Annotations: 2KBR

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	PAH2 domain-like	8091808	3000467	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	harmonin_N	e2kbrA1	A: alpha bundles	X: PAH2 domain (From Topology)	H: PAH2 domain (From Topology)	T: PAH2 domain	F: harmonin_N	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)

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

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	18-meric peptide from Cadherin-23	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding cell adhesion molecule binding cadherin binding protein binding beta-catenin binding	cell adhesion cell-cell adhesion cellular process cell-cell adhesion via plasma-membrane adhesion molecules developmental process ear development sensory organ development inner ear development cochlea development animal organ development anatomical structure development multicellular organismal process inner ear receptor cell development cell projection organization cell adhesion cell-cell adhesion cellular process cell-cell adhesion via plasma-membrane adhesion molecules developmental process ear development sensory organ development inner ear development cochlea development animal organ development anatomical structure development multicellular organismal process inner ear receptor cell development cell projection organization epidermis development auditory receptor cell stereocilium organization neuron projection development epithelial cell differentiation hair cell differentiation multicellular organism development neuron differentiation cell differentiation animal organ morphogenesis system development embryonic organ morphogenesis mechanoreceptor differentiation epithelium development epidermal cell differentiation embryonic morphogenesis nervous system development tissue development inner ear receptor cell differentiation generation of neurons auditory receptor cell development cellular developmental process cell development embryo development cell morphogenesis cellular component organization neurogenesis cellular component organization or biogenesis auditory receptor cell morphogenesis embryonic organ development ear morphogenesis plasma membrane bounded cell projection organization inner ear auditory receptor cell differentiation cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis sensory organ morphogenesis neuron development inner ear morphogenesis inner ear receptor cell stereocilium organization behavior locomotory behavior sensory perception of light stimulus system process sensory perception nervous system process inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis regulation of cytosolic calcium ion concentration cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis cell migration cell motility multicellular organismal-level homeostasis anatomical structure homeostasis tissue homeostasis retina homeostasis photoreceptor cell maintenance neuromuscular process equilibrioception neuromuscular process controlling balance sensory perception of sound sensory perception of mechanical stimulus visual perception homophilic cell adhesion via plasma membrane adhesion molecules localization transport monoatomic ion transport monoatomic cation transport establishment of localization calcium ion transport metal ion transport calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	cellular anatomical structure membrane photoreceptor inner segment cell projection stereocilium actin-based cell projection organelle stereocilium tip stereocilium bundle neuron projection cluster of actin-based cell projections plasma membrane bounded cell projection intracellular organelle centrosome cellular anatomical structure membrane photoreceptor inner segment cell projection stereocilium actin-based cell projection organelle stereocilium tip stereocilium bundle neuron projection cluster of actin-based cell projections plasma membrane bounded cell projection intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cell periphery protein-containing complex extrinsic component of plasma membrane catenin complex plasma membrane protein complex plasma membrane membrane protein complex extrinsic component of membrane membrane-bounded organelle 9+2 non-motile cilium non-motile cilium cilium kinocilium photoreceptor ribbon synapse synapse cell junction ribbon synapse cochlear hair cell ribbon synapse

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	IPR015919	Cadherin-like superfamily	Homologous Superfamily
B	IPR039808	Cadherin	Family
B	IPR020894	Cadherin conserved site	Conserved Site
B	IPR002126	Cadherin-like	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: Q9H251	Usher syndrome autosomal recessive nonsyndromic deafness 12 nonsyndromic genetic deafness Usher syndrome, type 1D pituitary adenoma 5, multiple types Usher syndrome type 1D X-linked mixed deafness with perilymphatic gusher bagassosis pneumoconiosis retinitis pigmentosa attention deficit hyperactivity disorder, inattentive type cone-rod dystrophy intellectual disability malignant glioma prolactin-producing pituitary gland adenoma Usher syndrome autosomal recessive nonsyndromic deafness 12 nonsyndromic genetic deafness Usher syndrome, type 1D pituitary adenoma 5, multiple types Usher syndrome type 1D X-linked mixed deafness with perilymphatic gusher bagassosis pneumoconiosis retinitis pigmentosa attention deficit hyperactivity disorder, inattentive type cone-rod dystrophy intellectual disability malignant glioma prolactin-producing pituitary gland adenoma TSH-secreting pituitary adenoma Usher syndrome type 1B vitiligo Cushing disease due to pituitary adenoma lung carcinoma medulloblastoma retinal degeneration Cushing syndrome malignant ependymoma

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.