5C6W

anti-CXCL13 scFv - E10


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.164 
  • R-Value Work: 0.154 
  • R-Value Observed: 0.154 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

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

Tu, C.Terraube, 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
Protein IGHV1-69-2,Ig lambda chain V-II region NIG-84H, J264Homo sapiensMutation(s): 0 
Gene Names: IGHV1-69-2
Find proteins for A0A0B4J2H0 (Homo sapiens)
Explore A0A0B4J2H0 
Go to UniProtKB:  A0A0B4J2H0
NIH Common Fund Data Resources
Find proteins for P01704 (Homo sapiens)
Explore P01704 
Go to UniProtKB:  P01704
NIH Common Fund Data Resources
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PEG
Query on PEG

Download CCD File 
H, J
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download CCD File 
H, J
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
EDO
Query on EDO

Download CCD File 
H, J
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.164 
  • R-Value Work: 0.154 
  • R-Value Observed: 0.154 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 69.98α = 90
b = 80.36β = 90
c = 119.24γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
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