1NME Apoptosis, Hydrolase date Jan 09, 2003
title Structure Of Casp-3 With Tethered Salicylate
authors D.A.Erlanson, J.Lam, C.Wiesmann, T.N.Luong, B.Simmons, W.Delano, I.C.Choong, M.Flanagan, D.Lee, T.O'Brian
compound source
Molecule: Caspase-3
Chain: A
Fragment: Large Subunit
Synonym: Apopain; Cysteine Protease Cpp32; Yama Protein Cpp-32; Casp-3; Srebp Cleavage Activity 1; Sca-1;
Ec: 3.4.22.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Caspase-3
Chain: B
Fragment: Small Subunit
Synonym: Apopain; Cysteine Protease Cpp32; Yama Protein Cpp-32; Casp-3; Srebp Cleavage Activity 1; Sca-1;
Ec: 3.4.22.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 2 2 2
R_factor 0.172 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.488 83.598 95.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand 158, 159 enzyme Hydrolase E.C.3.4.22 BRENDA
related structures by homologous chain: 1NMS
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceIn situ assembly of enzyme inhibitors using extended tethering., Erlanson DA, Lam JW, Wiesmann C, Luong TN, Simmons RL, DeLano WL, Choong IC, Burdett MT, Flanagan WM, Lee D, Gordon EM, O'Brien T, Nat Biotechnol 2003 Mar;21(3):308-14. PMID:12563278
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (1nme.pdb1.gz) 47 Kb
  • Biological Unit Coordinates (1nme.pdb2.gz) 183 Kb
  • Biological Unit Coordinates (1nme.pdb3.gz) 182 Kb
  • Biological Unit Coordinates (1nme.pdb4.gz) 92 Kb
  • Biological Unit Coordinates (1nme.pdb5.gz) 92 Kb
  • LPC: Ligand-Protein Contacts for 1NME
  • CSU: Contacts of Structural Units for 1NME
  • Likely Quarternary Molecular Structure file(s) for 1NME
  • Structure Factors (264 Kb)
  • Retrieve 1NME in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NME from S2C, [Save to disk]
  • Re-refined 1nme structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1NME 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 1NME
  • 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 1NME, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nme.1, region A:,B [Jmol] [rasmolscript] [script source]
  • Fold representative 1nme 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: [1nme_A] [1nme_B] [1nme]
  • SWISS-PROT database: [P42574]
  • Domain organization of [CASP3_HUMAN] by SWISSPFAM
  • Domain found in 1NME: [CASc ] by SMART
  • Other resources with information on 1NME
  • Community annotation for 1NME 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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