4P3N Ligase Ligase Inhibitor date Mar 09, 2014
title Structural Basis For Full-Spectrum Inhibition Of Threonyl-Tr Synthetase By Borrelidin 1
authors P.Fang, X.Yu, K.Chen, X.Chen, M.Guo
compound source
Molecule: Threonine--Trna Ligase, Cytoplasmic
Chain: A, B, C, D
Fragment: Unp Residues 322-723
Synonym: Threonyl-Trna Synthetase, Thrrs
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tars
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: P 1
R_factor 0.228 R_Free 0.255
length a length b length c angle alpha angle beta angle gamma
63.870 78.000 118.050 86.99 83.32 84.39
method X-Ray Diffractionresolution 2.60 Å
ligand 2CR, ZN enzyme Ligase E.C. BRENDA
A, D, C, B

Primary referenceStructural basis for full-spectrum inhibition of translational functions on a tRNA synthetase., Fang P, Yu X, Jeong SJ, Mirando A, Chen K, Chen X, Kim S, Francklyn CS, Guo M, Nat Commun. 2015 Mar 31;6:6402. doi: 10.1038/ncomms7402. PMID:25824639
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (560 Kb) [Save to disk]
  • Biological Unit Coordinates (4p3n.pdb1.gz) 279 Kb
  • Biological Unit Coordinates (4p3n.pdb2.gz) 279 Kb
  • LPC: Ligand-Protein Contacts for 4P3N
  • CSU: Contacts of Structural Units for 4P3N
  • Structure Factors (1067 Kb)
  • Retrieve 4P3N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4P3N from S2C, [Save to disk]
  • Re-refined 4p3n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4P3N 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 4P3N
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4P3N, from MSDmotif at EBI
  • Fold representative 4p3n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4p3n] [4p3n_B] [4p3n_D] [4p3n_A] [4p3n_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4P3N
  • Community annotation for 4P3N at PDBWiki (http://pdbwiki.org)

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