7PYV | pdb_00007pyv

Crystal structure of human UBA6 in complex with the ubiquitin-like modifier FAT10

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)
B [auth C]	SCOP2B Superfamily	Ubiquitin-like	8081530	3000157	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth C]	e7pyvC1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Beta-lactamase2	F:	ECOD (20:10:01)
C [auth B]	e7pyvB1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Beta-lactamase2	F:	ECOD (20:10:01)
A	e7pyvA1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Beta-lactamase2	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C]	PF00240	Ubiquitin family (ubiquitin)	Ubiquitin family	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].	Domain
A, C [auth B]	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
A, C [auth B]	PF09358	Ubiquitin fold domain (E1_UFD)	Ubiquitin fold domain	The ubiquitin fold domain is found at the C-terminus of ubiquitin-activating E1 family enzymes. This domain binds to E2 enzymes [1].	Domain
A, C [auth B]	PF10585	Ubiquitin-activating enzyme, SCCH domain (UBA_E1_SCCH)	Ubiquitin-activating enzyme, SCCH domain	Ubiquitin-activating enzyme (E1 enzyme) activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free A ...	Ubiquitin-activating enzyme (E1 enzyme) activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin-conjugating enzymes (E2) [1]. This domain carries the last of five conserved cysteines that is part of the active site of the enzyme, responsible for ubiquitin thiolester complex formation, the active site being represented by the sequence motif PICTLKNFP [2,3,4]. The catalytic cysteine domain contains the E1 active site cysteine, and is divided in two half-domains, FCCH and SCCH, for 'first' and 'second' catalytic cysteine half-domain, respectively. This is the SCCH domain in which resides the catalytic cysteine [5].	Domain
A, C [auth B]	PF16190	Ubiquitin-activating enzyme E1 FCCH domain (E1_FCCH)	Ubiquitin-activating enzyme E1 FCCH domain	This domain is found in the ubiquitin-activating E1 family enzymes [1].	Domain
A, C [auth B]	PF16191	Ubiquitin-activating enzyme E1 four-helix bundle (E1_4HB)	Ubiquitin-activating enzyme E1 four-helix bundle	This domain is found in the ubiquitin-activating E1 family enzymes [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C]	UBD	protein-containing complex binding binding proteasome binding	catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process biological process involved in interspecies interaction between organisms response to stimulus immune response catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response response to type II interferon response to cytokine defense response to symbiont response to external stimulus response to biotic stimulus response to peptide response to chemical immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling regulation of cell cycle phase transition regulation of cell cycle process cell cycle phase transition mitotic cell cycle regulation of mitotic cell cycle phase transition regulation of mitotic cell cycle mitotic cell cycle process cell cycle regulation of cell cycle mitotic cell cycle phase transition cell cycle process developmental process multicellular organismal process myeloid leukocyte differentiation cellular developmental process myeloid dendritic cell activation hemopoiesis cell activation cell development mononuclear cell differentiation myeloid leukocyte activation leukocyte activation myeloid cell differentiation cell differentiation anatomical structure development myeloid dendritic cell differentiation dendritic cell differentiation leukocyte differentiation positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death cellular component biogenesis cellular component organization cellular component assembly aggresome assembly inclusion body assembly cellular component organization or biogenesis macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal protein ubiquitination proteolysis response to tumor necrosis factor	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen fibrillar center cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen fibrillar center organelle membraneless organelle nuclear lumen inclusion body aggresome nucleoplasm
A, C [auth B]	Ubiquitin-like modifier-activating enzyme 6,Ubiquitin-like modifier-activating enzyme 1,Ubiquitin-like modifier-activating enzyme 6	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 ubiquitin-like modifier activating enzyme activity ligase activity, forming carbon-sulfur bonds catalytic activity, acting on a protein ubiquitin activating enzyme activity catalytic activity ligase activity ATP-dependent activity FAT10 activating enzyme activity cation binding metal ion binding RNA binding nucleic acid binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle mitochondrion extracellular exosome extracellular vesicle extracellular organelle extracellular region cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle mitochondrion extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C]	IPR042969	Ubiquitin D	Family
B [auth C]	IPR000626	Ubiquitin-like domain	Domain
B [auth C]	IPR019956	Ubiquitin domain	Domain
B [auth C]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A, C [auth B]	IPR042302	Ubiquitin-activating enzyme E1, FCCH domain superfamily	Homologous Superfamily
A, C [auth B]	IPR000011	Ubiquitin/SUMO-activating enzyme E1-like	Family
A, C [auth B]	IPR045886	ThiF/MoeB/HesA family	Family
A, C [auth B]	IPR042449	Ubiquitin-activating enzyme E1, inactive adenylation domain, subdomain 1	Homologous Superfamily
A, C [auth B]	IPR019572	Ubiquitin-activating enzyme, SCCH domain	Domain
A, C [auth B]	IPR042063	Ubiquitin-activating enzyme E1, SCCH domain	Homologous Superfamily
A, C [auth B]	IPR000594	THIF-type NAD/FAD binding fold	Domain
A, C [auth B]	IPR032420	Ubiquitin-activating enzyme E1, four-helix bundle	Domain
A, C [auth B]	IPR018075	Ubiquitin-activating enzyme E1	Family
A, C [auth B]	IPR032418	Ubiquitin-activating enzyme E1, FCCH domain	Domain
A, C [auth B]	IPR018965	Ubiquitin-activating enzyme E1, C-terminal	Domain
A, C [auth B]	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily
A, C [auth B]	IPR038252	Ubiquitin-activating enzyme E1, C-terminal domain superfamily	Homologous Superfamily
A, C [auth B]	IPR042302	Ubiquitin-activating enzyme E1, FCCH domain superfamily	Homologous Superfamily
A, C [auth B]	IPR045886	ThiF/MoeB/HesA family	Family
A, C [auth B]	IPR042449	Ubiquitin-activating enzyme E1, inactive adenylation domain, subdomain 1	Homologous Superfamily
A, C [auth B]	IPR019572	Ubiquitin-activating enzyme, SCCH domain	Domain
A, C [auth B]	IPR018075	Ubiquitin-activating enzyme E1	Family
A, C [auth B]	IPR032418	Ubiquitin-activating enzyme E1, FCCH domain	Domain
A, C [auth B]	IPR000011	Ubiquitin/SUMO-activating enzyme E1-like	Family
A, C [auth B]	IPR042063	Ubiquitin-activating enzyme E1, SCCH domain	Homologous Superfamily
A, C [auth B]	IPR000594	THIF-type NAD/FAD binding fold	Domain
A, C [auth B]	IPR032420	Ubiquitin-activating enzyme E1, four-helix bundle	Domain
A, C [auth B]	IPR018965	Ubiquitin-activating enzyme E1, C-terminal	Domain
A, C [auth B]	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily
A, C [auth B]	IPR033127	Ubiquitin-activating enzyme E1, Cys active site	Active Site
A, C [auth B]	IPR038252	Ubiquitin-activating enzyme E1, C-terminal domain superfamily	Homologous Superfamily
A, C [auth B]	IPR018074	Ubiquitin-activating enzyme E1, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth C]	Pharos: O15205	primary biliary cholangitis Liver Cirrhosis, Experimental autism spectrum disorder breast cancer endogenous depression hepatocellular carcinoma lung carcinoma psoriasis breast carcinoma nasopharyngeal disease psoriatic arthritis cutaneous lupus erythematosus hepatitis, non-human animal
A, C [auth B]	Pharos: P22314	rheumatoid arthritis adrenal cortex carcinoma Crohn disease large cell medulloblastoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma Pick disease progressive supranuclear palsy Sjogren syndrome atopic eczema Gaucher disease malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm pilocytic astrocytoma rheumatoid arthritis adrenal cortex carcinoma Crohn disease large cell medulloblastoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma Pick disease progressive supranuclear palsy Sjogren syndrome atopic eczema Gaucher disease malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm pilocytic astrocytoma psoriasis subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor juvenile dermatomyositis medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor infantile-onset X-linked spinal muscular atrophy squamous cell carcinoma arthrogryposis breast carcinoma large cell medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia spinal muscular atrophy X-linked spinal muscular atrophy 2 astrocytic tumor glioblastoma neurodegenerative disease pancreatic intraductal papillary-mucinous carcinoma psoriasis atypical teratoid rhabdoid tumor osteosarcoma pancreatic intraductal papillary-mucinous neoplasm rheumatoid arthritis