9TAY | pdb_00009tay

Structure of the human inner kinetochore CCAN bound to a di-CENP-A nucleosome


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
E [auth M]SCOP2B SuperfamilyRas-like P-loop GTPases 8092489 3002022 SCOP2B (2022-06-29)
N [auth S]SCOP2B SuperfamilyCore histone-like 8058042 3001387 SCOP2B (2022-06-29)
O [auth X]SCOP2B SuperfamilyCore histone-like 8053222 3001387 SCOP2B (2022-06-29)
T [auth E]SCOP2B SuperfamilyCore histone-like 8070539 3001387 SCOP2B (2022-06-29)
P [auth A]SCOP2B SuperfamilyCore histone-like 8070539 3001387 SCOP2B (2022-06-29)
FA [auth g]SCOP2B SuperfamilyCore histone-like 8070539 3001387 SCOP2B (2022-06-29)
BA [auth c]SCOP2B SuperfamilyCore histone-like 8070539 3001387 SCOP2B (2022-06-29)
U [auth F]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
Q [auth B]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
GA [auth h]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
CA [auth d]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
V [auth G]SCOP2B SuperfamilyCore histone-like 8067138 3001387 SCOP2B (2022-06-29)
R [auth C]SCOP2B SuperfamilyCore histone-like 8067138 3001387 SCOP2B (2022-06-29)
HA [auth i]SCOP2B SuperfamilyCore histone-like 8067138 3001387 SCOP2B (2022-06-29)
DA [auth e]SCOP2B SuperfamilyCore histone-like 8067138 3001387 SCOP2B (2022-06-29)
W [auth J]SCOP2B SuperfamilyCore histone-like 8066267 3001387 SCOP2B (2022-06-29)
S [auth D]SCOP2B SuperfamilyCore histone-like 8066267 3001387 SCOP2B (2022-06-29)
IA [auth j]SCOP2B SuperfamilyCore histone-like 8066267 3001387 SCOP2B (2022-06-29)
EA [auth f]SCOP2B SuperfamilyCore histone-like 8066267 3001387 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth H]PF05837Centromere protein H (CENP-H) (CENP-H)Centromere protein H (CENP-H)This family consists of several eukaryotic centromere protein H (CENP-H) sequences. Macromolecular centromere-kinetochore complex plays a critical role in sister chromatid separation, but its complete protein composition as well as its precise dynami ...This family consists of several eukaryotic centromere protein H (CENP-H) sequences. Macromolecular centromere-kinetochore complex plays a critical role in sister chromatid separation, but its complete protein composition as well as its precise dynamic function during mitosis has not yet been clearly determined. CENP-H contains a coiled-coil structure and a nuclear localisation signal. CENP-H is specifically and constitutively localised in kinetochores throughout the cell cycle. CENP-H may play a role in kinetochore organisation and function throughout the cell cycle [1]. This the C-terminus of the region, which is conserved from fungi to humans.
Domain
A [auth H]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
B [auth I]PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
D [auth L]PF13092Centromere protein L (CENP-L)Centromere protein L- Family
F [auth N]PF05238Centromere protein Chl4/mis15/CENP-N (CENP-N)Centromere protein Chl4/mis15/CENP-N- Family
G [auth O]PF09496Cenp-O kinetochore centromere component (CENP-O)Cenp-O kinetochore centromere component- Family
H [auth Q]PF13094CENP-Q, a CENPA-CAD centromere complex subunit (CENP-Q)CENP-Q, a CENPA-CAD centromere complex subunit- Family
J [auth P]PF13096CENP-A-nucleosome distal (CAD) centromere subunit, CENP-P (CENP-P)CENP-A-nucleosome distal (CAD) centromere subunit, CENP-P- Family
L [auth T]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
M [auth W]PF15510CENP-W protein (CENP-W)CENP-W proteinCENP-W is a family of vertebral kinetochore proteins that associates directly with CENP-T. CENP-W members are histone-fold proteins. The histone fold region is critical for binding to centromeric DNA. Importantly, the CENP-T-W complex does not direct ...CENP-W is a family of vertebral kinetochore proteins that associates directly with CENP-T. CENP-W members are histone-fold proteins. The histone fold region is critical for binding to centromeric DNA. 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.
Domain
N [auth S]PF15630CENP-S protein (CENP-S)CENP-S proteinCENP-S is a family of vertebral and fungal kinetochore component proteins. CENP-S complexes with CENP-X to form a stable CENP-T-W-S-X heterotetramer. Domain
O [auth X]PF09415CENP-S associating Centromere protein X (CENP-X)CENP-S associating Centromere protein XThe centromere, essential for faithful chromosome segregation during mitosis, has a network of constitutive centromere-associated (CCAN) proteins associating with it during mitosis. So far in vertebrates at least 15 centromere proteins have been iden ...The centromere, essential for faithful chromosome segregation during mitosis, has a network of constitutive centromere-associated (CCAN) proteins associating with it during mitosis. So far in vertebrates at least 15 centromere proteins have been identified, which are divided into several subclasses based on functional and biochemical analyses. These provide a platform for the formation of a functional kinetochore during mitosis. CENP-S is one that does not associate with the CENP-H-containing complex but rather interacts with CENP-X to form a stable assembly of outer kinetochore proteins that functions downstream of other components of the CCAN. This complex may directly allow efficient and stable formation of the outer kinetochore on the CCAN platform.
Domain
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
PF00125Core histone H2A/H2B/H3/H4 domain (Histone)Core histone H2A/H2B/H3/H4 domainDomain
CA [auth d],
GA [auth h],
Q [auth B],
U [auth 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
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
PF00125Core histone H2A/H2B/H3/H4 domain (Histone)Core histone H2A/H2B/H3/H4 domainDomain
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth H]Centromere protein H
B [auth I]Centromere protein I-
C [auth K]Centromere protein K-
D [auth L]Centromere protein L-
E [auth M]Centromere protein M-
F [auth N]Centromere protein N-
G [auth O]Centromere protein O-
H [auth Q]Centromere protein Q-
I [auth U]Centromere protein U-
J [auth P]Centromere protein P-
K [auth R]Centromere protein R-
L [auth T]Methylated-DNA--protein-cysteine methyltransferase,Centromere protein T
M [auth W]Centromere protein W
N [auth S]Centromere protein S
O [auth X]Centromere protein X
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
Histone H3-like centromeric protein A
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
Histone H4
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
Histone H2A type 1-C
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
Histone H2B type 1-C/E/F/G/I
X [auth V]DNA (318-MER)---
DNA (318-MER)---
AA [auth a],
JA [auth m],
KA [auth n],
Z
scFv---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth H]IPR040034Centromere protein HFamily
A [auth H]IPR008426Centromere protein H, C-terminalDomain
B [auth I]IPR012485Centromere protein IFamily
C [auth K]IPR020993Centromere protein Cenp-KFamily
D [auth L]IPR025204Centromere subunit LFamily
E [auth M]IPR020987Centromere protein Cenp-MFamily
E [auth M]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
F [auth N]IPR052011Centromere-associated NAC/CAD complex proteinFamily
F [auth N]IPR007902Centromere protein Chl4/mis15/CENP-NFamily
G [auth O]IPR018464Centromere protein OFamily
H [auth Q]IPR025212Centromere protein QFamily
I [auth U]IPR025214Centromere protein UFamily
J [auth P]IPR027801Centromere protein PFamily
K [auth R]IPR009601Centromere protein RFamily
L [auth T]IPR008332Methylguanine DNA methyltransferase, ribonuclease-like domainDomain
L [auth T]IPR036217Methylated DNA-protein cysteine methyltransferase, DNA binding domainHomologous Superfamily
L [auth T]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
L [auth T]IPR036631Methylated DNA-protein cysteine methyltransferase domain superfamilyHomologous Superfamily
L [auth T]IPR014048Methylated-DNA-[protein]-cysteine S-methyltransferase, DNA bindingDomain
L [auth T]IPR001497Methylated-DNA-[protein]-cysteine S-methyltransferase, active siteActive Site
L [auth T]IPR009072Histone-foldHomologous Superfamily
L [auth T]IPR032373Centromere kinetochore component CENP-T, N-terminal domainDomain
L [auth T]IPR028255Centromere protein TFamily
L [auth T]IPR035425CENP-T/Histone H4, histone foldDomain
M [auth W]IPR028847Centromere protein WFamily
M [auth W]IPR009072Histone-foldHomologous Superfamily
M [auth W]IPR052484Centromere Protein W/WIP1Family
N [auth S]IPR009072Histone-foldHomologous Superfamily
N [auth S]IPR029003CENP-S/Mhf1Family
O [auth X]IPR018552Centromere protein XFamily
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
IPR009072Histone-foldHomologous Superfamily
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
IPR007125Core Histone H2A/H2B/H3 domainDomain
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
IPR000164Histone H3/CENP-AFamily
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
IPR009072Histone-foldHomologous Superfamily
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
IPR035425CENP-T/Histone H4, histone foldDomain
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
IPR001951Histone H4Family
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
IPR019809Histone H4, conserved siteConserved Site
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
IPR009072Histone-foldHomologous Superfamily
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
IPR002119Histone H2AFamily
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
IPR007125Core Histone H2A/H2B/H3 domainDomain
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
IPR032454Histone H2A, C-terminal domainDomain
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
IPR032458Histone H2A conserved siteConserved Site
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
IPR009072Histone-foldHomologous Superfamily
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
IPR000558Histone H2BFamily
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
IPR007125Core Histone H2A/H2B/H3 domainDomain
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
IPR055333Histone H2B, conserved siteConserved Site

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A [auth H]Q9H3R5
B [auth I]Q92674
C [auth K]Q9BS16
D [auth L]Q8N0S6
E [auth M]Q9NSP4
F [auth N]Q96H22
G [auth O]Q9BU64
H [auth Q]Q7L2Z9
I [auth U]Q71F23
J [auth P]Q6IPU0
K [auth R]Q13352
L [auth T]Q96BT3
M [auth W]Q5EE01
N [auth S]Q8N2Z9
O [auth X]A8MT69
BA [auth c],
FA [auth g],
P [auth A],
T [auth E]
P49450
CA [auth d],
GA [auth h],
Q [auth B],
U [auth F]
P62805
DA [auth e],
HA [auth i],
R [auth C],
V [auth G]
Q93077
EA [auth f],
IA [auth j],
S [auth D],
W [auth J]
P62807