4IQH | pdb_00004iqh

Crystal Structure Analysis of Dysferlin C2A variant 1 (C2Av1)

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)
C	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086457	3000965	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086457	3000965	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086457	3000965	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)
C		e4iqhC1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: OMPdecase	F:	ECOD (20:10:01)
B		e4iqhB1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: OMPdecase	F:	ECOD (20:10:01)
A		e4iqhA1	A: dsRBD-like	X: Peptidyl-tRNA hydrolase domain-like	H: Peptidyl-tRNA hydrolase domain-like	T: DUF1968	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)
B	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)
A	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00168	C2 domain (C2)	C2 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Dysferlin	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding phospholipid binding lipid binding calcium-dependent phospholipid binding	regulation of localization cellular localization regulation of cellular process transport modulation of chemical synaptic transmission signaling cell communication localization synaptic signaling regulation of secretion by cell secretion by cell signal release establishment of localization in cell trans-synaptic signaling regulation of localization cellular localization regulation of cellular process transport modulation of chemical synaptic transmission signaling cell communication localization synaptic signaling regulation of secretion by cell secretion by cell signal release establishment of localization in cell trans-synaptic signaling regulation of biological process regulation of signaling neurotransmitter secretion regulation of transport secretion regulation of neurotransmitter transport biological regulation export from cell cell-cell signaling neurotransmitter transport establishment of localization regulation of secretion chemical synaptic transmission signal release from synapse regulation of trans-synaptic signaling regulation of neurotransmitter secretion anterograde trans-synaptic signaling regulation of cell communication cellular process multicellular organismal process response to stimulus macrophage activation involved in immune response immune response cell activation cell activation involved in immune response myeloid cell activation involved in immune response myeloid leukocyte activation leukocyte activation immune effector process macrophage activation immune system process leukocyte activation involved in immune response import into cell regulation of cellular component organization negative regulation of biological process negative regulation of transport negative regulation of endocytosis vesicle-mediated transport cellular component organization negative regulation of phagocytosis negative regulation of cellular process phagocytosis cellular component organization or biogenesis regulation of endocytosis negative regulation of cellular component organization regulation of phagocytosis regulation of vesicle-mediated transport endocytosis monocyte activation monocyte activation involved in immune response	cell periphery cellular anatomical structure sarcolemma plasma membrane membrane T-tubule extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle cell periphery cellular anatomical structure sarcolemma plasma membrane membrane T-tubule extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular membraneless organelle intracellular organelle centrosome microtubule organizing center cytoskeleton centriolar satellite membraneless organelle microtubule cytoskeleton intracellular vesicle intracellular membrane-bounded organelle cytoplasmic vesicle cytoplasm endocytic vesicle endosome membrane endosome late endosome membrane endomembrane system cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane late endosome organelle membrane cell projection sperm midpiece cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection early endosome synapse transport vesicle membrane presynapse synaptic vesicle synaptic vesicle membrane cell junction transport vesicle exocytic vesicle membrane secretory vesicle exocytic vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR037723	Ferlin, fourth C2 domain	Domain
A, B, C	IPR012560	Ferlin A-domain	Domain
A, B, C	IPR006614	Peroxin/Ferlin domain	Domain
A, B, C	IPR037721	Ferlin family	Family
A, B, C	IPR037724	Ferlin, fifth C2 domain	Domain
A, B, C	IPR037722	Ferlin, third C2 domain	Domain
A, B, C	IPR012968	FerIin domain	Domain
A, B, C	IPR000008	C2 domain	Domain
A, B, C	IPR055072	Ferlin, dsRNA-binding domain-like domain	Domain
A, B, C	IPR012561	Ferlin B-domain	Domain
A, B, C	IPR037725	Ferlin, sixth C2 domain	Domain
A, B, C	IPR032362	Ferlin, C-terminal domain	Domain
A, B, C	IPR035892	C2 domain superfamily	Homologous Superfamily
A, B, C	IPR037726	Ferlin, first C2 domain	Domain
A, B, C	IPR037720	Ferlin, second C2 domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: O75923	limb-girdle muscular dystrophy distal myopathy with anterior tibial onset autosomal recessive limb-girdle muscular dystrophy type 2B Miyoshi muscular dystrophy 1 Miyoshi myopathy Liver Cirrhosis, Experimental myopathy juvenile idiopathic arthritis muscular dystrophy osteosarcoma tuberculosis arthrogryposis congenital muscular dystrophy diabetes mellitus interstitial cystitis limb-girdle muscular dystrophy distal myopathy with anterior tibial onset autosomal recessive limb-girdle muscular dystrophy type 2B Miyoshi muscular dystrophy 1 Miyoshi myopathy Liver Cirrhosis, Experimental myopathy juvenile idiopathic arthritis muscular dystrophy osteosarcoma tuberculosis arthrogryposis congenital muscular dystrophy diabetes mellitus interstitial cystitis MALT lymphoma muscle tissue disease rhabdomyolysis distal myopathy lung carcinoma muscular disease rheumatoid arthritis breast cancer

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.