5XBF | pdb_00005xbf

Crystal Structure of Myo7b C-terminal MyTH4-FERM in complex with USH1C PDZ3

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	SCOP2 Family	PDZ domain	8084841	4001790	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	PDZ domain-like	8084842	3000388	SCOP2 (2022-06-29)
A	SCOP2 Family	MyTH4 domain-like	8088655	4006026	SCOP2 (2022-06-29)
A	SCOP2 Family	FERM domain-like	8091823	4000747	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	MyTH4 domain-like	8091822	3002546	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	FERM central domain-like	8091825	3001227	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ubiquitin-like	8091824	3000157	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PH domain-like	8091826	3000134	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)
B	PDZ	e5xbfB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PDZ	ECOD (v294.1)
A	PrpF	e5xbfA1	A: a/b three-layered sandwiches	X: Beta domain of coronavirus spike glycoprotein	H: Diaminopimelate epimerase-like	T: Diaminopimelate epimerase-like	F: PrpF	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
A	1.20.80.10	Mainly Alpha	Up-down Bundle	Acyl-CoA Binding Protein		CATH (utative)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF00595	PDZ domain (PDZ)	PDZ domain	PDZ domains are found in diverse signaling proteins.	Domain
A	PF02174	PTB domain (IRS-1 type) (IRS)	PTB domain (IRS-1 type)		Domain
A	PF00373	FERM central domain (FERM_M)	FERM central domain	This domain is the central structural domain of the FERM domain.	Domain
A	PF00784	MyTH4 domain (MyTH4)	MyTH4 domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	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 localization macromolecule localization protein localization to microvillus intracellular protein localization 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
A	Unconventional myosin-VIIb	cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding polypeptide conformation or assembly isomerase activity isomerase activity cytoskeletal motor activity microfilament motor activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity	developmental process cellular developmental process cell differentiation cellular process localization import into cell transport endocytosis establishment of localization vesicle-mediated transport cellular component biogenesis cellular component organization cellular component assembly brush border assembly developmental process cellular developmental process cell differentiation cellular process localization import into cell transport endocytosis establishment of localization vesicle-mediated transport cellular component biogenesis cellular component organization cellular component assembly brush border assembly cellular component organization or biogenesis sensory organ development animal organ development anatomical structure development multicellular organismal process system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus organelle organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization cytoskeleton organization actin filament-based movement	cellular anatomical structure membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton apical part of cell cluster of actin-based cell projections brush border cytoplasm protein-containing complex cellular anatomical structure membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton apical part of cell cluster of actin-based cell projections brush border cytoplasm protein-containing complex myosin complex cell projection actin-based cell projection microvillus plasma membrane bounded cell projection apical cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR051844	Sensory Perception USH2 Complex Protein	Family
B	IPR030237	Harmonin, N-terminal	Domain
B	IPR036034	PDZ superfamily	Homologous Superfamily
B	IPR001478	PDZ domain	Domain
A	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
A	IPR041794	Myosin VII, FERM domain C-lobe, repeat 2	Domain
A	IPR000299	FERM domain	Domain
A	IPR001609	Myosin head, motor domain-like	Domain
A	IPR014352	FERM/acyl-CoA-binding protein superfamily	Homologous Superfamily
A	IPR019748	FERM central domain	Domain
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR051567	Unconventional Myosin ATPase	Family
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR000048	IQ motif, EF-hand binding site	Binding Site
A	IPR038185	MyTH4 domain superfamily	Homologous Superfamily
A	IPR057130	Myosin VII, N-terminal domain	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR019749	Band 4.1 domain	Domain
A	IPR035963	FERM superfamily, second domain	Homologous Superfamily
A	IPR000857	MyTH4 domain	Domain
A	IPR001452	SH3 domain	Domain
A	IPR041793	Myosin VII, FERM domain C-lobe, repeat 1	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR036106	Class VII myosin, motor domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	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