6E2B | pdb_00006e2b

Ubiquitin in complex with Pt(2-phenilpyridine)(PPh3)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth P]	d6e2bp_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
E [auth I]	d6e2bi_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
D [auth G]	d6e2bg_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
C [auth E]	d6e2be_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B [auth C]	d6e2bc_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
A	d6e2ba_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F [auth P]	SCOP2B Superfamily	Ubiquitin-like	8098884	3000157	SCOP2B (2022-06-29)
E [auth I]	SCOP2 Family	Ubiquitin-related	8098883	4000962	SCOP2 (2022-06-29)
E [auth I]	SCOP2 Superfamily	Ubiquitin-like	8098884	3000157	SCOP2 (2022-06-29)
D [auth G]	SCOP2B Superfamily	Ubiquitin-like	8098884	3000157	SCOP2B (2022-06-29)
C [auth E]	SCOP2B Superfamily	Ubiquitin-like	8098884	3000157	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Ubiquitin-like	8098884	3000157	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ubiquitin-like	8098884	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)
F [auth P]		e6e2bP1	A: L-aspartase middle domain-like	X: L-aspartase middle domain-like	H: L-aspartase middle domain-like	T: SH2	F:	ECOD (20:10:01)
E [auth I]		e6e2bI1	A: L-aspartase middle domain-like	X: L-aspartase middle domain-like	H: L-aspartase middle domain-like	T: SH2	F:	ECOD (20:10:01)
D [auth G]		e6e2bG1	A: L-aspartase middle domain-like	X: L-aspartase middle domain-like	H: L-aspartase middle domain-like	T: SH2	F:	ECOD (20:10:01)
C [auth E]		e6e2bE1	A: L-aspartase middle domain-like	X: L-aspartase middle domain-like	H: L-aspartase middle domain-like	T: SH2	F:	ECOD (20:10:01)
B [auth C]		e6e2bC1	A: L-aspartase middle domain-like	X: L-aspartase middle domain-like	H: L-aspartase middle domain-like	T: SH2	F:	ECOD (20:10:01)
A		e6e2bA1	A: L-aspartase middle domain-like	X: L-aspartase middle domain-like	H: L-aspartase middle domain-like	T:	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	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

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], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	Ubiquitin	protein tag activity molecular tag activity ubiquitin protein ligase binding protein binding binding ubiquitin-like protein ligase binding enzyme binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding structural molecule activity protein tag activity molecular tag activity ubiquitin protein ligase binding protein binding binding ubiquitin-like protein ligase binding enzyme binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding structural molecule activity structural constituent of ribosome	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis ribosomal small subunit biogenesis catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process metabolic process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis ribosomal small subunit biogenesis catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process metabolic process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic 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 biosynthetic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	membrane-bounded organelle protein-containing complex preribosome intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membraneless organelle intracellular membrane-bounded organelle small-subunit processome nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure membrane-bounded organelle protein-containing complex preribosome intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membraneless organelle intracellular membrane-bounded organelle small-subunit processome nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle ribonucleoprotein complex membraneless organelle nuclear lumen cytoplasm ribosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR019954	Ubiquitin conserved site	Conserved Site
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR000626	Ubiquitin-like domain	Domain
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR038582	Small ribosomal subunit protein eS31 eukaryotic superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR002906	Small ribosomal subunit protein eS31	Domain
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR019956	Ubiquitin domain	Domain
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR050158	Ubiquitin and ubiquitin-like	Family
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G], E [auth I], A, B [auth C], C [auth E], D [auth G], E [auth I], F [auth P]	IPR011332	Zinc-binding ribosomal protein	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.