General information
PDB ID 6FML
Title CRYOEM STRUCTURE INO80CORE NUCLEOSOME COMPLEX
PDB header DNA BINDING PROTEIN
Date 2018-01-31
Experimental method ELECTRON MICROSCOPY
Resolution (A) 4.34
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:
pdb6fml.pdb ABCDEFGHIJMNOPQRST KL 0
Biounits:
6fml.pdb1.pdb ABCDEFGHIJMNOPQRST KL 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
TIP49 Domain G0RYI5_15-370 4.3e-167 1 CL0023 A 15 370   
TIP49_C Domain G0RYI5_375-440 1.5e-25 1 CL0671 A 375 440   
TIP49 Domain G0RYI5_15-370 5.3e-161 1 CL0023 B 15 370   
TIP49_C Domain G0RYI5_375-440 1.5e-25 1 CL0671 B 375 440   
TIP49 Domain G0RYI5_15-370 4.7e-167 1 CL0023 C 15 370   
TIP49_C Domain G0RYI5_375-440 1.6e-25 1 CL0671 C 375 440   
TIP49 Domain G0RYC2_20-364 6.8e-157 1 CL0023 D 20 364   
TIP49_C Domain G0RYC2_369-434 3.5e-21 1 CL0671 D 369 434   
TIP49 Domain G0RYC2_20-364 1.5e-156 1 CL0023 E 20 364   
TIP49_C Domain G0RYC2_369-434 3.6e-21 1 CL0671 E 369 434   
TIP49 Domain G0RYC2_20-364 4.9e-155 1 CL0023 F 20 364   
TIP49_C Domain G0RYC2_369-434 3.5e-21 1 CL0671 F 369 434   
SNF2-rel_dom Domain 3.1e-66 1 CL0023 G 975 1274 KL
Helicase_C Domain 1.2e-19 1 CL0023 G 1553 1666 KL
YL1_C Domain G0S590_169-197 3.6e-16 1 No_clan I 169 197   
Histone Domain Q71DI3_40-132 3.2e-45 1 CL0012 M 40 131 KL   
CENP-T_C Domain P62805_26-99 4.4e-08 1 CL0012 N 26 98 KL   
Histone Domain P0C0S8_17-91 1.1e-15 1 CL0012 O 16 90 KL   
Histone Domain P62807_33-102 1.2e-21 1 CL0012 P 31 101 KL   
Histone Domain Q71DI3_40-132 3.5e-46 1 CL0012 Q 38 131 KL   
CENP-T_C Domain P62805_26-99 4.7e-08 1 CL0012 R 25 98 KL   
Histone Domain P0C0S8_10-91 5.5e-16 1 CL0012 S 12 90 KL   
Histone Domain P62807_33-102 1.2e-21 1 CL0012 T 31 101 KL   
PAPA-1 Family G0RY01_383-465 7.3e-05 1 No_clan H 397 465   
Actin Family 2.8e-55 1 CL0108 J 54 762 K
Histone_H2A_C Family P0C0S8_92-122 4.7e-18 1 No_clan O 91 119   
Histone_H2A_C Family P0C0S8_92-122 3.3e-17 1 No_clan S 91 118   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
M/Q=2-136 C extracellular exosome
M/Q=2-136 C extracellular region
M/Q=2-136 C nucleoplasm
M/Q=2-136 C nucleosome
M/Q=2-136 C nucleus
M/Q=2-136 F DNA binding
M/Q=2-136 F protein heterodimerization activity
M/Q=2-136 P blood coagulation
M/Q=2-136 P cellular protein metabolic process
M/Q=2-136 P chromatin organization
M/Q=2-136 P interleukin-7-mediated signaling pathway
M/Q=2-136 P negative regulation of gene expression, epigenetic
M/Q=2-136 P nucleosome assembly
M/Q=2-136 P rDNA heterochromatin assembly
M/Q=2-136 P regulation of gene silencing by miRNA
M/Q=2-136 P regulation of megakaryocyte differentiation
N/R=2-103 C extracellular exosome
N/R=2-103 C extracellular region
N/R=2-103 C host cell nucleus
N/R=2-103 C membrane
N/R=2-103 C nuclear chromosome
N/R=2-103 C nuclear chromosome, telomeric region
N/R=2-103 C nuclear nucleosome
N/R=2-103 C nucleoplasm
N/R=2-103 C nucleosome
N/R=2-103 C nucleus
N/R=2-103 C protein-containing complex
N/R=2-103 F DNA binding
N/R=2-103 F protein domain specific binding
N/R=2-103 F protein heterodimerization activity
N/R=2-103 F RNA binding
N/R=2-103 P cellular protein metabolic process
N/R=2-103 P CENP-A containing nucleosome assembly
N/R=2-103 P DNA replication-dependent nucleosome assembly
N/R=2-103 P DNA replication-independent nucleosome assembly
N/R=2-103 P DNA-templated transcription, initiation
N/R=2-103 P double-strand break repair via nonhomologous end joining
N/R=2-103 P negative regulation of gene expression, epigenetic
N/R=2-103 P negative regulation of megakaryocyte differentiation
N/R=2-103 P nucleosome assembly
N/R=2-103 P rDNA heterochromatin assembly
N/R=2-103 P regulation of gene silencing by miRNA
N/R=2-103 P regulation of megakaryocyte differentiation
N/R=2-103 P telomere capping
N/R=2-103 P telomere organization
O/S=2-130 C nuclear chromatin
O/S=2-130 C nucleosome
O/S=2-130 F DNA binding
O/S=2-130 F protein heterodimerization activity
O/S=2-130 P chromatin organization
O/S=2-130 P chromatin silencing
P/T=2-126 C cytosol
P/T=2-126 C extracellular exosome
P/T=2-126 C extracellular space
P/T=2-126 C nucleoplasm
P/T=2-126 C nucleosome
P/T=2-126 C nucleus
P/T=2-126 F DNA binding
P/T=2-126 F identical protein binding
P/T=2-126 F protein heterodimerization activity
P/T=2-126 P antibacterial humoral response
P/T=2-126 P antimicrobial humoral immune response mediated by antimicrobial peptide
P/T=2-126 P defense response to Gram-positive bacterium
P/T=2-126 P innate immune response in mucosa
P/T=2-126 P nucleosome assembly
P/T=2-126 P protein ubiquitination
Sequences
Download file with secondary structure created by Stride  
6fml.pdb1.pdb:   [ download sequences in FASTA format ]
K (dna): 
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L (dna): 
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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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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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T (protein): 
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