4LMQ

Development and Preclinical Characterization of a Humanized Antibody Targeting CXCL12


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.77 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.255 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Development and Preclinical Characterization of a Humanized Antibody Targeting CXCL12.

Zhong, C.Wang, J.Li, B.Xiang, H.Ultsch, M.Coons, M.Wong, T.Chiang, N.Y.Clark, S.Clark, R.Quintana, L.Gribling, P.Suto, E.Barck, K.Corpuz, R.Yao, J.Takkar, R.Lee, W.P.Damico-Beyer, L.A.Carano, R.D.Adams, C.Kelley, R.F.Wang, W.Ferrara, N.

(2013) Clin Cancer Res 19: 4433-4445

  • DOI: https://doi.org/10.1158/1078-0432.CCR-13-0943
  • Primary Citation of Related Structures:  
    4LMQ

  • PubMed Abstract: 

    Our goal was to develop a potent humanized antibody against mouse/human CXCL12. This report summarized its in vitro and in vivo activities.


  • Organizational Affiliation

    Genentech, Inc., South San Francisco, California, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Stromal cell-derived factor 1A [auth D],
C [auth F]
61Homo sapiensMutation(s): 0 
Gene Names: CXCL12SDF1SDF1ASDF1B
UniProt & NIH Common Fund Data Resources
Find proteins for P48061 (Homo sapiens)
Explore P48061 
Go to UniProtKB:  P48061
PHAROS:  P48061
GTEx:  ENSG00000107562 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP48061
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
hu30D8 Fab heavy chainB [auth E],
D [auth H]
221Homo sapiensMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
hu30D8 Fab light chainE [auth I],
F [auth L]
214Homo sapiensMutation(s): 0 
Gene Names: CXCL12SDF1SDF1ASDF1B
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.77 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.255 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.949α = 90
b = 73.101β = 90.4
c = 106.626γ = 90
Software Package:
Software NamePurpose
Blu-Icedata collection
PHASERphasing
PHENIXrefinement
XDSdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2013-08-14
    Type: Initial release
  • Version 1.1: 2013-08-28
    Changes: Database references
  • Version 1.2: 2018-01-24
    Changes: Structure summary
  • Version 1.3: 2021-10-27
    Changes: Database references, Structure summary