9LWJ | pdb_00009lwj

The head-arm region of HBx-Smc5/6 ubiquitination complex


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
HSCOP2B SuperfamilyRING/U-box like 8040866 3000160 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyWinged helix DNA-binding domain 8017641 3000034 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyWinged helix DNA-binding domain 8017644 3000034 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyCullin repeat-like 8017647 3000059 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyWinged helix DNA-binding domain 8053072 3000034 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyWinged helix DNA-binding domain 8053071 3000034 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyWD40 repeat-like 8052530 3001694 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyWD40 repeat-like 8051194 3001694 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyWD40 repeat-like 8052531 3001694 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyWD40 repeat-like 8052530 3001694 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF13476AAA domain (AAA_23)AAA domainDomain
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
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
PF00888Cullin alpha solenoid domain (Cullin)Cullin alpha solenoid domain- Repeat
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
PF07574Nse1 non-SMC component of SMC5-6 complex (SMC_Nse1)Nse1 non-SMC component of SMC5-6 complex- Family
PF08746RING-like domain (zf-RING-like)RING-like domainThis is a zinc finger domain that is related to the C3HC4 RING finger domain (Pfam:PF00097). Domain
PF01454MAGE homology domain (MAGE)MAGE homology domainThe MAGE (melanoma antigen-encoding gene) family are expressed in a wide variety of tumours but not in normal cells, with the exception of the male germ cells, placenta, and, possibly, cells of the developing embryo. The cellular function of this fam ...The MAGE (melanoma antigen-encoding gene) family are expressed in a wide variety of tumours but not in normal cells, with the exception of the male germ cells, placenta, and, possibly, cells of the developing embryo. The cellular function of this family is unknown. This family also contains the yeast protein, Nse3. The Nse3 protein is part of the Smc5-6 complex [2-3]. Nse3 has been demonstrated to be important for meiosis[3].
Domain
PF15412Binding domain of Nse4/EID3 to Nse3-MAGE (Nse4-Nse3_bdg)Binding domain of Nse4/EID3 to Nse3-MAGEThis family includes Nse4 and EID3 members [1], that bind over this region to the Nse3 pocket, in MAGE family Pfam:PF01454 [2]. Domain
PF10433RSE1/DDB1/CPSF1 first beta-propeller (Beta-prop_RSE1_1st)RSE1/DDB1/CPSF1 first beta-propeller- Repeat
PF23726RSE1/DDB1/CPSF1 second beta-propeller (Beta-prop_RSE1_2nd)RSE1/DDB1/CPSF1 second beta-propeller- Repeat
PF03178CPSF A subunit region (CPSF_A)CPSF A subunit region- Repeat
PF02463RecF/RecN/SMC N terminal domain (SMC_N)RecF/RecN/SMC N terminal domainThis domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. Th ...This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics [1]. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Structural maintenance of chromosomes protein 5
E3 ubiquitin-protein ligase RBX1
Cullin-4A
Non-structural maintenance of chromosomes element 1 homolog
Non-structural maintenance of chromosomes element 3 homolog
EP300-interacting inhibitor of differentiation 3-
Protein X-
DNA damage-binding protein 1
E3 SUMO-protein ligase NSE2
Structural maintenance of chromosomes protein 6

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR038729Rad50/SbcC-type AAA domainDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR051031RING-box E3 Ubiquitin LigaseFamily
IPR024766Zinc finger, RING-H2-typeDomain
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR001841Zinc finger, RING-typeDomain
IPR045093CullinFamily
IPR016158Cullin homology domainDomain
IPR016157Cullin, conserved siteConserved Site
IPR059120Cullin-like, alpha+beta domainDomain
IPR001373Cullin, N-terminalDomain
IPR019559Cullin, neddylation domainDomain
IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
IPR036317Cullin homology domain superfamilyHomologous Superfamily
IPR016159Cullin repeat-like-containing domain superfamilyHomologous Superfamily
IPR011513Non-structural maintenance of chromosomes element 1Family
IPR002219Protein kinase C-like, phorbol ester/diacylglycerol-binding domainDomain
IPR014857Non-structural maintenance of chromosomes element 1, RING C4HC3-typeDomain
IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR001841Zinc finger, RING-typeDomain
IPR041899MAGE homology domain, winged helix WH2 motifHomologous Superfamily
IPR002190MAGE homology domainDomain
IPR041898MAGE homology domain, winged helix WH1 motifHomologous Superfamily
IPR037445Melanoma-associated antigenFamily
IPR014854Non-structural maintenance of chromosome element 4, C-terminalDomain
IPR027786Nse4/EID familyFamily
IPR029225Nse4/EID protein, Nse3/MAGE-binding domainDomain
IPR000236Transactivation protein XFamily
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
IPR058543RSE1/DDB1/CPSF1, second beta-propellerDomain
IPR004871RSE1/DDB1/CPSF1, C-terminalDomain
IPR050358RSE1/DDB1/CPSF1Family
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
IPR018846RSE1/DDB1/CPSF1, first beta-propellerDomain
IPR004181Zinc finger, MIZ-typeDomain
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR026846E3 SUMO-protein ligase Nse2 (Mms21)Family
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR003395RecF/RecN/SMC, N-terminalDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
Q8IY18
P62877
Q13619
Q8WV22
Q96MG7
Q8N140
Q16531
Q96MF7
Q96SB8