1PP8 Transcription Dna date Jun 16, 2003
title Crystal Structure Of The T. Vaginalis Ibp39 Initiator Bindin (Ibd) Bound To The Alpha-Scs Inr Element
authors M.A.Schumacher, A.O.T.Lau, P.J.Johnson
compound source
Molecule: Alpha-Scs Inr
Chain: E, I, Y, K
Engineered: Yes
Other_details: The Alpha-Scs Inr Promoter Element, Dna Site
Synthetic: Yes

Molecule: Alpha-Scs Inr
Chain: T, R, J, G
Engineered: Yes

Synthetic: Yes

Molecule: 39 Kda Initiator Binding Protein
Chain: U, P, F, V, M, O
Fragment: Residues 1-126
Engineered: Yes

Organism_scientific: Trichomonas Vaginalis
Organism_taxid: 5722
Gene: Trichomonas Vaginalis:Ibp39
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Peq60
symmetry Space Group: F 2 3
R_factor 0.269 R_Free 0.311
crystal
cell
length a length b length c angle alpha angle beta angle gamma
292.000 292.000 292.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.05 Å
ligand SO4 enzyme
Primary referenceStructural basis of core promoter recognition in a primitive eukaryote., Schumacher MA, Lau AO, Johnson PJ, Cell 2003 Nov 14;115(4):413-24. PMID:14622596
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (153 Kb) [Save to disk]
  • Biological Unit Coordinates (1pp8.pdb1.gz) 30 Kb
  • Biological Unit Coordinates (1pp8.pdb2.gz) 31 Kb
  • Biological Unit Coordinates (1pp8.pdb3.gz) 30 Kb
  • Biological Unit Coordinates (1pp8.pdb4.gz) 30 Kb
  • Biological Unit Coordinates (1pp8.pdb5.gz) 18 Kb
  • Biological Unit Coordinates (1pp8.pdb6.gz) 18 Kb
  • LPC: Ligand-Protein Contacts for 1PP8
  • CSU: Contacts of Structural Units for 1PP8
  • Likely Quarternary Molecular Structure file(s) for 1PP8
  • Structure Factors (336 Kb)
  • Retrieve 1PP8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PP8 from S2C, [Save to disk]
  • Re-refined 1pp8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PP8 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 1PP8
  • 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 1PP8, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pp8f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1pp8m_, region M [Jmol] [rasmolscript] [script source]
        - Domain d1pp8o_, region O [Jmol] [rasmolscript] [script source]
        - Domain d1pp8p_, region P [Jmol] [rasmolscript] [script source]
        - Domain d1pp8u_, region U [Jmol] [rasmolscript] [script source]
        - Domain d1pp8v_, region V [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pp8_Y] [1pp8_E] [1pp8_M] [1pp8_I] [1pp8_P] [1pp8_K] [1pp8_J] [1pp8_O] [1pp8_V] [1pp8_U] [1pp8_F] [1pp8] [1pp8_G] [1pp8_T] [1pp8_R]
  • SWISS-PROT database: [Q95VR4]
  • Domain organization of [Q95VR4_TRIVA] by SWISSPFAM
  • Other resources with information on 1PP8
  • Community annotation for 1PP8 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science