Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 78483.41 
• Atom Count: 5445 
• Residue Count: 689 
• Unique protein chains: 1

1BLF

STRUCTURE OF DIFERRIC BOVINE LACTOFERRIN AT 2.8 ANGSTROMS RESOLUTION

• DOI: 10.2210/pdb1BLF/pdb

• Classification: IRON-BINDING PROTEIN
• Organism(s): Bos taurus


• Deposited: 1997-08-20 Released: 1997-12-03 
• Deposition Author(s): Moore, S.A., Anderson, B.F., Groom, C.R., Haridas, M., Baker, E.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.280 
• R-Value Work: 0.217 

Literature

Three-dimensional structure of diferric bovine lactoferrin at 2.8 A resolution.

Moore, S.A., Anderson, B.F., Groom, C.R., Haridas, M., Baker, E.N.

(1997) J.Mol.Biol. 274: 222-236

• PubMed: 9398529 
• DOI: 10.1006/jmbi.1997.1386


• PubMed Abstract: 
  

The three-dimensional structure of diferric bovine lactoferrin (bLf) has been determined by X-ray crystallography in order to investigate the factors that influence iron binding and release by transferrins. The structure was solved by molecular replacement, using the coordinates of diferric human lactoferrin (hLf) as a search model, and was refined with data to 2.8 A resolution by simulated annealing (X-PLOR) and restrained least squares (TNT). The final model comprises 5310 protein atoms (residues 5 to 689), 124 carbohydrate atoms (from ten monosaccharide units, in three glycan chains), 2 Fe3+, 2 CO32- and 50 water molecules. This model gives an R-factor of 0.232 for 21440 reflections in the resolution range 30.0 to 2.8 A. The folding of the bLf molecule is essentially the same as that of hLf, but bLf differs in the extent of closure of the two domains of each lobe, and in the relative orientations of the two lobes. Differences in domain closure are attributed to amino acid changes in the interface, and differences in lobe orientations to slightly altered packing of two hydrophobic patches between the lobes. Changed interdomain interactions may explain the lesser iron affinity of bLf, compared with hLf, and two lysine residues behind the N-lobe iron site of bLf offer new insights into the "dilysine trigger" mechanism proposed for iron release by transferrins. The bLf structure is also notable for several well-defined oligosaccharide units which demonstrate the structural factors that stabilise carbohydrate structure. One glycan chain, attached to Asn545, appears to contribute to interdomain interactions and may modulate iron release from the C-lobe.

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Organizational Affiliation: 

Department of Biochemistry, Massey University, Palmerston North, New Zealand.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
LACTOFERRIN	A	689	Bos taurus	Mutation(s): 0  Gene Names: LTF EC: 3.4.21.-
Find proteins for P24627 (Bos taurus) Go to Gene View: LTF Go to UniProtKB:  P24627

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MAN	A	ALPHA-D-MANNOSE C6 H12 O6 WQZGKKKJIJFFOK-PQMKYFCFSA-N
BMA	A	BETA-D-MANNOSE C6 H12 O6 WQZGKKKJIJFFOK-RWOPYEJCSA-N
FE	A	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N
NAG	A	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
CO3	A	CARBONATE ION C O3 BVKZGUZCCUSVTD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.280 
• R-Value Work: 0.217 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 138.860	α = 90.00
b = 87.010	β = 90.00
c = 73.350	γ = 90.00

Software Package:

Software Name	Purpose
CCP4	phasing
TNT	refinement
DENZO	data reduction
CCP4	model building
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-08-20 
• Released Date: 1997-12-03 
• Deposition Author(s): Moore, S.A., Anderson, B.F., Groom, C.R., Haridas, M., Baker, E.N.

Revision History 

• Version 1.0: 1997-12-03
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Non-polymer description, Version format compliance