Airlie J. McCoy

Publications

2014

Likelihood-based molecular-replacement solution for a highly pathological crystal with tetartohedral twinning and sevenfold translational noncrystallographic symmetry.

Sliwiak 1, Jaskolski M, Dauter Z, McCoy AJ, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2014 Feb;70(Pt 2):471-80. doi: 10.1107/S1399004713030319. Epub 2014 Jan 29.

IUCr link

Automating crystallographic structure solution and refinement of protein-ligand complexes.

Echols N, Moriarty NW, Klei HE, Afonine PV, Bunkóczi G, Headd JJ, McCoy AJ, Oeffner RD, Read RJ, Terwilliger TC, Adams PD.

Acta Crystallogr D Biol Crystallogr. 2014 Jan;70(Pt 1):144-54 Epub 2013 Dec 25.

IUCr link

Structures of yeast mitochondrial ADP/ATP carriers support a domain-based alternating-access transport mechanism.

Ruprecht JJ, Hellawell AM, Harding M, Crichton PG, McCoy AJ, Kunji ER.

Proc Natl Acad Sci U S A. 2014 Jan 28;111(4):E426-34 Epub 2014 Jan 13.

PNAS link

2013

Automating crystallographic structure solution and refinement of protein-ligand complexes.

Echols N, Moriarty NW, Klei HE, Afonine PV, Bunkóczi G, Headd JJ, McCoy AJ, Oeffner RD, Read RJ, Terwilliger TC, Adams PD.

Acta Crystallogr D Biol Crystallogr. 2014 Jan;70(Pt 1):144-54. Epub 2013 Dec 25.

IUCr link

Cytokine Spatzle binds to the Drosophila immunoreceptor Toll with a neurotrophin-like specificity and couples receptor activation.

Lewis M, Arnot CJ, Beeston H, McCoy A., Ashcroft AE, Gay NJ, Gangloff M.

Proc Natl Acad Sci U S A. 2013 Dec 17;110(51):20461-6. Epub 2013 Nov 26.

download pdf

Phaser.MRage: automated molecular replacement.

Bunkóczi G, Echols N, McCoy AJ, Oeffner RD, Adams PD, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2013 Nov;69(Pt 11):2276-86. Epub 2013 Oct 18.

IUCr link

SCEDS: protein fragments for molecular replacement in Phaser.

McCoy AJ, Nicholls RA, Schneider TR.

Acta Crystallogr D Biol Crystallogr. 2013 Nov;69(Pt 11):2216-25. doi: 10.1107/S0907444913021811. Epub 2013 Oct 4.

IUCr link

Improved estimates of coordinate error for molecular replacement.

Oeffner RD, Bunkóczi G, McCoy AJ, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2013 Nov;69(Pt 11):2209-15. doi: 10.1107/S0907444913023512. Epub 2013 Oct 12.

IUCr link

Intensity statistics in the presence of translational noncrystallographic symmetry.

Read RJ, Adams PD, McCoy AJ.

Acta Crystallogr D Biol Crystallogr 2013 Feb;69(Pt 2):176-83. Epub Jan 16.

IUCr link

2012

Graphical tools for macromolecular crystallography in PHENIX.

Echols N, Grosse-Kunstleve RW, Afonine PV, Bunkóczi G, Chen VB, Headd JJ, McCoy AJ, Moriarty NW, Read RJ, Richardson DC, Richardson JS, Terwilliger TC, Adams PD.

J Appl Crystallogr. 2012 Jun 1;45(Pt 3):581-586. Epub 2012 May 16.

download pdf

2011

The Phenix software for automated determination of macromolecular structures.

Adams PD, Afonine PV, Bunkóczi G, Chen VB, Echols N, Headd JJ, Hung LW, Jain S, Kapral GJ, Grosse Kunstleve RW, McCoy AJ, Moriarty NW, Oeffner RD, Read RJ, Richardson DC, Richardson JS, Terwilliger TC, Zwart PH.

Methods. 2011 Sep;55(1):94-106. doi: 10.1016/j.ymeth.2011.07.005. Epub 2011 Jul 29.

download pdf

Overview of the CCP4 suite and current developments

Winn MD, Ballard CC, Cowtan KD, Dodson EJ, Emsley P, Evans PR, Keegan RM, Krissinel EB, Leslie AG, McCoy A, McNicholas SJ, Murshudov GN, Pannu NS, Potterton EA, Powell HR, Read RJ, Vagin A, Wilson KS.

Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):235-242

Acta Cryst D

Using SAD data in Phaser

Read RJ, McCoy AJ

Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):338-344

Acta Cryst D

2010

A large-scale conformational change couples membrane recruitment to cargo binding in the AP2 clathrin adaptor complex.

Jackson LP, Kelly BT, McCoy AJ, Gaffry T, James LC, Collins BM, Höning S, Evans PR, Owen DJ.

Cell. 2010 Jun 25;141(7):1220-9.

Cell (subscription required)

Experimental phasing: best practice and pitfalls.

McCoy AJ, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2010 Apr;66(Pt 4):458-69. Epub 2010 Mar 24.

Acta Cryst D

PHENIX: a comprehensive Python-based system for macromolecular structure solution.

Adams PD, Afonine PV, Bunkóczi G, Chen VB, Davis IW, Echols N, Headd JJ, Hung LW, Kapral GJ, Grosse-Kunstleve RW, McCoy AJ, Moriarty NW, Oeffner R, Read RJ, Richardson DC, Richardson JS, Terwilliger TC, Zwart PH.

Acta Crystallogr D Biol Crystallogr. 2010 Feb;66(Pt 2):213-21. Epub 2010 Jan 22.

Acta Cryst D

2009

Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard

Terwilliger TC, Adams PD, Read RJ, McCoy AJ , Moriarty NW, Grosse-Kunstleve RW, Afonine PV, Zwart PH, Hung LW.

Acta Crystallogr D Biol Crystallogr. 2009 Jun;65(Pt 6):582-601

Acta Cryst

2008

A structural explanation for the binding of endocytic dileucine motifs by the AP2 complex

Kelly BT, McCoy AJ, Späte K, Miller SE, Evans PR, Höning S, Owen DJ.

Nature. 2008 Dec 18;456(7224):976-79

Nature (subscription required)

An introduction to molecular replacement

Evans P, McCoy A.

Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):1-10. Epub 2007 Dec 5.

Acta Cryst D

Automated structure solution with the PHENIX suite

Zwart PH, Afonine PV, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, McKee E, Moriarty NW, Read RJ, Sacchettini JC, Sauter NK, Storoni LC, Terwilliger TC, Adams PD.

Methods Mol Biol. 2008;426:419-35.

doi Digital Object Identifier

2007

A SNARE-adaptor interaction is a new mode of cargo recognition in clathrin-coated vesicles

Miller SE, Collins BM, McCoy AJ, Robinson MS, Owen DJ.

Nature. 2007 Nov 22;450(7169):570-4

Nature (subscription required)

High-resolution structure prediction and the crystallographic phase problem

Qian B, Raman S, Das R, Bradley P, McCoy AJ, Read RJ, Baker D.

Nature. 2007 Nov 8;450(7167):259-64. Epub 2007 Oct 14.

Nature (subscription required)

Solving structures of protein complexes by molecular replacement with Phaser

McCoy AJ

Acta Crystallogr D Biol Crystallogr. 2007 Jan;63(Pt 1):32-41. Epub 2006 Dec 13.

Acta Cryst D

Phaser crystallographic software

McCoy AJ, Grosse-Kunstleve RW, Adams PD, Winn MD, Storoni LC and Read RJ.

J. Appl. Cryst. (2007). 40, 658-674.

J Appl Cryst

β-Edge interactions in a pentadecameric human antibody Vκ domain.

James LC, Jones PC, McCoy A, Tennent GA, Pepys MB, Famm K, Winter G.

J Mol Biol. 2007 Mar 30;367(3):603-8. Epub 2006 Nov 3.

doi Digital Object Identifier

2006

Crystal structure of rab11 in complex with rab11 family interacting protein 2

Jagoe WN, Lindsay AJ, Read RJ, McCoy AJ, McCaffrey MW, Khan AR.

Structure. 2006 Aug;14(8):1273-83.

Structure (subscription required)

2005

Likelihood-enhanced fast translation functions

McCoy AJ, Grosse-Kunstleve RW, Storoni LC, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2005 Apr;61(Pt 4):458-64. Epub 2005 Mar 24.

Acta Cryst D

2004

Liking Likelihood

McCoy AJ

Acta Crystallogr D Biol Crystallogr. 2004 Dec;60(Pt 12 Pt 1):2169-83. Epub 2004 Nov 26.

Acta Cryst D

Simple algorithm for a maximum-likelihood SAD function

McCoy AJ, Storoni LC, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2004 Jul;60(Pt 7):1220-8. Epub 2004 Jun 22.

Acta Cryst D

Likelihood-enhanced fast rotation functions

Storoni LC, McCoy AJ, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2004 Mar;60(Pt 3):432-8. Epub 2004 Feb 25.

Acta Cryst D pdf

2003

Recent developments in the PHENIX software for automated crystallographic structure determination

Adams PD, Gopal K, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, Moriarty NW, Pai RK, Read RJ, Romo TD, Sacchettini JC, Sauter NK, Storoni LC, Terwilliger TC.

J Synchrotron Radiat. 2004 Jan 1;11(Pt 1):53-5. Epub 2003 Nov 28.

J Synch Radia

Application of the complex multivariate normal distribution to crystallographic methods with insights into multiple isomorphous replacement phasing

Pannu NS, McCoy AJ, Read RJ.

Acta Crystallogr D Biol Crystallogr. 2003 Oct;59(Pt 10):1801-8. Epub 2003 Sep 19.

Acta Cryst D

Structure of β-antithrombin and the effect of glycosylation on antithrombin's heparin affinity and activity

McCoy AJ, Pei XY, Skinner R, Abrahams JP, Carrell RW.

J Mol Biol. 2003 Feb 21;326(3):823-33.

doi Digital Object Identifier

2002

New applications of maximum likelihood and Bayesian statistics in macromolecular crystallography

McCoy AJ

Curr Opin Struct Biol. 2002 Oct;12(5):670-3. Review.

doi Digital Object Identifier

PHENIX: building new software for automated crystallographic structure determination

Adams PD, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, Moriarty NW, Read RJ, Sacchettini JC, Sauter NK, Terwilliger TC.

Acta Crystallogr D Biol Crystallogr. 2002 Nov;58(Pt 11):1948-54. Epub 2002 Oct 21.

Acta Cryst D

Molecular architecture and functional model of the endocytic AP2 complex

Collins BM, McCoy AJ, Kent HM, Evans PR, Owen DJ.

Cell. 2002 May 17;109(4):523-35.

Cell (subscription required)

2001

No publications

2000

ScFv multimers of the anti-neuraminidase antibody NC10: shortening of the linker in single-chain Fv fragment assembled in V(L) to V(H) orientation drives the formation of dimers, trimers, tetramers and higher molecular mass multimers

Dolezal O, Pearce LA, Lawrence LJ, McCoy AJ, Hudson PJ, Kortt AA.

Protein Eng. 2000 Aug;13(8):565-74.

doi Digital Object Identifier

The conformational activation of antithrombin. A 2.85-A structure of a fluorescein derivative reveals an electrostatic link between the hinge and heparin binding regions.

Huntington JA*, McCoy A*, Belzar KJ, Pei XY, Gettins PG, Carrell RW.

*authors contributed equally

J Biol Chem. 2000 May 19;275(20):15377-83

doi Digital Object Identifier

1999

Structural basis for dimerization of the Dictyostelium gelation factor (ABP120) rod

McCoy AJ, Fucini P, Noegel AA, Stewart M.

Nat Struct Biol. 1999 Sep;6(9):836-41.

Nature Structural Biology (subscription required)

scFv multimers of the anti-neuraminidase antibody NC10: length of the linker between VH and VL domains dictates precisely the transition between diabodies and triabodies

Atwell JL, Breheney KA, Lawrence LJ, McCoy AJ, Kortt AA, Hudson PJ.

Protein Eng. 1999 Jul;12(7):597-604.

doi Digital Object Identifier

Engineered mutants in the switch II loop of Ran define the contribution made by key residues to the interaction with nuclear transport factor 2 (NTF2) and the role of this interaction in nuclear protein import

Kent HM, Moore MS, Quimby BB, Baker AM, McCoy AJ, Murphy GA, Corbett AH, Stewart M.

J Mol Biol. 1999 Jun 11;289(3):565-77.

doi Digital Object Identifier

1998

The structure of the Q69L mutant of GDP-Ran shows a major conformational change in the switch II loop that accounts for its failure to bind nuclear transport factor 2 (NTF2)

Stewart M, Kent HM, McCoy AJ.

J Mol Biol. 1998 Dec 18;284(5):1517-27.

doi Digital Object Identifier

Three-dimensional structures of single-chain Fv-neuraminidase complexes

Malby RL*, McCoy AJ*, Kortt AA, Hudson PJ, Colman PM.

*authors contributed equally

J Mol Biol. 1998 Jun 19;279(4):901-10.

doi Digital Object Identifier

Structural basis for molecular recognition between nuclear transport factor 2 (NTF2) and the GDP-bound form of the Ras-family GTPase Ran

Stewart M, Kent HM, McCoy AJ.

J Mol Biol. 1998 Apr 3;277(3):635-46.

doi Digital Object Identifier

Structural basis for amoeboid motility in nematode sperm

Bullock TL, McCoy AJ, Kent HM, Roberts TM, Stewart M.

Nat Struct Biol. 1998 Mar;5(3):184-9.

Nature Structural Biology (subscription required)

1997

Crystallization and preliminary X-Ray diffraction characterization of a dimerizing fragment of the rod domain of the Dictyostelium gelation factor (ABP-120)

Fucini P, McCoy AJ, Gomez-Ortiz M, Schleicher M, Noegel AA, Stewart M.

J Struct Biol. 1997 Nov;120(2):192-5

doi Digital Object Identifier

Nuclear protein import is decreased by engineered mutants of nuclear transport factor 2 (NTF2) that do not bind GDP-Ran

Clarkson WD, Corbett AH, Paschal BM, Kent HM, McCoy AJ, Gerace L, Silver PA, Stewart M.

J Mol Biol. 1997 Oct 10;272(5):716-30.

doi Digital Object Identifier

The 1.8 Å crystal structure of winged bean albumin 1, the major albumin from Psophocarpus tetragonolobus (L.) DC

McCoy AJ, Kortt AA.

J Mol Biol. 1997 Jun 27;269(5):881-91.

doi Digital Object Identifier

Electrostatic complementarity at protein/protein interfaces

McCoy AJ, Chandana Epa V, Colman PM.

J Mol Biol. 1997 May 2;268(2):570-84.

doi Digital Object Identifier

Single-chain Fv fragments of anti-neuraminidase antibody NC10 containing five- and ten-residue linkers form dimers and with zero-residue linker a trimer

Kortt AA, Lah M, Oddie GW, Gruen CL, Burns JE, Pearce LA, Atwell JL, McCoy AJ, Howlett GJ, Metzger DW, Webster RG, Hudson PJ.

Protein Eng. 1997 Apr;10(4):423-33.

doi Digital Object Identifier

1996

Protein Structure and Interaction

McCoy AJ

Thesis (Ph. D)

University of Melbourne Library (not available for loan)

Other Real McCoys

There are four other AJ McCoys publishing in biomedical science and cited in PubMed Andrea J. McCoy − University of Texas, TX USA and F Edward Hébert School of Medicine, Bethesda, MD USA and latterly also Division of Bacterial Pathogenesis, Graduate School of Medicine, University of the Ryukyus, Okinawa, Japan Almedia J. McCoy − East Carolina University, Greenville, NC USA Austin J. McCoy − Vanderbilt University, Nashville, TN USA A. Jeanene McCoy − Disney's Animal Programs, Walt Disney World Resort, FL USA Thus an author search for McCoy AJ in PubMed will lead to a combined publication list for all five of us. Only the publications listed above are this real McCoy's!