2MDK | pdb_00002mdk

NMR Solution Structure of MSP-P56S Domain/VAPB in DPC

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	PapD-like	8079381	3002067	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	His_biosynth	e2mdkA1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: His_biosynth	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00635	MSP (Major sperm protein) domain (Motile_Sperm)	MSP (Major sperm protein) domain	Major sperm proteins are involved in sperm motility. These proteins oligomerise to form filaments. This family contains many other proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Vesicle-associated membrane protein-associated protein B/C	protein heterodimerization activity protein binding binding protein dimerization activity FFAT motif binding protein domain specific binding cytoskeletal protein binding microtubule binding tubulin binding protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity identical protein binding protein homodimerization activity protein heterodimerization activity protein binding binding protein dimerization activity FFAT motif binding protein domain specific binding cytoskeletal protein binding microtubule binding tubulin binding protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity identical protein binding protein homodimerization activity cell adhesion molecule binding cadherin binding beta-tubulin binding enzyme binding	membrane organization cellular component organization organelle organization endoplasmic reticulum membrane organization cellular process cellular component organization or biogenesis endoplasmic reticulum organization endomembrane system organization vesicle budding from membrane cellular localization transport intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization membrane organization cellular component organization organelle organization endoplasmic reticulum membrane organization cellular process cellular component organization or biogenesis endoplasmic reticulum organization endomembrane system organization vesicle budding from membrane cellular localization transport intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization vesicle-mediated transport vesicle organization localization intercellular transport establishment of localization in cell COPII-coated vesicle budding Golgi vesicle transport macromolecule localization lipid localization cholesterol transport lipid transport sterol transport organic hydroxy compound transport cellular response to stimulus regulation of biological process cellular response to topologically incorrect protein regulation of cellular process response to stimulus signaling biological regulation endoplasmic reticulum unfolded protein response cellular response to unfolded protein response to unfolded protein intracellular signal transduction cell communication cellular response to stress response to stress response to topologically incorrect protein IRE1-mediated unfolded protein response signal transduction response to endoplasmic reticulum stress host-mediated suppression of viral genome replication biological process involved in interspecies interaction between organisms viral genome replication viral process viral life cycle host-mediated perturbation of viral process modulation of process of another organism host-mediated perturbation of symbiont process regulation of viral process negative regulation of viral process regulation by virus of viral protein levels in host cell negative regulation of biological process regulation of biological quality negative regulation by virus of viral protein levels in host cell defense response response to other organism response to external stimulus response to biotic stimulus defense response to virus suppression of viral release by host response to external biotic stimulus response to virus inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis host-mediated activation of viral genome replication host-mediated perturbation of viral genome replication host-mediated activation of viral process endoplasmic reticulum-plasma membrane tethering membrane docking endoplasmic reticulum localization organelle localization by membrane tethering organelle localization positive regulation of viral genome replication positive regulation of viral process positive regulation of biological process regulation of viral life cycle regulation of viral genome replication exit from host cell viral release from host cell biological process involved in interaction with host biological process involved in symbiotic interaction RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process host-mediated perturbation of viral RNA genome replication macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process viral RNA genome replication metabolic process macromolecule metabolic process	cell periphery cellular anatomical structure plasma membrane membrane presynapse synapse cell junction intracellular anatomical structure cytoplasm glutamatergic synapse membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system cell periphery cellular anatomical structure plasma membrane membrane presynapse synapse cell junction intracellular anatomical structure cytoplasm glutamatergic synapse membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane Golgi apparatus postsynapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR008962	PapD-like superfamily	Homologous Superfamily
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR000535	Major sperm protein (MSP) domain	Domain
A	IPR016763	Vesicle-associated membrane-protein-associated protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O95292	amyotrophic lateral sclerosis amyotrophic lateral sclerosis type 8 adult-onset proximal spinal muscular atrophy, autosomal dominant Spinal Muscular Atrophy, Proximal, Adult, Autosomal Dominant cystic fibrosis glioblastoma malignant glioma psoriasis astrocytic tumor gastric cancer invasive ductal breast carcinoma neurodegenerative disease spinal muscular atrophy atypical teratoid rhabdoid tumor gastric carcinoma amyotrophic lateral sclerosis amyotrophic lateral sclerosis type 8 adult-onset proximal spinal muscular atrophy, autosomal dominant Spinal Muscular Atrophy, Proximal, Adult, Autosomal Dominant cystic fibrosis glioblastoma malignant glioma psoriasis astrocytic tumor gastric cancer invasive ductal breast carcinoma neurodegenerative disease spinal muscular atrophy atypical teratoid rhabdoid tumor gastric carcinoma large cell medulloblastoma ovarian 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.