General information
PDB ID 1JFI
Title CRYSTAL STRUCTURE OF THE NC2-TBP-DNA TERNARY COMPLEX
PDB header TRANSCRIPTION/DNA
Date 2001-06-20
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.62
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:
pdb1jfi.pdb ABC DE 0
Biounits:
1jfi.pdb1.pdb ABC DE 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
CBFD_NFYB_HMF Domain Q14919_10-74 1.4e-16 1 CL0012 A 10 74 D  H-Bb 
CBFD_NFYB_HMF Domain Q01658_11-75 1.8e-23 1 CL0012 B 111 175 DE  H-Bb L-Bb 
TBP Domain P20226_162-244 6.5e-33 1 CL0407 C 362 444 DE  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P20226_252-335 1e-31 1 CL0407 C 452 535 DE  S-Bb S-Mj S-Mn L-Bb 
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: TBP-associated factors, TAFs
Negative cofactor 2, NC2, alpha chain A N/A N/A D  H-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: TBP-associated factors, TAFs
Negative cofactor 2, NC2, beta chain B N/A N/A DE  H-Bb L-Bb 
Class: Alpha and beta proteins (a+b)
  Fold: TBP-like
    Superfamily: TATA-box binding protein-like
      Family: TATA-box binding protein (TBP), C-terminal domain
TATA-box binding protein (TBP), C-terminal domain C 356 456 DE  S-Bb S-Mn L-Bb 
Class: Alpha and beta proteins (a+b)
  Fold: TBP-like
    Superfamily: TATA-box binding protein-like
      Family: TATA-box binding protein (TBP), C-terminal domain
TATA-box binding protein (TBP), C-terminal domain C 457 538 DE  S-Bb S-Mn L-Bb 
GO terms
Protein chains: GO type: GO description:
A=1-77 C nucleus
A=1-77 C RNA polymerase II transcription regulator complex
A=1-77 F identical protein binding
A=1-77 F protein heterodimerization activity
A=1-77 F RNA polymerase II cis-regulatory region sequence-specific DNA binding
A=1-77 F RNA polymerase II general transcription initiation factor activity
A=1-77 F RNA polymerase II general transcription initiation factor binding
A=1-77 F TBP-class protein binding
A=1-77 F transcription coregulator activity
A=1-77 P negative regulation of transcription by RNA polymerase II
A=1-77 P regulation of transcription, DNA-templated
B=1-176 C Ada2/Gcn5/Ada3 transcription activator complex
B=1-176 C negative cofactor 2 complex
B=1-176 C nucleoplasm
B=1-176 C RNA polymerase II transcription regulator complex
B=1-176 F core promoter sequence-specific DNA binding
B=1-176 F DNA-binding transcription factor activity, RNA polymerase II-specific
B=1-176 F protein heterodimerization activity
B=1-176 F RNA polymerase II general transcription initiation factor activity
B=1-176 F TBP-class protein binding
B=1-176 F transcription corepressor activity
B=1-176 P chromatin remodeling
B=1-176 P histone H3 acetylation
B=1-176 P negative regulation of transcription by RNA polymerase II
B=1-176 P positive regulation of transcription by RNA polymerase II
B=1-176 P regulation of RNA polymerase II transcription preinitiation complex assembly
C=159-339 C cytoplasm
C=159-339 C female pronucleus
C=159-339 C male pronucleus
C=159-339 C nuclear chromatin
C=159-339 C nuclear euchromatin
C=159-339 C nucleoplasm
C=159-339 C nucleus
C=159-339 C protein-containing complex
C=159-339 C transcription factor TFIIA complex
C=159-339 C transcription factor TFIID complex
C=159-339 C transcription factor TFIIIB complex
C=159-339 C transcription preinitiation complex
C=159-339 C transcription regulator complex
C=159-339 F aryl hydrocarbon receptor binding
C=159-339 F core promoter sequence-specific DNA binding
C=159-339 F DNA-binding transcription factor activity
C=159-339 F enzyme binding
C=159-339 F repressing transcription factor binding
C=159-339 F RNA polymerase II cis-regulatory region sequence-specific DNA binding
C=159-339 F RNA polymerase II core promoter sequence-specific DNA binding
C=159-339 F RNA polymerase II general transcription initiation factor activity
C=159-339 F RNA polymerase II general transcription initiation factor binding
C=159-339 F RNA polymerase II repressing transcription factor binding
C=159-339 F RNA polymerase III general transcription initiation factor activity
C=159-339 F RNA polymerase III transcription regulatory region sequence-specific DNA binding
C=159-339 F TFIIB-class transcription factor binding
C=159-339 F transcription factor binding
C=159-339 F transcription regulatory region sequence-specific DNA binding
C=159-339 P positive regulation of gene expression, epigenetic
C=159-339 P positive regulation of transcription, DNA-templated
C=159-339 P regulation of signal transduction by p53 class mediator
C=159-339 P RNA polymerase II preinitiation complex assembly
C=159-339 P RNA polymerase III preinitiation complex assembly
C=159-339 P snRNA transcription by RNA polymerase II
C=159-339 P spermatogenesis
C=159-339 P termination of RNA polymerase I transcription
C=159-339 P transcription by RNA polymerase II
C=159-339 P transcription by RNA polymerase III
C=159-339 P transcription elongation from RNA polymerase I promoter
C=159-339 P transcription initiation from RNA polymerase I promoter
C=159-339 P transcription initiation from RNA polymerase II promoter
C=159-339 P viral process
Sequences
Download file with secondary structure created by Stride  
1jfi.pdb1.pdb:   [ download sequences in FASTA format ]
D (dna): 
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E (dna): 
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A (protein): 
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B (protein): 
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C (protein): 
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