6ZHU | pdb_00006zhu

Yeast Uba1 in complex with Ubc3 and ATP

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H [auth G]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	SCCH domain-like	8003543	3000139	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	FCCH domain-like	8003532	3000138	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	CC (catalytic cysteine) domain-like	8003552	3000140	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	E2 binding domain-like	8003942	3000147	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	FCCH domain-like	8003532	3000138	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	SCCH domain-like	8003543	3000139	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	E2 binding domain-like	8003942	3000147	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	CC (catalytic cysteine) domain-like	8003552	3000140	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	CC (catalytic cysteine) domain-like	8003552	3000140	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	SCCH domain-like	8003543	3000139	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	E2 binding domain-like	8003942	3000147	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	FCCH domain-like	8003532	3000138	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	E2 binding domain-like	8003942	3000147	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	SCCH domain-like	8003543	3000139	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	FCCH domain-like	8003532	3000138	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8017546	3000112	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	Activating enzymes of the ubiquitin-like proteins	8003540	3000112	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	CC (catalytic cysteine) domain-like	8003552	3000140	SCOP2B (2022-06-29)
D [auth H]	SCOP2B Superfamily	UBC-like	8095691	3000570	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	UBC-like	8095691	3000570	SCOP2B (2022-06-29)
B [auth F]	SCOP2B Superfamily	UBC-like	8095691	3000570	SCOP2B (2022-06-29)
A [auth B]	SCOP2B Superfamily	UBC-like	8095691	3000570	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H [auth G]	e6zhuG1	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: Sybindin	F:	ECOD (20:10:01)
G [auth C]	e6zhuC1	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: Sybindin	F:	ECOD (20:10:01)
F [auth E]	e6zhuE1	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: Sybindin	F:	ECOD (20:10:01)
E [auth A]	e6zhuA1	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: Sybindin	F:	ECOD (20:10:01)
D [auth H]	e6zhuH1	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: Sybindin	F:	ECOD (20:10:01)
C [auth D]	e6zhuD1	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: Sybindin	F:	ECOD (20:10:01)
B [auth F]	e6zhuF1	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: Ion_trans	F:	ECOD (20:10:01)
A [auth B]	e6zhuB1	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: Sybindin	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth G]	2.40.30.180	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (utative)
H [auth G]	3.10.290.60	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	CATH (utative)
G [auth C]	3.10.290.60	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	CATH (utative)
F [auth E]	2.40.30.180	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (utative)
F [auth E]	3.10.290.60	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	CATH (utative)
E [auth A]	2.40.30.180	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (utative)
E [auth A]	3.10.290.60	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth E], G [auth C], H [auth G]	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
E [auth A], F [auth E], G [auth C], H [auth G]	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
E [auth A], F [auth E], G [auth C], H [auth G]	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
E [auth A], F [auth E], G [auth C], H [auth G]	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
E [auth A], F [auth E], G [auth C], H [auth G]	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
A [auth B], B [auth F], C [auth D], D [auth H]	PF00179	Ubiquitin-conjugating enzyme (UQ_con)	Ubiquitin-conjugating enzyme	Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. TSG101 is one of several UBC homologues that lacks this active site cystein ...	Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. TSG101 is one of several UBC homologues that lacks this active site cysteine [4, 5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth A], F [auth E], G [auth C], H [auth G]	Ubiquitin-activating enzyme E1 1	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 cation binding metal ion 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 membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
A [auth B], B [auth F], C [auth D], D [auth H]	Ubiquitin-conjugating enzyme E2-34 kDa	ubiquitin conjugating enzyme activity aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein conjugating enzyme activity transferase activity catalytic activity ubiquitin-protein transferase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding ubiquitin conjugating enzyme activity aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein conjugating enzyme activity transferase activity catalytic activity ubiquitin-protein transferase 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	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of mitotic cell cycle regulation of biological process regulation of cellular process biological regulation cell cycle regulation of cell cycle nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of mitotic cell cycle regulation of biological process regulation of cellular process biological regulation cell cycle regulation of cell cycle mitotic cell cycle organelle fusion cellular component organization organelle organization mitochondrial fusion cellular component organization or biogenesis mitochondrion organization cell division protein autoubiquitination protein ubiquitination macromolecule modification protein 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 biological process cellular component biogenesis cellular component assembly chromatin organization negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process catabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process SCF-dependent proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process protein polyubiquitination subtelomeric heterochromatin formation RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by galactose regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process regulation of DNA-templated transcription mitotic cell cycle process cell cycle phase transition G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle phase transition cell cycle process response to stimulus response to chemical cellular response to methylmercury response to methylmercury cellular response to stimulus DNA damage checkpoint signaling regulation of cell cycle phase transition signaling negative regulation of cell cycle intracellular signal transduction negative regulation of mitotic cell cycle cell communication mitotic DNA integrity checkpoint signaling cellular response to stress response to stress mitotic DNA damage checkpoint signaling negative regulation of cell cycle phase transition signal transduction mitotic intra-S DNA damage checkpoint signaling regulation of cell cycle process DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling mitotic cell cycle checkpoint signaling DNA damage response signal transduction in response to DNA damage cell cycle G2/M phase transition G2/M transition of mitotic cell cycle regulation of localization hexose transmembrane transport regulation of transport transport positive regulation of biological process carbohydrate transport establishment of localization positive regulation of D-glucose transmembrane transport transmembrane transport localization regulation of transmembrane transport positive regulation of transport D-glucose transmembrane transport positive regulation of transmembrane transport regulation of D-glucose transmembrane transport monosaccharide transmembrane transport carbohydrate transmembrane transport positive regulation of cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm cullin-RING ubiquitin ligase complex protein-containing complex ubiquitin ligase complex catalytic complex SCF ubiquitin ligase complex transferase complex intracellular protein-containing complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm cullin-RING ubiquitin ligase complex protein-containing complex ubiquitin ligase complex catalytic complex SCF ubiquitin ligase complex transferase complex intracellular protein-containing complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth E], G [auth C], H [auth G]	IPR042302	Ubiquitin-activating enzyme E1, FCCH domain superfamily	Homologous Superfamily
E [auth A], F [auth E], G [auth C], H [auth G]	IPR000011	Ubiquitin/SUMO-activating enzyme E1-like	Family
E [auth A], F [auth E], G [auth C], H [auth G]	IPR045886	ThiF/MoeB/HesA family	Family
E [auth A], F [auth E], G [auth C], H [auth G]	IPR042449	Ubiquitin-activating enzyme E1, inactive adenylation domain, subdomain 1	Homologous Superfamily
E [auth A], F [auth E], G [auth C], H [auth G]	IPR019572	Ubiquitin-activating enzyme, SCCH domain	Domain
E [auth A], F [auth E], G [auth C], H [auth G]	IPR042063	Ubiquitin-activating enzyme E1, SCCH domain	Homologous Superfamily
E [auth A], F [auth E], G [auth C], H [auth G]	IPR000594	THIF-type NAD/FAD binding fold	Domain
E [auth A], F [auth E], G [auth C], H [auth G]	IPR032420	Ubiquitin-activating enzyme E1, four-helix bundle	Domain
E [auth A], F [auth E], G [auth C], H [auth G]	IPR018075	Ubiquitin-activating enzyme E1	Family
E [auth A], F [auth E], G [auth C], H [auth G]	IPR032418	Ubiquitin-activating enzyme E1, FCCH domain	Domain
E [auth A], F [auth E], G [auth C], H [auth G]	IPR018965	Ubiquitin-activating enzyme E1, C-terminal	Domain
E [auth A], F [auth E], G [auth C], H [auth G]	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily
E [auth A], F [auth E], G [auth C], H [auth G]	IPR033127	Ubiquitin-activating enzyme E1, Cys active site	Active Site
E [auth A], F [auth E], G [auth C], H [auth G]	IPR038252	Ubiquitin-activating enzyme E1, C-terminal domain superfamily	Homologous Superfamily
E [auth A], F [auth E], G [auth C], H [auth G]	IPR018074	Ubiquitin-activating enzyme E1, conserved site	Conserved Site
A [auth B], B [auth F], C [auth D], D [auth H]	IPR016135	Ubiquitin-conjugating enzyme/RWD-like	Homologous Superfamily
A [auth B], B [auth F], C [auth D], D [auth H]	IPR000608	Ubiquitin-conjugating (UBC), catalytic core domain	Domain
A [auth B], B [auth F], C [auth D], D [auth H]	IPR023313	Ubiquitin-conjugating enzyme, active site	Active Site
A [auth B], B [auth F], C [auth D], D [auth H]	IPR050113	Ubiquitin-conjugating enzyme E2-like	Family