Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 4.58 kDa 
• Atom Count: 315 
• Modelled Residue Count: 42 
• Deposited Residue Count: 42 
• Unique protein chains: 1

1APO

THREE-DIMENSIONAL STRUCTURE OF THE APO FORM OF THE N-TERMINAL EGF-LIKE MODULE OF BLOOD COAGULATION FACTOR X AS DETERMINED BY NMR SPECTROSCOPY AND SIMULATED FOLDING

• PDB DOI: 10.2210/pdb1APO/pdb

• Classification: COAGULATION FACTOR
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 1992-04-21 Released: 1994-01-31 
• Deposition Author(s): Ullner, M., Selander, M., Persson, E., Stenflo, J., Drakenberg, T., Teleman, O.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 13 

Literature

Three-dimensional structure of the apo form of the N-terminal EGF-like module of blood coagulation factor X as determined by NMR spectroscopy and simulated folding.

Ullner, M., Selander, M., Persson, E., Stenflo, J., Drakenberg, T., Teleman, O.

(1992) Biochemistry 31: 5974-5983

• PubMed: 1627540 
• DOI: 10.1021/bi00141a004
• Primary Citation of Related Structures:  
  1APO


• PubMed Abstract: 
  

The three-dimensional structure of a 42-residue fragment containing the N-terminal EGF-like module of blood coagulation factor X was determined by means of 2D NMR spectroscopy and computer simulation. The spectroscopic data consisted of 370 NOE distances and 27 dihedral angle constraints. These were used to generate peptide conformations by molecular dynamics simulation. The simulations used a novel functional form for the constraint potentials and were performed with two time steps to ensure rapid execution. Apart from preliminary runs to aid assignment of NOEs, 60 runs resulted in 13 accepted structures, which have two antiparallel beta sheets, no alpha helices, and five tight turns. There is no hydrophobic cluster. The root mean square deviation for the backbone of the 13 conformations is 0.65 +/- 0.11 A against their mean conformation. About half of the side chains have well-defined structure. The overall conformation is similar to that of murine EGF.

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Related Citations: 

• 1H NMR Assignment and Secondary Structure of the Ca2+-Free Form of the Amino-Terminal Epidermal Growth Factor Like Domain in Coagulation Factor X
  Selander, M., Persson, E., Stenflo, J., Drakenberg, T.
  (1990) Biochemistry 29: 8111

• Calcium Binding to the Isolated Beta-Hydroxyaspartic Acid-Containing Epidermal Growth Factor-Like Domain of Bovine Factor X
  Persson, E., Selander, M., Linse, S., Drakenberg, T., Ohlin, A.-K.
  (1989) J Biol Chem 264: 16897

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Organizational Affiliation: 

Physical Chemistry 2, Lund University, Sweden.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EGF-LIKE MODULE OF BLOOD COAGULATION FACTOR X	A	42	Bos taurus	Mutation(s): 0  Gene Names: F10 EC: 3.4.21.6
UniProt
Find proteins for P00743 (Bos taurus) Explore P00743  Go to UniProtKB:  P00743

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
OH	B [auth A]	HYDROXIDE ION H O XLYOFNOQVPJJNP-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 13 
• OLDERADO: 1APO Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1992-04-21 
• Released Date: 1994-01-31 
Deposition Author(s): Ullner, M., Selander, M., Persson, E., Stenflo, J., Drakenberg, T., Teleman, O.

Revision History  

• Version 1.0: 1994-01-31
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other