6YUB | pdb_00006yub

Crystal structure of Uba4 from Chaetomium thermophilum

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	Rhodanese	e6yubC1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Rhodanese/Cell cycle control phosphatase	F: Rhodanese	ECOD (1.6)
B	ThiF_1	e6yubB1	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	e6yubA1	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	Rhodanese	e6yubA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Rhodanese/Cell cycle control phosphatase	F: Rhodanese	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
A	3.40.250.10	Alpha Beta	3-Layer(aba) Sandwich	Oxidized Rhodanese	domain 1	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF00581	Rhodanese-like domain (Rhodanese)	Rhodanese-like domain	Rhodanese has an internal duplication. This Pfam represents a single copy of this duplicated domain. The domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases.	Domain
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	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	PF00581	Rhodanese-like domain (Rhodanese)	Rhodanese-like domain	Rhodanese has an internal duplication. This Pfam represents a single copy of this duplicated domain. The domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	Adenylyltransferase and sulfurtransferase uba4	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 adenylyltransferase activity molybdopterin-synthase adenylyltransferase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups thiosulfate-cyanide sulfurtransferase activity sulfurtransferase activity transferase activity, transferring sulphur-containing groups molybdopterin-synthase sulfurtransferase activity cation binding metal ion binding ubiquitin-like modifier activating enzyme activity ligase activity, forming carbon-sulfur bonds catalytic activity, acting on a protein URM1 activating enzyme activity ligase activity ATP-dependent activity	primary metabolic process protein urmylation 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 tRNA thio-modification RNA metabolic process tRNA wobble uridine modification primary metabolic process protein urmylation 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 tRNA thio-modification RNA metabolic process tRNA wobble uridine modification nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing tRNA wobble base modification RNA processing tRNA modification gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process RNA modification biosynthetic process tRNA wobble position uridine thiolation Mo-molybdopterin cofactor biosynthetic process Mo-molybdopterin cofactor metabolic process prosthetic group metabolic process molybdopterin cofactor biosynthetic process organophosphate metabolic process organophosphate biosynthetic process molybdopterin cofactor metabolic process phosphate-containing compound metabolic process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
B	Adenylyltransferase and sulfurtransferase uba4	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 adenylyltransferase activity molybdopterin-synthase adenylyltransferase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups thiosulfate-cyanide sulfurtransferase activity sulfurtransferase activity transferase activity, transferring sulphur-containing groups molybdopterin-synthase sulfurtransferase activity cation binding metal ion binding ubiquitin-like modifier activating enzyme activity ligase activity, forming carbon-sulfur bonds catalytic activity, acting on a protein URM1 activating enzyme activity ligase activity ATP-dependent activity	primary metabolic process protein urmylation 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 tRNA thio-modification RNA metabolic process tRNA wobble uridine modification primary metabolic process protein urmylation 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 tRNA thio-modification RNA metabolic process tRNA wobble uridine modification nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing tRNA wobble base modification RNA processing tRNA modification gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process RNA modification biosynthetic process tRNA wobble position uridine thiolation Mo-molybdopterin cofactor biosynthetic process Mo-molybdopterin cofactor metabolic process prosthetic group metabolic process molybdopterin cofactor biosynthetic process organophosphate metabolic process organophosphate biosynthetic process molybdopterin cofactor metabolic process phosphate-containing compound metabolic process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
A	Adenylyltransferase and sulfurtransferase uba4	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 adenylyltransferase activity molybdopterin-synthase adenylyltransferase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups thiosulfate-cyanide sulfurtransferase activity sulfurtransferase activity transferase activity, transferring sulphur-containing groups molybdopterin-synthase sulfurtransferase activity cation binding metal ion binding ubiquitin-like modifier activating enzyme activity ligase activity, forming carbon-sulfur bonds catalytic activity, acting on a protein URM1 activating enzyme activity ligase activity ATP-dependent activity	primary metabolic process protein urmylation 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 tRNA thio-modification RNA metabolic process tRNA wobble uridine modification primary metabolic process protein urmylation 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 tRNA thio-modification RNA metabolic process tRNA wobble uridine modification nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing tRNA wobble base modification RNA processing tRNA modification gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process RNA modification biosynthetic process tRNA wobble position uridine thiolation Mo-molybdopterin cofactor biosynthetic process Mo-molybdopterin cofactor metabolic process prosthetic group metabolic process molybdopterin cofactor biosynthetic process organophosphate metabolic process organophosphate biosynthetic process molybdopterin cofactor metabolic process phosphate-containing compound metabolic process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR001763	Rhodanese-like domain	Domain
C	IPR036873	Rhodanese-like domain superfamily	Homologous Superfamily
C	IPR045886	ThiF/MoeB/HesA family	Family
C	IPR000594	THIF-type NAD/FAD binding fold	Domain
C	IPR028885	Adenylyltransferase and sulfurtransferase MOCS3/Uba4	Family
C	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily
B	IPR001763	Rhodanese-like domain	Domain
B	IPR036873	Rhodanese-like domain superfamily	Homologous Superfamily
B	IPR045886	ThiF/MoeB/HesA family	Family
B	IPR000594	THIF-type NAD/FAD binding fold	Domain
B	IPR028885	Adenylyltransferase and sulfurtransferase MOCS3/Uba4	Family
B	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily
A	IPR001763	Rhodanese-like domain	Domain
A	IPR036873	Rhodanese-like domain superfamily	Homologous Superfamily
A	IPR045886	ThiF/MoeB/HesA family	Family
A	IPR000594	THIF-type NAD/FAD binding fold	Domain
A	IPR028885	Adenylyltransferase and sulfurtransferase MOCS3/Uba4	Family
A	IPR035985	Ubiquitin-activating enzyme-like	Homologous Superfamily

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.