5EEV Rna Binding Protein date Oct 23, 2015
title Radiation Damage To The Trap-Rna Complex: Dose (Dwd) 3.88 Mg
authors C.S.Bury, J.E.Mcgeehan, E.F.Garman, M.B.Shevtsov
compound source
Molecule: Transcription Attenuation Protein Mtrb
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R V;
Synonym: Trp Rna-Binding Attenuation Protein,Trap,Tryptopha Binding Attenuator Protein;
Engineered: Yes
Organism_scientific: Geobacillus Stearothermophilus
Organism_taxid: 1422
Gene: Mtrb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Sg62052pgp1-2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptzstmtrb

Molecule: (Gaguu)10gag 53-Nucleotide Rna
Chain: W
Fragment: (Gaguu)10gag 53-Nucleotide Rna
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Synthetic Rna. In-Vitro Transcription
symmetry Space Group: C 1 2 1
R_factor 0.209 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
141.000 110.980 137.930 90.00 117.41 90.00
method X-Ray Diffractionresolution 1.98 Å
ligand TRP enzyme
Gene
Ontology
ChainFunctionProcessComponent
S, F, T, N, K, E, V, Q, M, C, L, A, J, O, P, B, H, D, R, I, G, U


Primary referenceRNA protects a nucleoprotein complex against radiation damage., Bury CS, McGeehan JE, Antson AA, Carmichael I, Gerstel M, Shevtsov MB, Garman EF, Acta Crystallogr D Struct Biol. 2016 May 1;72(Pt 5):648-57. doi:, 10.1107/S2059798316003351. Epub 2016 Apr 26. PMID:27139628
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (286 Kb) [Save to disk]
  • Biological Unit Coordinates (5eev.pdb1.gz) 130 Kb
  • Biological Unit Coordinates (5eev.pdb2.gz) 154 Kb
  • LPC: Ligand-Protein Contacts for 5EEV
  • CSU: Contacts of Structural Units for 5EEV
  • Structure Factors (8649 Kb)
  • Retrieve 5EEV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EEV from S2C, [Save to disk]
  • Re-refined 5eev structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5EEV 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 5EEV
  • 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
  • Fold representative 5eev from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5eev_C] [5eev_M] [5eev_R] [5eev_G] [5eev_T] [5eev_H] [5eev_A] [5eev_U] [5eev_K] [5eev_S] [5eev_B] [5eev] [5eev_F] [5eev_L] [5eev_V] [5eev_E] [5eev_J] [5eev_N] [5eev_O] [5eev_P] [5eev_D] [5eev_I] [5eev_W] [5eev_Q]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5EEV
  • Community annotation for 5EEV at PDBWiki (http://pdbwiki.org)

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