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Protein

Inosine-5'-monophosphate dehydrogenase 4

Gene

IMD4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein 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 annotation2 Publications

Miscellaneous

Present with 2970 molecules/cell in log phase SD medium.1 Publication

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 2 (IMD2), Inosine-5'-monophosphate dehydrogenase 3 (IMD3), Inosine-5'-monophosphate dehydrogenase 4 (IMD4), Putative inosine-5'-monophosphate dehydrogenase 1 (IMD1)
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 bindingi331Potassium; via carbonyl oxygenUniRule annotation1
Metal bindingi333Potassium; via carbonyl oxygenUniRule annotation1
Binding sitei334IMPUniRule annotation1
Active sitei336Thioimidate intermediateUniRule annotation1
Metal bindingi336Potassium; via carbonyl oxygenUniRule annotation1
Active sitei438Proton acceptorUniRule annotation1
Binding sitei450IMPUniRule annotation1
Metal bindingi509Potassium; via carbonyl oxygen; shared with tetrameric partnerUniRule annotation1
Metal bindingi510Potassium; via carbonyl oxygen; shared with tetrameric partnerUniRule annotation1
Metal bindingi511Potassium; via carbonyl oxygen; shared with tetrameric partnerUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi279 – 281NADUniRule annotation3
Nucleotide bindingi329 – 331NADUniRule annotation3

GO - Molecular functioni

  • IMP dehydrogenase activity Source: SGD
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processGMP biosynthesis, Purine biosynthesis
LigandMetal-binding, NAD, Potassium

Enzyme and pathway databases

BioCyciYEAST:YML056C-MONOMER.
UniPathwayiUPA00601; UER00295.

Names & Taxonomyi

Protein namesi
Recommended name:
Inosine-5'-monophosphate dehydrogenase 4UniRule annotation (EC:1.1.1.205UniRule annotation)
Short name:
IMP dehydrogenase 4UniRule annotation
Short name:
IMPD 4UniRule annotation
Short name:
IMPDH 4UniRule annotation
Gene namesi
Name:IMD4UniRule annotation
Ordered Locus Names:YML056C
ORF Names:YM9958.06C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIII

Organism-specific databases

EuPathDBiFungiDB:YML056C.
SGDiS000004520. IMD4.

Subcellular locationi

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000936841 – 524Inosine-5'-monophosphate dehydrogenase 4Add BLAST524

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei125PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP50094.
PRIDEiP50094.

PTM databases

iPTMnetiP50094.

Interactioni

Subunit structurei

Homotetramer. Seems to be able to form heterotetramers composed from more than 1 of the 3 IMPDH gene products (IMD2-4).UniRule annotation1 Publication

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi35111. 106 interactors.
DIPiDIP-6458N.
IntActiP50094. 89 interactors.
MINTiMINT-675699.
STRINGi4932.YML056C.

Structurei

3D structure databases

ProteinModelPortaliP50094.
SMRiP50094.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini122 – 183CBS 1UniRule annotationAdd BLAST62
Domaini185 – 241CBS 2UniRule annotationAdd BLAST57

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni369 – 371IMP bindingUniRule annotation3
Regioni392 – 393IMP bindingUniRule annotation2
Regioni416 – 420IMP bindingUniRule annotation5

Sequence similaritiesi

Belongs to the IMPDH/GMPR family.UniRule annotation

Keywords - Domaini

CBS domain, Repeat

Phylogenomic databases

GeneTreeiENSGT00530000062923.
HOGENOMiHOG000165752.
KOiK00088.
OMAiGIGIVHK.
OrthoDBiEOG092C1U8P.

Family and domain databases

CDDicd00381. IMPDH. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01964. IMPDH. 1 hit.
InterProiView protein in InterPro
IPR013785. Aldolase_TIM.
IPR000644. CBS_dom.
IPR005990. IMP_DH.
IPR015875. IMP_DH/GMP_Rdtase_CS.
IPR001093. IMP_DH_GMPRt.
PfamiView protein in Pfam
PF00571. CBS. 2 hits.
PF00478. IMPDH. 1 hit.
PIRSFiPIRSF000130. IMPDH. 1 hit.
SMARTiView protein in SMART
SM00116. CBS. 2 hits.
TIGRFAMsiTIGR01302. IMP_dehydrog. 1 hit.
PROSITEiView protein in PROSITE
PS51371. CBS. 2 hits.
PS00487. IMP_DH_GMP_RED. 1 hit.

Sequencei

Sequence statusi: Complete.

P50094-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAAPLDYKK ALEHLKTYSS KDGLSVQELM DSTTRGGLTY NDFLVLPGLV
60 70 80 90 100
NFPSSAVSLQ TKLTKKITLN TPFVSSPMDT VTEADMAIYM ALLGGIGFIH
110 120 130 140 150
HNCTPKEQAS MVKKVKMFEN GFINSPIVIS PTTTVGEVKV MKRKFGFSGF
160 170 180 190 200
PVTEDGKCPG KLVGLVTSRD IQFLEDDSLV VSEVMTKNPV TGIKGITLKE
210 220 230 240 250
GNEILKQTKK GKLLIVDDNG NLVSMLSRAD LMKNQNYPLA SKSATTKQLL
260 270 280 290 300
CGAAIGTIEA DKERLRLLVE AGLDVVILDS SQGNSVFQLN MIKWIKETFP
310 320 330 340 350
DLEIIAGNVA TREQAANLIA AGADGLRIGM GSGSICITQE VMACGRPQGT
360 370 380 390 400
AVYNVCQFAN QFGVPCMADG GVQNIGHITK ALALGSSTVM MGGMLAGTTE
410 420 430 440 450
SPGEYFYKDG KRLKAYRGMG SIDAMQKTGN KGNASTSRYF SESDSVLVAQ
460 470 480 490 500
GVSGAVVDKG SIKKFIPYLY NGLQHSCQDI GCESLTSLKE NVQNGEVRFE
510 520
FRTASAQLEG GVHNLHSYEK RLYN
Length:524
Mass (Da):56,394
Last modified:October 1, 1996 - v1
Checksum:iA73D1E4EFE8AEAD9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z46729 Genomic DNA. Translation: CAA86719.1.
AY899250 mRNA. Translation: AAX83935.1.
BK006946 Genomic DNA. Translation: DAA09842.1.
PIRiS50890.
RefSeqiNP_013656.1. NM_001182414.1.

Genome annotation databases

EnsemblFungiiYML056C; YML056C; YML056C.
GeneIDi854948.
KEGGisce:YML056C.

Similar proteinsi

Entry informationi

Entry nameiIMDH4_YEAST
AccessioniPrimary (citable) accession number: P50094
Secondary accession number(s): D6VZB8, Q2VQW8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: September 27, 2017
This is version 164 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal 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
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XIII
    Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names