7S3F | pdb_00007s3f

Structure of cofactor pyridoxal 5-phosphate bound human ornithine decarboxylase in complex with its inhibitor 1-amino-oxy-3-aminopropane

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Alanine racemase C-terminal domain-like	8042328	3001044	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Alanine racemase C-terminal domain-like	8042328	3001044	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PLP-binding barrel	8043281	3000273	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Alanine racemase C-terminal domain-like	8042328	3001044	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Alanine racemase C-terminal domain-like	8042328	3001044	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PLP-binding barrel	8043281	3000273	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	G-gamma	e7s3fB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: G-gamma	ECOD (v294.1)
A	G-gamma	e7s3fA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: G-gamma	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02784	Pyridoxal-dependent decarboxylase, pyridoxal binding domain (Orn_Arg_deC_N)	Pyridoxal-dependent decarboxylase, pyridoxal binding domain	These pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates This domain has a TIM barrel fold.	Domain
A, B	PF00278	Pyridoxal-dependent decarboxylase, C-terminal sheet domain (Orn_DAP_Arg_deC)	Pyridoxal-dependent decarboxylase, C-terminal sheet domain	These pyridoxal-dependent decarboxylases act on ornithine, lysine, arginine and related substrates.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Ornithine decarboxylase	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity ornithine decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process amine metabolic process metabolic process polyamine metabolic process biogenic amine metabolic process oxoacid metabolic process regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process amine metabolic process metabolic process polyamine metabolic process biogenic amine metabolic process oxoacid metabolic process amino acid metabolic process organic acid metabolic process alpha-amino acid metabolic process arginine metabolic process biogenic amine biosynthetic process putrescine metabolic process small molecule metabolic process putrescine biosynthetic process from arginine, via ornithine carboxylic acid metabolic process primary metabolic process L-amino acid metabolic process putrescine biosynthetic process proteinogenic amino acid metabolic process biosynthetic process amine biosynthetic process polyamine biosynthetic process putrescine biosynthetic process from arginine catabolic process regulation of protein metabolic process regulation of macromolecule metabolic process protein catabolic process regulation of catabolic process macromolecule catabolic process regulation of primary metabolic process protein metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein catabolic process biological process involved in interspecies interaction between organisms response to stimulus response to other organism response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus developmental process multicellular organism development multicellular organismal process anatomical structure development animal organ development kidney development renal system development system development	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002433	Ornithine decarboxylase	Family
A, B	IPR029066	PLP-binding barrel	Homologous Superfamily
A, B	IPR022644	Orn/DAP/Arg decarboxylase 2, N-terminal	Domain
A, B	IPR022653	Orn/DAP/Arg decarboxylase 2, pyridoxal-phosphate binding site	Binding Site
A, B	IPR022643	Orn/DAP/Arg decarboxylase 2, C-terminal	Domain
A, B	IPR009006	Alanine racemase/group IV decarboxylase, C-terminal	Homologous Superfamily
A, B	IPR000183	Ornithine/DAP/Arg decarboxylase	Family
A, B	IPR022657	Orn/DAP/Arg decarboxylase 2, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P11926	papilloma malignant colon neoplasm colorectal cancer HIV infectious disease skin cancer squamous papilloma skin neoplasm lung cancer malignant glioma oligodendroglioma plasma cell myeloma astrocytic tumor sinusitis benign colon neoplasm spina bifida papilloma malignant colon neoplasm colorectal cancer HIV infectious disease skin cancer squamous papilloma skin neoplasm lung cancer malignant glioma oligodendroglioma plasma cell myeloma astrocytic tumor sinusitis benign colon neoplasm spina bifida colorectal carcinoma dermatomyositis Female Facial Hirsutism invasive ductal breast carcinoma medulloblastoma ovarian cancer papillomatosis primitive neuroectodermal tumor atypical teratoid rhabdoid tumor colonic neoplasm diabetes mellitus glioblastoma human African trypanosomiasis large cell medulloblastoma malignant ependymoma myopathy pancreatic ductal adenocarcinoma pituitary cancer psoriasis Barrett esophagus ulcerative colitis cutaneous lupus erythematosus esophageal adenocarcinoma hypotrichosis

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.