1NVP Transcription Dna date Feb 04, 2003
title Human Tfiiatbpdna Complex
authors M.Bleichenbacher, S.Tan, T.J.Richmond
compound source
Molecule: 5'- D(Gpgpgpgpgpgpgpcptpaptpapapapapgpg)-3';
Chain: E
Engineered: Yes
 Synthetic: Yes

Molecule: 5'- D(Cpcptptptptpaptpapgpcpcpcpcpcpcpc)-3';
Chain: F
Engineered: Yes
Synthetic: Yes

Molecule: Tata Box Binding Protein
Chain: A
Fragment: C-Terminal 181 Amino Acids
Synonym: Transcription Initiation Factor Tfiid, Tata-Box Factor, Tata Sequence-Binding Protein, Tbp;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tbp Or Tfiid Or Tf2d
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Transcription Initiation Factor Iia Alpha Chain
Chain: B
Fragment: N-Terminal 58 Amino Acids
Synonym: Tfiia P35 And P19 Subunits, Tfiia-42, Tfiial
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gtf2a1 Or Tf2a1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Transcription Initiation Factor Iia Beta Chain
Chain: C
Fragment: C-Terminal 76 Amino Acids
Synonym: Tfiia P35 And P19 Subunits, Tfiia-42, Tfiial
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gtf2a1 Or Tf2a1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Transcription Initiation Factor Iia Gamma Chain
Chain: D
Synonym: Tfiia P12 Subunit, Tfiia-12, Tfiias, Tfiia-Gamma
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gtf2a2 Or Tf2a2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.229 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.624 90.884 125.256 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
related structures by homologous chain: 1QNB, 1VOK
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


D


Primary referenceNovel interactions between the components of human and yeast TFIIA/TBP/DNA complexes., Bleichenbacher M, Tan S, Richmond TJ, J Mol Biol 2003 Sep 26;332(4):783-93. PMID:12972251
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (1nvp.pdb1.gz) 79 Kb
  • CSU: Contacts of Structural Units for 1NVP
  • Likely Quarternary Molecular Structure file(s) for 1NVP
  • Structure Factors (319 Kb)
  • Retrieve 1NVP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NVP from S2C, [Save to disk]
  • Re-refined 1nvp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1NVP 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 1NVP
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1NVP, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nvpa1, region A:159-252 [Jmol] [rasmolscript] [script source]
        - Domain d1nvpa2, region A:253-338 [Jmol] [rasmolscript] [script source]
        - Domain d1nvpb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1nvpc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1nvpd1, region D:3-53 [Jmol] [rasmolscript] [script source]
        - Domain d1nvpd2, region D:54-99 [Jmol] [rasmolscript] [script source]
  • Fold representative 1nvp 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: [1nvp_B] [1nvp] [1nvp_D] [1nvp_E] [1nvp_F] [1nvp_A] [1nvp_C]
  • SWISS-PROT database: [P52657] [P20226] [P52655]
  • Domain organization of [T2AG_HUMAN] [TBP_HUMAN] [TF2AA_HUMAN] by SWISSPFAM
  • Domain found in 1NVP: [TFIIA ] by SMART
    • Other resources with information on 1NVP
  • Community annotation for 1NVP 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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