1SAC

THE STRUCTURE OF PENTAMERIC HUMAN SERUM AMYLOID P COMPONENT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of pentameric human serum amyloid P component.

Emsley, J.White, H.E.O'Hara, B.P.Oliva, G.Srinivasan, N.Tickle, I.J.Blundell, T.L.Pepys, M.B.Wood, S.P.

(1994) Nature 367: 338-345

  • DOI: 10.1038/367338a0

  • PubMed Abstract: 
  • The three-dimensional structure of pentameric human serum amyloid P component at high resolution, the first reported for a pentraxin, reveals that the tertiary fold is remarkably similar to that of the legume lectins. Carboxylate and phosphate compou ...

    The three-dimensional structure of pentameric human serum amyloid P component at high resolution, the first reported for a pentraxin, reveals that the tertiary fold is remarkably similar to that of the legume lectins. Carboxylate and phosphate compounds bind directly to two calcium ions; interactions with a carboxyethylidene ring are mediated by Asn 59 and Gln 148 ligands of the calcium ions. These X-ray results indicate the probable modes of binding of the biologically important ligands, DNA and amyloid fibrils.


    Related Citations: 
    • Crystallization of Human Serum Amyloid P Component (Sap)
      O'Hara, B.P.,Wood, S.P.,Oliva, G.,White, H.E.,Pepys, M.B.
      (1988) J.Cryst.Growth 90: 209
    • Isolation and Characterization of the Complete Complementary and Genomic DNA Sequences of Human Serum
      Ohnishi, S.,Maeda, S.,Shimada, K.,Arao, T.
      (1986) J.Biochem.(Tokyo) 100: 849
    • A Pentameric Form of Human Serum Amyloid P Component: Crystallization, X-Ray Diffraction and Neutron Scattering Studies
      Wood, S.P.,Oliva, G.,O'Hara, B.P.,White, H.E.,Blundell, T.L.,Perkins, S.J.,Sardharwalla, I.,Pepys, M.P.
      (1988) J.Mol.Biol. 202: 169


    Organizational Affiliation

    Laboratory of Molecular Biology, Birkbeck College, London, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SERUM AMYLOID P COMPONENT
A, B, C, D, E
204Homo sapiensMutation(s): 0 
Gene Names: APCS (PTX2)
Find proteins for P02743 (Homo sapiens)
Go to Gene View: APCS
Go to UniProtKB:  P02743
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A, B, C, D, E
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
ACY
Query on ACY

Download SDF File 
Download CCD File 
A, B, D, E
ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.179 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 68.900α = 90.00
b = 99.300β = 95.90
c = 96.700γ = 90.00
Software Package:
Software NamePurpose
RESTRAINrefinement
X-PLORrefinement
X-PLORmodel building
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-05-31
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance