1VOL Transcription Dna date Apr 29, 1996
title Tfiib (Human Core Domain)Tbp (A.Thaliana)Tata Element Tern Complex
authors D.B.Nikolov, H.Chen, E.D.Halay, A.U.Usheva, K.Hisatake, D.K.Lee, R.G.Roeder, S.K.Burley
compound source
Molecule: Dna (5'-D(Gpgpcptpaptpapapapapgpgpgp 3');
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'-D(Cpapgpcpcpcptptptptpaptpap 3');
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Protein (Transcription Factor Iib (Tfiib))
Chain: A
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Protein (Tata Binding Protein (Tbp))
Chain: B
Engineered: Yes

Organism_scientific: Arabidopsis Thaliana
Organism_common: Thale Cress
Organism_taxid: 3702
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.215 R_Free 0.318
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.900 78.000 134.700 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
note 1VOL (Molecule of the Month:pdb67)
related structures by homologous chain: 1C9B, 1TFB, 1TGH
Gene
Ontology
ChainFunctionProcessComponent
A


B
  • obsolete general RNA polymer...


  • Primary referenceCrystal structure of a TFIIB-TBP-TATA-element ternary complex., Nikolov DB, Chen H, Halay ED, Usheva AA, Hisatake K, Lee DK, Roeder RG, Burley SK, Nature 1995 Sep 14;377(6545):119-28. PMID:7675079
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (1vol.pdb1.gz) 74 Kb
  • CSU: Contacts of Structural Units for 1VOL
  • Likely Quarternary Molecular Structure file(s) for 1VOL
  • Retrieve 1VOL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VOL from S2C, [Save to disk]
  • View 1VOL in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1VOL
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1VOL, from MSDmotif at EBI
  • Genome occurence of 1VOL's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vola1, region A:113-207 [Jmol] [rasmolscript] [script source]
        - Domain d1vola2, region A:208-316 [Jmol] [rasmolscript] [script source]
        - Domain d1volb2, region B:116-198 [Jmol] [rasmolscript] [script source]
        - Domain d1volb1, region B:12-115 [Jmol] [rasmolscript] [script source]
  • Fold representative 1vol from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vol_D] [1vol_C] [1vol_A] [1vol] [1vol_B]
  • SWISS-PROT database: [P28147] [Q00403]
  • Domain organization of [TBP1_ARATH] [TF2B_HUMAN] by SWISSPFAM
  • Domain found in 1VOL: [CYCLIN ] by SMART
  • Other resources with information on 1VOL
  • Community annotation for 1VOL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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