Published Research
Found 57 results for Murshudov.
- Insights from aquaporin structures into drug-resistant sleeping sickness AuthorsMatusevicius M., Corey R. A., Gragera M., Yamashita K., Sprenger T., Ungogo M., Blaza J. N., Castro-Hartmann P., Chirgadze D. Y., Chaitanya Vedithi S., Afanasyev P., Melero R., Warshamanage R., Gusach A., Carazo J. M., Carrington M., Blundell T., Murshudov G. N., Stansfeld P. J., Sansom M. S. P., De Koning H. P., Tate C. G., Weyand S. Journal Elife 14:RP107460 (2026)
- Structural basis of anticancer drug recognition and amino acid transport by LAT1 AuthorsLee Y., Jin C., Ohgaki R., Xu M., Ogasawara S., Warshamanage R., Yamashita K., Murshudov G., Nureki O., Murata T., Kanai Y. Journal Nature Communications 16(1):1635 (2025)
- Improving macromolecular structure refinement with metal-coordination restraints AuthorsBabai K. H., Long F., Malý M., Yamashita K., Murshudov G. N. Journal Acta crystallographica. Section D, Structural Biology 80(Pt 12):821-833 (2024)
- How do gepotidacin and zoliflodacin stabilize DNA cleavage complexes with bacterial type IIA topoisomerases? 1. experimental definition of metal binding sites AuthorsMorgan H., Nicholls R. A., Warren A. J., Ward S. E., Evans G., Long F., Murshudov G. N., Duman R., Bax B. D. Journal International Journal of Molecular Sciences 25(21):11688 (2024)
- Post-translational modifications in the Protein Data Bank AuthorsSchofield L. C., Dialpuri J. S., Murshudov G. N., Agirre J. Journal Acta crystallographica. Section D, Structural Biology 80(Pt 9):647-660 (2024)
- Outcomes of the EMDataResource cryo-EM Ligand Modeling Challenge AuthorsLawson CL, Kryshtafovych A, Pintilie GD, Burley SK, Černý J, Chen VB, Emsley P, Gobbi A, Joachimiak A, Noreng S, Prisant MG, Read RJ, Richardson JS, Rohou AL, Schneider B, Sellers BD, Shao C, Sourial E, Williams CI, Williams CJ, Yang Y, Abbaraju V, Afonine PV, Baker ML, Bond PS, Blundell TL, Burnley T, Campbell A, Cao R, Cheng J, Chojnowski G, Cowtan KD, DiMaio F, Esmaeeli R, Giri N, Grubmüller H, Hoh SW, Hou J, Hryc CF, Hunte C, Igaev M, Joseph AP, Kao WC, Kihara D, Kumar D, Lang L, Lin S, Maddhuri Venkata Subramaniya SR, Mittal S, Mondal A, Moriarty NW, Muenks A, Murshudov GN, Nicholls RA, Olek M, Palmer CM, Perez A, Pohjolainen E, Pothula KR, Rowley CN, Sarkar D, Schäfer LU, Schlicksup CJ, Schröder GF, Shekhar M, Si D, Singharoy A, Sobolev OV, Terashi G, Vaiana AC, Vedithi SC, Verburgt J, Wang X, Warshamanage R, Winn MD, Weyand S, Yamashita K, Zhao M, Schmid MF, Berman HM, Chiu W. Journal Nature Methods 21(7):1340-1348 (2024)
- A redox switch allows binding of Fe(II) and Fe(III) ions in the cyanobacterial iron-binding protein FutA from Prochlorococcus AuthorsBolton R, Machelett MM, Stubbs J, Axford D, Caramello N, Catapano L, Malý M, Rodrigues MJ, Cordery C, Tizzard GJ, MacMillan F, Engilberge S, von Stetten D, Tosha T, Sugimoto H, Worrall JAR, Webb JS, Zubkov M, Coles S, Mathieu E, Steiner RA, Murshudov G, Schrader TE, Orville AM, Royant A, Evans G, Hough MA, Owen RL, Tews I. Journal Proceedings of the National Academy of Sciences of the United States of America 121(12):e2308478121 (2024)
- Community recommendations on cryoEM data archiving and validation AuthorsKleywegt GJ, Adams PD, Butcher SJ, Lawson CL, Rohou A, Rosenthal PB, Subramaniam S, Topf M, Abbott S, Baldwin PR, Berrisford JM, Bricogne G, Choudhary P, Croll TI, Danev R, Ganesan SJ, Grant T, Gutmanas A, Henderson R, Heymann JB, Huiskonen JT, Istrate A, Kato T, Lander GC, Lok SM, Ludtke SJ, Murshudov GN, Pye R, Pintilie GD, Richardson JS, Sachse C, Salih O, Scheres SHW, Schroeder GF, Sorzano COS, Stagg SM, Wang Z, Warshamanage R, Westbrook JD, Winn MD, Young JY, Burley SK, Hoch JC, Kurisu G, Morris K, Patwardhan A, Velankar S. Journal Iucrj 11(Pt 2):140-151 (2024)
- The CCP4 suite: integrative software for macromolecular crystallography AuthorsAgirre J, Atanasova M, Bagdonas H, Ballard CB, Baslé A, Beilsten-Edmands J, Borges RJ, Brown DG, Burgos-Mármol JJ, Berrisford JM, Bond PS, Caballero I, Catapano L, Chojnowski G, Cook AG, Cowtan KD, Croll TI, Debreczeni JÉ, Devenish NE, Dodson EJ, Drevon TR, Emsley P, Evans G, Evans PR, Fando M, Foadi J, Fuentes-Montero L, Garman EF, Gerstel M, Gildea RJ, Hatti K, Hekkelman ML, Heuser P, Hoh SW, Hough MA, Jenkins HT, Jiménez E, Joosten RP, Keegan RM, Keep N, Krissinel EB, Kolenko P, Kovalevskiy O, Lamzin VS, Lawson DM, Lebedev AA, Leslie AGW, Lohkamp B, Long F, Malý M, McCoy AJ, McNicholas SJ, Medina A, Millán C, Murray JW, Murshudov GN, Nicholls RA, Noble MEM, Oeffner R, Pannu NS, Parkhurst JM, Pearce N, Pereira J, Perrakis A, Powell HR, Read RJ, Rigden DJ, Rochira W, Sammito M, Sánchez Rodríguez F, Sheldrick GM, Shelley KL, Simkovic F, Simpkin AJ, Skubak P, Sobolev E, Steiner RA, Stevenson K, Tews I, Thomas JMH, Thorn A, Valls JT, Uski V, Usón I, Vagin A, Velankar S, Vollmar M, Walden H, Waterman D, Wilson KS, Winn MD, Winter G, Wojdyr M, Yamashita K. Journal Acta crystallographica. Section D, Structural Biology 79(Pt 6):449-461 (2023)
- The CCP4 suite: integrative software for macromolecular crystallography AuthorsAgirre J, Atanasova M, Bagdonas H, Ballard CB, Baslé A, Beilsten-Edmands J, Borges RJ, Brown DG, Burgos-Mármol JJ, Berrisford JM, Bond PS, Caballero I, Catapano L, Chojnowski G, Cook AG, Cowtan KD, Croll TI, Debreczeni JÉ, Devenish NE, Dodson EJ, Drevon TR, Emsley P, Evans G, Evans PR, Fando M, Foadi J, Fuentes-Montero L, Garman EF, Gerstel M, Gildea RJ, Hatti K, Hekkelman ML, Heuser P, Hoh SW, Hough MA, Jenkins HT, Jiménez E, Joosten RP, Keegan RM, Keep N, Krissinel EB, Kolenko P, Kovalevskiy O, Lamzin VS, Lawson DM, Lebedev AA, Leslie AGW, Lohkamp B, Long F, Malý M, McCoy AJ, McNicholas SJ, Medina A, Millán C, Murray JW, Murshudov GN, Nicholls RA, Noble MEM, Oeffner R, Pannu NS, Parkhurst JM, Pearce N, Pereira J, Perrakis A, Powell HR, Read RJ, Rigden DJ, Rochira W, Sammito M, Sánchez Rodríguez F, Sheldrick GM, Shelley KL, Simkovic F, Simpkin AJ, Skubak P, Sobolev E, Steiner RA, Stevenson K, Tews I, Thomas JMH, Thorn A, Valls JT, Uski V, Usón I, Vagin A, Velankar S, Vollmar M, Walden H, Waterman D, Wilson KS, Winn MD, Winter G, Wojdyr M, Yamashita K. Journal Acta crystallographica. Section D, Structural Biology 79(Pt 6):449-461 (2023)
- GEMMI and Servalcat restrain REFMAC5 AuthorsYamashita K., Wojdyr M., Long F., Nicholls R. A., Murshudov G. N. Journal Acta crystallographica. Section D, Structural Biology 79(Pt 5):368-373 (2023)
- Interdigitated immunoglobulin arrays form the hyperstable surface layer of the extremophilic bacterium Deinococcus radiodurans Authorsvon Kügelgen A., van Dorst S., Yamashita K., Sexton D. L, Tocheva E. I., Murshudov G., Alva V., Bharat T. A. M. Journal Proceedings of the National Academy of Sciences of the United States of America 120(16):e2215808120 (2023)
- EMDA: A Python package for Electron Microscopy Data Analysis AuthorsWarshamanage R., Yamashita K., Murshudov G. N. Journal Journal of Structural Biology 214(1):107826 (2021)
- Cryo-EM single-particle structure refinement and map calculation using Servalcat AuthorsYamashita K., Palmer C. M., Burnley T., Murshudov G. N. Journal Acta crystallographica. Section D, Structural Biology 77(Pt 10):1282-1291 (2021)
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Bipartite binding and partial inhibition links DEPTOR and mTOR in a mutually antagonistic embrace
AuthorsHeimhalt M., Berndt A., Wagstaff J., Anandapadamanaban M., Perisic O., Maslen S., McLaughlin S., Yu C. W., Masson G. R., Boland A., Ni X., Yamashita K., Murshudov G. N., Skehel M., Freund S. M., Williams R. L.
Journal
Elife
10:e68799 (2021)
Details
DOI10.7554/elife.68799 PMID34519269 PMCIDPMC8439657 DivisionCell Biology, Protein & Nucleic Acid Chemistry, Structural Studies - The missing link: covalent linkages in structural models AuthorsNicholls R. A., Wojdyr M., Joosten R. P., Catapano L., Long F., Fischer M., Emsley P., Murshudov G. N. Journal Acta crystallographica. Section D, Structural Biology 77(Pt 6):727-745. 1 June 2021 (2021)
- Modelling covalent linkages in CCP4 AuthorsNicholls R. A., Joosten R. P., Long F., Wojdyr M., Lebedev A., Krissinel E., Catapano L., Fischer M., Emsley P., Murshudov G. N. Journal Acta crystallographica. Section D, Structural Biology 77(Pt 6):712-726. 1 June 2021 (2021)
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Single-particle cryo-EM at atomic resolution
AuthorsNakane T., Kotecha A., Sente A., McMullan G., Masiulis S., Brown P. M. G. E., Grigoras I. T., Malinauskaite L., Malinauskas T., Miehling J., Uchański T., Yu L., Karia D., Pechnikova E. V., de Jong E., Keizer J., Bischoff M., McCormack J., Tiemeijer P., Hardwick S. W., Chirgadze D. Y., Murshudov G., Aricescu A. R., Scheres S. H. W.
Journal
Nature
587(7832):152-156. 5 November 2020 (2020)
Details
DOI10.1038/s41586-020-2829‑0 PMID33087931 PMCIDPMC7611073 DivisionNeurobiology, Structural Studies - Local and global analysis of macromolecular atomic displacement parameters AuthorsMasmaliyeva R. C., Babai K. H., Murshudov G. N. Journal Acta crystallographica. Section D, Structural Biology 76(Pt 10):926-937. 1 October 2020 (2020)
- The predictive power of data-processing statistics AuthorsVollmar M., Parkhurst J. M., Jaques D., Baslé A., Murshudov G. N., Waterman D. G., Evans G. Journal Iucrj 7(Pt 2):342-354. March 2020 (2020)
- On the complementarity of X-ray and NMR data AuthorsSchirò A., Carlon A., Parigi G., Murshudov G., Calderone V., Ravera E.,Luchinat C. Journal Journal of Structural Biology: X 4:100019. January 2020 (2020)
- Supercell refinement: a cautionary tale AuthorsLovelace J., Petrícek V., Murshudov G., Borgstahl G. E. O. Journal Acta Crystallographica. Section D, Structural Biology 75(Pt 9):852-860. 1 September 2019 (2019)
- DNA Topoisomerase Inhibitors: Trapping a DNA-Cleaving Machine in Motion AuthorsBax B. D., Murshudov G., Maxwell A., Germe T. Journal Journal of Molecular Biology 431(18):3427-3449. 23 August 2019 (2019)
- Joint X-ray/NMR structure refinement of multidomain/multisubunit systems AuthorsCarlon A., Ravera E., Parigi G., Murshudov G. N., Luchinat C. Journal Journal of Biomolecular NMR 73(6-7):265-278. July 2019 (2019)
- Analysis and validation of macromolecular B values AuthorsMasmaliyeva R. C., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 75(Pt 5):505-518. 30 April 2019 (2019)
- Announcing mandatory submission of PDBx/mmCIF format files for crystallographic depositions to the Protein Data Bank (PDB) AuthorsAdams P. D., Afonine P. V., Baskaran K., Berman H. M., Berrisford J., Bricogne G., Brown D. G., Burley S. K., Chen M., Feng Z., Flensburg C., Gutmanas A., Hoch J. C., Ikegawa Y., Kengaku Y., Krissinel E., Kurisu G., Liang Y., Liebschner D., Mak L., Markley J. L., Moriarty N. W., Murshudov G. N., Noble M., Peisach E., Persikova I., Poon B. K., Sobolev O. V., Ulrich E. L., Velankar S., Vonrhein C., Westbrook J., Wojdyr M., Yokochi M., Young J. Y. Journal Acta Crystallographica. Section D, Structural Biology 75(Pt 4):451-454. 8 April 2019 (2019)
- Pathological macromolecular crystallographic data affected by twinning, partial-disorder and exhibiting multiple lattices for testing of data processing and refinement tools AuthorsCampeotto I., Lebedev A., Schreurs A. M. M., Kroon-Batenburg L. M. J., Lowe E., Phillips S. E. V., Murshudov G. N., Pearson A. R. Journal Scientific Reports 8(1):14876. 5 October 2018 (2018)
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Structures of filaments from Pick's disease reveal a novel tau protein fold
AuthorsFalcon B., Zhang W., Murzin A. G., Murshudov G., Garringer H. J., Vidal R., Crowther R. A., Ghetti B., Scheres S. H. W., Goedert M.
Journal
Nature
561(7721):137-140. 6 September 2018 (2018)
Details
DOI10.1038/s41586-018-0454-y PMID30158706 PMCIDPMC6204212 DivisionStructural Studies, Neurobiology - Current approaches for the fitting and refinement of atomic models into cryo-EM maps using CCP‑EM AuthorsNicholls R. A., Tykac M., Kovalevskiy O., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 74(Pt 6):492-505. June 2018 (2018)
- Overview of refinement procedures within REFMAC5: utilizing data from different sources AuthorsKovalevskiy O., Nicholls R. A., Long F., Carlon A., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 74(Pt 3):215-227. 2 March 2018 (2018)
- AUSPEX: a graphical tool for X-ray diffraction data analysis AuthorsThorn A., Parkhurst J., Emsley P., Nicholls R. A., Vollmar M., Evans G., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 73(Pt 9):729-737. September 2017 (2017)
- Background modelling of diffraction data in the presence of ice rings AuthorsParkhurst J. M., Thorn A., Vollmar M., Winter G., Waterman D. G., Fuentes-Montero L., Gildea R. J., Murshudov G. N., Evans G. Journal Iucrj 4(Pt 5):626-638 (2017)
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Cryo-EM structures of tau filaments from Alzheimer's disease
AuthorsFitzpatrick A. W. P., Falcon B., He S., Murzin A. G., Murshudov G., Garringer H. J., Crowther R. A., Ghetti B., Goedert M., Scheres S. H. W.
Journal
Nature
547(7662):185-190 (2017)
Details
DOI10.1038/nature23002 PMID28678775 PMCIDPMC5552202 DivisionNeurobiology, Structural Studies - Data mining of iron(II) and iron(III) bond-valence parameters, and their relevance for macromolecular crystallography AuthorsZheng H., Langner K. M., Shields G. P., Hou J., Kowiel M., Allen F. H., Murshudov G., Minor W. Journal Acta Crystallographica. Section D, Structural Biology 73(Pt 4):316-325. April 2017 (2017)
- AceDRG: a stereochemical description generator for ligands AuthorsLong F., Nicholls R. A., Emsley P., Graǽulis S., Merkys A., Vaitkus A., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 73(Pt 2):112-122. 1 February 2017 (2017)
- Validation and extraction of molecular-geometry information from small-molecule databases AuthorsLong F., Nicholls R. A., Emsley P., Graǽulis S., Merkys A., Vaitkus A., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 73(Pt 2):103-111. 1 February 2017 (2017)
- Low Resolution Refinement of Atomic Models Against Crystallographic Data AuthorsNicholls R. A., Kovalevskiy O., Murshudov G. N. Journal Methods in Molecular Biology 1607:565-593 (2017)
- Robust background modelling in DIALS AuthorsParkhurst J. M., Winter G., Waterman D. G., Fuentes-Montero L., Gildea R. J., Murshudov G. N., Evans G. Journal Journal of Applied Crystallography 49(Pt 6):1912-1921. 1 December 2016 (2016)
- Automated refinement of macromolecular structures at low resolution using prior information AuthorsKovalevskiy O., Nicholls R. A., Murshudov G. N. Journal Acta Crystallographica. Section D, Structural Biology 72(Pt 10):1149-1161. 1 October 2016 (2016)
- Refinement of Atomic Structures Against cryo-EM Maps AuthorsMurshudov G. N. Journal Methods in Enzymology 579:277-305. 24 June 2016 (2016)
- MutS/MutL crystal structure reveals that the MutS sliding clamp loads MutL onto DNA AuthorsGroothuizen F. S., Winkler I., Cristóvão M., Fish A., Winterwerp H. H., Reumer A., Marx A. D., Hermans N., Nicholls R. A., Murshudov G. N., Lebbink J. H., Friedhoff P., Sixma T. K. Journal ELife 4: e06744. 11 July 2015 (2015)
- Structures of actin-like ParM filaments show architecture of plasmid-segregating spindles AuthorsBharat T. A., Murshudov G. N., Sachse C., Löwe J. Journal Nature 523(7558):106-110. 2 July 2015 (2015)
- Tools for macromolecular model building and refinement into electron cryo-microscopy reconstructions. AuthorsBrown A., Long F., Nicholls R. A., Toots J., Emsley P., Murshudov G. Journal Acta Crystallographica. Section D, Biological Crystallography 71(Pt 1):136-153, 1 January 2015 (2015)
- Data to knowledge: how to get meaning from your result. AuthorsBerman H. M., Gabanyi M. J., Groom C. R., Johnson J. E., Murshudov G. N., Nicholls R. A., Reddy V., Schwede T., Zimmerman M. D., Westbrook J., Minor W. Journal IUCrJ 2(Pt 1):45-58, 1 January 2015 (2015)
- Structure of the large ribosomal subunit from human mitochondria AuthorsBrown A., Amunts A., Bai X. C., Sugimoto Y., Edwards P. C., Murshudov G., Scheres S. H., Ramakrishnan V. Journal Science 346(6210):718-722. 7 November 2014 (2014)
- Conformation-independent structural comparison of macromolecules with ProSMART AuthorsNicholls R. A., Fischer M., McNicholas S., Murshudov G. N. Journal Acta Crystallographica. Section D, Biological Crystallography 70(Pt 9):2487-2499. 1 September 2014 (2014)
- The PDB_REDO server for macromolecular structure model optimization AuthorsJoosten R. P., Long F., Murshudov G. N., Perrakis A. Journal IUCrJ 1(Pt 4):213-220. 1 July 2014 (2014)
- Initiation of translation by cricket paralysis virus IRES requires its translocation in the ribosome AuthorsFernández I. S., Bai X. C., Murshudov G., Scheres S. H., Ramakrishnan V. Journal Cell 157(4):823-831. 8 May 2014 (2014)
- Simultaneous use of solution NMR and X-ray data in REFMAC5 for joint refinement/detection of structural differences AuthorsRinaldelli M., Ravera E., Calderone V., Parigi G., Murshudov G. N., Luchinat C. Journal Acta Crystallographica. Section D, Biological Crystallography 70(Pt 4):958-967. 1 April 2014 (2014)
- Structure of the yeast mitochondrial large ribosomal subunit AuthorsAmunts A., Brown A., Bai X. C., Llácer J. L., Hussain T., Emsley P., Long F., Murshudov G., Scheres S. H., Ramakrishnan V. Journal Science 343(6178):1485-1489. 28 March 2014 (2014)
- High-resolution noise substitution to measure overfitting and validate resolution in 3D structure determination by single particle electron cryomicroscopy AuthorsChen S., McMullan G., Faruqi A. R., Murshudov G. N., Short J. M., Scheres S. H., Henderson R. Journal Ultramicroscopy 135C:24-35. December 2013 (2013)
- How good are my data and what is the resolution? AuthorsEvans P. R., Murshudov G. N. Journal Acta Crystallographica. Section D, Biological Crystallography 69(Pt 7):1204-1214. 1 July 2013 (2013)
- Low-resolution refinement tools in REFMAC5 AuthorsNicholls R. A., Long F., Murshudov G. N. Journal Acta Crystallographica. Section D, Biological Crystallography 68(Pt 4):404-417. 1 April 2012 (2012)
- JLigand: a graphical tool for the CCP4 template-restraint library AuthorsLebedev A. A., Young P., Isupov M. N., Moroz O. V., Vagin A. A., Murshudov G. N. Journal Acta Crystallographica. Section D, Biological Crystallography 68(Pt 4):431-440. 1 April 2012 (2012)
- PDB_REDO: constructive validation, more than just looking for errors AuthorsJoosten R. P., Joosten K., Murshudov G. N., Perrakis A. Journal Acta Crystallographica. Section D, Biological Crystallography 68(Pt 4):484-496. 1 April 2012 (2012)
- Structural characterization of H. pylori dethiobiotin synthetase reveals differences between family members AuthorsPorebski P. J., Klimecka M., Chruszcz M., Nicholls R. A., Murzyn K., Cuff M. E., Xu X., Cymborowski M., Murshudov G. N., Savchenko A., Edwards A., Minor W. Journal FEBS Journal 279(6):1093-1105. March 2012 (2012)
- Overview of the CCP4 suite and current developments AuthorsWinn M. D., Ballard C. C., Cowtan K. D., Dodson E. J., Emsley P., Evans P. R., Keegan R. M., Krissinel E. B., Leslie A. G., McCoy A., McNicholas S. J., Murshudov G. N., Pannu N. S., Potterton E. A., Powell H. R., Read R. J., Vagin A., Wilson K. S. Journal Acta Crystallographica. Section D 67(4):235-242. April 2011 (2011)