General information
PDB ID 1NGM
Title CRYSTAL STRUCTURE OF A YEAST BRF1-TBP-DNA TERNARY COMPLEX
PDB header TRANSCRIPTION/DNA
Date 2002-12-17
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.95
Kind dna
Organism SACCHAROMYCES CEREVISIAE
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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:
pdb1ngm.pdb ABEFIJMN CDGHKLOP 0
Biounits:
1ngm.pdb1.pdb AB CD 1
1ngm.pdb2.pdb EF GH 1
1ngm.pdb3.pdb IJ KL 1
1ngm.pdb4.pdb MN OP 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
TBP Domain P13393_154-237 6e-33 1 CL0407 A 154 237 CD  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P13393_64-146 6.8e-33 1 CL0407 A 64 146 CD  S-Bb S-Mn L-Bb L-Mn 
BRF1 Domain P29056_463-506 1.7e-13 1 No_clan B 463 506   
TBP Domain P13393_154-237 6e-33 1 CL0407 E 154 237 GH  S-Bb S-Mn L-Bb L-Mj L-Mn 
TBP Domain P13393_64-146 6.8e-33 1 CL0407 E 64 146 GH  S-Bb S-Mn L-Bb L-Mn 
BRF1 Domain P29056_463-506 1.7e-13 1 No_clan F 463 506   
TBP Domain P13393_154-237 6e-33 1 CL0407 I 154 237 KL  S-Bb S-Mn L-Bb L-Mj L-Mn 
TBP Domain P13393_64-146 6.8e-33 1 CL0407 I 64 146 LK  S-Bb S-Mn L-Bb 
BRF1 Domain P29056_463-506 6.4e-14 1 No_clan J 463 506   
TBP Domain P13393_154-237 6e-33 1 CL0407 M 154 237 OP  S-Bb S-Mj S-Mn L-Bb L-Mn 
TBP Domain P13393_64-146 6.8e-33 1 CL0407 M 64 146 OP  S-Bb S-Mn L-Bb L-Mn 
BRF1 Domain P29056_463-506 6.4e-14 1 No_clan N 463 506   
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
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 A 61 155 CD  S-Bb S-Mn L-Bb L-Mn 
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 A 156 240 CD  S-Bb S-Mn L-Bb L-Mn 
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 E 61 155 GH  S-Bb S-Mn L-Bb L-Mn 
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 E 156 240 GH  S-Bb S-Mn L-Bb L-Mn 
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 I 61 155 LK  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 I 156 240 KL  S-Bb S-Mn L-Bb L-Mn 
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 M 61 155 OP  S-Bb S-Mn L-Bb L-Mn 
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 M 156 240 OP  S-Bb S-Mn L-Bb L-Mn 
Class: Peptides
  Fold: TBP-binding domain of the transcription factor IIIb Brf1 subunit
    Superfamily: TBP-binding domain of the transcription factor IIIb Brf1 subunit
      Family: TBP-binding domain of the transcription factor IIIb Brf1 subunit
TBP-binding domain of the transcription factor IIIb Brf1 subunit B N/A N/A -
Class: Peptides
  Fold: TBP-binding domain of the transcription factor IIIb Brf1 subunit
    Superfamily: TBP-binding domain of the transcription factor IIIb Brf1 subunit
      Family: TBP-binding domain of the transcription factor IIIb Brf1 subunit
TBP-binding domain of the transcription factor IIIb Brf1 subunit F N/A N/A -
Class: Peptides
  Fold: TBP-binding domain of the transcription factor IIIb Brf1 subunit
    Superfamily: TBP-binding domain of the transcription factor IIIb Brf1 subunit
      Family: TBP-binding domain of the transcription factor IIIb Brf1 subunit
TBP-binding domain of the transcription factor IIIb Brf1 subunit J N/A N/A -
Class: Peptides
  Fold: TBP-binding domain of the transcription factor IIIb Brf1 subunit
    Superfamily: TBP-binding domain of the transcription factor IIIb Brf1 subunit
      Family: TBP-binding domain of the transcription factor IIIb Brf1 subunit
TBP-binding domain of the transcription factor IIIb Brf1 subunit N N/A N/A -
GO terms
Protein chains: GO type: GO description:
A/E/I/M=61-240 C nucleoplasm
A/E/I/M=61-240 C nucleus
A/E/I/M=61-240 C protein-containing complex
A/E/I/M=61-240 C transcription factor TFIIA complex
A/E/I/M=61-240 C transcription factor TFIID complex
A/E/I/M=61-240 C transcription factor TFIIIB complex
A/E/I/M=61-240 C transcription regulator complex
A/E/I/M=61-240 F chromatin binding
A/E/I/M=61-240 F disordered domain specific binding
A/E/I/M=61-240 F DNA binding, bending
A/E/I/M=61-240 F DNA-binding transcription factor activity
A/E/I/M=61-240 F RNA polymerase I general transcription initiation factor binding
A/E/I/M=61-240 F RNA polymerase II activating transcription factor binding
A/E/I/M=61-240 F RNA polymerase II cis-regulatory region sequence-specific DNA binding
A/E/I/M=61-240 F RNA polymerase II core promoter sequence-specific DNA binding
A/E/I/M=61-240 F RNA polymerase II general transcription initiation factor activity
A/E/I/M=61-240 F RNA polymerase III general transcription initiation factor activity
A/E/I/M=61-240 F RNA polymerase III transcription regulatory region sequence-specific DNA binding
A/E/I/M=61-240 F TFIIA-class transcription factor complex binding
A/E/I/M=61-240 F transcription factor binding
A/E/I/M=61-240 P nucleolar large rRNA transcription by RNA polymerase I
A/E/I/M=61-240 P RNA polymerase I preinitiation complex assembly
A/E/I/M=61-240 P RNA polymerase II preinitiation complex assembly
A/E/I/M=61-240 P RNA polymerase III preinitiation complex assembly
A/E/I/M=61-240 P transcription by RNA polymerase II
A/E/I/M=61-240 P transposon integration
B/F/J/N=437-506 C nucleoplasm
B/F/J/N=437-506 C nucleus
B/F/J/N=437-506 C transcription factor TFIIIB complex
B/F/J/N=437-506 F DNA binding
B/F/J/N=437-506 F metal ion binding
B/F/J/N=437-506 F RNA polymerase III core binding
B/F/J/N=437-506 F RNA polymerase III general transcription initiation factor activity
B/F/J/N=437-506 F RNA polymerase III type 3 promoter sequence-specific DNA binding
B/F/J/N=437-506 F TBP-class protein binding
B/F/J/N=437-506 F TFIIIC-class transcription factor complex binding
B/F/J/N=437-506 F transcription factor binding
B/F/J/N=437-506 P DNA-templated transcription open complex formation
B/F/J/N=437-506 P DNA-templated transcription, initiation
B/F/J/N=437-506 P RNA polymerase III preinitiation complex assembly
B/F/J/N=437-506 P transposon integration
Sequences
Download file with secondary structure created by Stride  
1ngm.pdb1.pdb:   [ download sequences in FASTA format ]
C (dna): 
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D (dna): 
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A (protein): 
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B (protein): 
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1ngm.pdb2.pdb:   [ download sequences in FASTA format ]
G (dna): 
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H (dna): 
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E (protein): 
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F (protein): 
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1ngm.pdb3.pdb:   [ download sequences in FASTA format ]
K (dna): 
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L (dna): 
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I (protein): 
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J (protein): 
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1ngm.pdb4.pdb:   [ download sequences in FASTA format ]
O (dna): 
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P (dna): 
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M (protein): 
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N (protein): 
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