6USJ | pdb_00006usj

Structure of two nucleosomes bridged by human PARP2


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
C [auth A]SCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
G [auth E]SCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
M [auth K]SCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
Q [auth O]SCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
D [auth B]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
H [auth F]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
N [auth L]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
R [auth P]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
E [auth C]SCOP2B SuperfamilyCore histone-like 8039342 3001387 SCOP2B (2022-06-29)
I [auth G]SCOP2B SuperfamilyCore histone-like 8039342 3001387 SCOP2B (2022-06-29)
O [auth M]SCOP2B SuperfamilyCore histone-like 8039342 3001387 SCOP2B (2022-06-29)
S [auth Q]SCOP2B SuperfamilyCore histone-like 8039342 3001387 SCOP2B (2022-06-29)
USCOP2B SuperfamilyWGR domain-like 8074102 3000760 SCOP2B (2022-06-29)
VSCOP2B SuperfamilyWGR domain-like 8074102 3000760 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
C [auth A]Histonee6usjA1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
G [auth E]Histonee6usjE1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
M [auth K]Histonee6usjK1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
Q [auth O]Histonee6usjO1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
D [auth B]Histone_1e6usjB1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
H [auth F]Histone_1e6usjF1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
N [auth L]Histone_1e6usjL1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
R [auth P]Histone_1e6usjP1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
E [auth C]Histone_1e6usjC1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
I [auth G]Histone_1e6usjG1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
O [auth M]Histone_1e6usjM1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
S [auth Q]Histone_1e6usjQ1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
F [auth D]Histonee6usjD1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
J [auth H]Histonee6usjH1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
P [auth N]Histonee6usjN1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
T [auth R]Histonee6usjR1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
UWGRe6usjU1 A: a+b two layersX: WGR domain (From Topology)H: WGR domain (From Topology)T: WGR domainF: WGRECOD (1.6)
VWGRe6usjV1 A: a+b two layersX: WGR domain (From Topology)H: WGR domain (From Topology)T: WGR domainF: WGRECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth B],
H [auth F],
N [auth L],
R [auth P]
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
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
U, V
PF05406WGR domain (WGR)WGR domainThis domain is found in a variety of polyA polymerases as well as the E. coli molybdate metabolism regulator Swiss:P33345 and other proteins of unknown function. I have called this domain WGR after the most conserved central motif of the domain. The ...This domain is found in a variety of polyA polymerases as well as the E. coli molybdate metabolism regulator Swiss:P33345 and other proteins of unknown function. I have called this domain WGR after the most conserved central motif of the domain. The domain is found in isolation in proteins such as Swiss:Q9JN21 and is between 70 and 80 residues in length. I propose that this may be a nucleic acid binding domain.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth I],
K [auth S]
Widom 601 DNA (160-MER)---
B [auth J],
L [auth T]
Widom 601 DNA (160-MER)---
C [auth A],
G [auth E],
M [auth K],
Q [auth O]
Histone H3.1
D [auth B],
H [auth F],
N [auth L],
R [auth P]
Histone H4
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
Histone H2A
F [auth D],
J [auth H],
P [auth N],
T [auth R]
Histone H2B type 1-J
U, V
Poly [ADP-ribose] polymerase 2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C [auth A],
G [auth E],
M [auth K],
Q [auth O]
IPR009072Histone-foldHomologous Superfamily
C [auth A],
G [auth E],
M [auth K],
Q [auth O]
IPR007125Core Histone H2A/H2B/H3 domainDomain
C [auth A],
G [auth E],
M [auth K],
Q [auth O]
IPR000164Histone H3/CENP-AFamily
D [auth B],
H [auth F],
N [auth L],
R [auth P]
IPR009072Histone-foldHomologous Superfamily
D [auth B],
H [auth F],
N [auth L],
R [auth P]
IPR035425CENP-T/Histone H4, histone foldDomain
D [auth B],
H [auth F],
N [auth L],
R [auth P]
IPR001951Histone H4Family
D [auth B],
H [auth F],
N [auth L],
R [auth P]
IPR019809Histone H4, conserved siteConserved Site
D [auth B],
H [auth F],
N [auth L],
R [auth P]
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
IPR009072Histone-foldHomologous Superfamily
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
IPR002119Histone H2AFamily
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
IPR007125Core Histone H2A/H2B/H3 domainDomain
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
IPR032454Histone H2A, C-terminal domainDomain
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
IPR032458Histone H2A conserved siteConserved Site
F [auth D],
J [auth H],
P [auth N],
T [auth R]
IPR009072Histone-foldHomologous Superfamily
F [auth D],
J [auth H],
P [auth N],
T [auth R]
IPR000558Histone H2BFamily
F [auth D],
J [auth H],
P [auth N],
T [auth R]
IPR007125Core Histone H2A/H2B/H3 domainDomain
F [auth D],
J [auth H],
P [auth N],
T [auth R]
IPR055333Histone H2B, conserved siteConserved Site
U, V
IPR012317Poly(ADP-ribose) polymerase, catalytic domainDomain
U, V
IPR050800ADP-ribosyltransferase diphtheria toxin-likeFamily
U, V
IPR036616Poly(ADP-ribose) polymerase, regulatory domain superfamilyHomologous Superfamily
U, V
IPR036930WGR domain superfamilyHomologous Superfamily
U, V
IPR004102Poly(ADP-ribose) polymerase, regulatory domainDomain
U, V
IPR008893WGR domainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
C [auth A],
G [auth E],
M [auth K],
Q [auth O]
PharosP68431
D [auth B],
H [auth F],
N [auth L],
R [auth P]
PharosP62805
E [auth C],
I [auth G],
O [auth M],
S [auth Q]
PharosP04908
F [auth D],
J [auth H],
P [auth N],
T [auth R]
PharosP06899
U, V
PharosQ9UGN5