1D7D Oxidoreductase date Oct 16, 1999
title Cytochrome Domain Of Cellobiose Dehydrogenase, Hp3 Fragment,
authors B.M.Hallberg, T.Bergfors, K.Backbro, C.Divne
compound source
Molecule: Cellobiose Dehydrogenase
Chain: A, B
Fragment: Cytochrome Type B Domain
Ec: 1.1.3.25
Organism_scientific: Phanerochaete Chrysosporium
Organism_taxid: 5306
Tissue: Secreted
symmetry Space Group: P 65
R_factor 0.187 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
138.300 138.300 53.390 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand 1PG, BMA, CD, HEM, MAN, NAG, PCA enzyme Oxidoreductase E.C.1.1.3.25 BRENDA
related structures by homologous chain: 1D7C, 1PL3
Primary referenceA new scaffold for binding haem in the cytochrome domain of the extracellular flavocytochrome cellobiose dehydrogenase., Hallberg BM, Bergfors T, Backbro K, Pettersson G, Henriksson G, Divne C, Structure Fold Des 2000 Jan 15;8(1):79-88. PMID:10673428
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (1d7d.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 1D7D
  • CSU: Contacts of Structural Units for 1D7D
  • Likely Quarternary Molecular Structure file(s) for 1D7D
  • Structure Factors (411 Kb)
  • Retrieve 1D7D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D7D from S2C, [Save to disk]
  • Re-refined 1d7d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1D7D 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 1D7D
  • 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 1D7D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d7da_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1d7db_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1d7d 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: [1d7d_A] [1d7d_B] [1d7d]
  • SWISS-PROT database: [Q01738]
  • Domain organization of [CDH_PHACH] by SWISSPFAM
  • Domain found in 1D7D: [DoH ] by SMART
  • Other resources with information on 1D7D
  • Community annotation for 1D7D 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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