› 6y6c

X-ray diffraction
2.26Å resolution

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

Released:
DOI: 10.2210/pdb6y6c/pdb
PDB entry 6y6c coloured by chain, front view.
PDB entry 6y6c coloured by chain, side view.
PDB entry 6y6c coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Selection and structural characterization of anti-TREM2 scFvs that reduce levels of shed ectodomain.
Szykowska A, Chen Y, Smith TB, Preger C, Yang J, Qian D, Mukhopadhyay SM, Wigren E, Neame SJ, Gräslund S, Persson H, Atkinson PJ, Di Daniel E, Mead E, Wang J, Davis JB, Burgess-Brown NA, Bullock AN
OpenAccess logo Structure 29 1241-1252.e5 (2021)
PMID: 34233201

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-576461 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Triggering receptor expressed on myeloid cells 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 202 amino acids
Theoretical weight: 22.7 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9NZC2 (Residues: 19-174; Coverage: 74%)
  • Best match: Q9NZC2-3 (Residues: 19-169)
Gene name: TREM2
Sequence domains: Immunoglobulin V-set domain
Single chain variable Chains: C, D
Molecule details ›
Chains: C, D
Length: 245 amino acids
Theoretical weight: 26.24 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda

Ligands and Environments

1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P4122
Unit cell:
a: 111.661Å b: 111.661Å c: 232.196Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.191 0.216
Expression systems:
  • Homo sapiens
  • Spodoptera frugiperda

Quick links

Citations

4 review citations

The biology of TREM receptors.
Colonna M. (2023)
3 more

2 mentions without citation

Structural biology of cell surface receptors implicated in Alzheimer's disease.
Hermans et al. (2022)
1 more