General information
PDB ID 6V92
Title RSC-NCP
PDB header GENE REGULATION/DNA
Date 2019-12-13
Experimental method ELECTRON MICROSCOPY
Resolution (A) 20
Kind dna
Organism SYNTHETIC CONSTRUCT, HOMO SAPIENS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb6v92.pdb ARBPCDEFGHIJKLMNOQS234567abcdefgh ij 0
Biounits:
6v92.pdb1.pdb ARBPCDEFGHIJKLMNOQS234567abcdefgh ij 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Histone Domain P68431_39-132 1e-46 1 CL0012 a 38 131 ij  H-Bb H-Mj S-Bb L-Bb L-Mn 
CENP-T_C Domain P62805_26-99 4.2e-08 1 CL0012 b 26 98 ij  H-Bb S-Bb L-Bb 
Histone Domain P04908_16-91 2.4e-16 1 CL0012 c 11 90 ij  H-Bb S-Bb L-Bb 
Histone Domain O60814_32-102 4.8e-22 1 CL0012 d 27 98 ij  H-Bb H-Mj S-Bb L-Bb 
Histone Domain P68431_39-132 4.9e-47 1 CL0012 e 37 131 ij   
CENP-T_C Domain P62805_19-99 5.2e-08 1 CL0012 f 24 98 ij  H-Bb H-Mj S-Bb L-Bb 
Histone Domain P04908_16-91 4.8e-16 1 CL0012 g 15 90 ij  H-Bb S-Bb L-Bb 
Histone Domain O60814_32-102 1.1e-21 1 CL0012 h 28 98 ij   
SWIRM Domain P43609_83-168 2.9e-29 1 CL0123 I 83 168   
ZZ Domain P43609_254-298 8.2e-18 1 CL0006 I 254 298   
Myb_DNA-binding Domain P43609_312-358 1.2e-09 1 CL0123 I 312 358   
SWIRM Domain P43609_83-168 3e-29 1 CL0123 L 83 168   
ZZ Domain P43609_254-298 8.4e-18 1 CL0006 L 254 298   
Myb_DNA-binding Domain P43609_312-358 1.3e-09 1 CL0123 L 312 358   
SWIB Domain P25632_89-171 4.2e-06 1 No_clan M 230 343   
Bromodomain Domain Q07979_29-122 3.3e-08 1 No_clan O 26 122   
HSA Domain P32597_314-382 1.7e-10 1 CL0023 R 309 384   
Actin Family Q12406_2-466 7.5e-55 1 CL0108 A 2 464 ij   
Actin Family Q05123_18-375 3.8e-14 1 CL0108 B 18 288 ij   
Histone_H2A_C Family P04908_92-119 2.5e-17 1 No_clan c 91 118   
Rsc14 Family P38210_7-106 2e-19 1 No_clan D 35 106 ij   
Rsc14 Family O60814_3-35 6.5e-08 1 No_clan D 7 61 ij   
Histone_H2A_C Family P04908_92-119 2.3e-17 1 No_clan g 91 118   
SWIRM-assoc_1 Family P43609_406-486 2.7e-09 1 No_clan J 406 487   
SWIRM-assoc_1 Family P43609_420-487 6.3e-08 1 No_clan K 398 487   
Rtt102p Family P53330_5-90 3.8e-06 1 No_clan P 33 90   
SNF5 Family Q06168_271-383 5.4e-19 1 No_clan Q 270 385   
SNF5 Family Q06168_198-278 6.5e-19 1 No_clan Q 196 278   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
a/e=1-136 C extracellular exosome
a/e=1-136 C extracellular region
a/e=1-136 C membrane
a/e=1-136 C nuclear chromosome
a/e=1-136 C nuclear nucleosome
a/e=1-136 C nucleoplasm
a/e=1-136 C nucleosome
a/e=1-136 C nucleus
a/e=1-136 C protein-containing complex
a/e=1-136 F cadherin binding
a/e=1-136 F DNA binding
a/e=1-136 F protein heterodimerization activity
a/e=1-136 P blood coagulation
a/e=1-136 P cellular protein metabolic process
a/e=1-136 P chromatin organization
a/e=1-136 P DNA replication-dependent nucleosome assembly
a/e=1-136 P interleukin-7-mediated signaling pathway
a/e=1-136 P negative regulation of gene expression, epigenetic
a/e=1-136 P nucleosome assembly
a/e=1-136 P rDNA heterochromatin assembly
a/e=1-136 P regulation of gene silencing
a/e=1-136 P regulation of gene silencing by miRNA
a/e=1-136 P regulation of megakaryocyte differentiation
a/e=1-136 P telomere organization
A=1-477 C NuA4 histone acetyltransferase complex
A=1-477 C nucleus
A=1-477 C RSC-type complex
A=1-477 C SWI/SNF complex
A=1-477 F chromatin binding
A=1-477 F structural molecule activity
A=1-477 P ATP-dependent chromatin remodeling
A=1-477 P chromatin organization
A=1-477 P histone H4 acetylation
A=1-477 P nucleosome disassembly
A=1-477 P nucleosome mobilization
A=1-477 P positive regulation of transcription by RNA polymerase II
A=1-477 P regulation of transcription by RNA polymerase II
A=1-477 P regulation of transcription, DNA-templated
A=1-477 P transcription elongation from RNA polymerase II promoter
b/f=1-103 C extracellular exosome
b/f=1-103 C extracellular region
b/f=1-103 C host cell nucleus
b/f=1-103 C membrane
b/f=1-103 C nuclear chromosome
b/f=1-103 C nuclear chromosome, telomeric region
b/f=1-103 C nuclear nucleosome
b/f=1-103 C nucleoplasm
b/f=1-103 C nucleosome
b/f=1-103 C nucleus
b/f=1-103 C protein-containing complex
b/f=1-103 F DNA binding
b/f=1-103 F protein domain specific binding
b/f=1-103 F protein heterodimerization activity
b/f=1-103 F RNA binding
b/f=1-103 P cellular protein metabolic process
b/f=1-103 P CENP-A containing nucleosome assembly
b/f=1-103 P DNA replication-dependent nucleosome assembly
b/f=1-103 P DNA replication-independent nucleosome assembly
b/f=1-103 P DNA-templated transcription, initiation
b/f=1-103 P double-strand break repair via nonhomologous end joining
b/f=1-103 P negative regulation of gene expression, epigenetic
b/f=1-103 P negative regulation of megakaryocyte differentiation
b/f=1-103 P nucleosome assembly
b/f=1-103 P rDNA heterochromatin assembly
b/f=1-103 P regulation of gene silencing by miRNA
b/f=1-103 P regulation of megakaryocyte differentiation
b/f=1-103 P telomere capping
b/f=1-103 P telomere organization
B=1-467 C nucleus
B=1-467 C RSC-type complex
B=1-467 C SWI/SNF complex
B=1-467 F structural molecule activity
B=1-467 P ATP-dependent chromatin remodeling
B=1-467 P chromatin organization
B=1-467 P nucleosome disassembly
B=1-467 P nucleosome mobilization
B=1-467 P nucleosome positioning
B=1-467 P positive regulation of transcription by RNA polymerase II
B=1-467 P regulation of transcription by RNA polymerase II
B=1-467 P regulation of transcription, DNA-templated
B=1-467 P transcription elongation from RNA polymerase II promoter
c/g=1-130 C extracellular exosome
c/g=1-130 C nuclear chromatin
c/g=1-130 C nucleosome
c/g=1-130 C nucleus
c/g=1-130 F DNA binding
c/g=1-130 F protein heterodimerization activity
c/g=1-130 P chromatin organization
c/g=1-130 P chromatin silencing
c/g=1-130 P negative regulation of cell population proliferation
C=1-78 C nucleus
C=1-78 C RSC-type complex
C=1-78 P chromatin remodeling
C=1-78 P G2/M transition of mitotic cell cycle
C=1-78 P nucleosome disassembly
C=1-78 P transcription elongation from RNA polymerase II promoter
d/h=1-126 C cytosol
d/h=1-126 C extracellular space
d/h=1-126 C nucleoplasm
d/h=1-126 C nucleosome
d/h=1-126 C nucleus
d/h=1-126 F DNA binding
d/h=1-126 F protein heterodimerization activity
d/h=1-126 P antibacterial humoral response
d/h=1-126 P antimicrobial humoral immune response mediated by antimicrobial peptide
d/h=1-126 P defense response to Gram-negative bacterium
d/h=1-126 P defense response to Gram-positive bacterium
d/h=1-126 P innate immune response in mucosa
d/h=1-126 P killing of cells of other organism
d/h=1-126 P nucleosome assembly
d/h=1-126 P protein ubiquitination
D=1-180 C RSC-type complex
D=1-180 P ATP-dependent chromatin remodeling
D=1-180 P nucleosome disassembly
D=1-180 P transcription elongation from RNA polymerase II promoter
E=1-435 C nucleus
E=1-435 C RSC-type complex
E=1-435 P ATP-dependent chromatin remodeling
E=1-435 P nucleosome disassembly
E=1-435 P transcription elongation from RNA polymerase II promoter
F=1-889 C RSC-type complex
F=1-889 F chromatin binding
F=1-889 P ATP-dependent chromatin remodeling
F=1-889 P chromosome segregation
F=1-889 P double-strand break repair via homologous recombination
F=1-889 P double-strand break repair via nonhomologous end joining
F=1-889 P nucleosome disassembly
F=1-889 P plasmid maintenance
F=1-889 P regulation of sporulation resulting in formation of a cellular spore
F=1-889 P sister chromatid cohesion
F=1-889 P sporulation resulting in formation of a cellular spore
F=1-889 P transcription elongation from RNA polymerase II promoter
F=1-889 P UV-damage excision repair
G=1-885 C host cell nucleus
G=1-885 C nucleus
G=1-885 C RSC-type complex
G=1-885 F DNA-binding transcription factor activity, RNA polymerase II-specific
G=1-885 F sequence-specific DNA binding
G=1-885 F zinc ion binding
G=1-885 P ATP-dependent chromatin remodeling
G=1-885 P nucleosome disassembly
G=1-885 P nucleosome positioning
G=1-885 P regulation of nuclear cell cycle DNA replication
G=1-885 P regulation of transcription, DNA-templated
G=1-885 P transcription elongation from RNA polymerase II promoter
H=1-625 C RSC-type complex
H=1-625 F chromatin binding
H=1-625 F lysine-acetylated histone binding
H=1-625 P ATP-dependent chromatin remodeling
H=1-625 P nucleosome disassembly
H=1-625 P transcription elongation from RNA polymerase II promoter
I/J/K/L=1-557 C nucleus
I/J/K/L=1-557 C RSC-type complex
I/J/K/L=1-557 C SWI/SNF complex
I/J/K/L=1-557 F DNA binding
I/J/K/L=1-557 F histone binding
I/J/K/L=1-557 F zinc ion binding
I/J/K/L=1-557 P ATP-dependent chromatin remodeling
I/J/K/L=1-557 P double-strand break repair via nonhomologous end joining
I/J/K/L=1-557 P nucleosome disassembly
I/J/K/L=1-557 P positive regulation of transcription, DNA-templated
I/J/K/L=1-557 P regulation of transcription, DNA-templated
I/J/K/L=1-557 P transcription elongation from RNA polymerase II promoter
M=1-483 C RSC-type complex
M=1-483 P ATP-dependent chromatin remodeling
M=1-483 P nucleosome disassembly
M=1-483 P nucleosome positioning
M=1-483 P positive regulation of transcription elongation from RNA polymerase II promoter
N=1-581 C nucleus
N=1-581 C RSC-type complex
N=1-581 C SWI/SNF complex
N=1-581 F transcription regulatory region sequence-specific DNA binding
N=1-581 P ATP-dependent chromatin remodeling
N=1-581 P cellular response to hydrogen peroxide
N=1-581 P nucleosome disassembly
N=1-581 P regulation of transcription by RNA polymerase II
N=1-581 P regulation of transcription, DNA-templated
N=1-581 P rRNA processing
N=1-581 P rRNA transcription
N=1-581 P transcription elongation from RNA polymerase II promoter
N=1-581 P transfer RNA gene-mediated silencing
O=1-502 C nucleus
O=1-502 C RSC-type complex
O=1-502 F sequence-specific DNA binding
O=1-502 P ATP-dependent chromatin remodeling
O=1-502 P chromatin remodeling
O=1-502 P nucleosome disassembly
O=1-502 P regulation of transcription by RNA polymerase II
O=1-502 P transcription elongation from RNA polymerase II promoter
P=1-157 C nucleus
P=1-157 C RSC-type complex
P=1-157 C SWI/SNF complex
P=1-157 P chromatin remodeling
P=1-157 P chromosome segregation
P=1-157 P nucleosome disassembly
P=1-157 P transcription elongation from RNA polymerase II promoter
Q=1-426 C nucleus
Q=1-426 C RSC-type complex
Q=1-426 C SWI/SNF complex
Q=1-426 P ATP-dependent chromatin remodeling
Q=1-426 P chromatin remodeling at centromere
Q=1-426 P chromosome segregation
Q=1-426 P DNA repair
Q=1-426 P double-strand break repair
Q=1-426 P G2/M transition of mitotic cell cycle
Q=1-426 P nucleosome disassembly
Q=1-426 P regulation of nuclear cell cycle DNA replication
Q=1-426 P regulation of transcription by RNA polymerase II
Q=1-426 P transcription elongation from RNA polymerase II promoter
R=1-1359 C chromosome, centromeric region
R=1-1359 C nucleus
R=1-1359 C RSC-type complex
R=1-1359 F ATP binding
R=1-1359 F ATPase activity
R=1-1359 F DNA binding
R=1-1359 F DNA helicase activity
R=1-1359 F DNA translocase activity
R=1-1359 F DNA-dependent ATPase activity
R=1-1359 F helicase activity
R=1-1359 F lysine-acetylated histone binding
R=1-1359 P ATP-dependent chromatin remodeling
R=1-1359 P base-excision repair
R=1-1359 P chromatin remodeling at centromere
R=1-1359 P chromosome segregation
R=1-1359 P cytoskeleton organization
R=1-1359 P double-strand break repair
R=1-1359 P meiotic cell cycle
R=1-1359 P nucleosome disassembly
R=1-1359 P nucleosome positioning
R=1-1359 P positive regulation of transcription by RNA polymerase II
R=1-1359 P regulation of transcription, DNA-templated
R=1-1359 P transcription elongation from RNA polymerase II promoter
R=1-1359 P transfer RNA gene-mediated silencing
S=1-883 C host cell nucleus
S=1-883 C RSC-type complex
S=1-883 F DNA binding
S=1-883 F DNA-binding transcription factor activity, RNA polymerase II-specific
S=1-883 F zinc ion binding
S=1-883 P double-strand break repair via nonhomologous end joining
S=1-883 P nucleosome disassembly
S=1-883 P regulation of transcription, DNA-templated
S=1-883 P transcription elongation from RNA polymerase II promoter
Sequences
Download file with secondary structure created by Stride  
6v92.pdb1.pdb:   [ download sequences in FASTA format ]
2 (protein): 
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3 (protein): 
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4 (protein): 
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5 (protein): 
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6 (protein): 
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7 (protein): 
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a (protein): 
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b (protein): 
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C (protein): 
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D (protein): 
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E (protein): 
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f (protein): 
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g (protein): 
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H (protein): 
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I (protein): 
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J (protein): 
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K (protein): 
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L (protein): 
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M (protein): 
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N (protein): 
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O (protein): 
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P (protein): 
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Q (protein): 
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R (protein): 
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S (protein): 
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