› 2ifg

X-ray diffraction
3.4Å resolution

Structure of the extracellular segment of human TRKA in complex with nerve growth factor

Released:
DOI: 10.2210/pdb2ifg/pdb
PDB 2ifg coloured by chain and viewed from the front.
PDB 2ifg coloured by chain and viewed from the side.
PDB 2ifg coloured by chain and viewed from the top.
Source organism: Homo sapiens
Primary publication:
Structural and mechanistic insights into nerve growth factor interactions with the TrkA and p75 receptors.
Wehrman T, He X, Raab B, Dukipatti A, Blau H, Garcia KC
Neuron 53 25-38 (2007)
PMID: 17196528

Function and Biology Details

Reaction catalysed: 
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
Non-polymer only tetramer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (5 distinct):
High affinity nerve growth factor receptor Chains: A, B
Molecule details ›
Chains: A, B
Length: 347 amino acids
Theoretical weight: 37.9 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P04629 (Residues: 36-382; Coverage: 45%)
Gene names: MTC, NTRK1, TRK, TRKA
Sequence domains: Tyrosine-protein kinase receptor C2 Ig-like domain
Structure domains:
Beta-nerve growth factor Chains: E, F
Molecule details ›
Chains: E, F
Length: 120 amino acids
Theoretical weight: 13.52 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P01138 (Residues: 122-241; Coverage: 54%)
Gene names: NGF, NGFB
Sequence domains: Nerve growth factor family
Structure domains: Cystine-knot cytokines

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, NDG
Ligand NAG 2 x NAG
Ligand NDG 2 x NDG
Carbohydrate polymer : NEW Components: NAG, NDG, MAN
Ligand NAG 4 x NAG
Ligand NDG 4 x NDG
Ligand MAN 4 x MAN
Carbohydrate polymer : NEW Components: NAG, NDG, BMA
Ligand NAG 6 x NAG
Ligand NDG 6 x NDG
Ligand BMA 6 x BMA
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P21
Unit cell:
a: 110.215Å b: 81.681Å c: 115.748Å
α: 90° β: 104.15° γ: 90°
R-values:
R R work R free
0.297 0.297 0.331
Expression system: Spodoptera frugiperda

Quick links

Citations

36 review citations

Mechanisms of receptor tyrosine kinase activation in cancer.
Du et al. (2018)
35 more

13 mentions without citation

Discovery of Molecular Therapeutics for Glaucoma: Challenges, Successes, and Promising Directions.
Donegan et al. (2016)
12 more