7Y8R | pdb_00007y8r

The nucleosome-bound human PBAF complex


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
N [auth M]SCOP2B SuperfamilyPFU(mutate) domain-like 8055786 3002311 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyCore histone-like 8066267 3001387 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyCore histone-like 8066267 3001387 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCore histone-like 8067138 3001387 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyCore histone-like 8067138 3001387 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
U [auth S]SCOP2B SuperfamilyBromodomain 8084283 3001843 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
L [auth K]Actin_1ste7y8rK2 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: Actin_1stECOD (1.6)
L [auth K]Actin_2nde7y8rK1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: Actin_2ndECOD (1.6)
K [auth J]Actin_1ste7y8rJ2 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: Actin_1stECOD (1.6)
K [auth J]Actin_2nde7y8rJ1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: Actin_2ndECOD (1.6)
HHistonee7y8rH1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
DHistonee7y8rD1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
CHistone_1e7y8rC1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
GHistone_1e7y8rG1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
BHistone_1e7y8rB1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
FHistone_1e7y8rF1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
AHistonee7y8rA1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
EHistonee7y8rE1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth I]PF14619Snf2-ATP coupling, chromatin remodelling complex (SnAC)Snf2-ATP coupling, chromatin remodelling complexThis domain appears to play a crucial role in chromatin remodelling for yeast SWI/SNF. It binds histones. It is required for mobilising nucleosomes and lies within the catalytic subunit of the yeast SWI/SNF. It is found to be universally conserved [1 ...This domain appears to play a crucial role in chromatin remodelling for yeast SWI/SNF. It binds histones. It is required for mobilising nucleosomes and lies within the catalytic subunit of the yeast SWI/SNF. It is found to be universally conserved [1].
Domain
J [auth I]PF00271Helicase conserved C-terminal domain (Helicase_C)Helicase conserved C-terminal domainThe Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. Domain
J [auth I]PF00176SNF2-related domain (SNF2-rel_dom)SNF2-related domainThis domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as w ...This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1)[1,2,3]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors.
Domain
J [auth I]PF07529HSA domain (HSA)HSA domain- Family
N [auth M]PF04855SNF5 / SMARCB1 / INI1 (SNF5)SNF5 / SMARCB1 / INI1- Family
N [auth M]PF21459SWI/SNF Subunit INI1, DNA binding domain (INI1_DNA-bd)SWI/SNF Subunit INI1, DNA binding domainSWI/SNF complexes use the energy of ATP hydrolysis to remodel chromatin. In mammals they play a central role in regulating gene expression during differentiation and proliferation [2]. The INI1/hSNF5/SMARCB1 subunit contains and N-terminal winged hel ...SWI/SNF complexes use the energy of ATP hydrolysis to remodel chromatin. In mammals they play a central role in regulating gene expression during differentiation and proliferation [2]. The INI1/hSNF5/SMARCB1 subunit contains and N-terminal winged helix DNA binding domain [2].
Domain
O [auth N],
Q [auth O]
PF00249Myb-like DNA-binding domain (Myb_DNA-binding)Myb-like DNA-binding domainThis family contains the DNA binding domains from Myb proteins, as well as the SANT domain family [1]. Domain
O [auth N],
Q [auth O]
PF16495SWIRM-associated region 1 (SWIRM-assoc_1)SWIRM-associated region 1- Family
O [auth N],
Q [auth O]
PF04433SWIRM domain (SWIRM)SWIRM domainThis SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in chromosomal proteins. It contains a helix-turn helix motif and binds to DNA [1]. Domain
O [auth N],
Q [auth O]
PF16498SWIRM-associated domain at the C-terminal (SWIRM-assoc_3)SWIRM-associated domain at the C-terminal- Family
M [auth L]PF01388ARID/BRIGHT DNA binding domain (ARID)ARID/BRIGHT DNA binding domainThis domain is know as ARID for AT-Rich Interaction Domain [1], and also known as the BRIGHT domain [3]. Domain
K [auth J]PF00022Actin (Actin)Actin- Family
C, G
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
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
U [auth S]PF00439Bromodomain (Bromodomain)BromodomainBromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine [3]. Domain
R [auth P]PF02201SWIB/MDM2 domain (SWIB)SWIB/MDM2 domainThis family includes the SWIB domain and the MDM2 domain [1]. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. Thi ...This family includes the SWIB domain and the MDM2 domain [1]. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2 [2].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
J [auth I]Transcription activator BRG1
N [auth M]SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1
O [auth N],
Q [auth O]
SWI/SNF complex subunit SMARCC2
W [auth U]Protein polybromo-1
X [auth V]Unknown---
M [auth L]AT-rich interactive domain-containing protein 2
L [auth K]Actin-like protein 6A
K [auth J]ACTB protein (Fragment)
I [auth Z]Unknown---
D, H
Histone H2B
C, G
Histone H2A type 1-C
AA [auth W]Unknown---
Z [auth Y]DNA (213-MER)---
Y [auth X]DNA (213-MER)---
B, F
Histone H4
V [auth T]Unkown---
U [auth S]Bromodomain-containing protein 7
T [auth R]PHD finger protein 10
S [auth Q]SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1
R [auth P]SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1
P [auth a]Unknown---
A, E
Histone H3

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth I]IPR030100SWI/SNF complex subunit BRG1, ATP-bindingDomain
J [auth I]IPR018359Bromodomain, conserved siteConserved Site
J [auth I]IPR049730SNF2/RAD5-like, C-terminal helicase domainDomain
J [auth I]IPR014978Glutamine-Leucine-Glutamine, QLQDomain
J [auth I]IPR006576BRK domainDomain
J [auth I]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
J [auth I]IPR037259BRK domain superfamilyHomologous Superfamily
J [auth I]IPR001650Helicase, C-terminal domain-likeDomain
J [auth I]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
J [auth I]IPR036427Bromodomain-like superfamilyHomologous Superfamily
J [auth I]IPR029295Snf2, ATP coupling domainDomain
J [auth I]IPR000330SNF2, N-terminalDomain
J [auth I]IPR001487BromodomainDomain
J [auth I]IPR038718SNF2-like, N-terminal domain superfamilyHomologous Superfamily
J [auth I]IPR014012Helicase/SANT-associated domainDomain
N [auth M]IPR048664SWI/SNF Subunit INI1, DNA binding domainDomain
N [auth M]IPR017393Chromatin-remodeling complex component Sfh1/SNF5Family
N [auth M]IPR006939SNF5/SMARCB1/INI1Family
O [auth N],
Q [auth O]
IPR049898MarR-like, BRCT and chromo domains moduleDomain
O [auth N],
Q [auth O]
IPR032451SMARCC, C-terminalDomain
O [auth N],
Q [auth O]
IPR036420BRCT domain superfamilyHomologous Superfamily
O [auth N],
Q [auth O]
IPR009057Homedomain-like superfamilyHomologous Superfamily
O [auth N],
Q [auth O]
IPR000953Chromo/chromo shadow domainDomain
O [auth N],
Q [auth O]
IPR032450SMARCC, N-terminalDomain
O [auth N],
Q [auth O]
IPR032448SMARCC, SWIRM-associated domainDomain
O [auth N],
Q [auth O]
IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
O [auth N],
Q [auth O]
IPR017884SANT domainDomain
O [auth N],
Q [auth O]
IPR001005SANT/Myb domainDomain
O [auth N],
Q [auth O]
IPR007526SWIRM domainDomain
W [auth U]IPR037968Protein polybromo-1, Bromodomain 5Domain
W [auth U]IPR018359Bromodomain, conserved siteConserved Site
W [auth U]IPR001487BromodomainDomain
W [auth U]IPR001025Bromo adjacent homology (BAH) domainDomain
W [auth U]IPR043151Bromo adjacent homology (BAH) domain superfamilyHomologous Superfamily
W [auth U]IPR036427Bromodomain-like superfamilyHomologous Superfamily
W [auth U]IPR037382Remodelling complex subunit Rsc/polybromoFamily
W [auth U]IPR009071High mobility group box domainDomain
W [auth U]IPR036910High mobility group box domain superfamilyHomologous Superfamily
M [auth L]IPR016024Armadillo-type foldHomologous Superfamily
M [auth L]IPR013087Zinc finger C2H2-typeDomain
M [auth L]IPR001606ARID DNA-binding domainDomain
M [auth L]IPR052406Chromatin Remodeling Complex ComponentFamily
M [auth L]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
M [auth L]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
M [auth L]IPR003150DNA-binding RFX-type winged-helix domainDomain
M [auth L]IPR036431ARID DNA-binding domain superfamilyHomologous Superfamily
L [auth K]IPR004001Actin, conserved siteConserved Site
L [auth K]IPR043129ATPase, nucleotide binding domainHomologous Superfamily
L [auth K]IPR004000Actin familyFamily
K [auth J]IPR020902Actin/actin-like conserved siteConserved Site
K [auth J]IPR004001Actin, conserved siteConserved Site
K [auth J]IPR043129ATPase, nucleotide binding domainHomologous Superfamily
K [auth J]IPR004000Actin familyFamily
D, H
IPR009072Histone-foldHomologous Superfamily
D, H
IPR000558Histone H2BFamily
D, H
IPR007125Core Histone H2A/H2B/H3 domainDomain
D, H
IPR055333Histone H2B, conserved siteConserved Site
C, G
IPR009072Histone-foldHomologous Superfamily
C, G
IPR002119Histone H2AFamily
C, G
IPR007125Core Histone H2A/H2B/H3 domainDomain
C, G
IPR032454Histone H2A, C-terminal domainDomain
C, G
IPR032458Histone H2A conserved siteConserved Site
B, F
IPR009072Histone-foldHomologous Superfamily
B, F
IPR035425CENP-T/Histone H4, histone foldDomain
B, F
IPR001951Histone H4Family
B, F
IPR019809Histone H4, conserved siteConserved Site
B, F
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
U [auth S]IPR021900Protein of unknown function DUF3512Family
U [auth S]IPR001487BromodomainDomain
U [auth S]IPR051831Bromodomain-containingFamily
U [auth S]IPR036427Bromodomain-like superfamilyHomologous Superfamily
T [auth R]IPR001965Zinc finger, PHD-typeDomain
T [auth R]IPR019787Zinc finger, PHD-fingerDomain
T [auth R]IPR011011Zinc finger, FYVE/PHD-typeHomologous Superfamily
T [auth R]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
T [auth R]IPR038045PHD finger protein 10, PHD finger 1Domain
S [auth Q]IPR009071High mobility group box domainDomain
S [auth Q]IPR036910High mobility group box domain superfamilyHomologous Superfamily
R [auth P]IPR003121SWIB/MDM2 domainDomain
R [auth P]IPR038041SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D 1, SWIB domainDomain
R [auth P]IPR036885SWIB/MDM2 domain superfamilyHomologous Superfamily
R [auth P]IPR019835SWIB domainDomain
A, E
IPR009072Histone-foldHomologous Superfamily
A, E
IPR007125Core Histone H2A/H2B/H3 domainDomain
A, E
IPR000164Histone H3/CENP-AFamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
J [auth I]PharosP51532
N [auth M]PharosQ12824
O [auth N],
Q [auth O]
PharosQ8TAQ2
W [auth U]PharosQ86U86
M [auth L]PharosQ68CP9
L [auth K]PharosO96019
K [auth J]PharosP60709
D, H
PharosP62807
C, G
PharosQ93077
B, F
PharosP62805
U [auth S]PharosQ9NPI1
T [auth R]PharosQ8WUB8
S [auth Q]PharosQ969G3
R [auth P]PharosQ96GM5
A, E
PharosP68431