3K8P | pdb_00003k8p

Structural basis for vesicle tethering by the Dsl1 complex

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth C]	SCOP2 Family	Dsl1-like	8047197	4005500	SCOP2 (2022-06-29)
A [auth C]	SCOP2 Superfamily	Cullin repeat-like	8052691	3000059	SCOP2 (2022-06-29)
B [auth D]	SCOP2 Family	Sec39-like	8050725	4007022	SCOP2 (2022-06-29)
B [auth D]	SCOP2 Superfamily	Sec39 repeat-like	8052705	3002137	SCOP2 (2022-06-29)
B [auth D]	SCOP2 Superfamily	Sec39 repeat-like	8052703	3002137	SCOP2 (2022-06-29)
B [auth D]	SCOP2 Superfamily	Sec39 repeat-like	8052704	3002137	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)
A [auth C]	Dsl1_C	e3k8pC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Dsl1_C	ECOD (1.6)
B [auth D]	Sec39	e3k8pD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Protein transport protein SEC39 (From Topology)	T: Protein transport protein SEC39	F: Sec39	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth C]	1.20.58.1440	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
A [auth C]	1.10.357.150	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C]	PF11989	Retrograde transport protein Dsl1 C terminal (Dsl1_C)	Retrograde transport protein Dsl1 C terminal	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C]	Dsl1	-	cellular response to stimulus regulation of cellular process regulation of cell cycle phase transition response to stimulus negative regulation of biological process spindle checkpoint signaling negative regulation of cell cycle regulation of mitotic nuclear division intracellular signal transduction negative regulation of mitotic cell cycle cell communication negative regulation of mitotic sister chromatid segregation negative regulation of chromosome organization negative regulation of cell cycle phase transition cellular response to stimulus regulation of cellular process regulation of cell cycle phase transition response to stimulus negative regulation of biological process spindle checkpoint signaling negative regulation of cell cycle regulation of mitotic nuclear division intracellular signal transduction negative regulation of mitotic cell cycle cell communication negative regulation of mitotic sister chromatid segregation negative regulation of chromosome organization negative regulation of cell cycle phase transition mitotic spindle checkpoint signaling signal transduction cell cycle mitotic sister chromatid separation chromosome segregation negative regulation of sister chromatid segregation mitotic spindle assembly checkpoint signaling regulation of biological process negative regulation of cellular component organization regulation of cell cycle process sister chromatid segregation regulation of chromosome organization regulation of organelle organization regulation of mitotic cell cycle phase transition regulation of mitotic sister chromatid segregation mitotic cell cycle process regulation of chromosome separation negative regulation of mitotic nuclear division regulation of chromosome segregation regulation of cellular component organization regulation of mitotic sister chromatid separation regulation of metaphase/anaphase transition of cell cycle signaling spindle assembly checkpoint signaling cell cycle phase transition regulation of mitotic metaphase/anaphase transition mitotic cell cycle cellular component organization regulation of mitotic cell cycle negative regulation of cellular process mitotic sister chromatid segregation negative regulation of mitotic metaphase/anaphase transition cellular component organization or biogenesis regulation of cell cycle negative regulation of chromosome separation cell cycle process mitotic nuclear division negative regulation of mitotic cell cycle phase transition organelle fission biological regulation chromosome organization negative regulation of cell cycle process cell cycle checkpoint signaling mitotic cell cycle checkpoint signaling organelle organization nuclear division negative regulation of chromosome segregation negative regulation of nuclear division negative regulation of organelle organization chromosome separation regulation of sister chromatid segregation negative regulation of mitotic sister chromatid separation regulation of nuclear division negative regulation of metaphase/anaphase transition of cell cycle nuclear chromosome segregation metaphase/anaphase transition of mitotic cell cycle cellular process metaphase/anaphase transition of cell cycle mitotic cell cycle phase transition localization cellular localization transport establishment of localization in cell intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization Golgi vesicle transport vesicle-mediated transport	protein-containing complex intracellular anatomical structure RZZ complex intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex protein-containing complex intracellular anatomical structure RZZ complex intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome cytoplasm
B [auth D]	Protein transport protein SEC39	-	localization transport cellular process establishment of localization vesicle-mediated transport retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Golgi vesicle transport cellular component organization peroxisome organization organelle organization cellular component organization or biogenesis ER-dependent peroxisome organization protein localization establishment of protein localization localization transport cellular process establishment of localization vesicle-mediated transport retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Golgi vesicle transport cellular component organization peroxisome organization organelle organization cellular component organization or biogenesis ER-dependent peroxisome organization protein localization establishment of protein localization cellular localization nitrogen compound transport protein transport cellular macromolecule localization macromolecule localization	membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system protein-containing complex vesicle tethering complex Dsl1/NZR complex endoplasmic reticulum membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system protein-containing complex vesicle tethering complex Dsl1/NZR complex endoplasmic reticulum cytoplasm endoplasmic reticulum protein-containing complex organelle subcompartment membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C]	IPR021876	Retrograde transport protein Dsl1, C-terminal domain	Domain
A [auth C]	IPR021875	Retrograde transport protein Dsl1 N-terminal domain	Domain
A [auth C]	IPR038442	Dsl1, N-terminal domain superfamily	Homologous Superfamily
A [auth C]	IPR046362	Zw10/DSL1, C-terminal	Homologous Superfamily
B [auth D]	IPR013244	Sec39 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.