7PCY

THE CRYSTAL STRUCTURE OF PLASTOCYANIN FROM A GREEN ALGA, ENTEROMORPHA PROLIFERA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of plastocyanin from a green alga, Enteromorpha prolifera.

Collyer, C.A.Guss, J.M.Sugimura, Y.Yoshizaki, F.Freeman, H.C.

(1990) J.Mol.Biol. 211: 617-632

  • DOI: 10.1016/0022-2836(90)90269-R

  • PubMed Abstract: 
  • The crystal structure of the Cu-containing protein plastocyanin (Mr 10,500) from the green alga Enteromorpha prolifera has been solved by molecular replacement. The structure was refined by constrained-restrained and restrained reciprocal space least ...

    The crystal structure of the Cu-containing protein plastocyanin (Mr 10,500) from the green alga Enteromorpha prolifera has been solved by molecular replacement. The structure was refined by constrained-restrained and restrained reciprocal space least-squares techniques. The refined model includes 111 solvent sites. There is evidence for alternate conformers at eight residues. The residual is 0.12 for a data set comprising 74% of all observations accessible at 1.85 A resolution. The beta-sandwich structure of the algal plastocyanin is effectively the same as that of poplar leaf (Populus nigra var. italica) plastocyanin determined at 1.6 A resolution. The sequence homology between the two proteins is 56%. Differences between the contacts in the hydrophobic core create some significant (0.5 to 1.2 A) movements of the polypeptide backbone, resulting in small differences between the orientations and separations of corresponding beta-strands. These differences are most pronounced at the end of the molecule remote from the Cu site. The largest structural differences occur in the single non-beta strand, which includes the sole turn of helix in the molecule: two of the residues in a prominent kink of the poplar plastocyanin backbone are missing from the algal plastocyanin sequence, and there is a significant change in the position of the helical segment in relation to the beta-sandwich. Several other small but significant structural differences can be correlated with intermolecular contacts in the crystals. An intramolecular carboxyl-carboxylate hydrogen bond in the algal plastocyanin may be associated with an unusually high pKa. The dimensions of the Cu site in the two plastocyanins are, within the limits of precision, identical.


    Related Citations: 
    • Preliminary Crystallographic Data for Plastocyanins from an Alga (Enteromorpha Prolifera) and from Cucumber (Cucumis Sativus)
      Freeman, H.C.,Garrett, T.P.J.,Guss, J.M.,Murata, M.,Yoshizaki, F.,Sugimura, Y.,Shimokoriyama, M.
      (1983) J.Mol.Biol. 164: 351
    • Structure of Oxidized Poplar Plastocyanin at 1.6 Angstroms Resolution
      Guss, J.M.,Freeman, H.C.
      (1983) J.Mol.Biol. 169: 521


    Organizational Affiliation

    Department of Inorganic Chemistry, University of Sydney, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PLASTOCYANIN
A
98Ulva proliferaMutation(s): 0 
Gene Names: PETE
Find proteins for P07465 (Ulva prolifera)
Go to UniProtKB:  P07465
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CU
Query on CU

Download SDF File 
Download CCD File 
A
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • Space Group: I 4
Unit Cell:
Length (Å)Angle (°)
a = 53.900α = 90.00
b = 53.900β = 90.00
c = 59.400γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1990-07-15
    Type: Initial release
  • Version 1.1: 2008-03-25
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-11-29
    Type: Derived calculations, Other