6H77 | pdb_00006h77

E1 enzyme for ubiquitin like protein activation in complex with UBL

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)
H [auth T]	SCOP2B Superfamily	Ubiquitin-like	8033374	3000157	SCOP2B (2022-06-29)
G [auth S]	SCOP2B Superfamily	Ubiquitin-like	8033374	3000157	SCOP2B (2022-06-29)
F [auth R]	SCOP2B Superfamily	Ubiquitin-like	8033374	3000157	SCOP2B (2022-06-29)
E [auth Q]	SCOP2B Superfamily	Ubiquitin-like	8033374	3000157	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)
H [auth T]	Ufm1	e6h77T1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Ufm1	ECOD (1.6)
G [auth S]	Ufm1	e6h77S1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Ufm1	ECOD (1.6)
F [auth R]	Ufm1	e6h77R1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Ufm1	ECOD (1.6)
E [auth Q]	Ufm1	e6h77Q1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Ufm1	ECOD (1.6)
D	ThiF_1	e6h77D1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Activating enzymes of the ubiquitin-like proteins	F: ThiF_1	ECOD (1.6)
C	ThiF_1	e6h77C1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Activating enzymes of the ubiquitin-like proteins	F: ThiF_1	ECOD (1.6)
B	ThiF_1	e6h77B1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Activating enzymes of the ubiquitin-like proteins	F: ThiF_1	ECOD (1.6)
A	ThiF_1	e6h77A1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Activating enzymes of the ubiquitin-like proteins	F: ThiF_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth T]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
G [auth S]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
F [auth R]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
E [auth Q]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (utative)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (utative)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (utative)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth Q], F [auth R], G [auth S], H [auth T]	PF03671	Ubiquitin fold modifier 1 protein (Ufm1)	Ubiquitin fold modifier 1 protein	This is a family of short ubiquitin-like proteins, that is like neither type-1 or type-2. It is a ubiquitin-fold modifier 1 (Ufm1) that is synthesised in a precursor form of 85 amino-acid residues. In humans the enzyme for Ufm1 is Uba5 and the conjug ...	This is a family of short ubiquitin-like proteins, that is like neither type-1 or type-2. It is a ubiquitin-fold modifier 1 (Ufm1) that is synthesised in a precursor form of 85 amino-acid residues. In humans the enzyme for Ufm1 is Uba5 and the conjugating enzyme is Ufc1. Prior to activation by Uba5 the extra two amino acids at the C-terminal region of the human pro-Ufm1 protein are removed to expose Gly whose residue is necessary for conjugation to target molecule(s). The mature Ufm1 is conjugated to yet unidentified endogenous proteins,[1]. While Ubiquitin and many Ubls possess the conserved C-terminal di-glycine that is adenylated by each specific E1 or E1-like enzyme, respectively, in an ATP-dependent manner, Ufm1(1-83) possesses a single glycine at its C-terminus, which is followed by a Ser-Cys dipeptide in the precursor form of Ufm1. The C-terminally processed Ufm1(1-83) is specifically activated by Uba5, an E1-like enzyme, and then transferred to its cognate Ufc1, an E2-like enzyme [2].	Domain
A, B, C, D	PF00899	ThiF family (ThiF)	ThiF family	This domain is found in ubiquitin activating E1 family and members of the bacterial ThiF/MoeB/HesA family. It is repeated in Ubiquitin-activating enzyme E1 [1-3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth Q], F [auth R], G [auth S], H [auth T]	Ubiquitin-fold modifier 1	-	negative regulation of protein transport regulation of localization establishment of protein localization cellular localization negative regulation of nucleocytoplasmic transport nitrogen compound transport regulation of cellular process nucleocytoplasmic transport regulation of protein localization transport nuclear transport negative regulation of biological process negative regulation of intracellular protein transport regulation of protein localization to nucleus negative regulation of transport negative regulation of protein transport regulation of localization establishment of protein localization cellular localization negative regulation of nucleocytoplasmic transport nitrogen compound transport regulation of cellular process nucleocytoplasmic transport regulation of protein localization transport nuclear transport negative regulation of biological process negative regulation of intracellular protein transport regulation of protein localization to nucleus negative regulation of transport negative regulation of protein import into nucleus localization import into nucleus regulation of protein import into nucleus establishment of localization in cell protein import into nucleus negative regulation of cellular process intracellular protein localization regulation of intracellular transport negative regulation of protein localization negative regulation of intracellular transport regulation of biological process regulation of transport biological regulation regulation of establishment of protein localization negative regulation of establishment of protein localization intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of localization negative regulation of protein localization to nucleus establishment of protein localization to organelle protein transport regulation of cellular localization macromolecule localization protein localization to organelle regulation of intracellular protein transport cellular process intracellular protein transport developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development primary metabolic process protein ufmylation macromolecule modification metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death cellular response to stimulus intracellular receptor signaling pathway response to stimulus response to lipid signaling regulation of signal transduction hormone-mediated signaling pathway intracellular signal transduction cell communication cellular response to endogenous stimulus response to hormone regulation of intracellular signal transduction response to steroid hormone regulation of intracellular estrogen receptor signaling pathway regulation of intracellular steroid hormone receptor signaling pathway signal transduction nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus regulation of signaling response to endogenous stimulus estrogen receptor signaling pathway cellular response to chemical stimulus regulation of response to stimulus response to chemical cellular response to lipid regulation of cell communication nuclear receptor-mediated signaling pathway catabolic process macroautophagy reticulophagy autophagy process utilizing autophagic mechanism cellular response to stress response to stress response to endoplasmic reticulum stress protein polyufmylation protein K69-linked ufmylation	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle endoplasmic reticulum endomembrane system
A, B, C, D	Ubiquitin-like modifier-activating enzyme 5	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 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 identical protein binding protein binding protein homodimerization activity protein dimerization activity UFM1 activating enzyme activity ubiquitin-like modifier activating enzyme activity ligase activity, forming carbon-sulfur bonds catalytic activity, acting on a protein catalytic activity ligase activity ATP-dependent activity cation binding transition metal ion binding zinc ion binding metal ion binding	primary metabolic process protein ufmylation macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal developmental process multicellular organismal process cellular developmental process primary metabolic process protein ufmylation macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal developmental process multicellular organismal process cellular developmental process homeostatic process hemopoiesis cell development erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation immune system process cell differentiation anatomical structure development homeostasis of number of cells myeloid cell homeostasis erythrocyte homeostasis cellular response to stimulus regulation of cellular process intracellular receptor signaling pathway response to stimulus response to lipid signaling regulation of signal transduction hormone-mediated signaling pathway intracellular signal transduction cell communication cellular response to endogenous stimulus response to hormone regulation of intracellular signal transduction response to steroid hormone regulation of intracellular estrogen receptor signaling pathway regulation of intracellular steroid hormone receptor signaling pathway signal transduction nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus regulation of biological process regulation of signaling response to endogenous stimulus biological regulation estrogen receptor signaling pathway cellular response to chemical stimulus regulation of response to stimulus response to chemical cellular response to lipid regulation of cell communication nuclear receptor-mediated signaling pathway regulation of biosynthetic process regulation of type II interferon production type II interferon production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process cytokine production regulation of cytokine production regulation of macromolecule biosynthetic process regulation of multicellular organismal process regulation of metabolic process system process nervous system process neuromuscular process megakaryocyte differentiation catabolic process macroautophagy reticulophagy autophagy process utilizing autophagic mechanism cellular response to stress response to stress response to endoplasmic reticulum stress protein polyufmylation protein K69-linked ufmylation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system cytosol nucleus organelle subcompartment membrane endoplasmic reticulum subcompartment membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system cytosol nucleus organelle subcompartment membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth Q], F [auth R], G [auth S], H [auth T]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
E [auth Q], F [auth R], G [auth S], H [auth T]	IPR005375	Ubiquitin-fold modifier 1	Family
A, B, C, D	IPR045886	ThiF/MoeB/HesA family	Family
A, B, C, D	IPR000594	THIF-type NAD/FAD binding fold	Domain
A, B, C, D	IPR029752	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site 1	Conserved Site
A, B, C, D	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E [auth Q], F [auth R], G [auth S], H [auth T]	Pharos: P61960	Crohn disease leukodystrophy osteosarcoma hypomyelinating leukodystrophy 6 leukodystrophy, hypomyelinating, 14 progressive supranuclear palsy large cell medulloblastoma medulloblastoma
A, B, C, D	Pharos: Q9GZZ9	developmental and epileptic encephalopathy, 44 spinocerebellar ataxia, autosomal recessive 24 cholestasis intellectual disability progressive supranuclear palsy spinocerebellar ataxia type 4 spinocerebellar ataxia type 7 autosomal dominant cerebellar ataxia Chemically-Induced Liver Toxicity epilepsy neurodegenerative disease Pick disease spinocerebellar ataxia type 1 spinocerebellar ataxia type 5 cerebellar ataxia developmental and epileptic encephalopathy, 44 spinocerebellar ataxia, autosomal recessive 24 cholestasis intellectual disability progressive supranuclear palsy spinocerebellar ataxia type 4 spinocerebellar ataxia type 7 autosomal dominant cerebellar ataxia Chemically-Induced Liver Toxicity epilepsy neurodegenerative disease Pick disease spinocerebellar ataxia type 1 spinocerebellar ataxia type 5 cerebellar ataxia ovarian cancer plasma cell myeloma spinocerebellar ataxia type 2 spinocerebellar ataxia type 6 drug-induced liver injury lung cancer pancreatic ductal adenocarcinoma

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.