General information
PDB ID 2O61
Title CRYSTAL STRUCTURE OF NFKB, IRF7, IRF3 BOUND TO THE INTERFERON-B ENHANCER
PDB header TRANSCRIPTION/DNA
Date 2006-12-06
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.8
Kind dna
Organism 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:
pdb2o61.pdb AB EF 0
Biounits:
2o61.pdb1.pdb AB EF 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RHD_DNA_bind Domain Q04206_21-186 1.6e-69 1 CL0073 A 21 186 EF  H-Bb H-Mj S-Bb S-Mj L-Bb L-Mj 
IRF Domain Q14653_7-110 2.1e-37 1 CL0123 A 1013 1125 EF  H-Bb H-Mj S-Bb L-Bb 
RHD_dimer Domain Q04206_195-291 4.6e-37 1 CL0159 A 195 1008 E  S-Bb L-Bb 
IRF Domain Q92985_13-125 5.3e-34 1 CL0123 A 2009 2110 EF  H-Bb H-Mj S-Bb L-Bb L-Mj L-Mn 
RHD_DNA_bind Domain P19838_44-242 9.8e-74 1 CL0073 B 42 240 EF  H-Bb H-Mj S-Mj L-Bb L-Mj 
RHD_dimer Domain P19838_251-352 6.5e-42 1 CL0159 B 249 350 F  L-Bb 
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: All beta proteins
  Fold: Immunoglobulin-like beta-sandwich
    Superfamily: E set domains
      Family: NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
p50 subunit of NF-kappa B transcription factor B 247 350 F  L-Bb 
Class: All beta proteins
  Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f
    Superfamily: p53-like transcription factors
      Family: Rel/Dorsal transcription factors, DNA-binding domain
p50 subunit of NF-kappa B (NFKB), N-terminal domain B 40 246 EF  H-Bb H-Mj L-Bb L-Mj 
GO terms
Protein chains: GO type: GO description:
A=20-291 C cytosol
A=20-291 C transcription factor complex
A=20-291 F RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
A=20-291 F chromatin binding
A=20-291 F transcription regulatory region DNA binding
A=20-291 F phosphate ion binding
A=20-291 P cellular defense response
A=20-291 P defense response to virus
A=20-291 P membrane protein intracellular domain proteolysis
A=20-291 P cytokine-mediated signaling pathway
A=20-291 P innate immune response
A=20-291 P toll-like receptor 3 signaling pathway
A=20-291 P positive regulation of transcription from RNA polymerase II promoter
A=20-291 P positive regulation of type I interferon production
A=20-291 P nucleotide-binding oligomerization domain containing 2 signaling pathway
A=20-291 P anti-apoptosis
A=20-291 P toll-like receptor 1 signaling pathway
A=20-291 P toll-like receptor 2 signaling pathway
A=20-291 P negative regulation of transcription, DNA-dependent
A=20-291 P Toll signaling pathway
A=20-291 P MyD88-dependent toll-like receptor signaling pathway
A=20-291 P cellular response to interleukin-1
A=20-291 P T cell receptor signaling pathway
A=20-291 P cellular response to tumor necrosis factor
A=20-291 P virus-host interaction
A=20-291 P toll-like receptor 4 signaling pathway
A=20-291 P nerve growth factor receptor signaling pathway
A=20-291 P regulation of inflammatory response
A=20-291 P inflammatory response
A=20-291 P positive regulation of I-kappaB kinase/NF-kappaB cascade
A=20-291 P positive regulation of NF-kappaB transcription factor activity
A=20-291 P response to UV-B
A=20-291 P TRIF-dependent toll-like receptor signaling pathway
A=4-111 F transcription cofactor activity
A=4-111 F DNA binding
A=4-111 P response to exogenous dsRNA
A=4-111 P lipopolysaccharide-mediated signaling pathway
A=4-111 P macrophage apoptotic process
A=4-111 P negative regulation of interferon-beta biosynthetic process
A=4-111 P positive regulation of cytokine secretion
A=4-111 P negative regulation of defense response to virus by host
A=4-111 P negative regulation of type I interferon production
A=4-111 P cellular response to dsRNA
A=4-111 P induction of apoptosis
A=8-125 C plasma membrane
A=8-125 C endosome membrane
A=8-125 F RNA polymerase II core promoter sequence-specific DNA binding
A=8-125 F RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity
A=8-125 P protein acetylation
A=8-125 P type I interferon biosynthetic process
A=8-125 P establishment of viral latency
A=8-125 P MDA-5 signaling pathway
A=8-125 P negative regulation of macrophage apoptotic process
A=8-125 P regulation of MyD88-independent toll-like receptor signaling pathway
A=8-125 P regulation of monocyte differentiation
A=8-125 P positive regulation of interferon-beta production
A=8-125 P regulation of MyD88-dependent toll-like receptor signaling pathway
A=8-125 P type I interferon-mediated signaling pathway
A=8-125 P interferon-alpha production
A=8-125 P regulation of adaptive immune response
A=8-125 P immunoglobulin mediated immune response
A=8-125 P interferon-gamma-mediated signaling pathway
A=8-125 P protein phosphorylation
A=8-125 P response to DNA damage stimulus
A=8-125 P positive regulation of interferon-alpha production
A=8-125 P interferon-beta production
B=40-352 C nucleoplasm
B=40-352 C I-kappaB/NF-kappaB complex
B=40-352 C mitochondrion
B=40-352 F double-stranded DNA binding
B=40-352 F sequence-specific DNA binding transcription factor activity
B=40-352 F transcription regulatory region sequence-specific DNA binding
B=40-352 P negative regulation of transcription from RNA polymerase II promoter
B=40-352 P cellular response to mechanical stimulus
B=40-352 P negative regulation of calcidiol 1-monooxygenase activity
B=40-352 P response to oxidative stress
B=40-352 P positive regulation of canonical Wnt receptor signaling pathway
B=40-352 P negative regulation of cytokine production
B=40-352 P positive regulation of transcription, DNA-dependent
B=40-352 P negative regulation of interleukin-12 biosynthetic process
B=40-352 P response to bacterium
B=40-352 P positive regulation of macrophage derived foam cell differentiation
B=40-352 P negative regulation of cholesterol transport
B=40-352 P negative regulation of vitamin D biosynthetic process
B=40-352 P positive regulation of hyaluronan biosynthetic process
B=40-352 P response to copper ion
B=40-352 P positive regulation of lipid storage
B=40-352 P negative regulation of cellular protein metabolic process
B=40-352 P apoptotic process
B=40-352 P transcription from RNA polymerase II promoter
Sequences
Download file with secondary structure created by Stride  
2o61.pdb1.pdb:   [ download sequences in FASTA format ]
E (dna): 
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F (dna): 
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A (protein): 
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B (protein): 
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