2YVR Metal Binding Protein date Apr 13, 2007
title Crystal Structure Of Ms1043
authors H.Wang, S.Kishishita, K.Murayama, C.Takemoto, T.Terada, M.Shirouz Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Transcription Intermediary Factor 1-Beta
Chain: A, B
Fragment: Zf-B_box Domain, Residues In Database 201-250
Synonym: Ms1043, Tif1-Beta, Tripartite Motif-Containing Pro Nuclear Corepressor Kap-1, Krab- Associated Protein 1, Kap- Interacting Protein 1, Krip-1, Ring Finger Protein 96;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pk050725-03
Other_details: Cell-Free Protein Synthesis
symmetry Space Group: P 43 21 2
R_factor 0.187 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.950 38.950 125.835 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand ZN enzyme
note 2YVR is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (22 Kb) [Save to disk]
  • Biological Unit Coordinates (2yvr.pdb1.gz) 17 Kb
  • LPC: Ligand-Protein Contacts for 2YVR
  • CSU: Contacts of Structural Units for 2YVR
  • Likely Quarternary Molecular Structure file(s) for 2YVR
  • Structure Factors (68 Kb)
  • Retrieve 2YVR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YVR from S2C, [Save to disk]
  • Re-refined 2yvr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2YVR 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 2YVR
  • 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
  • 3D motif for 2YVR, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2yvr_B] [2yvr] [2yvr_A]
  • SWISS-PROT database: [Q13263]
  • Domain organization of [TIF1B_HUMAN] by SWISSPFAM
  • Domain found in 2YVR: [BBOX ] by SMART
    • Other resources with information on 2YVR
  • Community annotation for 2YVR 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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