3WQL | pdb_00003wql

Crystal structure of Rv3378c with Mg2+ and PPi

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Structure Motif: Primary M-CSA Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Prenyltransf_like	e3wqlA1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf_like	ECOD (1.6)
B	Prenyltransf_like	e3wqlB1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf_like	ECOD (1.6)
D	Prenyltransf_like	e3wqlD1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf_like	ECOD (1.6)
C	Prenyltransf_like	e3wqlC1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf_like	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.1180.10	Alpha Beta	3-Layer(aba) Sandwich	Undecaprenyl pyrophosphate synthetase	Decaprenyl diphosphate synthase-like	CATH (4.3.0)
B	3.40.1180.10	Alpha Beta	3-Layer(aba) Sandwich	Undecaprenyl pyrophosphate synthetase	Decaprenyl diphosphate synthase-like	CATH (4.3.0)
D	3.40.1180.10	Alpha Beta	3-Layer(aba) Sandwich	Undecaprenyl pyrophosphate synthetase	Decaprenyl diphosphate synthase-like	CATH (4.3.0)
C	3.40.1180.10	Alpha Beta	3-Layer(aba) Sandwich	Undecaprenyl pyrophosphate synthetase	Decaprenyl diphosphate synthase-like	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Diterpene synthase	carbon-oxygen lyase activity, acting on phosphates (13S)-vitexifolin A synthase activity lyase activity catalytic activity carbon-oxygen lyase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity	diterpenoid metabolic process isoprenoid biosynthetic process lipid biosynthetic process primary metabolic process terpenoid biosynthetic process diterpenoid biosynthetic process biosynthetic process metabolic process cellular process terpenoid metabolic process isoprenoid metabolic process lipid metabolic process tuberculosinol biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036424	Decaprenyl diphosphate synthase-like superfamily	Homologous Superfamily

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
B	isotuberculosinol synthase M-CSA #954	This enzyme is responsible for the conversion of tuberculosinyl diphosphate to tuberculosinol and the R and S iso-tuberculosinols. Tuberculosinols are one class of virulence factor in Mycobacterium tuberculosis. The active site for both of these functions is the same, but the R- and S-iso-tuberculosinol formation involves the addition of water at the C13 atom, rather than the C15, and involve an allylic rearrangement.	Defined by 4 residues: ASP:B-34ARG:B-38TYR:B-51TYR:B-90 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.1.7.9 (PDB Primary Data) Search M-CSA Motif + EC 3.1.7.9 EC: 3.1.7.8 (PDB Primary Data) Search M-CSA Motif + EC 3.1.7.8 EC: 2.5.1.153 (UniProt) Search M-CSA Motif + EC 2.5.1.153
B	tuberculosinol synthase M-CSA #955	This enzyme is responsible for the conversion of tuberculosinyl diphosphate to tuberculosinol and the R and S iso-tuberculosinols. Tuberculosinols are one class of virulence factor in Mycobacterium tuberculosis. The active site for both of these functions is the same, but the R- and S-iso-tuberculosinol formation involves the addition of water at the C13 atom, rather than the C15, and involve an allylic rearrangement.	Defined by 2 residues: ASP:B-34TYR:B-51 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.1.7.9 (PDB Primary Data) Search M-CSA Motif + EC 3.1.7.9 EC: 3.1.7.8 (PDB Primary Data) Search M-CSA Motif + EC 3.1.7.8 EC: 2.5.1.153 (UniProt) Search M-CSA Motif + EC 2.5.1.153

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.