9M1N | pdb_00009m1n

Cryo-EM structure of the TBC-DC-Arl2-alpha-beta-tubulin complex with GDP-AlFx

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth G]	SCOP2B Superfamily	Ras-like P-loop GTPases	8060239	3002022	SCOP2B (2022-06-29)
A [auth C]	SCOP2B Superfamily	Tubulin chaperone cofactor-like	8092849	3001355	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E [auth b]	e9m1nb1	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: N-terminal domain of the delta subunit of the F1F0-ATP synthase	T: FliD_C	F:	ECOD (20:10:01)
D [auth a]	e9m1na1	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: N-terminal domain of the delta subunit of the F1F0-ATP synthase	T: LSDAT_euk	F:	ECOD (20:10:01)
C [auth G]	e9m1nG1	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: N-terminal domain of the delta subunit of the F1F0-ATP synthase	T: FliD_C	F:	ECOD (20:10:01)
B [auth D]	e9m1nD1	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: Galactose-binding domain-like	T: WD40	F:	ECOD (20:10:01)
A [auth C]	e9m1nC1	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: Galactose-binding domain-like	T: WD40	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth G]	PF00025	ADP-ribosylation factor family (Arf)	ADP-ribosylation factor family	Pfam combines a number of different Prosite families together	Domain
B [auth D]	PF25767	Tubulin-specific chaperone D-like, ARM repeats (ARM_TBCD_2nd)	Tubulin-specific chaperone D-like, ARM repeats	-	Repeat
B [auth D]	PF23579	Tubulin-specific chaperone D-like, ARM repeat (ARM_TBCD)	Tubulin-specific chaperone D-like, ARM repeat	-	Repeat
B [auth D]	PF12612	Tubulin folding cofactor D C terminal (TFCD_C)	Tubulin folding cofactor D C terminal	-	Family
A [auth C]	PF16752	Tubulin-specific chaperone C N-terminal domain (TBCC_N)	Tubulin-specific chaperone C N-terminal domain	This N-terminal domain of tubulin-specific chaperone C has a spectrin-like fold and binds to tubulin [1].	Domain
A [auth C]	PF07986	Tubulin binding cofactor C (TBCC)	Tubulin binding cofactor C	Members of this family are involved in the folding pathway of tubulins and form a beta helix structure [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth b]	Tubulin beta chain	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 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 structural constituent of cytoskeleton structural molecule activity ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding MHC class I protein binding signaling receptor binding MHC protein 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	cellular process cell cycle mitotic cell cycle regulation of biological process regulation of cellular component organization regulation of cellular process biological regulation cellular component organization regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization cellular component organization or biogenesis regulation of biological quality cellular process cell cycle mitotic cell cycle regulation of biological process regulation of cellular component organization regulation of cellular process biological regulation cellular component organization regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization cellular component organization or biogenesis regulation of biological quality organelle assembly microtubule cytoskeleton organization membraneless organelle assembly spindle assembly cellular component biogenesis organelle organization cellular component assembly microtubule-based process cytoskeleton organization chromosome segregation spindle organization cell cycle process developmental process epithelium development cellular developmental process tissue development epithelial cell differentiation cell differentiation anatomical structure development neuroepithelial cell differentiation odontoblast differentiation columnar/cuboidal epithelial cell differentiation	cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle mitotic spindle cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasmic ribonucleoprotein granule supramolecular complex ribonucleoprotein granule cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle mitotic spindle cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasmic ribonucleoprotein granule supramolecular complex ribonucleoprotein granule intercellular bridge membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen organelle envelope lumen organelle envelope organelle lumen nuclear envelope lumen nuclear envelope cell body polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer
D [auth a]	Tubulin alpha-1B 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	cellular process cell cycle mitotic cell cycle cellular component organization organelle organization microtubule cytoskeleton organization microtubule-based process cellular component organization or biogenesis cytoskeleton organization	cellular anatomical structure intracellular anatomical structure cytoplasm polymeric cytoskeletal fiber intracellular membraneless organelle intracellular organelle cytoskeleton organelle membraneless organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton
C [auth G]	ADP-ribosylation factor-like protein 2	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 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 GDP 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	maintenance of protein location cellular localization maintenance of protein location in nucleus protein localization to nucleus maintenance of location maintenance of location in cell localization maintenance of protein location in cell macromolecule localization protein localization to organelle cellular process maintenance of protein localization in organelle intracellular protein localization protein folding maintenance of protein location cellular localization maintenance of protein location in nucleus protein localization to nucleus maintenance of location maintenance of location in cell localization maintenance of protein location in cell macromolecule localization protein localization to organelle cellular process maintenance of protein localization in organelle intracellular protein localization protein folding biosynthetic process metabolic process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation regulation of biological process regulation of cellular process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion positive regulation of cellular process ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process organophosphate catabolic process carbohydrate derivative metabolic process regulation of generation of precursor metabolites and energy nucleoside phosphate catabolic process organic acid metabolic process regulation of primary metabolic process regulation of ATP metabolic process nucleobase-containing compound metabolic process regulation of purine nucleotide catabolic process regulation of small molecule metabolic process glycolytic process regulation of nucleotide metabolic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process regulation of nucleobase-containing compound metabolic process purine ribonucleotide catabolic process phosphorus metabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process regulation of carbohydrate catabolic process pyruvate metabolic process purine nucleoside diphosphate metabolic process purine-containing compound catabolic process nucleotide metabolic process regulation of purine nucleotide metabolic process nucleobase-containing compound catabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process regulation of nucleotide catabolic process regulation of phosphorus metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process regulation of metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process cellular respiration catabolic process ATP metabolic process energy derivation by oxidation of organic compounds purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process regulation of carbohydrate metabolic process nucleotide catabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process ADP catabolic process carboxylic acid metabolic process regulation of catabolic process generation of precursor metabolites and energy regulation of glycolytic process purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process purine ribonucleoside diphosphate catabolic process negative regulation of hydrolase activity negative regulation of GTPase activity regulation of catalytic activity negative regulation of molecular function negative regulation of biological process negative regulation of catalytic activity regulation of GTPase activity regulation of molecular function regulation of hydrolase activity bicellular tight junction assembly tight junction organization apical junction assembly cellular component organization cellular component biogenesis cell junction organization cellular component assembly cell junction assembly tight junction assembly cellular component organization or biogenesis cell-cell junction assembly cell-cell junction organization regulation of cytoskeleton organization regulation of microtubule polymerization or depolymerization regulation of cellular component organization microtubule cytoskeleton organization regulation of protein-containing complex assembly microtubule polymerization or depolymerization protein-containing complex assembly protein polymerization protein-containing complex organization regulation of microtubule-based process microtubule polymerization regulation of cellular component biogenesis regulation of organelle organization organelle organization regulation of microtubule polymerization regulation of protein polymerization regulation of supramolecular fiber organization microtubule-based process supramolecular fiber organization cytoskeleton organization regulation of microtubule cytoskeleton organization microtubule organizing center organization centrosome cycle cell cycle cell cycle process positive regulation of organelle organization positive regulation of cellular component organization positive regulation of protein-containing complex assembly positive regulation of protein polymerization positive regulation of microtubule polymerization or depolymerization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization positive regulation of supramolecular fiber organization positive regulation of microtubule polymerization regulation of cellular respiration regulation of aerobic respiration	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membraneless organelle nuclear lumen centrosome microtubule organizing center cytoskeleton microtubule cytoskeleton centriole cytosol cell projection sperm midpiece cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection nucleoplasm cell periphery plasma membrane membrane lateral plasma membrane ciliary basal body mitochondrial matrix mitochondrial intermembrane space organelle envelope lumen organelle envelope mitochondrial envelope
B [auth D]	Tubulin-specific chaperone D	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity cytoskeletal protein binding beta-tubulin binding protein binding binding tubulin binding protein-folding chaperone binding	bicellular tight junction assembly tight junction organization apical junction assembly cellular component organization cellular component biogenesis cell junction organization cellular component assembly cell junction assembly tight junction assembly cellular process cellular component organization or biogenesis cell-cell junction assembly cell-cell junction organization cell cycle bicellular tight junction assembly tight junction organization apical junction assembly cellular component organization cellular component biogenesis cell junction organization cellular component assembly cell junction assembly tight junction assembly cellular process cellular component organization or biogenesis cell-cell junction assembly cell-cell junction organization cell cycle mitotic cell cycle developmental process multicellular organismal process cellular developmental process cell development nervous system development cell morphogenesis involved in neuron differentiation cell morphogenesis generation of neurons anatomical structure morphogenesis neurogenesis multicellular organism development neuron differentiation cell differentiation neuron development anatomical structure development system development protein folding biosynthetic process metabolic process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation regulation of cytoskeleton organization regulation of microtubule polymerization or depolymerization regulation of cellular component organization regulation of cellular process microtubule cytoskeleton organization negative regulation of biological process regulation of protein-containing complex assembly microtubule polymerization or depolymerization negative regulation of cellular process protein-containing complex assembly negative regulation of protein polymerization negative regulation of supramolecular fiber organization protein polymerization regulation of biological process negative regulation of cellular component organization negative regulation of microtubule polymerization or depolymerization protein-containing complex organization negative regulation of cytoskeleton organization biological regulation regulation of microtubule-based process negative regulation of microtubule polymerization microtubule polymerization regulation of cellular component biogenesis regulation of organelle organization negative regulation of protein-containing complex assembly organelle organization negative regulation of organelle organization regulation of protein polymerization regulation of microtubule polymerization regulation of supramolecular fiber organization microtubule-based process supramolecular fiber organization cytoskeleton organization regulation of microtubule cytoskeleton organization regulation of cell-substrate adhesion regulation of cell adhesion cell-substrate adhesion negative regulation of cell adhesion cell adhesion negative regulation of cell-substrate adhesion tubulin complex assembly post-chaperonin tubulin folding pathway adherens junction organization adherens junction assembly	cell-cell junction adherens junction cellular anatomical structure anchoring junction cell junction intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cell-cell junction adherens junction cellular anatomical structure anchoring junction cell junction intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton apical junction complex bicellular tight junction tight junction cell periphery plasma membrane membrane lateral plasma membrane cytoplasm polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex
A [auth C]	Tubulin-specific chaperone C	cytoskeletal protein binding protein binding binding tubulin binding protein-folding chaperone 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	protein folding biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation tubulin complex assembly cellular component organization cellular component biogenesis cellular component assembly protein folding biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation tubulin complex assembly cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis post-chaperonin tubulin folding pathway	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle membrane-bounded organelle ciliary transition zone non-motile cilium 9+0 non-motile cilium cilium neuron projection plasma membrane bounded cell projection intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle membrane-bounded organelle ciliary transition zone non-motile cilium 9+0 non-motile cilium cilium neuron projection plasma membrane bounded cell projection cell projection photoreceptor cell cilium photoreceptor connecting cilium cytoplasm cytosol polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton endoplasmic reticulum intracellular membrane-bounded organelle endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth b]	IPR008280	Tubulin/FtsZ, C-terminal	Homologous Superfamily
E [auth b]	IPR017975	Tubulin, conserved site	Conserved Site
E [auth b]	IPR023123	Tubulin, C-terminal	Homologous Superfamily
E [auth b]	IPR002453	Beta tubulin	Family
E [auth b]	IPR013838	Beta tubulin, autoregulation binding site	Binding Site
E [auth b]	IPR018316	Tubulin/FtsZ, 2-layer sandwich domain	Domain
E [auth b]	IPR003008	Tubulin/FtsZ, GTPase domain	Domain
E [auth b]	IPR037103	Tubulin/FtsZ-like, C-terminal domain	Homologous Superfamily
E [auth b]	IPR000217	Tubulin	Family
E [auth b]	IPR036525	Tubulin/FtsZ, GTPase domain superfamily	Homologous Superfamily
D [auth a]	IPR003008	Tubulin/FtsZ, GTPase domain	Domain
D [auth a]	IPR008280	Tubulin/FtsZ, C-terminal	Homologous Superfamily
D [auth a]	IPR037103	Tubulin/FtsZ-like, C-terminal domain	Homologous Superfamily
D [auth a]	IPR017975	Tubulin, conserved site	Conserved Site
D [auth a]	IPR002452	Alpha tubulin	Family
D [auth a]	IPR000217	Tubulin	Family
D [auth a]	IPR023123	Tubulin, C-terminal	Homologous Superfamily
D [auth a]	IPR018316	Tubulin/FtsZ, 2-layer sandwich domain	Domain
D [auth a]	IPR036525	Tubulin/FtsZ, GTPase domain superfamily	Homologous Superfamily
C [auth G]	IPR045873	ADP-ribosylation factor-like protein 2	Family
C [auth G]	IPR044612	ADP-ribosylation factor-like protein 2/3	Family
C [auth G]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth G]	IPR005225	Small GTP-binding domain	Domain
C [auth G]	IPR006689	Small GTPase superfamily, ARF/SAR type	Family
B [auth D]	IPR016024	Armadillo-type fold	Homologous Superfamily
B [auth D]	IPR011989	Armadillo-like helical	Homologous Superfamily
B [auth D]	IPR022577	Tubulin-folding cofactor D, C-terminal domain	Domain
B [auth D]	IPR058033	Tubulin-folding cofactor D, ARM repeats	Domain
B [auth D]	IPR033162	Tubulin-folding cofactor D	Family
A [auth C]	IPR017901	C-CAP/cofactor C-like domain	Domain
A [auth C]	IPR012945	Tubulin binding cofactor C-like domain	Domain
A [auth C]	IPR031925	Tubulin-specific chaperone C, N-terminal	Domain
A [auth C]	IPR006599	CARP motif	Domain
A [auth C]	IPR016098	Cyclase-associated protein CAP/septum formation inhibitor MinC, C-terminal	Homologous Superfamily
A [auth C]	IPR038397	TBCC, N-terminal domain superfamily	Homologous Superfamily
A [auth C]	IPR027684	Tubulin-specific chaperone C	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth G]	Pharos: P36404	melanoma acne medulloblastoma cataract cutaneous melanoma metabolic syndrome X
B [auth D]	Pharos: Q9BTW9	early-onset progressive diffuse brain atrophy-microcephaly-muscle weakness-optic atrophy syndrome intellectual disability neurodegenerative disease microcephaly atypical teratoid rhabdoid tumor medulloblastoma ovarian cancer respiratory failure cerebral cortical dysplasia Epileptic encephalopathy large cell medulloblastoma optic atrophy quadriplegia visual epilepsy developmental disability early-onset progressive diffuse brain atrophy-microcephaly-muscle weakness-optic atrophy syndrome intellectual disability neurodegenerative disease microcephaly atypical teratoid rhabdoid tumor medulloblastoma ovarian cancer respiratory failure cerebral cortical dysplasia Epileptic encephalopathy large cell medulloblastoma optic atrophy quadriplegia visual epilepsy developmental disability glioblastoma locked-in syndrome osteosarcoma Reis-Bucklers corneal dystrophy
A [auth C]	Pharos: Q15814	cardiofaciocutaneous syndrome psoriasis medulloblastoma ovarian cancer