2H88 Oxidoreductase date Jun 06, 2006
title Avian Mitochondrial Respiratory Complex II At 1.8 Angstrom R
authors L.S.Huang, J.T.Shen, A.C.Wang, E.A.Berry
compound source
Molecule: Succinate Dehydrogenase Flavoprotein Subunit
Chain: A, N
Ec: 1.3.5.1
 Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031

Molecule: Succinate Dehydrogenase Ip Subunit
Chain: B, O
Ec: 1.3.5.1
Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031

Molecule: Succinate Dehydrogenase Cytochrome B, Large Subun
Chain: C, P
Ec: 1.3.5.1
Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031

Molecule: Succinate Dehydrogenase Cytochrome B, Small Subun
Chain: D, Q
Ec: 1.3.5.1
Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
symmetry Space Group: P 1 21 1
R_factor 0.178 R_Free 0.206
crystal
cell
length a length b length c angle alpha angle beta angle gamma
119.972 199.391 68.063 90.00 90.35 90.00
method X-Ray Diffractionresolution 1.74 Å
ligand AZI, BHG, F3S, FAD, FES, GOL, HEM, K, SF4, TEO, UNL enzyme Oxidoreductase E.C.1.3.5.1 BRENDA
note 2H88 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, N

  • mitochondrial respiratory ch...
    • O, B


    P, C
  • electron transfer activity


    • Q, D


    Primary referenceCrystallographic studies of the binding of ligands to the dicarboxylate site of Complex II, and the identity of the ligand in the "oxaloacetate-inhibited" state., Huang LS, Shen JT, Wang AC, Berry EA, Biochim Biophys Acta. 2006 Sep-Oct;1757(9-10):1073-83. Epub 2006 Jul 12. PMID:16935256
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (393 Kb) [Save to disk]
  • Biological Unit Coordinates (2h88.pdb1.gz) 195 Kb
  • Biological Unit Coordinates (2h88.pdb2.gz) 195 Kb
  • Biological Unit Coordinates (2h88.pdb3.gz) 280 Kb
  • Biological Unit Coordinates (2h88.pdb4.gz) 281 Kb
  • LPC: Ligand-Protein Contacts for 2H88
  • CSU: Contacts of Structural Units for 2H88
  • Likely Quarternary Molecular Structure file(s) for 2H88
  • Structure Factors (2618 Kb)
  • Retrieve 2H88 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H88 from S2C, [Save to disk]
  • Re-refined 2h88 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2H88 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 2H88
  • 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 2H88, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h88] [2h88_D] [2h88_Q] [2h88_P] [2h88_O] [2h88_B] [2h88_C] [2h88_N] [2h88_A]
  • SWISS-PROT database: [D0VWW3] [Q9YHT1] [Q9YHT2] [Q5ZIS0]
  • Domain organization of [D0VWW3_CHICK] [DHSA_CHICK] [DHSB_CHICK] [DHSD_CHICK] by SWISSPFAM
    • Other resources with information on 2H88
  • Community annotation for 2H88 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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