5C2B

anti-CXCL13 parental scFv - 3B4


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.194 
  • R-Value Work: 0.179 
  • R-Value Observed: 0.180 

wwPDB Validation 3D Report Full Report



Literature

Optimization of a scFv-based biotherapeutic by CDR side-chain clash repair

Tu, C.Terrabube, V.Tam, A.Stochaj, W.Fennell, B.Lin, L.Stahl, M.LaVallie, E.Somers, W.Finlay, W.Mosyak, L.Bard, J.Cunningham, O.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
scFv 3B4H254Homo sapiensMutation(s): 0 
Gene Names: IGHV1-69D
Find proteins for A0A0B4J2H0 (Homo sapiens)
Explore A0A0B4J2H0 
Go to UniProtKB:  A0A0B4J2H0
NIH Common Fund Data Resources
Find proteins for A0A5C2GBJ8 (Homo sapiens)
Explore A0A5C2GBJ8 
Go to UniProtKB:  A0A5C2GBJ8
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download CCD File 
H
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.194 
  • R-Value Work: 0.179 
  • R-Value Observed: 0.180 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 131.9α = 90
b = 133.5β = 90
c = 44.9γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
SCALAdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-11-04
    Type: Initial release
  • Version 1.1: 2017-11-01
    Changes: Author supporting evidence, Derived calculations
  • Version 2.0: 2019-12-25
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
  • Version 3.0: 2020-06-17
    Changes: Advisory, Atomic model, Data collection, Derived calculations