5B4B | pdb_00005b4b

Crystal structure of LpxH with lipid X in spacegroup C2

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PemK_toxin	e5b4bB1	A: alpha bundles	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PemK_toxin	ECOD (develop294)
A	PemK_toxin	e5b4bA1	A: alpha bundles	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PemK_toxin	ECOD (develop294)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	UDP-2,3-diacylglucosamine hydrolase	cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding pyrophosphatase activity UDP-2,3-diacylglucosamine hydrolase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity lipid binding cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding pyrophosphatase activity UDP-2,3-diacylglucosamine hydrolase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity lipid binding glycolipid binding carbohydrate derivative binding	carbohydrate derivative biosynthetic process lipooligosaccharide metabolic process glycolipid metabolic process lipid A biosynthetic process liposaccharide metabolic process carbohydrate derivative metabolic process lipid biosynthetic process primary metabolic process glycolipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process lipid A metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process carbohydrate derivative biosynthetic process lipooligosaccharide metabolic process glycolipid metabolic process lipid A biosynthetic process liposaccharide metabolic process carbohydrate derivative metabolic process lipid biosynthetic process primary metabolic process glycolipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process lipid A metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process lipooligosaccharide biosynthetic process metabolic process cellular process phosphorus metabolic process lipid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cell periphery extrinsic component of plasma membrane membrane plasma membrane extrinsic component of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR043461	UDP-2,3-diacylglucosamine hydrolase LpxH-like	Family
A, B	IPR010138	UDP-2,3-diacylglucosamine hydrolase	Family
A, B	IPR004843	Calcineurin-like, phosphoesterase domain	Domain
A, B	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B	mpstruc	MONOTOPIC MEMBRANE PROTEINS	Hydrolases	LpxH pyrophosphohydrase with bound lipid X & Mn²⁺

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.