Please cite

When you have been using ARP/wARP or/and the ARP/wARP webservice please cite us with the respective publications. Depending on the module(s) you used, select the references given below:

Protein model building

Please cite at least one of the publications below for protein model building

Langer G, Cohen SX, Lamzin VS, Perrakis A. (2008) Automated macromolecular model building for x-ray crystallography using ARP/wARP version 7. Nat. Protoc. 3, 1171-1179

Perrakis A, Morris RM, Lamzin VS. (1999) Automated protein model building combined with iterative structure refinement. Nature Struct. Biol. 6, 458-463

Chojnowski G, Pereira J and Lamzin VS. (2019) Sequence assignment for low-resolution modelling of protein crystal structures. Acta Crystallogr D Struct Biol. 75, 753-763

Chojnowski G., Choudhury K., Heuser P., Sobolev E., Pereira J., Oezugurel U. and Lamzin VS. (2020) The use of local structural similarity of distant homologues for crystallographic model building from a molecular-replacement solution Acta Crystallogr D Struct Biol. 76, 248-260


Use of Refmac is an essential part of model building with ARP/wARP. Please acknowledge the use of Refmac by citing the following publication:

Murshudov GN, Skubak P, Lebedev AA, Pannu NS, Steiner RA, Nicholls RA, Winn MD, Long F, Vagin AA. (2011) REFMAC5 for the refinement of macromolecular crystal structures Acta Crystallogr D Biol Crystallogr. 67, 355-367

ARPEM - ARP/wARP model building for electron microscopy

Chojnowski G, Heuser P, Lamzin VS (2018), A dedicated paper, describing the method is under preparartion

Until the dedicated paper is published please cite:

Chojnowski G, Pereira J and Lamzin VS. (2019) Sequence assignment for low-resolution modelling of protein crystal structures. Acta Crystallogr D Struct Biol. 75, 753-763


Use of Refmac is an essential part of model building with ARP/wARP. Please acknowledge the use of Refmac by citing the following publication:

Murshudov GN, Skubak P, Lebedev AA, Pannu NS, Steiner RA, Nicholls RA, Winn MD, Long F, Vagin AA. (2011) REFMAC5 for the refinement of macromolecular crystal structures Acta Crystallogr D Biol Crystallogr. 67, 355-367

Nucleotides

Please cite the publication below for nucleotide model building

Hattne J, Lamzin VS. (2008) Pattern recognition-based detection of planar objects in 3D electron density maps. Acta Crystallogr D Biol Crystallogr. 64, 834-842

Solvent modelling

Please cite at least one of the publications below for solvent modelling with ARP/wARP

Lamzin VS, Wilson KS. (1993) Automated refinement of protein models. Acta Crystallogr D Biol Crystallogr. 49, 129-147

Lamzin VS, Perrakis A, Wilson KS. (2001) The ARP/WARP suite for automated construction and refinement of protein models. In Int. Tables for Crystallography. Vol. F: Crystallography of biological macromolecules (Rossmann MG, Arnold E, eds.), Dordrecht, Kluwer Academic Publishers, The Netherlands, pp. 720-722


Use of Refmac is an essential part of model building with ARP/wARP. Please acknowledge the use of Refmac by citing the following publication:

Murshudov GN, Skubak P, Lebedev AA, Pannu NS, Steiner RA, Nicholls RA, Winn MD, Long F, Vagin AA. (2011) REFMAC5 for the refinement of macromolecular crystal structures Acta Crystallogr D Biol Crystallogr. 67, 355-367

Ligand building

Please cite at least one of the publications below for ligand building with ARP/wARP

Carolan CG, Lamzin VS. (2014) Automated identification of crystallographic ligands using sparse-density representations. Acta Crystallogr D Biol Crystallogr. 70, 1844-1853

Langer GG, Evrard GX, Carolan CG, Lamzin VS. (2012) Fragmentation-tree density representation for crystallographic modelling of bound ligands. J Mol Biol. 419, 211-222

Secondary Structure Building Quickfold

Please cite the publication below for Quickfold

Langer G, Cohen SX, Lamzin VS, Perrakis A. (2008) Automated macromolecular model building for x-ray crystallography using ARP/wARP version 7. Nat. Protoc. 3, 1171-1179

Dipcheck

Please cite the publication below for Dipcheck

Pereira J, Lamzin VS. A distance geometry-based description and validation of protein main-chain conformation. IUCrJ (2017) 4, 657-670.

Thank you!