6Y6C

TREM2 extracellular domain (19-174) in complex with single-chain variable fragment (scFv-4)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.192 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Selection and structural characterisation of anti-TREM2 scFvs that reduce levels of shed ectodomain

Szykowska, A.Chen, Y.Smith, T.B.Preger, C.Yang, J.Qian, D.Mukhopadhyay, S.Wigren, E.Neame, S.J.Graslund, S.Persson, H.Atkinson, P.J.Di Daniel, E.Mead, E.Wang, J.Davis, J.B.Burgess-Brown, N.A.Bullock, A.N.

(2021) Biorxiv 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Triggering receptor expressed on myeloid cells 2 AB202Homo sapiensMutation(s): 0 
Gene Names: TREM2
Find proteins for Q9NZC2 (Homo sapiens)
Explore Q9NZC2 
Go to UniProtKB:  Q9NZC2
NIH Common Fund Data Resources
PHAROS:  Q9NZC2
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Single chain variable CD245Homo sapiensMutation(s): 0 
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
A, B
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.192 
  • Space Group: P 41 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 111.661α = 90
b = 111.661β = 90
c = 232.196γ = 90
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
PHENIXdata processing
Cootmodel building
xia2data processing
xia2data reduction
DIALSdata scaling

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2021-02-17
    Type: Initial release