + NAD+ + H2O = xanthosine 5'-phosphate + NADH.UniRule annotation

Cofactori

K+UniRule annotation

Enzyme regulationi

Mycophenolic acid (MPA) is a non-competitive inhibitor that prevents formation of the closed enzyme conformation by binding to the same site as the amobile flap. In contrast, mizoribine monophosphate (MZP) is a competitive inhibitor that induces the closed conformation. MPA is a potent inhibitor of mammalian IMPDHs but a poor inhibitor of the bacterial enzymes. MZP is a more potent inhibitor of bacterial IMPDH.UniRule annotation

Pathwayi: XMP biosynthesis via de novo pathway

This protein is involved in step 1 of the subpathway that synthesizes XMP from IMP.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Inosine-5'-monophosphate dehydrogenase (impdh2), Inosine-5'-monophosphate dehydrogenase (impdh1a), Inosine-5'-monophosphate dehydrogenase 2 (impdh2), Inosine-5'-monophosphate dehydrogenase (impdh1b), Inosine-5'-monophosphate dehydrogenase (impdh1b), Inosine-5'-monophosphate dehydrogenase 1a (impdh1a), Inosine-5'-monophosphate dehydrogenase 1b (impdh1b), Inosine-5'-monophosphate dehydrogenase (impdh2), Inosine-5'-monophosphate dehydrogenase (impdh1a)
This subpathway is part of the pathway XMP biosynthesis via de novo pathway, which is itself part of Purine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes XMP from IMP, the pathway XMP biosynthesis via de novo pathway and in Purine metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi326Potassium; via carbonyl oxygenUniRule annotation1
Metal bindingi328Potassium; via carbonyl oxygenUniRule annotation1
Binding sitei329IMPUniRule annotation1
Active sitei331Thioimidate intermediateUniRule annotation1
Metal bindingi331Potassium; via carbonyl oxygenUniRule annotation1
Active sitei429Proton acceptorUniRule annotation1
Binding sitei441IMPUniRule annotation1
Metal bindingi500Potassium; via carbonyl oxygen; shared with tetrameric partnerUniRule annotation1
Metal bindingi501Potassium; via carbonyl oxygen; shared with tetrameric partnerUniRule annotation1
Metal bindingi502Potassium; via carbonyl oxygen; shared with tetrameric partnerUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi274 – 276NADUniRule annotation3
Nucleotide bindingi324 – 326NADUniRule annotation3

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

GMP biosynthesis, Purine biosynthesis

Keywords - Ligandi

Metal-binding, NAD, Potassium

Enzyme and pathway databases

ReactomeiR-DRE-6798695. Neutrophil degranulation.
R-DRE-73817. Purine ribonucleoside monophosphate biosynthesis.
UniPathwayiUPA00601; UER00295.

Names & Taxonomyi

Protein namesi
Recommended name:
Inosine-5'-monophosphate dehydrogenase 1bUniRule annotation (EC:1.1.1.205UniRule annotation)
Short name:
IMP dehydrogenase 1bUniRule annotation
Short name:
IMPD 1bUniRule annotation
Short name:
IMPDH 1bUniRule annotation
Gene namesi
Name:impdh1b
ORF Names:si:dkey-31f5.7
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 4

Organism-specific databases

ZFINiZDB-GENE-030219-206. impdh1b.

Subcellular locationi

  • Cytoplasm UniRule annotation
  • Nucleus UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004156771 – 514Inosine-5'-monophosphate dehydrogenase 1bAdd BLAST514

Proteomic databases

PaxDbiQ5RGV1.
PRIDEiQ5RGV1.

Expressioni

Gene expression databases

BgeeiENSDARG00000029524.
ExpressionAtlasiQ5RGV1. differential.

Interactioni

Subunit structurei

Homotetramer.UniRule annotation

Protein-protein interaction databases

STRINGi7955.ENSDARP00000066972.

Structurei

3D structure databases

ProteinModelPortaliQ5RGV1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini114 – 174CBS 1UniRule annotationAdd BLAST61
Domaini179 – 237CBS 2UniRule annotationAdd BLAST59

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni364 – 366IMP bindingUniRule annotation3
Regioni387 – 388IMP bindingUniRule annotation2
Regioni411 – 415IMP bindingUniRule annotation5

Sequence similaritiesi

Belongs to the IMPDH/GMPR family.UniRule annotation
Contains 2 CBS domains.UniRule annotation

Keywords - Domaini

CBS domain, Repeat

Phylogenomic databases

eggNOGiKOG2550. Eukaryota.
COG0516. LUCA.
COG0517. LUCA.
GeneTreeiENSGT00530000062923.
HOGENOMiHOG000165752.
HOVERGENiHBG052122.
InParanoidiQ5RGV1.
KOiK00088.

Family and domain databases

CDDicd00381. IMPDH. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01964. IMPDH. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR000644. CBS_dom.
IPR005990. IMP_DH.
IPR015875. IMP_DH/GMP_Rdtase_CS.
IPR001093. IMP_DH_GMPRt.
[Graphical view]
PfamiPF00571. CBS. 2 hits.
PF00478. IMPDH. 1 hit.
[Graphical view]
PIRSFiPIRSF000130. IMPDH. 1 hit.
SMARTiSM00116. CBS. 2 hits.
[Graphical view]
TIGRFAMsiTIGR01302. IMP_dehydrog. 1 hit.
PROSITEiPS51371. CBS. 2 hits.
PS00487. IMP_DH_GMP_RED. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5RGV1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADYLISGGT GYIPDDGLSA QQLFAVGDGL TYNDFLILPG FIDFTSDEVD
60 70 80 90 100
LTSALTKKIT LKTPLISSPM DTVTESSMAI AMALMGGIGI IHHNCTPEFQ
110 120 130 140 150
ANEVRKVKRF EQGFITDPVV LSPHHTVGDV LEAKVRHGFS GIPITETGKM
160 170 180 190 200
GSKLVGIVTS RDIDFLSEKD NNKYLEEAMT KREDLVVAPA GVTLKEANDI
210 220 230 240 250
LQRSKKGKLP IVNDKDELVA IIARTDLKKN RDYPLASKDS RKQLLCGAAI
260 270 280 290 300
GTREDDKYRL DLLTQSGVDM VVLDSSQGNS VYQINMIHYI KQKYPELQVV
310 320 330 340 350
GGNVVTAAQA KNLIDAGVDA LRVGMGCGSI CITQEVMACG RPQGTSVYKV
360 370 380 390 400
AEYARRFGVP VIADGGIQTV GHVVKALSLG ASTVMMGSLL AATTEAPGEY
410 420 430 440 450
FFSDGVRLKK YRGMGSLDAM EKNTSSQKRY FSEGDKVKVA QGVSGSVQDK
460 470 480 490 500
GSIHKFVPYL IAGIQHGCQD IGAKSLSVLR SMMYSGELKF EKRTMSAQVE
510
GGVHGLHSFE KRLY
Length:514
Mass (Da):55,641
Last modified:December 21, 2004 - v1
Checksum:iB2B97D97618C2466
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX649534 Genomic DNA. Translation: CAI21139.1.
BC091790 mRNA. Translation: AAH91790.1.
RefSeqiNP_001014391.1. NM_001014369.2.
UniGeneiDr.150513.
Dr.43252.

Genome annotation databases

EnsembliENSDART00000066975; ENSDARP00000066974; ENSDARG00000029524.
GeneIDi338306.
KEGGidre:338306.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX649534 Genomic DNA. Translation: CAI21139.1.
BC091790 mRNA. Translation: AAH91790.1.
RefSeqiNP_001014391.1. NM_001014369.2.
UniGeneiDr.150513.
Dr.43252.

3D structure databases

ProteinModelPortaliQ5RGV1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000066972.

Proteomic databases

PaxDbiQ5RGV1.
PRIDEiQ5RGV1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000066975; ENSDARP00000066974; ENSDARG00000029524.
GeneIDi338306.
KEGGidre:338306.

Organism-specific databases

CTDi338306.
ZFINiZDB-GENE-030219-206. impdh1b.

Phylogenomic databases

eggNOGiKOG2550. Eukaryota.
COG0516. LUCA.
COG0517. LUCA.
GeneTreeiENSGT00530000062923.
HOGENOMiHOG000165752.
HOVERGENiHBG052122.
InParanoidiQ5RGV1.
KOiK00088.

Enzyme and pathway databases

UniPathwayiUPA00601; UER00295.
ReactomeiR-DRE-6798695. Neutrophil degranulation.
R-DRE-73817. Purine ribonucleoside monophosphate biosynthesis.

Miscellaneous databases

PROiQ5RGV1.

Gene expression databases

BgeeiENSDARG00000029524.
ExpressionAtlasiQ5RGV1. differential.

Family and domain databases

CDDicd00381. IMPDH. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01964. IMPDH. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR000644. CBS_dom.
IPR005990. IMP_DH.
IPR015875. IMP_DH/GMP_Rdtase_CS.
IPR001093. IMP_DH_GMPRt.
[Graphical view]
PfamiPF00571. CBS. 2 hits.
PF00478. IMPDH. 1 hit.
[Graphical view]
PIRSFiPIRSF000130. IMPDH. 1 hit.
SMARTiSM00116. CBS. 2 hits.
[Graphical view]
TIGRFAMsiTIGR01302. IMP_dehydrog. 1 hit.
PROSITEiPS51371. CBS. 2 hits.
PS00487. IMP_DH_GMP_RED. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiIMDH3_DANRE
AccessioniPrimary (citable) accession number: Q5RGV1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 22, 2012
Last sequence update: December 21, 2004
Last modified: November 30, 2016
This is version 93 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.