Structure of PDB 4dpt Chain B

Receptor sequence
>4dptB (length=322) Species: 1282 (Staphylococcus epidermidis) [Search protein sequence]
VKSGKARAHTNIALIKYWGKADETYIIPMNNSLSVTLDRFYTETKVTFDP
DFTEDCLILNGNEVNAKEKEKIQNYMNIVRDLAGNRLHARIESENYVPTA
AGLASSASAYAALAAACNEALSLNLSDTDLSRLARRGSGSASRSIFGGFA
EWEKGHDDLTSYAHGINSNGWEKDLSMIFVVINNVSSRSGMSLTRDTSRF
YQYWLDHVDEDLNEAKEAVKNQDFQRLGEVIEANGLRMHATNLGAQPPFT
YLVQESYDAMAIVEQCRKANLPCYFTMDAGPNVKVLVEKKNKQAVMEQFL
KVFDESKIIASDIISSGVEIIK
3D structure
PDB4dpt Structural basis for nucleotide binding and reaction catalysis in mevalonate diphosphate decarboxylase.
ChainB
Resolution2.191 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Enzyme Commision number 4.1.1.33: diphosphomevalonate decarboxylase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 FM0 B A14 Y18 K21 S139 G140 S141 R144 R193 M196 D283 A13 Y17 K20 S138 G139 S140 R143 R188 M191 D278 PDBbind-CN: -logKd/Ki=7.30,Ki=50nM
BS02 AGS B L60 E69 S94 N96 A101 A105 S106 S107 A108 A110 S192 L59 E68 S93 N95 A100 A104 S105 S106 A107 A109 S187
Gene Ontology
Molecular Function
GO:0004163 diphosphomevalonate decarboxylase activity
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016829 lyase activity
GO:0016831 carboxy-lyase activity
Biological Process
GO:0006629 lipid metabolic process
GO:0008299 isoprenoid biosynthetic process
GO:0016310 phosphorylation
GO:0019287 isopentenyl diphosphate biosynthetic process, mevalonate pathway
Cellular Component
GO:0005829 cytosol

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4dpt, PDBe:4dpt, PDBj:4dpt
PDBsum4dpt
PubMed22734632
UniProtQ9FD73

[Back to BioLiP]