Computational protocol: Duplex Interrogation by a Direct DNA Repair Protein in Search of Base Damage

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Protocol publication

[…] All X-ray data were integrated and scaled using HKL2000 program suite, and converted to structure factors with the CCP4 program. The ALKBH2-DNA complex structure was phased by molecular replacement (with Phaser), using the previously published ALKBH2 structure as a search model. The model was built by using COOT, and refinement was carried out with the program REFMAC5 from the CCP4 suite. Data collection and refinement parameters for all structures are given in . Molecular graphics figures were prepared with PyMOL. […]

Pipeline specifications

Software tools CCP4, Coot, REFMAC5, PyMOL
Application Protein structure analysis
Organisms Homo sapiens