5MNG Hydrolase date Dec 13, 2016
title Cationic Trypsin In Complex With Benzamidine (Deuterated Sam 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: Cattle
Organism_taxid: 9913
symmetry Space Group: P 21 21 21
R_factor 0.099 R_Free 0.109
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.486 58.177 66.833 90.00 90.00 90.00
method X-Ray Diffractionresolution 0.86 Å
ligand BAM, BEN, CA, SO4 enzyme Hydrolase E.C.3.4.21.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceIntriguing role of water in protein-ligand binding studied by neutron crystallography on trypsin complexes., Schiebel J, Gaspari R, Wulsdorf T, Ngo K, Sohn C, Schrader TE, Cavalli A, Ostermann A, Heine A, Klebe G, Nat Commun. 2018 Sep 3;9(1):3559. doi: 10.1038/s41467-018-05769-2. PMID:30177695
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (117 Kb) [Save to disk]
  • Biological Unit Coordinates (5mng.pdb1.gz) 111 Kb
  • LPC: Ligand-Protein Contacts for 5MNG
  • CSU: Contacts of Structural Units for 5MNG
  • Structure Factors (1290 Kb)
  • Retrieve 5MNG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MNG from S2C, [Save to disk]
  • View 5MNG 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 5MNG
  • 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: [5mng_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MNG
  • Community annotation for 5MNG at PDBWiki (http://pdbwiki.org)

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