4LB2

X-ray study of human serum albumin complexed with idarubicin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural studies of several clinically important oncology drugs in complex with human serum albumin.

Wang, Z.M.Ho, J.X.Ruble, J.R.Rose, J.Ruker, F.Ellenburg, M.Murphy, R.Click, J.Soistman, E.Wilkerson, L.Carter, D.C.

(2013) Biochim.Biophys.Acta 1830: 5356-5374

  • DOI: 10.1016/j.bbagen.2013.06.032
  • Primary Citation of Related Structures:  4L8U, 4L9K, 4L9Q, 4LA0, 4LB9

  • PubMed Abstract: 
  • Serum albumin is a major pharmacokinetic effector of drugs. To gain further insight into albumin binding chemistry, the crystal structures of six oncology agents were determined in complex with human serum albumin at resolutions of 2.8 to 2.0Å: campt ...

    Serum albumin is a major pharmacokinetic effector of drugs. To gain further insight into albumin binding chemistry, the crystal structures of six oncology agents were determined in complex with human serum albumin at resolutions of 2.8 to 2.0Å: camptothecin, 9-amino-camptothecin, etoposide, teniposide, bicalutamide and idarubicin.


    Related Citations: 
    • Crystallographic survey of albumin drug interaction and preliminary applications in cancer chemotherapy
      Carter, D.C.
      (2010) Burgers medicinal chemistry drug design and development, 7th edition --: 437
    • Structure of Human Serum Albumin
      Carter, D.C.,Ho, X.M.
      (1990) Science 249: 302
    • Structure of Serum Albumin
      Carter, D.C.,Ho, J.X.
      (1994) Adv.Protein Chem. 45: 153
    • Erratum. Atomic Structure and Chemistry of Human Serum Albumin
      Ho, X.M.,Carter, D.C.
      (1993) Nature 364: 362
    • Preliminary crystallographic studies of four crystal forms of serum albumin.
      Carter, D.C.,Chang, B.,Ho, J.X.,Keeling, K.,Krishnasami, Z.
      (1994) Eur.J.Biochem. 226: 1049
    • Atomic structure and chemistry of human serum albumin.
      He, X.M.,Carter, D.C.
      (1992) Nature 358: 209
    • Three-dimensional structure of human serum albumin.
      Carter, D.C.,He, X.M.,Munson, S.H.,Twigg, P.D.,Gernert, K.M.,Broom, M.B.,Miller, T.Y.
      (1989) Science 244: 1195


    Organizational Affiliation

    New Century Pharmaceuticals, Inc., 895 Martin Road, Suite C, Huntsville, AL 35824, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SERUM ALBUMIN
A, B
585Homo sapiensGene Names: ALB
Find proteins for P02768 (Homo sapiens)
Go to Gene View: ALB
Go to UniProtKB:  P02768
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DM5
Query on DM5

Download SDF File 
Download CCD File 
A, B
IDARUBICIN
4-DEMETHOXY-DAUNORUBICIN
C26 H27 N O9
XDXDZDZNSLXDNA-TZNDIEGXSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.200 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 57.952α = 74.74
b = 58.199β = 88.63
c = 96.085γ = 76.58
Software Package:
Software NamePurpose
PHENIXrefinement
CrystalCleardata collection
MERLOTphasing
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-07-24
    Type: Initial release
  • Version 1.1: 2013-10-23
    Type: Database references
  • Version 1.2: 2014-02-19
    Type: Other