5KAL Transferase Rna date Jun 01, 2016
title Terminal Uridylyl Transferase 4 From Trypanosoma Brucei With And Upu
authors J.R.Stagno, H.Luecke, R.Afasizhev
compound source
Molecule: Rna Uridylyltransferase 4
Chain: A, B
Engineered: Yes
Organism_scientific: Trypanosoma Brucei
Organism_taxid: 5691
Gene: Tut4
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Rna (5'-R(Upu)-3')
Chain: Y, Z
Engineered: Yes

Synthetic: Yes
Organism_scientific: Trypanosoma Brucei
Organism_taxid: 5691
symmetry Space Group: P 1 21 1
R_factor 0.214 R_Free 0.259
length a length b length c angle alpha angle beta angle gamma
82.688 42.876 109.618 90.00 94.05 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand MG, UTP enzyme
A, B

Primary referenceRNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting., Rajappa-Titu L, Suematsu T, Munoz-Tello P, Long M, Demir O, Cheng KJ, Stagno JR, Luecke H, Amaro RE, Aphasizheva I, Aphasizhev R, Thore S, Nucleic Acids Res. 2016 Oct 15. pii: gkw917. PMID:27744351
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (339 Kb) [Save to disk]
  • Biological Unit Coordinates (5kal.pdb1.gz) 171 Kb
  • Biological Unit Coordinates (5kal.pdb2.gz) 164 Kb
  • LPC: Ligand-Protein Contacts for 5KAL
  • CSU: Contacts of Structural Units for 5KAL
  • Structure Factors (318 Kb)
  • Retrieve 5KAL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KAL from S2C, [Save to disk]
  • Re-refined 5kal structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5KAL 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 5KAL
  • 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 5kal from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kal_Z] [5kal_Y] [5kal_B] [5kal_A] [5kal]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5KAL
  • Community annotation for 5KAL at PDBWiki (http://pdbwiki.org)

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