General information
PDB ID 6ERG
Title COMPLEX OF XLF AND HETERODIMER KU BOUND TO DNA
PDB header DNA BINDING PROTEIN
Date 2017-10-18
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.9
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:
pdb6erg.pdb ABCDEF HKMR 0
Biounits:
6erg.pdb1.pdb ABF HR 1
6erg.pdb2.pdb CDE KM 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Ku_N Domain P12956_37-256 3.7e-80 1 CL0128 A 37 256 R   
Ku Domain P12956_263-468 1.1e-50 1 CL0616 A 263 468 HR  S-Bb L-Bb 
Ku_N Domain P13010_9-244 1.6e-57 1 CL0128 B 9 244 R  L-Bb 
Ku Domain P13010_253-453 2.4e-42 1 CL0616 B 253 453 HR  S-Bb L-Bb 
Ku_N Domain P12956_37-256 3.8e-80 1 CL0128 D 37 256 M   
Ku Domain P12956_263-468 1.1e-50 1 CL0616 D 263 468 KM  S-Bb L-Bb 
Ku_N Domain P13010_9-244 1.6e-57 1 CL0128 E 9 244 M  L-Bb 
Ku Domain P13010_253-453 1e-43 1 CL0616 E 253 453 KM  L-Bb 
Ku_C Family P12956_472-534 9.3e-23 1 No_clan A 472 534   
Ku_C Family P13010_476-545 3e-11 1 No_clan B 476 542 H  H-Bb 
Ku_C Family P12956_472-534 9.3e-23 1 No_clan D 472 534   
Ku_C Family P13010_476-545 1.9e-11 1 No_clan E 476 543 K  H-Bb 
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A/D=1-544 C cytosol
A/D=1-544 C extracellular region
A/D=1-544 C ficolin-1-rich granule lumen
A/D=1-544 C Ku70:Ku80 complex
A/D=1-544 C membrane
A/D=1-544 C nonhomologous end joining complex
A/D=1-544 C nuclear chromosome, telomeric region
A/D=1-544 C nuclear telomere cap complex
A/D=1-544 C nucleolus
A/D=1-544 C nucleoplasm
A/D=1-544 C nucleus
A/D=1-544 C protein-containing complex
A/D=1-544 C protein-DNA complex
A/D=1-544 C secretory granule lumen
A/D=1-544 C transcription regulator complex
A/D=1-544 F 5'-deoxyribose-5-phosphate lyase activity
A/D=1-544 F ATP binding
A/D=1-544 F cyclin binding
A/D=1-544 F damaged DNA binding
A/D=1-544 F DNA binding
A/D=1-544 F DNA helicase activity
A/D=1-544 F double-stranded DNA binding
A/D=1-544 F protein C-terminus binding
A/D=1-544 F protein-containing complex binding
A/D=1-544 F RNA binding
A/D=1-544 F telomeric DNA binding
A/D=1-544 F transcription regulatory region sequence-specific DNA binding
A/D=1-544 P activation of innate immune response
A/D=1-544 P brain development
A/D=1-544 P cellular hyperosmotic salinity response
A/D=1-544 P cellular response to gamma radiation
A/D=1-544 P cellular response to X-ray
A/D=1-544 P DNA ligation
A/D=1-544 P DNA recombination
A/D=1-544 P double-strand break repair via classical nonhomologous end joining
A/D=1-544 P double-strand break repair via nonhomologous end joining
A/D=1-544 P establishment of integrated proviral latency
A/D=1-544 P innate immune response
A/D=1-544 P negative regulation of transcription, DNA-templated
A/D=1-544 P neutrophil degranulation
A/D=1-544 P positive regulation of lymphocyte differentiation
A/D=1-544 P positive regulation of protein kinase activity
A/D=1-544 P positive regulation of transcription by RNA polymerase II
A/D=1-544 P positive regulation of transcription, DNA-templated
A/D=1-544 P positive regulation of type I interferon production
A/D=1-544 P regulation of smooth muscle cell proliferation
A/D=1-544 P telomere maintenance
B/E=2-555 C cytosol
B/E=2-555 C extracellular region
B/E=2-555 C Ku70:Ku80 complex
B/E=2-555 C membrane
B/E=2-555 C nonhomologous end joining complex
B/E=2-555 C nuclear chromosome, telomeric region
B/E=2-555 C nuclear telomere cap complex
B/E=2-555 C nucleolus
B/E=2-555 C nucleoplasm
B/E=2-555 C nucleus
B/E=2-555 C plasma membrane
B/E=2-555 C protein-containing complex
B/E=2-555 C protein-DNA complex
B/E=2-555 C ribonucleoprotein complex
B/E=2-555 C secretory granule lumen
B/E=2-555 C site of DNA damage
B/E=2-555 C small-subunit processome
B/E=2-555 F ATP binding
B/E=2-555 F damaged DNA binding
B/E=2-555 F DNA binding
B/E=2-555 F DNA end binding
B/E=2-555 F DNA helicase activity
B/E=2-555 F double-stranded DNA binding
B/E=2-555 F enzyme activator activity
B/E=2-555 F protein C-terminus binding
B/E=2-555 F protein-containing complex binding
B/E=2-555 F RNA binding
B/E=2-555 F telomeric DNA binding
B/E=2-555 F transcription regulatory region sequence-specific DNA binding
B/E=2-555 F U3 snoRNA binding
B/E=2-555 F ubiquitin protein ligase binding
B/E=2-555 P activation of innate immune response
B/E=2-555 P brain development
B/E=2-555 P cell population proliferation
B/E=2-555 P cellular hyperosmotic salinity response
B/E=2-555 P cellular response to DNA damage stimulus
B/E=2-555 P cellular response to fatty acid
B/E=2-555 P cellular response to gamma radiation
B/E=2-555 P cellular response to leukemia inhibitory factor
B/E=2-555 P cellular response to X-ray
B/E=2-555 P DNA recombination
B/E=2-555 P double-strand break repair
B/E=2-555 P double-strand break repair via nonhomologous end joining
B/E=2-555 P establishment of integrated proviral latency
B/E=2-555 P hematopoietic stem cell differentiation
B/E=2-555 P innate immune response
B/E=2-555 P negative regulation of t-circle formation
B/E=2-555 P negative regulation of transcription, DNA-templated
B/E=2-555 P neutrophil degranulation
B/E=2-555 P positive regulation of catalytic activity
B/E=2-555 P positive regulation of neurogenesis
B/E=2-555 P positive regulation of protein kinase activity
B/E=2-555 P positive regulation of telomerase activity
B/E=2-555 P positive regulation of telomere maintenance via telomerase
B/E=2-555 P positive regulation of type I interferon production
B/E=2-555 P protein localization to chromosome, telomeric region
B/E=2-555 P regulation of smooth muscle cell proliferation
B/E=2-555 P regulation of telomere maintenance
B/E=2-555 P response to drug
B/E=2-555 P small-subunit processome assembly
B/E=2-555 P telomere maintenance
C/F=287-299 C DNA ligase IV complex
C/F=287-299 C fibrillar center
C/F=287-299 C nonhomologous end joining complex
C/F=287-299 C nucleoplasm
C/F=287-299 C nucleus
C/F=287-299 F DNA end binding
C/F=287-299 P B cell differentiation
C/F=287-299 P central nervous system development
C/F=287-299 P double-strand break repair via nonhomologous end joining
C/F=287-299 P positive regulation of ligase activity
C/F=287-299 P response to ionizing radiation
C/F=287-299 P T cell differentiation
Sequences
Download file with secondary structure created by Stride  
6erg.pdb1.pdb:   [ download sequences in FASTA format ]
H (dna): 
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R (dna): 
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A (protein): 
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B (protein): 
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F (protein): 
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6erg.pdb2.pdb:   [ download sequences in FASTA format ]
K (dna): 
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M (dna): 
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C (protein): 
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D (protein): 
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E (protein): 
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