4YLR Ligase date Mar 05, 2015
title Tubulin Glutamylase
authors C.P.Garnham, A.Vemu, E.M.Wilson-Kubalek, I.Yu, A.Szyk, G.C.Lander R.A.Milligan, A.Roll-Mecak
compound source
Molecule: Tubulin Polyglutamylase Ttll7
Chain: A
Fragment: Unp Residues 36-518
Synonym: Testis Development Protein Nyd-Sp30,Tubulin--Tyros Ligase-Like Protein 7;
Ec: 6.-.-.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ttll7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 2 2 21
R_factor 0.222 R_Free 0.269
length a length b length c angle alpha angle beta angle gamma
78.548 121.762 129.858 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.55 Å
ligand ADP enzyme Ligase E.C.6 BRENDA

Primary referenceMultivalent Microtubule Recognition by Tubulin Tyrosine Ligase-like Family Glutamylases., Garnham CP, Vemu A, Wilson-Kubalek EM, Yu I, Szyk A, Lander GC, Milligan RA, Roll-Mecak A, Cell. 2015 May 21;161(5):1112-23. doi: 10.1016/j.cell.2015.04.003. Epub 2015 May , 7. PMID:25959773
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (117 Kb) [Save to disk]
  • Biological Unit Coordinates (4ylr.pdb1.gz) 110 Kb
  • LPC: Ligand-Protein Contacts for 4YLR
  • CSU: Contacts of Structural Units for 4YLR
  • Structure Factors (219 Kb)
  • Retrieve 4YLR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YLR from S2C, [Save to disk]
  • Re-refined 4ylr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4YLR 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 4YLR
  • 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
  • 3D motif for 4YLR, from MSDmotif at EBI
  • Fold representative 4ylr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ylr_A] [4ylr]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4YLR
  • Community annotation for 4YLR at PDBWiki (http://pdbwiki.org)

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