3Q5E | pdb_00003q5e

crystal structure of human Atlastin-1 (residues 1-447) bound to GDP, crystal form 2

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth G]	SCOP2B Superfamily	Ras-like P-loop GTPases	8019680	3002022	SCOP2B (2022-06-29)
D [auth G]	SCOP2B Superfamily	GBP helical domain-like	8019678	3001145	SCOP2B (2022-06-29)
C [auth E]	SCOP2B Superfamily	Ras-like P-loop GTPases	8019680	3002022	SCOP2B (2022-06-29)
C [auth E]	SCOP2B Superfamily	GBP helical domain-like	8019678	3001145	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	GBP helical domain-like	8019678	3001145	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Ras-like P-loop GTPases	8019680	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GBP helical domain-like	8019678	3001145	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8019680	3002022	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 G]	GMC_oxred_N,GMC_oxred_C	e3q5eG1	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: GMC_oxred_N,GMC_oxred_C	ECOD (v294.1)
C [auth E]	GMC_oxred_N,GMC_oxred_C	e3q5eE2	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: GMC_oxred_N,GMC_oxred_C	ECOD (v294.1)
B [auth C]	GMC_oxred_N,GMC_oxred_C	e3q5eC1	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: GMC_oxred_N,GMC_oxred_C	ECOD (v294.1)
A	GMC_oxred_N,GMC_oxred_C	e3q5eA1	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: GMC_oxred_N,GMC_oxred_C	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth G]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D [auth G]	1.20.58.420	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
C [auth E]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C [auth E]	1.20.58.420	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
B [auth C]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B [auth C]	1.20.58.420	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	1.20.58.420	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth E], D [auth G]	PF02263	Guanylate-binding protein, N-terminal domain (GBP)	Guanylate-binding protein, N-terminal domain	Transcription of the anti-viral guanylate-binding protein (GBP) is induced by interferon-gamma during macrophage induction. This family contains GBP1 and GPB2, both GTPases capable of binding GTP, GDP and GMP.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth E], D [auth G]	Atlastin-1	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 pyrophosphatase activity GTPase activity fusogenic activity GTPase-dependent fusogenic 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 identical protein binding protein binding	cellular component organization organelle organization cellular process cellular component organization or biogenesis endoplasmic reticulum organization endomembrane system organization membrane organization endoplasmic reticulum membrane organization endoplasmic reticulum tubular network membrane organization endoplasmic reticulum tubular network organization membrane fusion organelle membrane fusion organelle fusion endoplasmic reticulum membrane fusion cellular component organization organelle organization cellular process cellular component organization or biogenesis endoplasmic reticulum organization endomembrane system organization membrane organization endoplasmic reticulum membrane organization endoplasmic reticulum tubular network membrane organization endoplasmic reticulum tubular network organization membrane fusion organelle membrane fusion organelle fusion endoplasmic reticulum membrane fusion cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization 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 nervous system development axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development	membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle endoplasmic reticulum cytoplasm endoplasmic reticulum tubular network Golgi apparatus Golgi membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle endoplasmic reticulum cytoplasm endoplasmic reticulum tubular network Golgi apparatus Golgi membrane membrane bounding membrane of organelle organelle membrane Golgi cis cisterna membrane Golgi cisterna membrane Golgi apparatus subcompartment Golgi cisterna Golgi cis cisterna Golgi stack axon cell projection neuron projection plasma membrane bounded cell projection nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane endoplasmic reticulum tubular network membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth E], D [auth G]	IPR036543	Guanylate-binding protein, C-terminal domain superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR030386	GB1/RHD3-type guanine nucleotide-binding (G) domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR015894	Guanylate-binding protein, N-terminal	Domain
A, B [auth C], C [auth E], D [auth G]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B [auth C], C [auth E], D [auth G]	Pharos: Q8WXF7	hereditary spastic paraplegia 3A neuropathy, hereditary sensory, type 1D peripheral neuropathy hereditary spastic paraplegia paraplegia primitive neuroectodermal tumor Spastic Paraplegia, Hereditary astrocytic tumor Charcot-Marie-Tooth disease large cell medulloblastoma medulloblastoma oligodendroglioma pilocytic astrocytoma psoriasis atypical teratoid rhabdoid tumor hereditary spastic paraplegia 3A neuropathy, hereditary sensory, type 1D peripheral neuropathy hereditary spastic paraplegia paraplegia primitive neuroectodermal tumor Spastic Paraplegia, Hereditary astrocytic tumor Charcot-Marie-Tooth disease large cell medulloblastoma medulloblastoma oligodendroglioma pilocytic astrocytoma psoriasis atypical teratoid rhabdoid tumor glioblastoma malignant ependymoma neurodegenerative disease ovarian cancer peripheral nervous system disease plantar fibromatosis Riley-Day syndrome breast cancer intellectual disability malignant glioma

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.