2PG1 | pdb_00002pg1

Structural analysis of a cytoplasmic dynein Light Chain-Intermediate Chain complex

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)
A	d2pg1a_	Alpha and beta proteins (a+b)	DLC	DLC	DLC	Dynein light chain 1 (DLC1)	fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
B	d2pg1b_	Alpha and beta proteins (a+b)	DLC	DLC	DLC	Dynein light chain 1 (DLC1)	fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
C	d2pg1c_	Alpha and beta proteins (a+b)	DLC	DLC	DLC	Dynein light chain 1 (DLC1)	fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
D	d2pg1d_	Alpha and beta proteins (a+b)	DLC	DLC	DLC	Dynein light chain 1 (DLC1)	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)
A	SCOP2B Superfamily	DLC-like	8040999	3000821	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DLC-like	8040999	3000821	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DLC-like	8040999	3000821	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DLC-like	8040999	3000821	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DLC-like	8051840	3000821	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	DLC-like	8051840	3000821	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	DLC-like	8051840	3000821	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	DLC-like	8051840	3000821	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Dynein intermediate chain-like	8051843	3002038	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Dynein intermediate chain-like	8051843	3002038	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Dynein intermediate chain-like	8051843	3002038	SCOP2B (2022-06-29)
L	SCOP2 Family	Cytoplasmic dynein 1 IC2	8046597	4005181	SCOP2 (2022-06-29)
L	SCOP2 Superfamily	Dynein intermediate chain-like	8051843	3002038	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		e2pg1A1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: DUF3197	F:	ECOD (20:10:01)
B		e2pg1B1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: DUF3197	F:	ECOD (20:10:01)
C		e2pg1C1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: DUF3197	F:	ECOD (20:10:01)
D		e2pg1D1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: DUF3197	F:	ECOD (20:10:01)
E		e2pg1E1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: DAO, NAD_binding_8	F:	ECOD (20:10:01)
F		e2pg1F1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: DAO, NAD_binding_8	F:	ECOD (20:10:01)
G		e2pg1G1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: DAO, NAD_binding_8	F:	ECOD (20:10:01)
H		e2pg1H1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: DAO, NAD_binding_8	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.740.10	Alpha Beta	2-Layer Sandwich	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	CATH (4.3.0)
B	3.30.740.10	Alpha Beta	2-Layer Sandwich	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	CATH (4.3.0)
C	3.30.740.10	Alpha Beta	2-Layer Sandwich	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	CATH (4.3.0)
D	3.30.740.10	Alpha Beta	2-Layer Sandwich	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	Protein Inhibitor Of Neuronal Nitric Oxide Synthase	CATH (4.3.0)
E	3.30.1140.40	Alpha Beta	2-Layer Sandwich	Ribosomal protein S3 C-terminal domain	Tctex-1	CATH (4.3.0)
F	3.30.1140.40	Alpha Beta	2-Layer Sandwich	Ribosomal protein S3 C-terminal domain	Tctex-1	CATH (4.3.0)
G	3.30.1140.40	Alpha Beta	2-Layer Sandwich	Ribosomal protein S3 C-terminal domain	Tctex-1	CATH (4.3.0)
H	3.30.1140.40	Alpha Beta	2-Layer Sandwich	Ribosomal protein S3 C-terminal domain	Tctex-1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF01221	Dynein light chain type 1 (Dynein_light)	Dynein light chain type 1		Domain
E, F, G, H	PF03645	Tctex-1 family (Tctex-1)	Tctex-1 family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Dynein light chain 1, cytoplasmic	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity dynein light intermediate chain binding structural molecule activity dynein intermediate chain binding disordered domain specific binding protein domain specific binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular developmental process oogenesis cell development cellular process involved in reproduction in multicellular organism female gamete generation cell differentiation developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular developmental process oogenesis cell development cellular process involved in reproduction in multicellular organism female gamete generation cell differentiation anatomical structure development germ cell development cellular process multicellular organismal process regulation of neuron remodeling regulation of cellular process regulation of developmental process positive regulation of biological process regulation of cell differentiation positive regulation of cell maturation regulation of neuron maturation positive regulation of neuron remodeling regulation of cell development positive regulation of developmental process neurogenesis multicellular organism development neuron differentiation positive regulation of cell differentiation neuron remodeling cell maturation regulation of cell maturation positive regulation of cellular process system development regulation of biological process positive regulation of neuron maturation biological regulation positive regulation of cell development developmental maturation nervous system development generation of neurons anatomical structure maturation neuron development neuron maturation regulation of neuron differentiation spermatid development spermatid differentiation cellularization sperm individualization anatomical structure morphogenesis anatomical structure formation involved in morphogenesis imaginal disc development animal organ development wing disc development imaginal disc morphogenesis appendage development post-embryonic appendage morphogenesis imaginal disc-derived wing morphogenesis instar larval or pupal development metamorphosis imaginal disc-derived appendage morphogenesis wing disc morphogenesis appendage morphogenesis imaginal disc-derived appendage development instar larval or pupal morphogenesis post-embryonic animal morphogenesis post-embryonic development animal organ morphogenesis negative regulation of biological process cellular component organization cellular component biogenesis cellular component assembly chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process retrotransposition regulation of biosynthetic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process transposable element silencing by piRNA-mediated heterochromatin formation transposable element silencing by heterochromatin formation heterochromatin organization regulation of macromolecule metabolic process gene expression transposition macromolecule biosynthetic process regulatory ncRNA-mediated gene silencing regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation regulatory ncRNA-mediated heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process transposable element silencing piRNA-mediated heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process chaeta morphogenesis chaeta development sensory organ development establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle localization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity organelle organization mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization spermatid nucleus elongation nucleus organization spermatid nucleus differentiation microtubule anchoring at microtubule organizing center microtubule anchoring at centrosome microtubule anchoring actin cytoskeleton organization actin filament organization actin filament bundle organization actin filament bundle assembly actin filament-based process supramolecular fiber organization	intracellular organelle microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle centriole intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol protein-containing complex membrane-bounded organelle intracellular organelle microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle centriole intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol protein-containing complex membrane-bounded organelle RNA polymerase II transcription repressor complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle transcription repressor complex cytoplasmic dynein complex catalytic complex dynein complex microtubule associated complex polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex
E, F, G, H	Dynein light chain Tctex-type	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity dynein light intermediate chain binding dynein intermediate chain binding disordered domain specific binding protein domain specific binding	microtubule-based movement microtubule-based process cellular process cell cycle mitotic cell cycle developmental process spermatid development spermatid differentiation sexual reproduction cellular developmental process spermatogenesis reproductive process multicellular organismal reproductive process cell development microtubule-based movement microtubule-based process cellular process cell cycle mitotic cell cycle developmental process spermatid development spermatid differentiation sexual reproduction cellular developmental process spermatogenesis reproductive process multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation male gamete generation cell differentiation anatomical structure development germ cell development cellular localization transport retrograde axonal transport intracellular transport axonal transport establishment of localization localization axo-dendritic transport establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport	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 polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex neuron projection cytoplasm axon cell projection axon cytoplasm neuron projection plasma membrane bounded cell projection
I, J, K, L	Cytoplasmic dynein 1 intermediate chain 2	protein binding binding dynein heavy chain binding protein-containing complex binding dynein light chain binding	microtubule-based movement microtubule-based process cellular process cellular localization transport intracellular transport establishment of localization localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport regulation of neuron projection development multicellular organismal process microtubule-based movement microtubule-based process cellular process cellular localization transport intracellular transport establishment of localization localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport regulation of neuron projection development multicellular organismal process regulation of cellular component organization regulation of cellular process cellular developmental process cell projection organization negative regulation of biological process cell development neuron projection development cellular component organization neurogenesis multicellular organism development neuron differentiation cell differentiation anatomical structure development negative regulation of cellular process cellular component organization or biogenesis negative regulation of cell projection organization system development developmental process regulation of biological process plasma membrane bounded cell projection organization negative regulation of cellular component organization regulation of cell projection organization biological regulation nervous system development negative regulation of neuron projection development generation of neurons neuron development regulation of plasma membrane bounded cell projection organization cellular response to endogenous stimulus cellular response to growth factor stimulus response to stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus response to nerve growth factor response to growth factor	membrane-bounded organelle cellular anatomical structure organelle vesicle intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton protein-containing complex outer dynein arm membrane-bounded organelle cellular anatomical structure organelle vesicle intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton protein-containing complex outer dynein arm catalytic complex axoneme ciliary plasm axonemal dynein complex dynein complex cilium plasma membrane bounded cell projection cell projection microtubule associated complex cytoplasm cytoplasmic dynein complex polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR037177	Dynein light chain superfamily	Homologous Superfamily
A, B, C, D	IPR019763	Dynein light chain, type 1/2, conserved site	Conserved Site
A, B, C, D	IPR001372	Dynein light chain, type 1/2	Family
E, F, G, H	IPR038586	Tctex-1-like superfamily	Homologous Superfamily
E, F, G, H	IPR005334	Dynein light chain Tctex-1-like	Family
I, J, K, L	IPR025956	Cytoplasmic dynein 1 intermediate chain 1/2	Family
I, J, K, L	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
I, J, K, L	IPR001680	WD40 repeat	Repeat
I, J, K, L	IPR050687	Dynein axonemal intermediate chain 1/2/3/4	Family
I, J, K, L	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily

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.