5K7T Hydrolase date May 26, 2016
title Microed Structure Of Thermolysin At 2.5 A Resolution
authors M.J.De La Cruz, J.Hattne, D.Shi, P.Seidler, J.Rodriguez, F.E.Reye M.R.Sawaya, D.Cascio, D.Eisenberg, T.Gonen
compound source
Molecule: Thermolysin
Chain: A
Synonym: Thermostable Neutral Proteinase
Ec: 3.4.24.27
 Organism_scientific: Bacillus Thermoproteolyticus
Organism_taxid: 1427
symmetry Space Group: P 61 2 2
R_factor 0.290 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
92.065 92.065 128.498 90.00 90.00 120.00
method Electron Crystallographyresolution 2.50 Å
ligand CA, DMS, IPA, ZN enzyme Hydrolase E.C.3.4.24.27 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAtomic-resolution structures from fragmented protein crystals with the cryoEM method MicroED., de la Cruz MJ, Hattne J, Shi D, Seidler P, Rodriguez J, Reyes FE, Sawaya MR, Cascio D, Weiss SC, Kim SK, Hinck CS, Hinck AP, Calero G, Eisenberg D, Gonen T, Nat Methods. 2017 Feb 13;14(4):399-402. doi: 10.1038/nmeth.4178. PMID:28192420
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (5k7t.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 5K7T
  • CSU: Contacts of Structural Units for 5K7T
  • Structure Factors (1608 Kb)
  • Retrieve 5K7T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5K7T from S2C, [Save to disk]
  • Re-refined 5k7t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5K7T 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 5K7T
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5k7t_A] [5k7t]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5K7T
  • Community annotation for 5K7T at PDBWiki (http://pdbwiki.org)

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