1VD4 Transcription date Mar 18, 2004
title Solution Structure Of The Zinc Finger Domain Of Tfiie Alpha
authors M.Okuda, A.Tanaka, Y.Arai, M.Satoh, H.Okamura, A.Nagadoi, F.Hanaok Y.Ohkuma, Y.Nishimura
compound source
Molecule: Transcription Initiation Factor Iie, Alpha Subuni
Chain: A
Fragment: Zinc Finger Domain
Synonym: Tfiie-Alpha, General Transcription Factor Iie 56 K Subunit, General Transcription Factor Tfiie Alpha;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gtf2e1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11d
methodSolution NMR
ligand ZN enzyme
note 1VD4 is a representative structure
Primary referenceA novel zinc finger structure in the large subunit of human general transcription factor TFIIE., Okuda M, Tanaka A, Arai Y, Satoh M, Okamura H, Nagadoi A, Hanaoka F, Ohkuma Y, Nishimura Y, J Biol Chem 2004 Sep 22;. PMID:15385556
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (312 Kb) [Save to disk]
  • Biological Unit Coordinates (1vd4.pdb1.gz) 16 Kb
  • LPC: Ligand-Protein Contacts for 1VD4
  • CSU: Contacts of Structural Units for 1VD4
  • Original NMR restraints for 1VD4 from PDB
  • Retrieve 1VD4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VD4 from S2C, [Save to disk]
  • View 1VD4 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 1VD4
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1VD4, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vd4a_, region A [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vd4] [1vd4_A]
  • SWISS-PROT database: [P29083]
  • Domain organization of [T2EA_HUMAN] by SWISSPFAM
  • Domain found in 1VD4: [TFIIE ] by SMART
  • Other resources with information on 1VD4
  • Community annotation for 1VD4 at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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