› 5hhc

X-ray diffraction
2.1Å resolution

Crystal Structure of Chemically Synthesized Heterochiral {RFX037 plus VEGF-A} Protein Complex in space group P21/n

Released:
DOI: 10.2210/pdb5hhc/pdb
PDB entry 5hhc coloured by chain, front view.
PDB entry 5hhc coloured by chain, side view.
PDB entry 5hhc coloured by chain, top view.
Source organisms:
Primary publication:
A Potent d-Protein Antagonist of VEGF-A is Nonimmunogenic, Metabolically Stable, and Longer-Circulating in Vivo.
Uppalapati M, Lee DJ, Mandal K, Li H, Miranda LP, Lowitz J, Kenney J, Adams JJ, Ault-Riché D, Kent SB, Sidhu SS
ACS Chem Biol 11 1058-65 (2016)
PMID: 26745345

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-147440 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
N-VEGF Chains: A, B
Molecule details ›
Chains: A, B
Length: 102 amino acids
Theoretical weight: 11.95 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P15692 (Residues: 214-315; Coverage: 26%)
Gene names: VEGF, VEGFA
Sequence domains: VEGF heparin-binding domain
Structure domains: Cystine-knot cytokines
D- Vascular endothelial growth factor-A Chains: C, D
Molecule details ›
Chains: C, D
Length: 69 amino acids
Theoretical weight: 7.81 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand GOL 2 x GOL
14 modified residues:
Ligand DAR 10 x DAR
Ligand DSN 8 x DSN
Ligand DTH 20 x DTH
Ligand DTY 6 x DTY
Ligand DLY 10 x DLY
Ligand DLE 6 x DLE
Ligand DIL 2 x DIL
Ligand DSG 4 x DSG
Ligand DGL 6 x DGL
Ligand DAL 10 x DAL
Ligand DVA 10 x DVA
Ligand DAS 18 x DAS
Ligand DPN 14 x DPN
Ligand DTR 2 x DTR

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Unit cell:
a: 55.29Å b: 87.24Å c: 81.344Å
α: 90° β: 101.42° γ: 90°
R-values:
R R work R free
0.263 0.261 0.307
Expression system: Not provided

Quick links

Citations

8 review citations

Methods to Enhance the Metabolic Stability of Peptide-Based PET Radiopharmaceuticals.
Evans et al. (2020)
7 more

3 mentions without citation

A Structural Overview of Vascular Endothelial Growth Factors Pharmacological Ligands: From Macromolecules to Designed Peptidomimetics.
Ye et al. (2021)
2 more