Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum.
Brunger, A.T., Das, D., Deacon, A.M., Grant, J., Terwilliger, T.C., Read, R.J., Adams, P.D., Levitt, M., Schroder, G.F.(2012) Acta Crystallogr D Biol Crystallogr 68: 391-403
- PubMed: 22505259 
- DOI: 10.1107/S090744491104978X
- Primary Citation of Related Structures:  
3TX8 - PubMed Abstract: 
Phasing by molecular replacement remains difficult for targets that are far from the search model or in situations where the crystal diffracts only weakly or to low resolution. Here, the process of determining and refining the structure of Cgl1109, a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum, at ∼3 Å resolution is described using a combination of homology modeling with MODELLER, molecular-replacement phasing with Phaser, deformable elastic network (DEN) refinement and automated model building using AutoBuild in a semi-automated fashion, followed by final refinement cycles with phenix ...