Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
OSCOP2B SuperfamilyUbiquitin-like 8043829 3000157 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
LSCOP2B SuperfamilySUS1/ENY2-like 8052552 3002127 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AHistonee6t9lA1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
EHistonee6t9lE1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
MSgf11_1e6t9lM1 A: few secondary structure elementsX: beta-beta-alpha zinc fingersH: beta-beta-alpha zinc fingers (From Topology)T: beta-beta-alpha zinc fingersF: Sgf11_1ECOD (1.6)
NKOG4140e6t9lN1 A: few secondary structure elementsX: beta-beta-alpha zinc fingersH: beta-beta-alpha zinc fingers (From Topology)T: beta-beta-alpha zinc fingersF: KOG4140ECOD (1.6)
Oubiquitin_1e6t9lO1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Ubiquitin-likeF: ubiquitin_1ECOD (1.6)
BHistone_1e6t9lB1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
FHistone_1e6t9lF1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
CHistone_1e6t9lC1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
GHistone_1e6t9lG1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
DHistonee6t9lD1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
HHistonee6t9lH1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
KUCHe6t9lK2 A: a+b complex topologyX: Cysteine proteinases-likeH: Cysteine proteinases (From Topology)T: Cysteine proteinasesF: UCHECOD (1.6)
Kzf-UBPe6t9lK1 A: few secondary structure elementsX: RING/U-box-likeH: RING/U-box-likeT: RING/U-boxF: zf-UBPECOD (1.6)
LEnY2e6t9lL1 A: alpha duplicates or obligate multimersX: YheA/YmcA-likeH: Protein SUS1 (From Topology)T: Protein SUS1F: EnY2ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF18519SAGA-associated factor 11 N-terminal domain (Sgf11_N)SAGA-associated factor 11 N-terminal domainThe SAGA (Spt-Ada-Gcn5-Acetyltransferase) transcriptional co-activator is a protein complex that regulates inducible yeast genes by performing multiple functions including acetylating core histones, recruiting the RNA polymerase II preinitiation comp ...The SAGA (Spt-Ada-Gcn5-Acetyltransferase) transcriptional co-activator is a protein complex that regulates inducible yeast genes by performing multiple functions including acetylating core histones, recruiting the RNA polymerase II preinitiation complex, and deubiquitinating histone H2B. The deubiquitinating activity of SAGA resides in a distinct sub-complex called the deubiquitinating module (DUBm), which consists of four proteins that are conserved across eukaryotes: Ubp8, Sgf11, Sus1 and Sgf73. The DUBm proteins are organized into two lobes around the globular domains of Ubp8 [1]. In SAGA, Sus1 binds to Sgf11 by wrapping around this N-terminal domain of Sgf11, forming a stable dimer [2-4].
Domain
PF08209Sgf11 (transcriptional regulation protein) (Sgf11)Sgf11 (transcriptional regulation protein)- Family
PF18508Zinc finger domain (zf_C2H2_13)Zinc finger domainThe SAGA (Spt-Ada-Gcn5-acetyltransferase) complex performs multiple functions in transcription activation including deubiquitinating histone H2B, which is mediated by a subcomplex called the deubiquitinating module (DUBm). The yeast DUBm comprises a ...The SAGA (Spt-Ada-Gcn5-acetyltransferase) complex performs multiple functions in transcription activation including deubiquitinating histone H2B, which is mediated by a subcomplex called the deubiquitinating module (DUBm). The yeast DUBm comprises a catalytic subunit, Ubp8, and three additional subunits, Sgf11, Sus1 and Sgf73, all of which are required for DUBm activity. A portion of the non-globular Sgf73 subunit lies between the Ubp8 catalytic domain and the zinc finger (ZnF)-UBP domain and has been proposed to contribute to deubiquitinating activity by maintaining the catalytic domain in an active conformation. Sgf73 contributes to maintaining both the organization and ubiquitin-binding conformation of Ubp8, thereby contributing to overall DUBm activity. This domain is a Sgf73 fragment in the DUB module. It is a zinc finger (ZnF) domain whose integrity is essential for the incorporation of this subunit into DUBm as well as for the catalytic activity of Ubp8, as either a short deletion or point mutations in Sgf73 zinc-coordinating residues disrupt the association of Sgf73 with the rest of the DUBm [1 -4].
Domain
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, F
PF15511Centromere kinetochore component CENP-T histone fold (CENP-T_C)Centromere kinetochore component CENP-T histone foldCENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly asso ...CENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly associate with CENP-A, but with histone H3 in the centromere region. CENP-T and -W form a hetero-tetramer with CENP-S and -X and bind to a ~100 bp region of nucleosome-free DNA forming a nucleosome-like structure. The DNA-CENP-T-W-S-X complex is likely to be associated with histone H3-containing nucleosomes rather than with CENP-nucleosomes. This domain is the C-terminal histone fold domain of CENP-T, which associates with chromatin [2-3].
Domain
C, G
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
PF02148Zn-finger in ubiquitin-hydrolases and other protein (zf-UBP)Zn-finger in ubiquitin-hydrolases and other protein- Domain
PF00443Ubiquitin carboxyl-terminal hydrolase (UCH)Ubiquitin carboxyl-terminal hydrolase- Family
PF10163Transcription factor e(y)2 (EnY2)Transcription factor e(y)2- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, E
Histone H3.2 -
SAGA-associated factor 11
SAGA-associated factor 73
Polyubiquitin-C
B, F
Histone H4
C, G
Histone H2A -
Histone H2B 1.1 -
Histone H2B -
Widom601 DNA (145-MER)---
Widom601 DNA (145-MER)---
Ubiquitin carboxyl-terminal hydrolase 8
Transcription and mRNA export factor SUS1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, E
IPR009072Histone-foldHomologous Superfamily
A, E
IPR007125Histone H2A/H2B/H3Domain
A, E
IPR000164Histone H3/CENP-AFamily
IPR041216Yeast SAGA-associated factor 11, N-terminal domainDomain
IPR013246SAGA complex, Sgf11 subunitFamily
IPR037804SAGA-associated factor 73Family
IPR013243SCA7 domainDomain
IPR041251SAGA-associated factor 73, zinc finger domainDomain
IPR019954Ubiquitin conserved siteConserved Site
IPR000626Ubiquitin-like domainDomain
IPR019956Ubiquitin domainDomain
IPR050158Ubiquitin and ubiquitin-likeFamily
IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
B, F
IPR009072Histone-foldHomologous Superfamily
B, F
IPR001951Histone H4Family
B, F
IPR035425CENP-T/Histone H4, histone foldDomain
B, F
IPR019809Histone H4, conserved siteConserved Site
B, F
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
C, G
IPR009072Histone-foldHomologous Superfamily
C, G
IPR007125Histone H2A/H2B/H3Domain
C, G
IPR002119Histone H2AFamily
C, G
IPR032454Histone H2A, C-terminal domainDomain
C, G
IPR032458Histone H2A conserved siteConserved Site
IPR009072Histone-foldHomologous Superfamily
IPR007125Histone H2A/H2B/H3Domain
IPR000558Histone H2BFamily
IPR009072Histone-foldHomologous Superfamily
IPR007125Histone H2A/H2B/H3Domain
IPR000558Histone H2BFamily
IPR028889Ubiquitin specific protease domainDomain
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR001607Zinc finger, UBP-typeDomain
IPR018200Ubiquitin specific protease, conserved siteConserved Site
IPR001394Peptidase C19, ubiquitin carboxyl-terminal hydrolaseDomain
IPR038765Papain-like cysteine peptidase superfamilyHomologous Superfamily
IPR050185Ubiquitin carboxyl-terminal hydrolaseFamily
IPR018783Transcription factor, enhancer of yellow 2Family
IPR038212Transcription factor EnY2 superfamilyHomologous Superfamily