Annotations: 3MZK

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Protein transport protein SEC16/SEC31	8048128	4005973	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Coat and nuclear envelope proteins	8054127	3002276	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Coat and nuclear envelope proteins	8054127	3002276	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	ANAPC4_WD40_9	e3mzkA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_9	ECOD (1.6)
D	ANAPC4_WD40_9	e3mzkD1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_9	ECOD (1.6)
B	Sec16_C	e3mzkB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain (From Topology)	T: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain	F: Sec16_C	ECOD (1.6)
C	Sec16_C	e3mzkC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain (From Topology)	T: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain	F: Sec16_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
D	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
B	6.20.50.30	Special	Other non-globular	N-terminal domain of TfIIb		CATH (4.3.0)
B	1.20.58.940	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
C	6.20.50.30	Special	Other non-globular	N-terminal domain of TfIIb		CATH (4.3.0)
C	1.20.58.940	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
B, C	PF12932	Vesicle coat trafficking protein Sec16 mid-region (Sec16)	Vesicle coat trafficking protein Sec16 mid-region	Sec16 is a multi-domain vesicle coat protein. This central region is the functional part of the molecules and thus is vital for the family's role in mediating the movement of protein-cargo between the organelles of the secretory pathway [1].	Domain
B, C	PF12931	Sec16 Sec23-binding domain (TPR_Sec16)	Sec16 Sec23-binding domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	Protein transport protein SEC13	structural molecule activity	nuclear pore localization cellular localization localization within membrane protein-containing complex localization cellular component organization localization nucleus organization organelle organization macromolecule localization cellular process cellular component organization or biogenesis regulation of localization regulation of cellular process transport nuclear pore localization cellular localization localization within membrane protein-containing complex localization cellular component organization localization nucleus organization organelle organization macromolecule localization cellular process cellular component organization or biogenesis regulation of localization regulation of cellular process transport positive regulation of biological process positive regulation of ER to Golgi vesicle-mediated transport vesicle-mediated transport establishment of localization in cell 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 intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport regulation of vesicle-mediated transport establishment of localization positive regulation of transport regulation of cellular localization Golgi vesicle transport protein exit from endoplasmic reticulum establishment of protein localization nitrogen compound transport protein transport intracellular protein localization intracellular protein transport membrane organization vesicle budding from membrane vesicle organization COPII-coated vesicle budding RNA transport nucleic acid transport mRNA transport establishment of RNA localization RNA localization nucleobase-containing compound transport cellular response to stimulus catabolic process response to stimulus proteolysis involved in protein catabolic process response to nitrogen compound proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical response to stress proteolysis metabolic process protein metabolic process macromolecule metabolic process response to endoplasmic reticulum stress positive regulation of cell communication positive regulation of signal transduction signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of TOR signaling signal transduction TOR signaling regulation of signaling regulation of TOR signaling positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling nucleocytoplasmic transport nuclear transport regulation of TORC1 signaling TORC1 signaling protein localization to nucleus import into nucleus establishment of protein localization to organelle protein localization to organelle protein import into nucleus regulation of protein exit from endoplasmic reticulum regulation of protein localization positive regulation of establishment of protein localization positive regulation of protein transport regulation of establishment of protein localization regulation of protein transport positive regulation of protein exit from endoplasmic reticulum positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport positive regulation of TORC1 signaling positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of nucleobase-containing compound metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex nuclear pore outer ring intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope nuclear pore membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex nuclear pore outer ring intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope nuclear pore cell periphery vesicle coat intracellular vesicle transport vesicle membrane membrane protein complex membrane coat bounding membrane of organelle vesicle membrane cytoplasmic vesicle ER to Golgi transport vesicle membrane coated vesicle vesicle transport vesicle membrane coated membrane COPII vesicle coat cytoplasmic vesicle membrane coated vesicle membrane COPII-coated ER to Golgi transport vesicle cytoplasm organelle membrane organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane Seh1-associated complex vacuolar membrane vacuole
B, C	Protein transport protein SEC16	protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity	establishment of organelle localization vesicle budding from membrane cellular localization transport vesicle targeting, to, from or within Golgi vesicle-mediated transport vesicle targeting cellular component organization vesicle organization cellular component biogenesis localization cellular component assembly organelle localization establishment of localization in cell protein-containing complex assembly establishment of organelle localization vesicle budding from membrane cellular localization transport vesicle targeting, to, from or within Golgi vesicle-mediated transport vesicle targeting cellular component organization vesicle organization cellular component biogenesis localization cellular component assembly organelle localization establishment of localization in cell protein-containing complex assembly vesicle coating cellular component organization or biogenesis vesicle targeting, rough ER to cis-Golgi membrane organization vesicle localization protein-containing complex organization establishment of vesicle localization intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization organelle organization cellular process COPII-coated vesicle budding COPII vesicle coating Golgi vesicle transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism protein localization to organelle macromolecule localization protein localization to endoplasmic reticulum exit site intracellular protein localization protein localization to endoplasmic reticulum Golgi organization endomembrane system organization establishment of protein localization nitrogen compound transport protein transport	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 transport vesicle membrane intracellular vesicle transport vesicle membrane 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 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 organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A, D	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, D	IPR037363	Sec13/Seh1 family	Family
A, D	IPR001680	WD40 repeat	Repeat
B, C	IPR024468	Sec16, N-terminal	Domain
B, C	IPR024340	Sec16, central conserved domain	Domain
B, C	IPR024298	Sec16, Sec23-binding domain	Domain

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.