6FL5 Transferase date Jan 25, 2018
title Structure Of Human Shmt1-H135n-R137a-E168n Mutant At 3.6 Ang Resolution
authors G.Giardina, F.Cutruzzola, R.Lucchi
compound source
Molecule: Serine Hydroxymethyltransferase, Cytosolic
Chain: A, D, G, J
Synonym: Shmt,Glycine Hydroxymethyltransferase,Serine Methy
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Shmt1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_plasmid: Pet28b
symmetry Space Group: P 43 21 2
R_factor 0.262 R_Free 0.277
length a length b length c angle alpha angle beta angle gamma
139.719 139.719 267.377 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.60 Å
ligand CL, PLP enzyme Transferase E.C. BRENDA
A, J, D, G

Primary referenceThe catalytic activity of serine hydroxymethyltransferase is essential for de novo nuclear dTMP synthesis in lung cancer cells., Giardina G, Paone A, Tramonti A, Lucchi R, Marani M, Magnifico MC, Bouzidi A, Pontecorvi V, Guiducci G, Zamparelli C, Rinaldo S, Paiardini A, Contestabile R, Cutruzzola F, FEBS J. 2018 Sep;285(17):3238-3253. doi: 10.1111/febs.14610. Epub 2018 Aug 7. PMID:30035852
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (297 Kb) [Save to disk]
  • Biological Unit Coordinates (6fl5.pdb1.gz) 291 Kb
  • LPC: Ligand-Protein Contacts for 6FL5
  • CSU: Contacts of Structural Units for 6FL5
  • Structure Factors (1325 Kb)
  • Retrieve 6FL5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6FL5 from S2C, [Save to disk]
  • View 6FL5 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 6FL5
  • 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
  • Fold representative 6fl5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6fl5_A] [6fl5_D] [6fl5_J] [6fl5_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6FL5
  • Community annotation for 6FL5 at PDBWiki (http://pdbwiki.org)

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