Computational protocol: Structural Insights into the Binding of Vascular Endothelial Growth Factor-B by VEGFR-1D2

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Protocol publication

[…] The structure of VEGF-B(10–108)·VEGFR-1D2 complex was determined by maximum likelihood molecular replacement using the program PHASER from CCP4 suite (). The initial search models used were native VEGF-B(10–108) (PDB code 2C7W) () and VEGFR-1D2 from VEGF-A in complex with VEGFR-1D2 complex (PDB code 1FLT) (). The asymmetric unit consists of a VEGF-B(10–108) dimer and two molecules of VEGFR-1D2. Alternate rounds of model building with the program COOT () and further refinement with the program CNS () and finally REFMAC () resulted in the final structure for all data between 40 and 2.7 Å resolution (). […]

Pipeline specifications

Software tools CCP4, Coot, CNS
Application Protein structure analysis
Diseases Neoplasms
Chemicals Tyrosine