1PPZ Hydrolase date Jun 17, 2003
title Trypsin Complexes At Atomic And Ultra-High Resolution
authors A.Schmidt, C.Jelsch, W.Rypniewski, V.S.Lamzin
compound source
Molecule: Trypsin
Chain: A
Ec: 3.4.21.4
Organism_scientific: Fusarium Oxysporum
Organism_taxid: 5507
symmetry Space Group: P 1 21 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
32.999 66.505 39.244 90.00 108.67 90.00
method X-Ray Diffractionresolution 1.23 Å
ligand MIS, SO4 enzyme Hydrolase E.C.3.4.21.4 BRENDA
related structures by homologous chain: 1PQA, 1TRY
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceTrypsin revisited: crystallography AT (SUB) atomic resolution and quantum chemistry revealing details of catalysis., Schmidt A, Jelsch C, Ostergaard P, Rypniewski W, Lamzin VS, J Biol Chem 2003 Oct 31;278(44):43357-62. Epub 2003 Aug 22. PMID:12937176
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk]
  • Biological Unit Coordinates (1ppz.pdb1.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 1PPZ
  • CSU: Contacts of Structural Units for 1PPZ
  • Likely Quarternary Molecular Structure file(s) for 1PPZ
  • Structure Factors (456 Kb)
  • Retrieve 1PPZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PPZ from S2C, [Save to disk]
  • Re-refined 1ppz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PPZ 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 1PPZ
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1PPZ from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1PPZ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ppza_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1ppz from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1ppz_A] [1ppz]
  • SWISS-PROT database: [P35049]
  • Domain organization of [TRYP_FUSOX] by SWISSPFAM
  • Domain found in 1PPZ: [Tryp_SPc ] by SMART
  • Other resources with information on 1PPZ
  • Community annotation for 1PPZ 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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