3WWQ | pdb_00003wwq

Crystal structure of FAAP20 UBZ domain in complex with Lys63-linked diubiquitin

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
K	d3wwqk_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
H	d3wwqh_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d3wwqe_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d3wwqb_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
J	d3wwqj_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G	d3wwqg_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d3wwqd_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d3wwqa_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	GKRP_SIS_2	e3wwqL1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
I	GKRP_SIS_2	e3wwqI1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
F	GKRP_SIS_2	e3wwqF1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
C	GKRP_SIS_2	e3wwqC1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
K	GKRP_SIS_2	e3wwqK1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
H	GKRP_SIS_2	e3wwqH1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
E	GKRP_SIS_2	e3wwqE1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
B	GKRP_SIS_2	e3wwqB1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
J	GKRP_SIS_2	e3wwqJ1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
G	GKRP_SIS_2	e3wwqG1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
D	GKRP_SIS_2	e3wwqD1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)
A	GKRP_SIS_2	e3wwqA1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: GKRP_SIS_2	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, F, I, L	PF15750	Ubiquitin-binding zinc-finger (UBZ_FAAP20)	Ubiquitin-binding zinc-finger	-	Family
B, E, H, K	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, D, G, J	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
C, F, I, L	Fanconi anemia-associated protein of 20 kDa	ubiquitin-modified protein reader activity protein-macromolecule adaptor activity ubiquitin-like protein reader activity molecular adaptor activity polyubiquitin modification-dependent protein binding protein binding binding modification-dependent protein binding ubiquitin binding ubiquitin-like protein binding K63-linked polyubiquitin modification-dependent protein binding cation binding transition metal ion binding zinc ion binding ubiquitin-modified protein reader activity protein-macromolecule adaptor activity ubiquitin-like protein reader activity molecular adaptor activity polyubiquitin modification-dependent protein binding protein binding binding modification-dependent protein binding ubiquitin binding ubiquitin-like protein binding K63-linked polyubiquitin modification-dependent protein binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process metabolic process interstrand cross-link repair macromolecule metabolic process DNA repair cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process metabolic process interstrand cross-link repair macromolecule metabolic process DNA repair translesion synthesis nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process DNA synthesis involved in DNA replication nucleic acid biosynthetic process DNA replication biosynthetic process DNA biosynthetic process	cellular anatomical structure cell junction intracellular organelle intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome cytoplasm cytosol membrane-bounded organelle Fanconi anaemia nuclear complex protein-containing complex nucleus cellular anatomical structure cell junction intracellular organelle intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome cytoplasm cytosol membrane-bounded organelle Fanconi anaemia nuclear complex protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nuclear body nucleoplasm organelle lumen nuclear lumen chromatin
B, E, H, K	Ubiquitin	protein tag activity molecular tag activity ubiquitin protein ligase binding protein binding binding ubiquitin-like protein ligase binding enzyme binding	catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process metabolic process cellular 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 catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process metabolic process cellular 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	cellular anatomical structure myelin sheath intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle cellular anatomical structure myelin sheath intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
A, D, G, J	Ubiquitin	protein tag activity molecular tag activity ubiquitin protein ligase binding protein binding binding ubiquitin-like protein ligase binding enzyme binding	catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process metabolic process cellular 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 catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process metabolic process cellular 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	cellular anatomical structure myelin sheath intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle cellular anatomical structure myelin sheath intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, F, I, L	IPR031491	FAAP20, FANCA interaction domain	Domain
C, F, I, L	IPR031490	FAAP20, zinc finger UBZ2-type	Domain
C, F, I, L	IPR052689	Fanconi anemia core complex-associated protein	Family
B, E, H, K	IPR019954	Ubiquitin conserved site	Conserved Site
B, E, H, K	IPR000626	Ubiquitin-like domain	Domain
B, E, H, K	IPR019956	Ubiquitin domain	Domain
B, E, H, K	IPR050158	Ubiquitin and ubiquitin-like	Family
B, E, H, K	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A, D, G, J	IPR019954	Ubiquitin conserved site	Conserved Site
A, D, G, J	IPR000626	Ubiquitin-like domain	Domain
A, D, G, J	IPR019956	Ubiquitin domain	Domain
A, D, G, J	IPR050158	Ubiquitin and ubiquitin-like	Family
A, D, G, J	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, F, I, L	Pharos: Q6NZ36	atypical teratoid rhabdoid tumor malignant glioma glioblastoma osteosarcoma large cell medulloblastoma ovarian cancer

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.