3L9K | pdb_00003l9k

Insights into dynein assembly from a dynein intermediate chain-light chain roadblock structure

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d3l9kd_	Alpha and beta proteins (a+b)	Profilin-like	Roadblock/LC7 domain	Roadblock/LC7 domain	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
C	d3l9kc_	Alpha and beta proteins (a+b)	Profilin-like	Roadblock/LC7 domain	Roadblock/LC7 domain	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
B	d3l9kb_	Alpha and beta proteins (a+b)	Profilin-like	Roadblock/LC7 domain	Roadblock/LC7 domain	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
A	d3l9ka_	Alpha and beta proteins (a+b)	Profilin-like	Roadblock/LC7 domain	Roadblock/LC7 domain	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Roadblock/LC7 domain-like	8082657	3001810	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Roadblock/LC7 domain-like	8082657	3001810	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Roadblock/LC7 domain-like	8082657	3001810	SCOP2B (2022-06-29)
A	SCOP2 Family	Roadblock/LC7 domain-like	8082656	4001551	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Roadblock/LC7 domain-like	8082657	3001810	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)
D	Robl_LC7	e3l9kD1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Robl_LC7	ECOD (1.6)
C	Robl_LC7	e3l9kC1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Robl_LC7	ECOD (1.6)
B	Robl_LC7	e3l9kB1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Robl_LC7	ECOD (1.6)
A	Robl_LC7	e3l9kA1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Robl_LC7	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.450.30	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	Dynein light chain 2a, cytoplasmic	CATH (4.3.0)
C	3.30.450.30	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	Dynein light chain 2a, cytoplasmic	CATH (4.3.0)
B	3.30.450.30	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	Dynein light chain 2a, cytoplasmic	CATH (4.3.0)
A	3.30.450.30	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	Dynein light chain 2a, cytoplasmic	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF03259	Roadblock/LC7 domain (Robl_LC7)	Roadblock/LC7 domain	This family includes proteins that are about 100 amino acids long and have been shown to be related [3]. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is pro ...	This family includes proteins that are about 100 amino acids long and have been shown to be related [3]. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions [2]. This family also includes Swiss:Q9Y2Q5 Golgi-associated MP1 adapter protein and MglB from Myxococcus xanthus Swiss:Q50883, a protein involved in gliding motility [4]. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth W], F [auth X], G [auth Y], H [auth Z]	Dynein intermediate chain, cytosolic	protein binding binding dynein heavy chain binding dynein light chain binding molecular adaptor activity cytoskeletal protein binding dynactin binding	localization centrosome localization microtubule organizing center localization cellular process protein localization to kinetochore protein localization to chromosome protein localization to chromosome, centromeric region protein localization to condensed chromosome protein localization to organelle macromolecule localization intracellular protein localization spermatid development multicellular organismal process spermatid differentiation localization centrosome localization microtubule organizing center localization cellular process protein localization to kinetochore protein localization to chromosome protein localization to chromosome, centromeric region protein localization to condensed chromosome protein localization to organelle macromolecule localization intracellular protein localization spermatid development multicellular organismal process spermatid differentiation sexual reproduction cellular developmental process spermatogenesis reproductive process cellularization cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation multicellular organism development cell differentiation anatomical structure development developmental process multicellular organismal reproductive process sperm individualization male gamete generation anatomical structure morphogenesis anatomical structure formation involved in morphogenesis germ cell development cellular localization transport intracellular transport establishment of localization axo-dendritic transport establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process sensory organ development photoreceptor cell differentiation visual system development eye morphogenesis neurogenesis neuron differentiation eye photoreceptor cell differentiation animal organ morphogenesis sensory system development system development eye development animal organ development nervous system development generation of neurons sensory organ morphogenesis cellular component organization organelle organization microtubule cytoskeleton organization cellular component organization or biogenesis cytoskeleton organization cell cycle spindle organization cell cycle process	membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope organelle membrane protein-containing complex membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope organelle membrane protein-containing complex cell projection neuron projection plasma membrane bounded cell projection vacuolar membrane lytic vacuole vacuole lytic vacuole membrane bounding membrane of organelle lysosomal membrane cytoplasm lysosome cytoplasmic dynein complex catalytic complex dynein complex intracellular membraneless organelle cytoskeleton membraneless organelle microtubule associated complex microtubule cytoskeleton polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex
A, B, C, D	RE64145p	protein binding binding dynein intermediate chain binding	microtubule-based movement microtubule-based process cellular process developmental process multicellular organismal process head development mushroom body development animal organ development brain development nervous system development multicellular organism development central nervous system development anatomical structure development system development microtubule-based movement microtubule-based process cellular process developmental process multicellular organismal process head development mushroom body development animal organ development brain development nervous system development multicellular organism development central nervous system development anatomical structure development system development cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis dendrite development cell differentiation cellular component organization or biogenesis plasma membrane bounded cell projection organization dendrite morphogenesis cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development	cellular anatomical structure intracellular anatomical structure cytoplasm protein-containing complex cytoplasmic dynein complex catalytic complex dynein complex intracellular membraneless organelle intracellular organelle cytoskeleton organelle membraneless organelle microtubule associated complex microtubule cytoskeleton cellular anatomical structure intracellular anatomical structure cytoplasm protein-containing complex cytoplasmic dynein complex catalytic complex dynein complex intracellular membraneless organelle intracellular organelle cytoskeleton organelle membraneless organelle microtubule associated complex microtubule cytoskeleton centrosome microtubule organizing center polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex membrane-bounded organelle axoneme ciliary plasm axonemal dynein complex cilium cytoplasmic region plasma membrane bounded cell projection cytoplasm plasma membrane bounded cell projection cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth W], F [auth X], G [auth Y], H [auth Z]	IPR050687	Dynein Intermediate Chain	Family
E [auth W], F [auth X], G [auth Y], H [auth Z]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
E [auth W], F [auth X], G [auth Y], H [auth Z]	IPR025956	Cytoplasmic dynein 1 intermediate chain 1/2	Family
E [auth W], F [auth X], G [auth Y], H [auth Z]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
E [auth W], F [auth X], G [auth Y], H [auth Z]	IPR001680	WD40 repeat	Repeat
A, B, C, D	IPR016561	Dynein light chain roadblock-type 1/2	Family
A, B, C, D	IPR004942	Roadblock/LAMTOR2 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.