4LNU | pdb_00004lnu

Nucleotide-free kinesin motor domain in complex with tubulin and a DARPin

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth D]	d4lnud_	Alpha and beta proteins (a+b)	beta-hairpin-alpha-hairpin repeat	Ankyrin repeat	Ankyrin repeat	automated matches	(synthetic construct ) [TaxId: 32630 ],	SCOPe (2.08)
B	d4lnub1	Alpha and beta proteins (a/b)	Tubulin nucleotide-binding domain-like	Tubulin nucleotide-binding domain-like	Tubulin, GTPase domain	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
B	d4lnub2	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	Tubulin C-terminal domain-like	Tubulin, C-terminal domain	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
A	d4lnua1	Alpha and beta proteins (a/b)	Tubulin nucleotide-binding domain-like	Tubulin nucleotide-binding domain-like	Tubulin, GTPase domain	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
A	d4lnua2	Alpha and beta proteins (a+b)	Bacillus chorismate mutase-like	Tubulin C-terminal domain-like	Tubulin, C-terminal domain	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth K]	SCOP2B Superfamily	P-loop motor domain	8044305	3002036	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)
D [auth K]		e4lnuK1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: PEBP-like	T: Ldh_1_N	F:	ECOD (20:10:01)
C [auth D]		e4lnuD1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: PEBP-like	T: Ldh_1_N	F:	ECOD (20:10:01)
B		e4lnuB1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: PEBP-like	T: Ldh_1_N	F:	ECOD (20:10:01)
A		e4lnuA1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: PEBP-like	T: Ldh_1_N	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth K]	3.40.850.10	Alpha Beta	3-Layer(aba) Sandwich	Kinesin	Kinesin motor domain	CATH (4.3.0)
C [auth D]	1.25.40.20	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Ankyrin repeat-containing domain	CATH (4.3.0)
B	3.40.50.1440	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Tubulin/FtsZ, GTPase domain	CATH (4.3.0)
B	3.30.1330.20	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
B	1.10.287.600	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
A	3.40.50.1440	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Tubulin/FtsZ, GTPase domain	CATH (4.3.0)
A	3.30.1330.20	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
A	1.10.287.600	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth K]	PF00225	Kinesin motor domain (Kinesin)	Kinesin motor domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth K]	Kinesin-1 heavy chain	microtubule motor activity polypeptide conformation or assembly isomerase activity isomerase activity cytoskeletal motor activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding microtubule motor activity polypeptide conformation or assembly isomerase activity isomerase activity cytoskeletal motor activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cytoskeletal protein binding microtubule binding protein binding tubulin binding cell adhesion molecule binding cadherin binding protein-containing complex binding identical protein binding plus-end-directed microtubule motor activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	establishment of protein localization cellular localization protein localization to synapse transport protein transport along microtubule microtubule-based protein transport localization establishment of localization in cell transport along microtubule intracellular protein localization anterograde axonal transport axo-dendritic protein transport anterograde axonal protein transport intracellular transport establishment of protein localization cellular localization protein localization to synapse transport protein transport along microtubule microtubule-based protein transport localization establishment of localization in cell transport along microtubule intracellular protein localization anterograde axonal transport axo-dendritic protein transport anterograde axonal protein transport intracellular transport axonal transport establishment of localization protein localization to presynapse axo-dendritic transport protein transport macromolecule localization microtubule-based transport cellular process cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process protein localization to cell junction intracellular protein transport centrosome localization microtubule organizing center localization positive regulation of protein localization to plasma membrane regulation of localization regulation of cellular process regulation of protein localization positive regulation of biological process regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery regulation of biological process protein localization to cell periphery protein localization to plasma membrane biological regulation positive regulation of protein localization to membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of cellular localization positive regulation of protein localization regulation of protein localization to plasma membrane vesicle localization establishment of organelle localization establishment of vesicle localization organelle localization synaptic vesicle localization synaptic vesicle transport regulation of potassium ion transport regulation of transport regulation of monoatomic ion transport metal ion transport positive regulation of potassium ion transport positive regulation of transport positive regulation of monoatomic ion transport monoatomic ion transport potassium ion transport monoatomic cation transport regulation of metal ion transport vesicle cytoskeletal trafficking organelle transport along microtubule dense core granule cytoskeletal transport retrograde neuronal dense core vesicle transport vesicle transport along microtubule dense core granule localization secretory granule localization dense core granule transport retrograde axonal transport cytosolic transport regulation of biological quality regulation of membrane potential anterograde neuronal dense core vesicle transport cellular component disassembly protein-containing complex organization protein-containing complex disassembly protein-RNA complex disassembly cellular component organization organelle organization protein-RNA complex organization organelle disassembly cellular component organization or biogenesis stress granule disassembly plus-end-directed organelle transport along microtubule plus-end-directed vesicle transport along microtubule lysosome localization vacuolar localization positive regulation of cell communication signaling modulation of chemical synaptic transmission positive regulation of synaptic transmission, GABAergic cell communication synaptic signaling trans-synaptic signaling regulation of signaling synaptic transmission, GABAergic positive regulation of synaptic transmission cell-cell signaling chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication positive regulation of signaling regulation of synaptic transmission, GABAergic mitochondrion distribution mitocytosis establishment of mitochondrion localization export from cell mitochondrion localization migracytosis lymphocyte mediated immunity biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus leukocyte mediated cytotoxicity response to biotic stimulus immune effector process immune system process defense response to other organism response to stress natural killer cell mediated cytotoxicity innate immune response leukocyte mediated immunity response to external biotic stimulus natural killer cell mediated immunity cell killing regulation of cellular component organization regulation of modification of synaptic structure regulation of synapse structure or activity synapse organization modification of synaptic structure regulation of modification of synapse structure, modulating synaptic transmission regulation of synapse organization cell junction organization response to type II interferon response to cytokine cellular response to type II interferon response to peptide response to chemical cellular response to cytokine stimulus multicellular organismal process axonogenesis cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development developmental process plasma membrane bounded cell projection organization axon guidance nervous system development axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron projection guidance neuron development cytoplasm organization anterograde dendritic transport dendritic transport anterograde dendritic transport of neurotransmitter receptor complex receptor localization to synapse establishment of mitochondrion localization, microtubule-mediated mitochondrion transport along microtubule	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure nuclear membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane cytoplasm cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure nuclear membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane cytoplasm cytosol protein-containing complex intracellular membraneless organelle cytoskeleton membraneless organelle microtubule associated complex kinesin complex microtubule cytoskeleton vacuolar membrane lytic vacuole cytolytic granule vacuole lytic vacuole membrane bounding membrane of organelle lysosomal membrane cytolytic granule membrane lysosome ciliary rootlet cilium plasma membrane bounded cell projection cell projection perinuclear region of cytoplasm polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex neuron projection cytoplasm axon axon cytoplasm neuron projection mitochondrion sperm end piece 9+2 motile cilium sperm flagellum motile cilium vesicle centrosome microtubule organizing center centriolar satellite intracellular vesicle phagocytic vesicle cytoplasmic vesicle endocytic vesicle dendrite cytoplasm somatodendritic compartment dendrite dendritic tree postsynapse synapse cell junction postsynaptic cytosol
C [auth D]	Designed ankyrin repeat protein (DARPIN) D1	-	-	-
B	Tubulin beta chain	structural constituent of cytoskeleton structural molecule activity binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding structural constituent of cytoskeleton structural molecule activity binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding metal ion binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	microtubule-based process cellular process	polymeric cytoskeletal fiber intracellular anatomical structure intracellular membraneless organelle intracellular organelle cellular anatomical structure cytoskeleton organelle membraneless organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton
A	Tubulin alpha chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth K]	IPR001752	Kinesin motor domain	Domain
D [auth K]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D [auth K]	IPR019821	Kinesin motor domain, conserved site	Conserved Site
D [auth K]	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
D [auth K]	IPR027640	Kinesin-like protein	Family
D [auth K]	IPR059182	Kinesin heavy chain, C-terminal domain	Domain
B	IPR003008	Tubulin/FtsZ, GTPase domain	Domain
B	IPR008280	Tubulin/FtsZ, C-terminal	Homologous Superfamily
B	IPR037103	Tubulin/FtsZ-like, C-terminal domain	Homologous Superfamily
B	IPR017975	Tubulin, conserved site	Conserved Site
B	IPR000217	Tubulin	Family
B	IPR023123	Tubulin, C-terminal	Homologous Superfamily
B	IPR002453	Beta tubulin	Family
B	IPR013838	Beta tubulin, autoregulation binding site	Binding Site
B	IPR018316	Tubulin/FtsZ, 2-layer sandwich domain	Domain
B	IPR036525	Tubulin/FtsZ, GTPase domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
D [auth K]	Pharos: P33176	non-small cell lung carcinoma diabetes mellitus astrocytic tumor dermatomyositis glioblastoma pancreatic ductal adenocarcinoma progressive supranuclear palsy atypical teratoid rhabdoid tumor large cell medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma psoriasis cutaneous lupus erythematosus Down syndrome medulloblastoma non-small cell lung carcinoma diabetes mellitus astrocytic tumor dermatomyositis glioblastoma pancreatic ductal adenocarcinoma progressive supranuclear palsy atypical teratoid rhabdoid tumor large cell medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma psoriasis cutaneous lupus erythematosus Down syndrome medulloblastoma ovarian cancer primitive neuroectodermal tumor ulcerative colitis

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.