2ZGC Hydrolase date Jan 21, 2008
title Crystal Structure Of Active Human Granzyme M
authors L.F.Wu, L.Wang, G.Q.Hua, K.Liu, Y.J.Zhai, F.Sun, Z.S.Fan
compound source
Molecule: Granzyme M
Chain: A
Synonym: Met-Ase, Natural Killer Cell Granular Protease, Hu Met-1 Serine Protease;
Ec: 3.4.21.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gzmm, Met1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26b-Gzmm
symmetry Space Group: P 31 2 1
R_factor 0.209 R_Free 0.257
length a length b length c angle alpha angle beta angle gamma
74.391 74.391 113.199 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.96 Å
ligand SO4 enzyme Hydrolase E.C.3.4.21 BRENDA

Primary referenceStructural basis for proteolytic specificity of the human apoptosis-inducing granzyme M., Wu L, Wang L, Hua G, Liu K, Yang X, Zhai Y, Bartlam M, Sun F, Fan Z, J Immunol. 2009 Jul 1;183(1):421-9. PMID:19542453
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (2zgc.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 2ZGC
  • CSU: Contacts of Structural Units for 2ZGC
  • Likely Quarternary Molecular Structure file(s) for 2ZGC
  • Structure Factors (145 Kb)
  • Retrieve 2ZGC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ZGC from S2C, [Save to disk]
  • Re-refined 2zgc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ZGC 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 2ZGC
  • 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 2ZGC, from MSDmotif at EBI
  • Fold representative 2zgc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2zgc_A] [2zgc]
  • SWISS-PROT database: [P51124]
  • Domain organization of [GRAM_HUMAN] by SWISSPFAM
  • Domain found in 2ZGC: [Tryp_SPc ] by SMART
  • Other resources with information on 2ZGC
  • Community annotation for 2ZGC at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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