6BBO | pdb_00006bbo

Crystal structure of human APOBEC3H/RNA complex

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)
A	SCOP2B Superfamily	Cytidine deaminase-like	8087262	3001838	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Cytidine deaminase-like	8087262	3001838	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GFP-like	8081043	3000576	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	GFP-like	8081043	3000576	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)
A	7tm_1	e6bboA1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: 7tm_1	ECOD (v294.1)
E	p450	e6bboE1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: p450	ECOD (v294.1)
D	7tm_1	e6bboD1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: 7tm_1	ECOD (v294.1)
H	p450	e6bboH1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: p450	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, E	PF18771	APOBEC3H (APOBEC3H)	APOBEC3H	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, E	APOBEC3H	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines cytidine deaminase activity hydrolase activity catalytic activity deaminase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines cytidine deaminase activity hydrolase activity catalytic activity deaminase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding nucleic acid binding	DNA cytosine deamination primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA deamination DNA modification macromolecule modification metabolic process cellular process macromolecule metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular process DNA cytosine deamination primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA deamination DNA modification macromolecule modification metabolic process cellular process macromolecule metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular process negative regulation of macromolecule metabolic process retrotransposition regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation regulation of macromolecule metabolic process gene expression transposition macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process transposable element silencing regulation of macromolecule biosynthetic process regulation of metabolic process cytidine to uridine editing RNA metabolic process RNA modification base conversion or substitution editing biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus regulation of single stranded viral RNA replication via double stranded DNA intermediate viral life cycle negative regulation of single stranded viral RNA replication via double stranded DNA intermediate negative regulation of RNA biosynthetic process regulation of primary metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of viral process viral RNA genome replication viral process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of viral genome replication nucleobase-containing compound biosynthetic process single stranded viral RNA replication via double stranded DNA intermediate regulation of viral process regulation of viral life cycle viral genome replication regulation of viral genome replication negative regulation of RNA metabolic process host-mediated suppression of viral genome replication host-mediated perturbation of viral process modulation of process of another organism host-mediated perturbation of symbiont process defense response to virus response to virus clearance of foreign intracellular DNA clearance of foreign intracellular nucleic acids	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle organelle membraneless organelle supramolecular complex P-body membrane-bounded organelle nucleus cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle organelle membraneless organelle supramolecular complex P-body membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
D, H	MCherry fluorescent protein	-	bioluminescence metabolic process cellular process generation of precursor metabolites and energy	-
C, G	RNA (5'-R(UPUPUPUPUPUPUPU)-3')	-	-	-
B, F	RNA (5'-R(UPAPAPAPAPAPAPA)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, E	IPR041512	APOBEC3H	Family
A, E	IPR050610	APOBEC Cytidine Deaminase	Family
A, E	IPR016193	Cytidine deaminase-like	Homologous Superfamily
A, E	IPR002125	Cytidine and deoxycytidylate deaminase domain	Domain
A, E	IPR016192	APOBEC/CMP deaminase, zinc-binding	Binding Site
D, H	IPR000786	Green fluorescent protein, GFP	Family
D, H	IPR011584	Green fluorescent protein-related	Family
D, H	IPR009017	Green fluorescent protein	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, E	Pharos: Q6NTF7	plasma cell myeloma

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.