Home Research COVID-19 Services Publications People Teaching Job Opening News Forum Lab Only
Online Services

●I-TASSER ●I-TASSER-MTD ●C-I-TASSER ●CR-I-TASSER ●QUARK ●C-QUARK ●LOMETS ●MUSTER ●CEthreader ●SEGMER ●DeepFold ●DeepFoldRNA ●FoldDesign ●COFACTOR ●COACH ●MetaGO ●TripletGO ●IonCom ●FG-MD ●ModRefiner ●REMO ●DEMO ●DEMO-EM ●SPRING ●COTH ●Threpp ●PEPPI ●BSpred ●ANGLOR ●EDock ●BSP-SLIM ●SAXSTER ●FUpred ●ThreaDom ●ThreaDomEx ●EvoDesign ●BindProf ●BindProfX ●SSIPe ●GPCR-I-TASSER ●MAGELLAN ●ResQ ●STRUM ●DAMpred

●TM-score ●TM-align ●US-align ●MM-align ●RNA-align ●NW-align ●LS-align ●EDTSurf ●MVP ●MVP-Fit ●SPICKER ●HAAD ●PSSpred ●3DRobot ●MR-REX ●I-TASSER-MR ●SVMSEQ ●NeBcon ●ResPRE ●TripletRes ●DeepPotential ●WDL-RF ●ATPbind ●DockRMSD ●DeepMSA ●FASPR ●EM-Refiner ●GPU-I-TASSER

●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

BioLiP

Structure of PDB 4rkz Chain A Binding Site BS02

Receptor Information
>4rkz Chain A (length=313) Species: 273075 (Thermoplasma acidophilum DSM 1728) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TYRSIGSTAYPTIGVVLLGGIANPVTRTPLHTSAGIAYSDSCGSIRSETR
IYADEATHIYFNGTESTSVRRVLDRYSSVFEEAFGTKTVSYSSQNFGILS
GSSDAGAASIGAAILGLKPDLDPHDVENDLRAVSESAGRSLFGGLTITWS
DGFHAYTEKILDPEAFSGYSIVAFAFDYQRNPSDVIHQNIVRSDLYPARK
KHADEHAHMIKEYAKTNDIKGIFDLAQEDTEEYHSILRGVGVNVIRENMQ
KLISYLKLIRKDYWNAYIVTGGSNVYVAVESENADRLFSIENTFGSKKKM
LRIVGGAWHRRPE
Ligand information
Ligand ID3S4
InChIInChI=1S/C6H13O7P/c1-6(2-3-7,4-5(8)9)13-14(10,11)12/h7H,2-4H2,1H3,(H,8,9)(H2,10,11,12)/t6-/m1/s1
InChIKeyVWCNCYQNEAUWMQ-ZCFIWIBFSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01O=P(OC(CCO)(C)CC(=O)O)(O)O
OpenEye OEToolkits 1.7.6C[C@@](CCO)(CC(=O)O)OP(=O)(O)O
CACTVS 3.385C[C](CCO)(CC(O)=O)O[P](O)(O)=O
OpenEye OEToolkits 1.7.6CC(CCO)(CC(=O)O)OP(=O)(O)O
CACTVS 3.385C[C@@](CCO)(CC(O)=O)O[P](O)(O)=O
FormulaC6 H13 O7 P
Name(3R)-5-hydroxy-3-methyl-3-(phosphonooxy)pentanoic acid
ChEMBL
DrugBank
ZINCZINC000114243420
PDB chain4rkz Chain A Residue 402 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4rkz Structural analysis of mevalonate-3-kinase provides insight into the mechanisms of isoprenoid pathway decarboxylases.
Resolution2.3 Å
Binding residue
(original residue number in PDB)		G15 L19 S105 E140 R144 H192 T275
Binding residue
(residue number reindexed from 1)		G14 L18 S100 E135 R139 H187 T270
Annotation score5
Enzymatic activity
Enzyme Commision number 2.7.1.185: mevalonate 3-kinase.
Gene Ontology
Molecular Function
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016773 phosphotransferase activity, alcohol group as acceptor
Biological Process
GO:0008299 isoprenoid biosynthetic process
GO:0016310 phosphorylation
GO:0019287 isopentenyl diphosphate biosynthetic process, mevalonate pathway

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:4rkz, PDBe:4rkz, PDBj:4rkz
PDBsum4rkz
PubMed25422158
UniProtQ9HIN1|MV3K_THEAC Mevalonate 3-kinase (Gene Name=Ta1305)

[Back to BioLiP]

zhanglabzhanggroup.org | +65-6601-1241 | Computing 1, 13 Computing Drive, Singapore 117417