› 6v6f

X-ray diffraction
2.54Å resolution

Crystal structure of Q61L KRAS(GMPPNP)-NF1(GRD)-SPRED1(EVH1) complex

Released:
DOI: 10.2210/pdb6v6f/pdb
PDB entry 6v6f coloured by chain, front view.
PDB entry 6v6f coloured by chain, side view.
PDB entry 6v6f coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural Insights into the SPRED1-Neurofibromin-KRAS Complex and Disruption of SPRED1-Neurofibromin Interaction by Oncogenic EGFR.
Yan W, Markegard E, Dharmaiah S, Urisman A, Drew M, Esposito D, Scheffzek K, Nissley DV, McCormick F, Simanshu DK
Cell Rep 32 107909 (2020)
PMID: 32697994

Function and Biology Details

Reaction catalysed: 
GTP + H(2)O = GDP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-133998 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Sprouty-related, EVH1 domain-containing protein 1 Chain: A
Molecule details ›
Chain: A
Length: 113 amino acids
Theoretical weight: 12.85 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q7Z699 (Residues: 13-125; Coverage: 26%)
Gene name: SPRED1
Sequence domains: WH1 domain
Neurofibromin truncated Chain: B
Molecule details ›
Chain: B
Length: 329 amino acids
Theoretical weight: 37.57 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P21359 (Residues: 1203-1551; Coverage: 12%)
Gene name: NF1
Sequence domains: GTPase-activator protein for Ras-like GTPase
GTPase KRas, N-terminally processed Chain: C
Molecule details ›
Chain: C
Length: 170 amino acids
Theoretical weight: 19.31 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01116 (Residues: 1-169; Coverage: 89%)
Gene names: KRAS, KRAS2, RASK2
Sequence domains: Ras family

Ligands and Environments

4 bound ligands:
Ligand ZN 1 x ZN
Ligand FMT 4 x FMT
Ligand GNP 1 x GNP
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21
Unit cell:
a: 72.011Å b: 70.24Å c: 79.7Å
α: 90° β: 100.67° γ: 90°
R-values:
R R work R free
0.22 0.216 0.265
Expression systems:
  • unidentified baculovirus
  • Escherichia coli

Quick links

Citations

16 review citations

Neurofibromin Structure, Functions and Regulation.
Bergoug et al. (2020)
15 more

2 mentions without citation

Structural Insights into the SPRED1-Neurofibromin-KRAS Complex and Disruption of SPRED1-Neurofibromin Interaction by Oncogenic EGFR.
Yan et al. (2020)
1 more