Human serum transferrin with ferric ion bound at the C-lobe only

Experimental Data Snapshot

  • Resolution: 2.45 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.190 
  • R-Value Observed: 0.192 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


"Anion clamp" allows flexible protein to impose coordination geometry on metal ions

Wang, M.Lai, T.P.Wang, L.Zhang, H.Yang, N.Sadler, P.J.Sun, H.

(2015) Chem Commun (Camb) 51: 7867-7870

  • DOI: https://doi.org/10.1039/c4cc09642h
  • Primary Citation of Related Structures:  
    4X1B, 4X1D

  • PubMed Abstract: 

    X-ray crystal structures of human serum transferrin (77 kDa) with Yb(III) or Fe(III) bound to the C-lobe and malonate as the synergistic anion show that the large Yb(III) ion causes the expansion of the metal binding pocket while octahedral metal coordination geometry is preserved, an unusual geometry for a lanthanide ion.

  • Organizational Affiliation

    Department of Chemistry, The University of Hong Kong, Pokfulam Road, Hong Kong SAR, P. R. China. hsun@hku.hk.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serotransferrin679Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P02787 (Homo sapiens)
Explore P02787 
Go to UniProtKB:  P02787
PHAROS:  P02787
GTEx:  ENSG00000091513 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02787
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.45 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.190 
  • R-Value Observed: 0.192 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 137.056α = 90
b = 156.649β = 90
c = 107.162γ = 90
Software Package:
Software NamePurpose
DENZOdata collection
HKL-2000data reduction
PDB_EXTRACTdata extraction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Research Grant CouncilHong Kong705210P
Shenzhen municipal governmentChinaZDSYS20140509142721429

Revision History  (Full details and data files)

  • Version 1.0: 2015-04-08
    Type: Initial release
  • Version 1.1: 2015-04-22
    Changes: Database references
  • Version 1.2: 2015-05-06
    Changes: Database references
  • Version 1.3: 2023-11-08
    Changes: Data collection, Database references, Derived calculations, Refinement description, Source and taxonomy