5MNB Hydrolase date Dec 13, 2016
title Cationic Trypsin In Complex With 2-Aminopyridine (Deuterated 295 K)
authors J.Schiebel, A.Heine, G.Klebe
compound source
Molecule: Cationic Trypsin
Chain: A
Synonym: Beta-Trypsin
Ec: 3.4.21.4
 Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
symmetry Space Group: P 21 21 21
R_factor 0.096 R_Free 0.107
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.989 58.537 67.618 90.00 90.00 90.00
method X-Ray Diffractionresolution 0.94 Å
ligand 2AP, CA, SO4 enzyme Hydrolase E.C.3.4.21.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCharges Shift Protonation: Neutron Diffraction Reveals that Aniline and 2-Aminopyridine Become Protonated Upon Binding to Trypsin., Schiebel J, Gaspari R, Sandner A, Ngo K, Gerber HD, Cavalli A, Ostermann A, Heine A, Klebe G, Angew Chem Int Ed Engl. 2017 Apr 18;56(17):4887-4890. doi:, 10.1002/anie.201701038. Epub 2017 Mar 28. PMID:28371253
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (98 Kb) [Save to disk]
  • Biological Unit Coordinates (5mnb.pdb1.gz) 93 Kb
  • LPC: Ligand-Protein Contacts for 5MNB
  • CSU: Contacts of Structural Units for 5MNB
  • Structure Factors (978 Kb)
  • Retrieve 5MNB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MNB from S2C, [Save to disk]
  • Re-refined 5mnb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5MNB 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 5MNB
  • 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: [5mnb] [5mnb_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5MNB
  • Community annotation for 5MNB at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science