9OZJ | pdb_00009ozj

Structure of human Sec23a/Sec24a/Sec22b bound to ligand CPD1

External Resource: Annotation

Domain Annotation: SCOP2 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)
C [auth D]	SCOP2B Superfamily	SNARE-like	8061915	3001113	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth D]	PF13774	Regulated-SNARE-like domain (Longin)	Regulated-SNARE-like domain	Longin is one of the approximately 26 components required for transporting proteins from the ER to the plasma membrane, via the Golgi apparatus. It is necessary for the steps of the transfer from the ER to the Golgi complex [1]. Longins are the only ...	Longin is one of the approximately 26 components required for transporting proteins from the ER to the plasma membrane, via the Golgi apparatus. It is necessary for the steps of the transfer from the ER to the Golgi complex [1]. Longins are the only R-SNAREs that are common to all eukaryotes, and they are characterised by a conserved N-terminal domain with a profilin-like fold called a longin domain [2].	Domain
B [auth C]	PF04815	Sec23/Sec24 helical domain (Sec23_helical)	Sec23/Sec24 helical domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is composed of five alpha helices.	Domain
B [auth C]	PF00626	Gelsolin repeat (Gelsolin)	Gelsolin repeat		Domain
B [auth C]	PF08033	Sec23/Sec24 beta-sandwich domain (Sec23_BS)	Sec23/Sec24 beta-sandwich domain		Domain
B [auth C]	PF04811	Sec23/Sec24 trunk domain (Sec23_trunk)	Sec23/Sec24 trunk domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface.	Domain
B [auth C]	PF04810	Sec23/Sec24 zinc finger (zf-Sec23_Sec24)	Sec23/Sec24 zinc finger	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is found to be zinc binding domain.	Domain
A [auth B]	PF04815	Sec23/Sec24 helical domain (Sec23_helical)	Sec23/Sec24 helical domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is composed of five alpha helices.	Domain
A [auth B]	PF00626	Gelsolin repeat (Gelsolin)	Gelsolin repeat		Domain
A [auth B]	PF08033	Sec23/Sec24 beta-sandwich domain (Sec23_BS)	Sec23/Sec24 beta-sandwich domain		Domain
A [auth B]	PF04811	Sec23/Sec24 trunk domain (Sec23_trunk)	Sec23/Sec24 trunk domain	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface.	Domain
A [auth B]	PF04810	Sec23/Sec24 zinc finger (zf-Sec23_Sec24)	Sec23/Sec24 zinc finger	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and ...	COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is found to be zinc binding domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth D]	Vesicle-trafficking protein SEC22b	fusogenic activity SNAP receptor activity protein-macromolecule adaptor activity molecular adaptor activity	cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress cellular process response to starvation cellular response to starvation catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress cellular process response to starvation cellular response to starvation catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism localization transport retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum establishment of localization Golgi vesicle transport vesicle-mediated transport establishment of protein localization protein transport macromolecule localization intracellular protein localization regulation of cellular component organization regulation of cellular process negative regulation of biological process negative regulation of organelle assembly autophagosome organization regulation of autophagy cellular component biogenesis cellular component organization cellular component assembly negative regulation of cellular process cellular component organization or biogenesis negative regulation of autophagosome assembly negative regulation of catabolic process regulation of biological process autophagosome assembly organelle assembly vacuole organization negative regulation of cellular component organization negative regulation of metabolic process biological regulation regulation of autophagosome assembly regulation of vacuole organization regulation of catabolic process regulation of cellular component biogenesis regulation of organelle organization negative regulation of macroautophagy organelle organization regulation of macroautophagy negative regulation of organelle organization negative regulation of autophagy regulation of organelle assembly regulation of metabolic process membrane organization membrane fusion organelle membrane fusion vesicle organization organelle fusion vesicle fusion positive regulation of protein metabolic process positive regulation of biological process macromolecule catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process protein catabolic process positive regulation of protein catabolic process positive regulation of catabolic process macromolecule metabolic process regulation of protein catabolic process cellular localization intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport intercellular transport establishment of localization in cell	vacuolar membrane membrane-bounded organelle autophagosome membrane intracellular anatomical structure membrane vacuole intracellular membrane-bounded organelle autophagosome intracellular organelle bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane vacuolar membrane membrane-bounded organelle autophagosome membrane intracellular anatomical structure membrane vacuole intracellular membrane-bounded organelle autophagosome intracellular organelle bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane intracellular vesicle phagocytic vesicle phagocytic vesicle membrane cytoplasmic vesicle membrane cytoplasmic vesicle vesicle membrane endocytic vesicle membrane vesicle endocytic vesicle lytic vacuole lytic vacuole membrane lysosomal membrane lysosome pigment granule melanosome Golgi membrane Golgi apparatus endomembrane system endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment transport vesicle transport vesicle membrane coated vesicle membrane COPII-coated ER to Golgi transport vesicle ER to Golgi transport vesicle membrane coated vesicle organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane
B [auth C]	Protein transport protein Sec24A	protein binding binding SNARE binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport regulation of localization regulation of cellular process cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport regulation of localization regulation of cellular process positive regulation of biological process positive regulation of ER to Golgi vesicle-mediated transport vesicle-mediated transport intercellular transport positive regulation of intracellular transport positive regulation of cellular process regulation of intracellular transport regulation of biological process regulation of ER to Golgi vesicle-mediated transport regulation of transport biological regulation endoplasmic reticulum to Golgi vesicle-mediated transport regulation of vesicle-mediated transport positive regulation of transport regulation of cellular localization Golgi vesicle transport membrane organization vesicle budding from membrane vesicle cargo loading cellular component organization vesicle organization organelle organization COPII-coated vesicle cargo loading cellular component organization or biogenesis COPII-coated vesicle budding	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum exit site endoplasmic reticulum cytoplasm intracellular membrane-bounded organelle endomembrane system cytosol transport vesicle membrane intracellular vesicle membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum exit site endoplasmic reticulum cytoplasm intracellular membrane-bounded organelle endomembrane system cytosol transport vesicle membrane intracellular vesicle transport vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle coated vesicle membrane COPII-coated ER to Golgi transport vesicle vesicle membrane cytoplasmic vesicle ER to Golgi transport vesicle membrane coated vesicle vesicle organelle membrane protein-containing complex vesicle coat membrane protein complex membrane coat coated membrane COPII vesicle coat organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane
A [auth B]	Protein transport protein Sec23A	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	localization protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization cellular process intracellular protein localization localization within membrane protein localization to membrane establishment of protein localization transport intracellular transport establishment of localization protein transport localization protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization cellular process intracellular protein localization localization within membrane protein localization to membrane establishment of protein localization transport intracellular transport establishment of localization protein transport establishment of localization in cell intracellular protein transport membrane organization vesicle budding from membrane endoplasmic reticulum to Golgi vesicle-mediated transport vesicle cargo loading vesicle-mediated transport cellular component organization vesicle organization intercellular transport organelle organization COPII-coated vesicle cargo loading cellular component organization or biogenesis COPII-coated vesicle budding Golgi vesicle transport	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex vesicle coat intracellular vesicle transport vesicle membrane membrane protein complex endomembrane system intracellular organelle membrane coat bounding membrane of organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex vesicle coat intracellular vesicle transport vesicle membrane membrane protein complex endomembrane system intracellular organelle membrane coat bounding membrane of organelle vesicle membrane cytoplasmic vesicle ER to Golgi transport vesicle membrane coated vesicle vesicle transport vesicle membrane intracellular membrane-bounded organelle coated membrane COPII vesicle coat cytoplasmic vesicle membrane coated vesicle membrane COPII-coated ER to Golgi transport vesicle organelle organelle membrane organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane endoplasmic reticulum exit site Golgi membrane Golgi apparatus perinuclear region of cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth D]	IPR044565	Vesicle-trafficking protein Sec22	Family
C [auth D]	IPR011012	Longin-like domain superfamily	Homologous Superfamily
C [auth D]	IPR010908	Longin domain	Domain
C [auth D]	IPR001388	Synaptobrevin-like	Family
C [auth D]	IPR042855	v-SNARE, coiled-coil homology domain	Domain
B [auth C]	IPR007123	Gelsolin-like domain	Domain
B [auth C]	IPR029006	ADF-H/Gelsolin-like domain superfamily	Homologous Superfamily
B [auth C]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B [auth C]	IPR012990	Sec23/Sec24, beta-sandwich	Domain
B [auth C]	IPR006896	Sec23/Sec24, trunk domain	Domain
B [auth C]	IPR050550	SEC23/SEC24 family, SEC24 subfamily	Family
B [auth C]	IPR036180	Gelsolin-like domain superfamily	Homologous Superfamily
B [auth C]	IPR036175	Sec23/Sec24 helical domain superfamily	Homologous Superfamily
B [auth C]	IPR006900	Sec23/Sec24, helical domain	Domain
B [auth C]	IPR041742	Sec24-like, trunk domain	Domain
B [auth C]	IPR006895	Zinc finger, Sec23/Sec24-type	Domain
A [auth B]	IPR029006	ADF-H/Gelsolin-like domain superfamily	Homologous Superfamily
A [auth B]	IPR012990	Sec23/Sec24, beta-sandwich	Domain
A [auth B]	IPR006896	Sec23/Sec24, trunk domain	Domain
A [auth B]	IPR036180	Gelsolin-like domain superfamily	Homologous Superfamily
A [auth B]	IPR006900	Sec23/Sec24, helical domain	Domain
A [auth B]	IPR006895	Zinc finger, Sec23/Sec24-type	Domain
A [auth B]	IPR007123	Gelsolin-like domain	Domain
A [auth B]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A [auth B]	IPR037550	Sec23, C-terminal	Domain
A [auth B]	IPR037364	Protein transport protein Sec23	Family
A [auth B]	IPR036175	Sec23/Sec24 helical domain superfamily	Homologous Superfamily
A [auth B]	IPR036174	Zinc finger, Sec23/Sec24-type superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth D]	: O75396	Crohn disease gastric cancer malignant mesothelioma ovarian cancer primitive neuroectodermal tumor tuberculosis cystic fibrosis gastric carcinoma malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous carcinoma psoriasis exocrine pancreatic carcinoma large cell medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Crohn disease gastric cancer malignant mesothelioma ovarian cancer primitive neuroectodermal tumor tuberculosis cystic fibrosis gastric carcinoma malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous carcinoma psoriasis exocrine pancreatic carcinoma large cell medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia spina bifida
B [auth C]	: O95486	spina bifida attention deficit hyperactivity disorder, inattentive type exocrine pancreatic carcinoma invasive ductal breast carcinoma malignant glioma myopathy pancreatic intraductal papillary-mucinous neoplasm pituitary cancer tuberculosis atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia spina bifida attention deficit hyperactivity disorder, inattentive type exocrine pancreatic carcinoma invasive ductal breast carcinoma malignant glioma myopathy pancreatic intraductal papillary-mucinous neoplasm pituitary cancer tuberculosis atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor ulcerative colitis Crohn disease interstitial cystitis malignant ependymoma medulloblastoma osteosarcoma pilocytic astrocytoma
A [auth B]	: Q15436	craniolenticulosutural dysplasia amyotrophic lateral sclerosis cataract hereditary spastic paraplegia malignant mesothelioma osteoarthritis osteosarcoma rheumatoid arthritis atypical teratoid rhabdoid tumor IgA glomerulonephritis malignant pancreatic neoplasm osteoarthritis susceptibility 1 ovarian cancer breast cancer gastric carcinoma craniolenticulosutural dysplasia amyotrophic lateral sclerosis cataract hereditary spastic paraplegia malignant mesothelioma osteoarthritis osteosarcoma rheumatoid arthritis atypical teratoid rhabdoid tumor IgA glomerulonephritis malignant pancreatic neoplasm osteoarthritis susceptibility 1 ovarian cancer breast cancer gastric carcinoma lung adenocarcinoma medulloblastoma Osteoarthrosis Deformans pancreatic ductal adenocarcinoma

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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.