General information
PDB ID 6L49
Title H3-CA-H3 TRI-NUCLEOSOME WITH THE 22 BASE-PAIR LINKER DNA
PDB header NUCLEAR PROTEIN
Date 2019-10-16
Experimental method ELECTRON MICROSCOPY
Resolution (A) 18.9
Kind dna
Organism HOMO SAPIENS, SYNTHETIC CONSTRUCT
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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:
pdb6l49.pdb ABCDEFGHKLMNOPQRSTUVWXYZ IJ 0
Biounits:
6l49.pdb1.pdb ABCDEFGHKLMNOPQRSTUVWXYZ IJ 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Histone Domain P49450_42-133 7e-34 1 CL0012 A 46 133   
CENP-T_C Domain P62805_26-99 4.2e-08 1 CL0012 B 26 98   
Histone Domain P04908_16-91 4.7e-16 1 CL0012 C 16 90   
Histone Domain P06899_33-102 4.2e-21 1 CL0012 D 35 101 J   
Histone Domain P49450_48-133 9.5e-32 1 CL0012 E 48 133   
CENP-T_C Domain P62805_26-99 4.4e-08 1 CL0012 F 26 98   
Histone Domain P04908_16-91 4.2e-16 1 CL0012 G 15 90   
Histone Domain P06899_33-102 4.2e-21 1 CL0012 H 35 101 I   
Histone Domain P68431_39-132 1e-46 1 CL0012 K 38 131   
CENP-T_C Domain P62805_19-99 4.9e-08 1 CL0012 L 25 98   
Histone Domain P04908_16-91 5.7e-16 1 CL0012 M 16 90 J   
Histone Domain P06899_33-102 5.7e-22 1 CL0012 N 28 98 J   
Histone Domain P68431_39-132 2.8e-46 1 CL0012 O 39 131 J   
CENP-T_C Domain P62805_26-99 4.2e-08 1 CL0012 P 26 98 J   
Histone Domain P04908_16-91 4.3e-16 1 CL0012 Q 14 90   
Histone Domain P06899_33-102 9.4e-22 1 CL0012 R 29 98   
Histone Domain P68431_39-132 1e-46 1 CL0012 S 38 131   
CENP-T_C Domain P62805_19-99 4.9e-08 1 CL0012 T 25 98 I   
Histone Domain P04908_16-91 5.7e-16 1 CL0012 U 16 90   
Histone Domain P06899_33-102 5.7e-22 1 CL0012 V 28 98   
Histone Domain P68431_39-132 2.8e-46 1 CL0012 W 39 131 I   
CENP-T_C Domain P62805_26-99 4.2e-08 1 CL0012 X 26 98   
Histone Domain P04908_16-91 4.3e-16 1 CL0012 Y 14 90 I   
Histone Domain P06899_33-102 9.4e-22 1 CL0012 Z 29 98 I   
Histone_H2A_C Family P04908_92-113 4.8e-13 1 No_clan C 91 112   
Histone_H2A_C Family P04908_92-119 6.2e-14 1 No_clan G 91 114   
Histone_H2A_C Family P04908_92-119 2.3e-17 1 No_clan M 91 118   
Histone_H2A_C Family P04908_92-119 2.4e-17 1 No_clan Q 91 118   
Histone_H2A_C Family P04908_92-119 2.3e-17 1 No_clan U 91 118   
Histone_H2A_C Family P04908_92-119 2.4e-17 1 No_clan Y 91 118   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A/E=1-140 C chromosome, centromeric region
A/E=1-140 C condensed chromosome inner kinetochore
A/E=1-140 C condensed nuclear chromosome kinetochore
A/E=1-140 C condensed nuclear chromosome, centromeric region
A/E=1-140 C cytosol
A/E=1-140 C nuclear nucleosome
A/E=1-140 C nuclear pericentric heterochromatin
A/E=1-140 C nucleoplasm
A/E=1-140 C nucleus
A/E=1-140 F chromatin binding
A/E=1-140 F DNA binding
A/E=1-140 F protein heterodimerization activity
A/E=1-140 P CENP-A containing nucleosome assembly
A/E=1-140 P establishment of mitotic spindle orientation
A/E=1-140 P kinetochore assembly
A/E=1-140 P mitotic cytokinesis
A/E=1-140 P protein localization to chromosome, centromeric region
A/E=1-140 P viral process
B/F/L/P/T/X=1-103 C extracellular exosome
B/F/L/P/T/X=1-103 C extracellular region
B/F/L/P/T/X=1-103 C host cell nucleus
B/F/L/P/T/X=1-103 C membrane
B/F/L/P/T/X=1-103 C nuclear chromosome
B/F/L/P/T/X=1-103 C nuclear chromosome, telomeric region
B/F/L/P/T/X=1-103 C nuclear nucleosome
B/F/L/P/T/X=1-103 C nucleoplasm
B/F/L/P/T/X=1-103 C nucleosome
B/F/L/P/T/X=1-103 C nucleus
B/F/L/P/T/X=1-103 C protein-containing complex
B/F/L/P/T/X=1-103 F DNA binding
B/F/L/P/T/X=1-103 F protein domain specific binding
B/F/L/P/T/X=1-103 F protein heterodimerization activity
B/F/L/P/T/X=1-103 F RNA binding
B/F/L/P/T/X=1-103 P cellular protein metabolic process
B/F/L/P/T/X=1-103 P CENP-A containing nucleosome assembly
B/F/L/P/T/X=1-103 P DNA replication-dependent nucleosome assembly
B/F/L/P/T/X=1-103 P DNA replication-independent nucleosome assembly
B/F/L/P/T/X=1-103 P DNA-templated transcription, initiation
B/F/L/P/T/X=1-103 P double-strand break repair via nonhomologous end joining
B/F/L/P/T/X=1-103 P negative regulation of gene expression, epigenetic
B/F/L/P/T/X=1-103 P negative regulation of megakaryocyte differentiation
B/F/L/P/T/X=1-103 P nucleosome assembly
B/F/L/P/T/X=1-103 P rDNA heterochromatin assembly
B/F/L/P/T/X=1-103 P regulation of gene silencing by miRNA
B/F/L/P/T/X=1-103 P regulation of megakaryocyte differentiation
B/F/L/P/T/X=1-103 P telomere capping
B/F/L/P/T/X=1-103 P telomere organization
C/G/M/Q/U/Y=1-130 C extracellular exosome
C/G/M/Q/U/Y=1-130 C nuclear chromatin
C/G/M/Q/U/Y=1-130 C nucleosome
C/G/M/Q/U/Y=1-130 C nucleus
C/G/M/Q/U/Y=1-130 F DNA binding
C/G/M/Q/U/Y=1-130 F protein heterodimerization activity
C/G/M/Q/U/Y=1-130 P chromatin organization
C/G/M/Q/U/Y=1-130 P chromatin silencing
C/G/M/Q/U/Y=1-130 P negative regulation of cell population proliferation
D/H/N/R/V/Z=1-126 C cytosol
D/H/N/R/V/Z=1-126 C extracellular space
D/H/N/R/V/Z=1-126 C nucleoplasm
D/H/N/R/V/Z=1-126 C nucleosome
D/H/N/R/V/Z=1-126 C nucleus
D/H/N/R/V/Z=1-126 F DNA binding
D/H/N/R/V/Z=1-126 F lipopolysaccharide binding
D/H/N/R/V/Z=1-126 F protein heterodimerization activity
D/H/N/R/V/Z=1-126 P antibacterial humoral response
D/H/N/R/V/Z=1-126 P antimicrobial humoral immune response mediated by antimicrobial peptide
D/H/N/R/V/Z=1-126 P defense response to Gram-negative bacterium
D/H/N/R/V/Z=1-126 P defense response to Gram-positive bacterium
D/H/N/R/V/Z=1-126 P innate immune response in mucosa
D/H/N/R/V/Z=1-126 P killing of cells of other organism
D/H/N/R/V/Z=1-126 P negative regulation of tumor necrosis factor-mediated signaling pathway
D/H/N/R/V/Z=1-126 P nucleosome assembly
D/H/N/R/V/Z=1-126 P protein ubiquitination
K/O/S/W=1-136 C extracellular exosome
K/O/S/W=1-136 C extracellular region
K/O/S/W=1-136 C membrane
K/O/S/W=1-136 C nuclear chromosome
K/O/S/W=1-136 C nuclear nucleosome
K/O/S/W=1-136 C nucleoplasm
K/O/S/W=1-136 C nucleosome
K/O/S/W=1-136 C nucleus
K/O/S/W=1-136 C protein-containing complex
K/O/S/W=1-136 F cadherin binding
K/O/S/W=1-136 F DNA binding
K/O/S/W=1-136 F protein heterodimerization activity
K/O/S/W=1-136 P blood coagulation
K/O/S/W=1-136 P cellular protein metabolic process
K/O/S/W=1-136 P chromatin organization
K/O/S/W=1-136 P DNA replication-dependent nucleosome assembly
K/O/S/W=1-136 P interleukin-7-mediated signaling pathway
K/O/S/W=1-136 P negative regulation of gene expression, epigenetic
K/O/S/W=1-136 P nucleosome assembly
K/O/S/W=1-136 P rDNA heterochromatin assembly
K/O/S/W=1-136 P regulation of gene silencing
K/O/S/W=1-136 P regulation of gene silencing by miRNA
K/O/S/W=1-136 P regulation of megakaryocyte differentiation
K/O/S/W=1-136 P telomere organization
Sequences
Download file with secondary structure created by Stride  
6l49.pdb1.pdb:   [ download sequences in FASTA format ]
I (dna): 
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J (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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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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T (protein): 
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U (protein): 
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V (protein): 
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W (protein): 
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X (protein): 
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Y (protein): 
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Z (protein): 
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