1OP8 Hydrolase date Mar 05, 2003
title Crystal Structure Of Human Granzyme A
authors C.Hink-Schauer, E.Estebanez-Perpina, W.Bode, D.Jenne
compound source
Molecule: Granzyme A
Chain: A, B, C, D, E, F
Ec: 3.4.21.78
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.218 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.480 94.550 94.870 117.12 100.25 100.12
method X-Ray Diffractionresolution 2.50 Å
ligand SO4 enzyme Hydrolase E.C.3.4.21.78 BRENDA
related structures by homologous chain: 1ORF
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceCrystal structure of the apoptosis-inducing human granzyme A dimer., Hink-Schauer C, Estebanez-Perpina E, Kurschus FC, Bode W, Jenne DE, Nat Struct Biol 2003 Jul;10(7):535-40. PMID:12819770
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (241 Kb) [Save to disk]
  • Biological Unit Coordinates (1op8.pdb1.gz) 81 Kb
  • Biological Unit Coordinates (1op8.pdb2.gz) 81 Kb
  • Biological Unit Coordinates (1op8.pdb3.gz) 79 Kb
  • LPC: Ligand-Protein Contacts for 1OP8
  • CSU: Contacts of Structural Units for 1OP8
  • Likely Quarternary Molecular Structure file(s) for 1OP8
  • Structure Factors (359 Kb)
  • Retrieve 1OP8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OP8 from S2C, [Save to disk]
  • Re-refined 1op8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OP8 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 1OP8
  • 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
  • 3D motif for 1OP8, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1op8a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1op8b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1op8c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1op8d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1op8e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1op8f_, region F [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1op8_B] [1op8] [1op8_C] [1op8_D] [1op8_A] [1op8_E] [1op8_F]
  • SWISS-PROT database: [P12544]
  • Domain organization of [GRAA_HUMAN] by SWISSPFAM
  • Domain found in 1OP8: [Tryp_SPc ] by SMART
  • Other resources with information on 1OP8
  • Community annotation for 1OP8 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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