1TU5

Crystal structure of bovine plasma copper-containing amine oxidase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.37 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of amine oxidase from bovine serum.

Lunelli, M.Di Paolo, M.L.Biadene, M.Calderone, V.Battistutta, R.Scarpa, M.Rigo, A.Zanotti, G.

(2005) J.Mol.Biol. 346: 991-1004

  • DOI: 10.1016/j.jmb.2004.12.038
  • Also Cited By: 2PNC

  • PubMed Abstract: 
  • Copper-containing amine oxidase extracted from bovine serum (BSAO) was crystallized and its three-dimensional structure at 2.37A resolution is described. The biological unit of BSAO is a homodimer, formed by two monomers related to each other by a no ...

    Copper-containing amine oxidase extracted from bovine serum (BSAO) was crystallized and its three-dimensional structure at 2.37A resolution is described. The biological unit of BSAO is a homodimer, formed by two monomers related to each other by a non-crystallographic 2-fold axis. Each monomer is composed of three domains, similar to those of other amine oxidases from lower species. The two monomers are structurally equivalent, despite some minor differences at the two active sites. A large funnel allows access of substrates to the active-site; another cavity, accessible to the solvent, is also present between the two monomers; this second cavity could allow the entrance of molecular oxygen necessary for the oxidative reaction. Some sugar residues, bound to Asn, were still present and visible in the electron density map, in spite of the exhaustive deglycosylation necessary to grow the crystals. The comparison of the BSAO structure with those of other resolved AO structures shows strong dissimilarities in the architecture and charge distribution of the cavities leading to the active-site, possibly explaining the differences in substrate specificity.


    Related Citations: 
    • Crystal structure of a quinoenzyme: copper amine oxidase of Escherichia coli at 2 A resolution
      Parsons, M.R.,Convery, M.A.,Wilmot, C.M.,Yadav, K.D.,Blakeley, V.,Corner, A.S.,Phillips, S.E.,McPherson, M.J.,Knowles, P.F.
      (1995) Structure 3: 1171
    • Crystal structure of a eukaryotic (pea seedling) copper-containing amine oxidase at 2.2 A resolution
      Kumar, V.,Dooley, D.M.,Freeman, H.C.,Guss, J.M.,Harvey, I.,McGuirl, M.A.,Wilce, M.C.,Zubak, V.M.
      (1996) Structure 4: 943
    • The crystal structure of Pichia pastoris lysyl oxidase
      Duff, A.P.,Cohen, A.E.,Ellis, P.J.,Kuchar, J.A.,Langley, D.B.,Shepard, E.M.,Dooley, D.M.,Freeman, H.C.,Guss, J.M.
      (2003) Biochemistry 42: 15148
    • Crystallization and preliminary X-ray data of amine oxidase from bovine serum
      Calderone, V.,Di Paolo, M.L.,Trabucco, M.,Biadene, M.,Battistutta, R.,Rigo, A.,Zanotti, G.
      (2003) Acta Crystallogr.,Sect.D 59: 727


    Organizational Affiliation

    Department of Biological Chemistry, University of Padua, Viale G. Colombo 3, 35121 Padua, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Copper amine oxidase, liver isozyme
A, B
746Bos taurusMutation(s): 0 
EC: 1.4.3.21
Find proteins for Q29437 (Bos taurus)
Go to UniProtKB:  Q29437
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

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Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
CA
Query on CA

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A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
CU
Query on CU

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A, B
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
 Ligand Interaction
NDG
Query on NDG

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A, B
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
 Ligand Interaction
NAG
Query on NAG

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Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
TPQ
Query on TPQ
A, B
L-PEPTIDE LINKINGC9 H9 N O5TYR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.37 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 77.680α = 90.00
b = 131.192β = 90.00
c = 134.001γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
CNSrefinement
AMoREphasing
CCP4data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-02-22
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Non-polymer description, Version format compliance