9T7V | pdb_00009t7v

Structure of LRRC58-EloB/C-CDO1 in complex with NEDD8-CUL5-RBX2-ARIH2-Ub


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
H [auth I]SCOP2B SuperfamilyUbiquitin-like 8038575 3000157 SCOP2B (2022-06-29)
E [auth N]SCOP2B SuperfamilyUbiquitin-like 8034470 3000157 SCOP2B (2022-06-29)
C [auth U]SCOP2B SuperfamilyUbiquitin-like 8043829 3000157 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyRmlC-like cupins 8034456 3001825 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I [auth B]PF12799Leucine Rich repeats (2 copies) (LRR_4)Leucine Rich repeats (2 copies)- Repeat
H [auth I]PF00240Ubiquitin family (ubiquitin)Ubiquitin familyThis 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
G [auth H]PF19422Ariadne domain (Ariadne)Ariadne domainThis entry represents the Ariadne domain found in the Ariadne subfamily E3 ubiquitin ligase proteins [4]. The C-terminal Ariadne domain adopts an elongated four-helix bundle consisting of an antiparallel arrangement of seven-to-ten-turn long helices. ...This entry represents the Ariadne domain found in the Ariadne subfamily E3 ubiquitin ligase proteins [4]. The C-terminal Ariadne domain adopts an elongated four-helix bundle consisting of an antiparallel arrangement of seven-to-ten-turn long helices. The Ariadne domain is straddled on one side by the IBR domain, and on the other by the RING2 domain. Notably, the Ariadne domain embraces the surface of RING2 containing the catalytic Cys357 [1]. The ariadne Domain Masks the HHARI Catalytic Cys357 and Inhibits Intrinsic E3 Activity [1].
Domain
G [auth H]PF26000E3 ubiquitin-protein ligase ARIH2, N-terminal UBA domain (UBA_ARIH2_N)E3 ubiquitin-protein ligase ARIH2, N-terminal UBA domainThis ubiquitin-associated (UBA) domain is found at the N-terminal end of human E3 ubiquitin-protein ligase ARIH2 and similar proteins mainly found in animals. ARIH2 catalyses ubiquitination of target proteins together with ubiquitin -conjugating enzy ...This ubiquitin-associated (UBA) domain is found at the N-terminal end of human E3 ubiquitin-protein ligase ARIH2 and similar proteins mainly found in animals. ARIH2 catalyses ubiquitination of target proteins together with ubiquitin -conjugating enzyme E2 UBE2L3. It acts as an atypical E3 ubiquitin-protein ligase by working together with cullin-5-RING ubiquitin ligase complex [2-5,10].
Domain
G [auth H]PF22191IBR domain (IBR_1)IBR domainThis entry represents an IBR domain, related to Pfam:PF01485. Domain
F [auth C]PF26557Cullin alpha+beta domain (Cullin_AB)Cullin alpha+beta domainThis entry represents the alpha+beta domain found just before the C-terminal domain of Cullin proteins. Domain
F [auth C]PF00888Cullin alpha solenoid domain (Cullin)Cullin alpha solenoid domain- Repeat
F [auth C]PF10557Cullin protein neddylation domain (Cullin_Nedd8)Cullin protein neddylation domainThis is the neddylation site of cullin proteins which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cu ...This is the neddylation site of cullin proteins which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognises and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae, and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenesis in metazoans. The only identified Nedd8 substrates are cullins. Neddylation results in covalent conjugation of a Nedd8 moiety onto a conserved cullin lysine residue [1].
Domain
E [auth N]PF00240Ubiquitin family (ubiquitin)Ubiquitin familyThis 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
D [auth O]PF03931Skp1 family, tetramerisation domain (Skp1_POZ)Skp1 family, tetramerisation domainDomain
C [auth U]PF00240Ubiquitin family (ubiquitin)Ubiquitin familyThis 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
B [auth R]PF12678RING-H2 zinc finger domain (zf-rbx1)RING-H2 zinc finger domainThere are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell ...There are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell cycle control [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I [auth B]Leucine-rich repeat-containing protein 58
H [auth I]Elongin-B
G [auth H]E3 ubiquitin-protein ligase ARIH2
F [auth C]Cullin-5
E [auth N]NEDD8
D [auth O]Elongin-C
C [auth U]Ubiquitin
B [auth R]RING-box protein 2
Cysteine dioxygenase type 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
I [auth B]IPR032675Leucine-rich repeat domain superfamilyHomologous Superfamily
I [auth B]IPR001611Leucine-rich repeatRepeat
I [auth B]IPR003591Leucine-rich repeat, typical subtypeRepeat
I [auth B]IPR050715Leucine-rich repeat and signaling effector domain-containing proteinFamily
H [auth I]IPR000626Ubiquitin-like domainDomain
H [auth I]IPR039049Elongin BFamily
H [auth I]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
G [auth H]IPR002867IBR domainDomain
G [auth H]IPR044066TRIAD supradomainDomain
G [auth H]IPR047555E3 ubiquitin-protein ligase ARIH2, BRcat domainDomain
G [auth H]IPR018957Zinc finger, C3HC4 RING-typeDomain
G [auth H]IPR045840Ariadne domainDomain
G [auth H]IPR017907Zinc finger, RING-type, conserved siteConserved Site
G [auth H]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
G [auth H]IPR031127E3 ubiquitin ligase RBR familyFamily
G [auth H]IPR047556E3 ubiquitin-protein ligase TRIAD1, Rcat domainDomain
G [auth H]IPR001841Zinc finger, RING-typeDomain
F [auth C]IPR045093CullinFamily
F [auth C]IPR016158Cullin homology domainDomain
F [auth C]IPR016157Cullin, conserved siteConserved Site
F [auth C]IPR059120Cullin-like, alpha+beta domainDomain
F [auth C]IPR001373Cullin, N-terminalDomain
F [auth C]IPR019559Cullin, neddylation domainDomain
F [auth C]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
F [auth C]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
F [auth C]IPR036317Cullin homology domain superfamilyHomologous Superfamily
F [auth C]IPR016159Cullin repeat-like-containing domain superfamilyHomologous Superfamily
E [auth N]IPR019954Ubiquitin conserved siteConserved Site
E [auth N]IPR000626Ubiquitin-like domainDomain
E [auth N]IPR019956Ubiquitin domainDomain
E [auth N]IPR050158Ubiquitin and ubiquitin-likeFamily
E [auth N]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
E [auth N]IPR038738Nedd8-like ubiquitinDomain
D [auth O]IPR016073SKP1 component, POZ domainDomain
D [auth O]IPR001232S-phase kinase-associated protein 1-likeFamily
D [auth O]IPR039948Elongin-CFamily
D [auth O]IPR011333SKP1/BTB/POZ domain superfamilyHomologous Superfamily
C [auth U]IPR019954Ubiquitin conserved siteConserved Site
C [auth U]IPR000626Ubiquitin-like domainDomain
C [auth U]IPR019956Ubiquitin domainDomain
C [auth U]IPR050158Ubiquitin and ubiquitin-likeFamily
C [auth U]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
B [auth R]IPR051031RING-box E3 Ubiquitin LigaseFamily
B [auth R]IPR024766Zinc finger, RING-H2-typeDomain
B [auth R]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
B [auth R]IPR001841Zinc finger, RING-typeDomain
IPR010300Cysteine dioxygenase type IFamily
IPR014710RmlC-like jelly roll foldHomologous Superfamily
IPR011051RmlC-like cupin domain superfamilyHomologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
I [auth B]Q96CX6
H [auth I]Q15370
G [auth H]O95376
F [auth C]Q93034
E [auth N]Q15843
D [auth O]Q15369
C [auth U]P0CG48
B [auth R]Q9UBF6
Q16878