General information
PDB ID 1C9B
Title CRYSTAL STRUCTURE OF A HUMAN TBP CORE DOMAIN-HUMAN TFIIB CORE DOMAIN COMPLEX BOUND TO AN EXTENDED, MODIFIED ADENOVIRAL MAJOR LATE PROMOTER (ADMLP)
PDB header TRANSCRIPTION/DNA
Date 1999-08-01
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.65
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:
pdb1c9b.pdb ABEFIJMNQR CDGHKLOPST 0
Biounits:
1c9b.pdb1.pdb AB CD 1
1c9b.pdb2.pdb EF GH 1
1c9b.pdb3.pdb IJ KL 1
1c9b.pdb4.pdb MN OP 1
1c9b.pdb5.pdb QR ST 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
TFIIB Domain Q00403_110-201 1.5e-28 1 CL0065 A 110 201 CD  H-Bb L-Bb 
TFIIB Domain Q00403_204-295 1.5e-27 1 CL0065 A 204 295 CD  H-Bb H-Mj L-Bb 
TBP Domain P20226_162-244 6.2e-33 1 CL0407 B 162 244 CD  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P20226_252-335 9.9e-32 1 CL0407 B 252 335 CD  S-Bb S-Mn L-Bb L-Mj L-Mn 
TFIIB Domain Q00403_110-201 1.5e-28 1 CL0065 E 110 201 GH  H-Bb L-Bb 
TFIIB Domain Q00403_204-295 1.5e-27 1 CL0065 E 204 295 GH  H-Bb H-Mj L-Bb L-Mj 
TBP Domain P20226_162-244 6.2e-33 1 CL0407 F 162 244 GH  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P20226_252-335 9.9e-32 1 CL0407 F 252 335 GH  S-Bb S-Mn L-Bb L-Mj L-Mn 
TFIIB Domain Q00403_110-201 1.5e-28 1 CL0065 I 110 201 KL  H-Bb L-Bb 
TFIIB Domain Q00403_204-295 1.5e-27 1 CL0065 I 204 295 KL  H-Bb H-Mj L-Bb L-Mj 
TBP Domain P20226_162-244 6.2e-33 1 CL0407 J 162 244 KL  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P20226_252-335 9.9e-32 1 CL0407 J 252 335 KL  S-Bb S-Mn L-Bb L-Mj L-Mn 
TFIIB Domain Q00403_110-201 1.5e-28 1 CL0065 M 110 201 OP  H-Bb L-Bb 
TFIIB Domain Q00403_204-295 1.5e-27 1 CL0065 M 204 295 PO  H-Bb H-Mj L-Bb 
TBP Domain P20226_162-244 6.2e-33 1 CL0407 N 162 244 OP  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P20226_252-335 9.9e-32 1 CL0407 N 252 335 OP  S-Bb S-Mn L-Bb L-Mj L-Mn 
TFIIB Domain Q00403_110-201 1.5e-28 1 CL0065 Q 110 201 ST  H-Bb L-Bb 
TFIIB Domain Q00403_204-295 1.5e-27 1 CL0065 Q 204 295 T  H-Bb H-Mj L-Bb L-Mj 
TBP Domain P20226_162-244 6.2e-33 1 CL0407 R 162 244 ST  S-Bb S-Mn L-Bb L-Mn 
TBP Domain P20226_252-335 9.9e-32 1 CL0407 R 252 335 ST  S-Bb S-Mn L-Bb L-Mj L-Mn 
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain A 110 207 CD  H-Bb L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain A 208 316 CD  H-Bb H-Mj L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain E 110 207 GH  H-Bb L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain E 208 316 GH  H-Bb L-Bb L-Mj 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain I 110 207 KL  H-Bb L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain I 208 316 KL  H-Bb L-Bb L-Mj 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain M 110 207 OP  H-Bb L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain M 208 316 PO  H-Bb H-Mj L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain Q 110 207 ST  H-Bb L-Bb 
Class: All alpha proteins
  Fold: Cyclin-like
    Superfamily: Cyclin-like
      Family: Transcription factor IIB (TFIIB), core domain
Transcription factor IIB (TFIIB), core domain Q 208 316 T  H-Bb L-Bb L-Mj 
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 B 158 252 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 B 253 337 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 F 158 252 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 F 253 337 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 J 158 252 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 J 253 337 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 N 158 252 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 N 253 337 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 R 158 252 ST  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 R 253 337 ST  S-Bb S-Mn L-Bb L-Mn 
GO terms
Protein chains: GO type: GO description:
A/E/I/M/Q=110-316 C chromosome
A/E/I/M/Q=110-316 C nuclear body
A/E/I/M/Q=110-316 C nucleoplasm
A/E/I/M/Q=110-316 C nucleus
A/E/I/M/Q=110-316 C protein-DNA complex
A/E/I/M/Q=110-316 C RNA polymerase II transcription regulator complex
A/E/I/M/Q=110-316 C transcription factor TFIID complex
A/E/I/M/Q=110-316 C transcription preinitiation complex
A/E/I/M/Q=110-316 F acetyltransferase activity
A/E/I/M/Q=110-316 F core promoter sequence-specific DNA binding
A/E/I/M/Q=110-316 F histone acetyltransferase activity
A/E/I/M/Q=110-316 F promoter-specific chromatin binding
A/E/I/M/Q=110-316 F RNA polymerase II complex binding
A/E/I/M/Q=110-316 F RNA polymerase II complex recruiting activity
A/E/I/M/Q=110-316 F RNA polymerase II core promoter sequence-specific DNA binding
A/E/I/M/Q=110-316 F RNA polymerase II general transcription initiation factor activity
A/E/I/M/Q=110-316 F TBP-class protein binding
A/E/I/M/Q=110-316 F thyroid hormone receptor binding
A/E/I/M/Q=110-316 F transcription factor binding
A/E/I/M/Q=110-316 F zinc ion binding
A/E/I/M/Q=110-316 P DNA-templated transcription, initiation
A/E/I/M/Q=110-316 P positive regulation by host of viral transcription
A/E/I/M/Q=110-316 P positive regulation of core promoter binding
A/E/I/M/Q=110-316 P positive regulation of transcription initiation from RNA polymerase II promoter
A/E/I/M/Q=110-316 P positive regulation of viral transcription
A/E/I/M/Q=110-316 P protein acetylation
A/E/I/M/Q=110-316 P RNA polymerase II core complex assembly
A/E/I/M/Q=110-316 P RNA polymerase II preinitiation complex assembly
A/E/I/M/Q=110-316 P snRNA transcription by RNA polymerase II
A/E/I/M/Q=110-316 P transcription by RNA polymerase II
A/E/I/M/Q=110-316 P transcription initiation from RNA polymerase II promoter
A/E/I/M/Q=110-316 P transcriptional start site selection at RNA polymerase II promoter
A/E/I/M/Q=110-316 P viral process
B/F/J/N/R=159-337 C cytoplasm
B/F/J/N/R=159-337 C female pronucleus
B/F/J/N/R=159-337 C male pronucleus
B/F/J/N/R=159-337 C nuclear chromatin
B/F/J/N/R=159-337 C nuclear euchromatin
B/F/J/N/R=159-337 C nucleoplasm
B/F/J/N/R=159-337 C nucleus
B/F/J/N/R=159-337 C protein-containing complex
B/F/J/N/R=159-337 C transcription factor TFIIA complex
B/F/J/N/R=159-337 C transcription factor TFIID complex
B/F/J/N/R=159-337 C transcription factor TFIIIB complex
B/F/J/N/R=159-337 C transcription preinitiation complex
B/F/J/N/R=159-337 C transcription regulator complex
B/F/J/N/R=159-337 F aryl hydrocarbon receptor binding
B/F/J/N/R=159-337 F core promoter sequence-specific DNA binding
B/F/J/N/R=159-337 F DNA-binding transcription factor activity
B/F/J/N/R=159-337 F enzyme binding
B/F/J/N/R=159-337 F repressing transcription factor binding
B/F/J/N/R=159-337 F RNA polymerase II cis-regulatory region sequence-specific DNA binding
B/F/J/N/R=159-337 F RNA polymerase II core promoter sequence-specific DNA binding
B/F/J/N/R=159-337 F RNA polymerase II general transcription initiation factor activity
B/F/J/N/R=159-337 F RNA polymerase II general transcription initiation factor binding
B/F/J/N/R=159-337 F RNA polymerase II repressing transcription factor binding
B/F/J/N/R=159-337 F RNA polymerase III general transcription initiation factor activity
B/F/J/N/R=159-337 F RNA polymerase III transcription regulatory region sequence-specific DNA binding
B/F/J/N/R=159-337 F TFIIB-class transcription factor binding
B/F/J/N/R=159-337 F transcription factor binding
B/F/J/N/R=159-337 F transcription regulatory region sequence-specific DNA binding
B/F/J/N/R=159-337 P positive regulation of gene expression, epigenetic
B/F/J/N/R=159-337 P positive regulation of transcription, DNA-templated
B/F/J/N/R=159-337 P regulation of signal transduction by p53 class mediator
B/F/J/N/R=159-337 P RNA polymerase II preinitiation complex assembly
B/F/J/N/R=159-337 P RNA polymerase III preinitiation complex assembly
B/F/J/N/R=159-337 P snRNA transcription by RNA polymerase II
B/F/J/N/R=159-337 P spermatogenesis
B/F/J/N/R=159-337 P termination of RNA polymerase I transcription
B/F/J/N/R=159-337 P transcription by RNA polymerase II
B/F/J/N/R=159-337 P transcription by RNA polymerase III
B/F/J/N/R=159-337 P transcription elongation from RNA polymerase I promoter
B/F/J/N/R=159-337 P transcription initiation from RNA polymerase I promoter
B/F/J/N/R=159-337 P transcription initiation from RNA polymerase II promoter
B/F/J/N/R=159-337 P viral process
Sequences
Download file with secondary structure created by Stride  
1c9b.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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1c9b.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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1c9b.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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1c9b.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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1c9b.pdb5.pdb:   [ download sequences in FASTA format ]
S (dna): 
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T (dna): 
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Q (protein): 
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R (protein): 
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