General information
PDB ID 1OOA
Title CRYSTAL STRUCTURE OF NF-KB(P50)2 COMPLEXED TO A HIGH- AFFINITY RNA APTAMER
PDB header TRANSCRIPTION/RNA
Date 2003-03-03
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.45
Kind rna
Organism MUS MUSCULUS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb1ooa.pdb AB CD 0
Biounits:
1ooa.pdb1.pdb A C 1
1ooa.pdb2.pdb B D 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 P25799_42-240 7.3e-74 1 CL0073 A 42 240 C   
RHD_dimer Domain P25799_249-350 5.5e-42 1 CL0159 A 249 350 C   
RHD_DNA_bind Domain P25799_42-240 7.3e-74 1 CL0073 B 42 240 D   
RHD_dimer Domain P25799_249-350 5.5e-42 1 CL0159 B 249 350   
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 A 251 350 -
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 251 350 -
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 A 38 250 C  H-Bb H-Mj L-Bb L-Mj L-Mn 
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 38 250 D  H-Bb H-Mj L-Bb L-Mj 
GO terms
Protein chains: GO type: GO description:
A/B=39-363 C cytoplasm
A/B=39-363 C cytosol
A/B=39-363 C host cell nucleus
A/B=39-363 C mitochondrion
A/B=39-363 C neuron projection
A/B=39-363 C nucleoplasm
A/B=39-363 C nucleus
A/B=39-363 C protein-containing complex
A/B=39-363 F actinin binding
A/B=39-363 F chromatin binding
A/B=39-363 F DNA binding
A/B=39-363 F DNA-binding transcription activator activity, RNA polymerase II-specific
A/B=39-363 F DNA-binding transcription factor activity
A/B=39-363 F DNA-binding transcription repressor activity, RNA polymerase II-specific
A/B=39-363 F double-stranded DNA binding
A/B=39-363 F enzyme binding
A/B=39-363 F heat shock protein binding
A/B=39-363 F identical protein binding
A/B=39-363 F protein-containing complex binding
A/B=39-363 F RNA polymerase II cis-regulatory region sequence-specific DNA binding
A/B=39-363 F RNA polymerase II transcription coactivator binding
A/B=39-363 F RNA polymerase II transcription regulatory region sequence-specific DNA binding
A/B=39-363 F sequence-specific DNA binding
A/B=39-363 F transcription regulatory region sequence-specific DNA binding
A/B=39-363 P apoptotic process
A/B=39-363 P cellular response to angiotensin
A/B=39-363 P cellular response to brain-derived neurotrophic factor stimulus
A/B=39-363 P cellular response to carbohydrate stimulus
A/B=39-363 P cellular response to cytokine stimulus
A/B=39-363 P cellular response to diterpene
A/B=39-363 P cellular response to dsRNA
A/B=39-363 P cellular response to glucoside
A/B=39-363 P cellular response to interleukin-1
A/B=39-363 P cellular response to interleukin-6
A/B=39-363 P cellular response to lipopolysaccharide
A/B=39-363 P cellular response to mechanical stimulus
A/B=39-363 P cellular response to nicotine
A/B=39-363 P cellular response to organic cyclic compound
A/B=39-363 P cellular response to peptide
A/B=39-363 P cellular response to tumor necrosis factor
A/B=39-363 P lymph node development
A/B=39-363 P negative regulation of apoptotic process
A/B=39-363 P negative regulation of calcidiol 1-monooxygenase activity
A/B=39-363 P negative regulation of cytokine production
A/B=39-363 P negative regulation of gene expression
A/B=39-363 P negative regulation of inflammatory response
A/B=39-363 P negative regulation of interleukin-12 production
A/B=39-363 P negative regulation of transcription by RNA polymerase II
A/B=39-363 P negative regulation of transcription, DNA-templated
A/B=39-363 P positive regulation of canonical Wnt signaling pathway
A/B=39-363 P positive regulation of gene expression
A/B=39-363 P positive regulation of gene silencing by miRNA
A/B=39-363 P positive regulation of hyaluronan biosynthetic process
A/B=39-363 P positive regulation of miRNA metabolic process
A/B=39-363 P positive regulation of pri-miRNA transcription by RNA polymerase II
A/B=39-363 P positive regulation of transcription by RNA polymerase II
A/B=39-363 P positive regulation of transcription, DNA-templated
A/B=39-363 P response to muscle stretch
A/B=39-363 P response to organic cyclic compound
A/B=39-363 P response to oxidative stress
A/B=39-363 P signal transduction
Sequences
Download file with secondary structure created by Stride  
1ooa.pdb1.pdb:   [ download sequences in FASTA format ]
A (protein): 
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C (rna): 
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1ooa.pdb2.pdb:   [ download sequences in FASTA format ]
B (protein): 
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D (rna): 
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