1DNU Oxidoreductase date Dec 16, 1999
title Structural Analyses Of Human Myeloperoxidase-Thiocyanate Com
authors M.Blair-Johnson, T.J.Fiedler, R.E.Fenna
compound source
Molecule: Myeloperoxidase
Chain: A, B
Fragment: Myeloperoxidase Light Chain Containing Residues 1
Ec: 1.11.1.7
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood
Cell: Neutrophil

Molecule: Myeloperoxidase
Chain: C, D
Fragment: Myeloperoxidase Heavy Chain Containing Residues 1
Ec: 1.11.1.7

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood
Cell: Neutrophil
symmetry Space Group: P 1 21 1
R_factor 0.178 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.240 63.870 92.620 90.00 97.54 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand ACY, BMA, CA, CSO, FUC, HEM, MAN, NAG, SCN, SO4 enzyme Oxidoreductase E.C.1.11.1.7 BRENDA
related structures by homologous chain: 1CXP, 1D5L
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceHuman myeloperoxidase: structure of a cyanide complex and its interaction with bromide and thiocyanate substrates at 1.9 A resolution., Blair-Johnson M, Fiedler T, Fenna R, Biochemistry 2001 Nov 20;40(46):13990-7. PMID:11705390
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (209 Kb) [Save to disk]
  • Biological Unit Coordinates (1dnu.pdb1.gz) 201 Kb
  • Biological Unit Coordinates (1dnu.pdb2.gz) 103 Kb
  • Biological Unit Coordinates (1dnu.pdb3.gz) 102 Kb
  • LPC: Ligand-Protein Contacts for 1DNU
  • CSU: Contacts of Structural Units for 1DNU
  • Likely Quarternary Molecular Structure file(s) for 1DNU
  • Structure Factors (715 Kb)
  • Retrieve 1DNU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DNU from S2C, [Save to disk]
  • Re-refined 1dnu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1DNU 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 1DNU
  • 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 1DNU, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dnu.1, region A:,C [Jmol] [rasmolscript] [script source]
        - Domain d1dnu.2, region B:,D [Jmol] [rasmolscript] [script source]
  • Fold representative 1dnu 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: [1dnu_C] [1dnu_A] [1dnu_B] [1dnu_D] [1dnu]
  • SWISS-PROT database: [P05164]
  • Domain organization of [PERM_HUMAN] by SWISSPFAM
  • Other resources with information on 1DNU
  • Community annotation for 1DNU 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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