Annotations: 3K1R

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	HHD-like	8091807	4004660	SCOP2 (2022-06-29)
A	SCOP2 Family	PDZ domain	8091809	4001790	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PAH2 domain-like	8091808	3000467	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PDZ domain-like	8091810	3000388	SCOP2 (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	PDZ	e3k1rA1	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ	ECOD (1.6)
A	harmonin_N	e3k1rA2	A: alpha bundles	X: PAH2 domain (From Topology)	H: PAH2 domain (From Topology)	T: PAH2 domain	F: harmonin_N	ECOD (1.6)
B	SAM_1_1	e3k1rB1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: SAM_1_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1160.20	Mainly Alpha	Up-down Bundle	Paired amphipathic helix 2 (pah2 repeat)		CATH (4.3.0)
A	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
B	1.10.150.50	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF21219	Harmonin, N-terminal domain (USH1C_N)	Harmonin, N-terminal domain	This domain is found at the N-terminal end of Harmonin from humans (USH1C) and similar proteins from vertebrates. Harmonin is a master scaffold in the assembly of the Usher protein complexes present in the inner ear and the retina. Defects in these p ...	This domain is found at the N-terminal end of Harmonin from humans (USH1C) and similar proteins from vertebrates. Harmonin is a master scaffold in the assembly of the Usher protein complexes present in the inner ear and the retina. Defects in these proteins are related to a hereditary hearing-vision loss disease, Usher syndrome I (USH1). The N-terminal domain of USH1C, which precedes the first PDZ protein- binding domain (Pfam:PF00595), adopts a compact five-helix-bundle structure [1,3].	Domain
A	PF00595	PDZ domain (PDZ)	PDZ domain	PDZ domains are found in diverse signaling proteins.	Domain
B	PF00536	SAM domain (Sterile alpha motif) (SAM_1)	SAM domain (Sterile alpha motif)	It has been suggested that SAM is an evolutionarily conserved protein binding domain that is involved in the regulation of numerous developmental processes in diverse eukaryotes. The SAM domain can potentially function as a protein interaction module ...	It has been suggested that SAM is an evolutionarily conserved protein binding domain that is involved in the regulation of numerous developmental processes in diverse eukaryotes. The SAM domain can potentially function as a protein interaction module through its ability to homo- and heterooligomerise with other SAM domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Harmonin	cytoskeletal protein binding spectrin binding protein-containing complex binding protein binding binding	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis multicellular organismal process inner ear receptor cell development cellular developmental process sensory organ development epidermis development cell development embryo development cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis multicellular organismal process inner ear receptor cell development cellular developmental process sensory organ development epidermis development cell development embryo development cell morphogenesis epithelial cell differentiation hair cell differentiation multicellular organism development neurogenesis neuron differentiation inner ear development cell differentiation anatomical structure development animal organ morphogenesis auditory receptor cell morphogenesis embryonic organ development system development developmental process ear morphogenesis embryonic organ morphogenesis mechanoreceptor differentiation epithelium development epidermal cell differentiation ear development embryonic morphogenesis animal organ development nervous system development inner ear auditory receptor cell differentiation tissue development cell morphogenesis involved in neuron differentiation inner ear receptor cell differentiation generation of neurons anatomical structure morphogenesis sensory organ morphogenesis inner ear morphogenesis neuron development auditory receptor cell development sensory perception of light stimulus system process sensory perception nervous system process actin cytoskeleton organization actin filament organization organelle organization parallel actin filament bundle assembly actin filament bundle organization actin filament bundle assembly actin filament-based process supramolecular fiber organization cytoskeleton organization brush border assembly protein localization localization cellular localization cellular macromolecule localization macromolecule localization protein localization to microvillus multicellular organismal-level homeostasis homeostatic process anatomical structure homeostasis tissue homeostasis retina homeostasis photoreceptor cell maintenance neuromuscular process equilibrioception neuromuscular process controlling balance cell projection organization neuron projection development plasma membrane bounded cell projection organization inner ear receptor cell stereocilium organization sensory perception of sound sensory perception of mechanical stimulus cell cycle G2/M phase transition mitotic cell cycle process G2/M transition of mitotic cell cycle cell cycle phase transition cell cycle mitotic cell cycle cell cycle process mitotic cell cycle phase transition photoreceptor cell differentiation visual system development retina development in camera-type eye neural retina development eye morphogenesis retinal cone cell differentiation eye photoreceptor cell differentiation sensory system development photoreceptor cell development camera-type eye morphogenesis eye development eye photoreceptor cell development retinal cone cell development camera-type eye photoreceptor cell differentiation retina morphogenesis in camera-type eye camera-type eye development regulation of biological process regulation of cellular component organization regulation of cellular process regulation of cellular component size regulation of cell projection organization biological regulation regulation of cell projection size regulation of microvillus length microvillus organization regulation of microvillus organization regulation of biological quality regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection apical part of cell photoreceptor inner segment protein-containing complex stereocilia ankle link stereocilia ankle link complex stereocilium bundle stereocilia coupling link cluster of actin-based cell projections membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection apical part of cell photoreceptor inner segment protein-containing complex stereocilia ankle link stereocilia ankle link complex stereocilium bundle stereocilia coupling link cluster of actin-based cell projections stereocilium actin-based cell projection stereocilium tip neuron projection intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane brush border non-motile cilium 9+0 non-motile cilium photoreceptor outer segment photoreceptor cell cilium intracellular organelle cytoskeleton membraneless organelle intracellular membraneless organelle synapse cell junction microvillus
B	Usher syndrome type-1G protein	cytoskeletal protein binding spectrin binding protein-containing complex binding protein binding binding identical protein binding	developmental process ear morphogenesis embryonic organ morphogenesis multicellular organismal process ear development sensory organ development animal organ development embryonic morphogenesis embryo development multicellular organism development anatomical structure morphogenesis sensory organ morphogenesis inner ear development inner ear morphogenesis anatomical structure development developmental process ear morphogenesis embryonic organ morphogenesis multicellular organismal process ear development sensory organ development animal organ development embryonic morphogenesis embryo development multicellular organism development anatomical structure morphogenesis sensory organ morphogenesis inner ear development inner ear morphogenesis anatomical structure development animal organ morphogenesis embryonic organ development sensory perception of light stimulus system process sensory perception nervous system process import into cell regulation of localization regulation of biological process regulation of cellular process regulation of cellular component organization transport regulation of transport regulation of receptor-mediated endocytosis biological regulation regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport cellular component organization localization clathrin-dependent endocytosis cellular process cellular component organization or biogenesis receptor-mediated endocytosis endocytosis regulation of clathrin-dependent endocytosis regulation of endocytosis multicellular organismal-level homeostasis homeostatic process anatomical structure homeostasis tissue homeostasis retina homeostasis photoreceptor cell maintenance neuromuscular process equilibrioception neuromuscular process controlling balance inner ear receptor cell development cellular developmental process cell projection organization cell development neuron projection development neurogenesis neuron differentiation cell differentiation system development mechanoreceptor differentiation plasma membrane bounded cell projection organization nervous system development inner ear receptor cell differentiation generation of neurons neuron development inner ear receptor cell stereocilium organization sensory perception of sound sensory perception of mechanical stimulus	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen photoreceptor inner segment non-motile cilium cell projection photoreceptor cell cilium 9+0 non-motile cilium cilium neuron projection plasma membrane bounded cell projection ciliary transition zone photoreceptor connecting cilium cytoskeleton membraneless organelle intracellular membraneless organelle actin cytoskeleton centrosome microtubule organizing center microtubule cytoskeleton cytoplasm cytosol cell periphery plasma membrane membrane Cajal body ciliary base ciliary basal body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR051844	Sensory Perception USH2 Complex Protein	Family
A	IPR030237	Harmonin, N-terminal	Domain
A	IPR036034	PDZ superfamily	Homologous Superfamily
A	IPR001478	PDZ domain	Domain
B	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
B	IPR002110	Ankyrin repeat	Repeat
B	IPR013761	Sterile alpha motif/pointed domain superfamily	Homologous Superfamily
B	IPR001660	Sterile alpha motif domain	Domain
B	IPR037602	USH1G, SAM domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9Y6N9	nonsyndromic genetic deafness autosomal recessive nonsyndromic deafness 18A Usher syndrome type 1C Usher syndrome Usher syndrome, type 1C retinitis pigmentosa Usher syndrome type 1B lung cancer nephrosclerosis pancreatic intraductal papillary-mucinous carcinoma pituitary cancer cone-rod dystrophy lung carcinoma pancreatic intraductal papillary-mucinous neoplasm psoriasis nonsyndromic genetic deafness autosomal recessive nonsyndromic deafness 18A Usher syndrome type 1C Usher syndrome Usher syndrome, type 1C retinitis pigmentosa Usher syndrome type 1B lung cancer nephrosclerosis pancreatic intraductal papillary-mucinous carcinoma pituitary cancer cone-rod dystrophy lung carcinoma pancreatic intraductal papillary-mucinous neoplasm psoriasis esophageal adenocarcinoma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia retinal degeneration
B	Pharos: Q495M9	Usher syndrome type 1G Usher syndrome retinitis pigmentosa cone-rod dystrophy osteosarcoma Usher Syndrome, Type I hearing loss disorder retinal degeneration Usher syndrome type 1B large cell medulloblastoma

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.