6FPV

A llama-derived JBP1-targeting nanobody


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.163 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Characterization and structure determination of a llama-derived nanobody targeting the J-base binding protein 1.

van Beusekom, B.Heidebrecht, T.Adamopoulos, A.Fish, A.Pardon, E.Steyaert, J.Joosten, R.P.Perrakis, A.

(2018) Acta Crystallogr F Struct Biol Commun 74: 690-695


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nanobody
A, B
154N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.163 
  • Space Group: P 31
Unit Cell:
Length (Å)Angle (°)
a = 57.680α = 90.00
b = 57.680β = 90.00
c = 64.751γ = 120.00
Software Package:
Software NamePurpose
ARP/wARPmodel building
PHASERphasing
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
REFMACrefinement
Cootmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
NWONetherlandsTOP.13.B2.009
NWONetherlands723.013.003

Revision History 

  • Version 1.0: 2018-10-31
    Type: Initial release
  • Version 1.1: 2018-11-14
    Type: Data collection, Database references