Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 21

1.

Announcing mandatory submission of PDBx/mmCIF format files for crystallographic depositions to the Protein Data Bank (PDB).

Adams PD, Afonine PV, Baskaran K, Berman HM, Berrisford J, Bricogne G, Brown DG, Burley SK, Chen M, Feng Z, Flensburg C, Gutmanas A, Hoch JC, Ikegawa Y, Kengaku Y, Krissinel E, Kurisu G, Liang Y, Liebschner D, Mak L, Markley JL, Moriarty NW, Murshudov GN, Noble M, Peisach E, Persikova I, Poon BK, Sobolev OV, Ulrich EL, Velankar S, Vonrhein C, Westbrook J, Wojdyr M, Yokochi M, Young JY.

Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):451-454. doi: 10.1107/S2059798319004522. Epub 2019 Apr 8. No abstract available.

PMID:
30988261
2.

Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data.

Young JY, Westbrook JD, Feng Z, Peisach E, Persikova I, Sala R, Sen S, Berrisford JM, Swaminathan GJ, Oldfield TJ, Gutmanas A, Igarashi R, Armstrong DR, Baskaran K, Chen L, Chen M, Clark AR, Di Costanzo L, Dimitropoulos D, Gao G, Ghosh S, Gore S, Guranovic V, Hendrickx PMS, Hudson BP, Ikegawa Y, Kengaku Y, Lawson CL, Liang Y, Mak L, Mukhopadhyay A, Narayanan B, Nishiyama K, Patwardhan A, Sahni G, Sanz-García E, Sato J, Sekharan MR, Shao C, Smart OS, Tan L, van Ginkel G, Yang H, Zhuravleva MA, Markley JL, Nakamura H, Kurisu G, Kleywegt GJ, Velankar S, Berman HM, Burley SK.

Database (Oxford). 2018 Jan 1;2018. doi: 10.1093/database/bay002.

3.

Validation of Structures in the Protein Data Bank.

Gore S, Sanz García E, Hendrickx PMS, Gutmanas A, Westbrook JD, Yang H, Feng Z, Baskaran K, Berrisford JM, Hudson BP, Ikegawa Y, Kobayashi N, Lawson CL, Mading S, Mak L, Mukhopadhyay A, Oldfield TJ, Patwardhan A, Peisach E, Sahni G, Sekharan MR, Sen S, Shao C, Smart OS, Ulrich EL, Yamashita R, Quesada M, Young JY, Nakamura H, Markley JL, Berman HM, Burley SK, Velankar S, Kleywegt GJ.

Structure. 2017 Dec 5;25(12):1916-1927. doi: 10.1016/j.str.2017.10.009. Epub 2017 Nov 22.

4.

PDBe: towards reusable data delivery infrastructure at protein data bank in Europe.

Mir S, Alhroub Y, Anyango S, Armstrong DR, Berrisford JM, Clark AR, Conroy MJ, Dana JM, Deshpande M, Gupta D, Gutmanas A, Haslam P, Mak L, Mukhopadhyay A, Nadzirin N, Paysan-Lafosse T, Sehnal D, Sen S, Smart OS, Varadi M, Kleywegt GJ, Velankar S.

Nucleic Acids Res. 2018 Jan 4;46(D1):D486-D492. doi: 10.1093/nar/gkx1070.

5.

OneDep: Unified wwPDB System for Deposition, Biocuration, and Validation of Macromolecular Structures in the PDB Archive.

Young JY, Westbrook JD, Feng Z, Sala R, Peisach E, Oldfield TJ, Sen S, Gutmanas A, Armstrong DR, Berrisford JM, Chen L, Chen M, Di Costanzo L, Dimitropoulos D, Gao G, Ghosh S, Gore S, Guranovic V, Hendrickx PMS, Hudson BP, Igarashi R, Ikegawa Y, Kobayashi N, Lawson CL, Liang Y, Mading S, Mak L, Mir MS, Mukhopadhyay A, Patwardhan A, Persikova I, Rinaldi L, Sanz-Garcia E, Sekharan MR, Shao C, Swaminathan GJ, Tan L, Ulrich EL, van Ginkel G, Yamashita R, Yang H, Zhuravleva MA, Quesada M, Kleywegt GJ, Berman HM, Markley JL, Nakamura H, Velankar S, Burley SK.

Structure. 2017 Mar 7;25(3):536-545. doi: 10.1016/j.str.2017.01.004. Epub 2017 Feb 9.

6.

Structure of bacterial respiratory complex I.

Berrisford JM, Baradaran R, Sazanov LA.

Biochim Biophys Acta. 2016 Jul;1857(7):892-901. doi: 10.1016/j.bbabio.2016.01.012. Epub 2016 Jan 22.

7.

PDBe: improved accessibility of macromolecular structure data from PDB and EMDB.

Velankar S, van Ginkel G, Alhroub Y, Battle GM, Berrisford JM, Conroy MJ, Dana JM, Gore SP, Gutmanas A, Haslam P, Hendrickx PM, Lagerstedt I, Mir S, Fernandez Montecelo MA, Mukhopadhyay A, Oldfield TJ, Patwardhan A, Sanz-García E, Sen S, Slowley RA, Wainwright ME, Deshpande MS, Iudin A, Sahni G, Salavert Torres J, Hirshberg M, Mak L, Nadzirin N, Armstrong DR, Clark AR, Smart OS, Korir PK, Kleywegt GJ.

Nucleic Acids Res. 2016 Jan 4;44(D1):D385-95. doi: 10.1093/nar/gkv1047. Epub 2015 Oct 17.

8.

Small molecule annotation for the Protein Data Bank.

Sen S, Young J, Berrisford JM, Chen M, Conroy MJ, Dutta S, Di Costanzo L, Gao G, Ghosh S, Hudson BP, Igarashi R, Kengaku Y, Liang Y, Peisach E, Persikova I, Mukhopadhyay A, Narayanan BC, Sahni G, Sato J, Sekharan M, Shao C, Tan L, Zhuravleva MA.

Database (Oxford). 2014 Nov 25;2014:bau116. doi: 10.1093/database/bau116. Print 2014.

9.

PDBe: Protein Data Bank in Europe.

Gutmanas A, Alhroub Y, Battle GM, Berrisford JM, Bochet E, Conroy MJ, Dana JM, Fernandez Montecelo MA, van Ginkel G, Gore SP, Haslam P, Hatherley R, Hendrickx PM, Hirshberg M, Lagerstedt I, Mir S, Mukhopadhyay A, Oldfield TJ, Patwardhan A, Rinaldi L, Sahni G, Sanz-García E, Sen S, Slowley RA, Velankar S, Wainwright ME, Kleywegt GJ.

Nucleic Acids Res. 2014 Jan;42(Database issue):D285-91. doi: 10.1093/nar/gkt1180. Epub 2013 Nov 27.

10.

A long road towards the structure of respiratory complex I, a giant molecular proton pump.

Sazanov LA, Baradaran R, Efremov RG, Berrisford JM, Minhas G.

Biochem Soc Trans. 2013 Oct;41(5):1265-71. doi: 10.1042/BST20130193.

PMID:
24059518
11.

Crystal structure of the entire respiratory complex I.

Baradaran R, Berrisford JM, Minhas GS, Sazanov LA.

Nature. 2013 Feb 28;494(7438):443-8. doi: 10.1038/nature11871. Epub 2013 Feb 17.

12.

The bacterial stressosome: a modular system that has been adapted to control secondary messenger signaling.

Quin MB, Berrisford JM, Newman JA, Baslé A, Lewis RJ, Marles-Wright J.

Structure. 2012 Feb 8;20(2):350-63. doi: 10.1016/j.str.2012.01.003.

13.

Structural basis for the mechanism of respiratory complex I.

Berrisford JM, Sazanov LA.

J Biol Chem. 2009 Oct 23;284(43):29773-83. doi: 10.1074/jbc.M109.032144. Epub 2009 Jul 27.

14.

Catalysis by Glomerella cingulata cutinase requires conformational cycling between the active and inactive states of its catalytic triad.

Nyon MP, Rice DW, Berrisford JM, Hounslow AM, Moir AJ, Huang H, Nathan S, Mahadi NM, Bakar FD, Craven CJ.

J Mol Biol. 2009 Jan 9;385(1):226-35. doi: 10.1016/j.jmb.2008.10.050. Epub 2008 Nov 1.

PMID:
18983850
15.

Chemical and NADH-induced, ROS-dependent, cross-linking between subunits of complex I from Escherichia coli and Thermus thermophilus.

Berrisford JM, Thompson CJ, Sazanov LA.

Biochemistry. 2008 Sep 30;47(39):10262-70. doi: 10.1021/bi801160u. Epub 2008 Sep 5.

PMID:
18771280
16.

Crystallization and preliminary X-ray analysis of recombinant Glomerella cingulata cutinase.

Nyon MP, Rice DW, Berrisford JM, Huang H, Moir AJ, Craven CJ, Nathan S, Mahadi NM, Abu Bakar FD.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008 Jun 1;64(Pt 6):504-8. doi: 10.1107/S1744309108012086. Epub 2008 May 23.

17.

Evidence supporting a cis-enediol-based mechanism for Pyrococcus furiosus phosphoglucose isomerase.

Berrisford JM, Hounslow AM, Akerboom J, Hagen WR, Brouns SJ, van der Oost J, Murray IA, Michael Blackburn G, Waltho JP, Rice DW, Baker PJ.

J Mol Biol. 2006 May 19;358(5):1353-66. Epub 2006 Mar 24.

PMID:
16580686
18.

The structures of inhibitor complexes of Pyrococcus furiosus phosphoglucose isomerase provide insights into substrate binding and catalysis.

Berrisford JM, Akerboom J, Brouns S, Sedelnikova SE, Turnbull AP, van der Oost J, Salmon L, Hardré R, Murray IA, Blackburn GM, Rice DW, Baker PJ.

J Mol Biol. 2004 Oct 22;343(3):649-57.

PMID:
15465052
19.

Purification, crystallization and preliminary crystallographic analysis of phosphoglucose isomerase from the hyperthermophilic archaeon Pyrococcus furiosus.

Akerboom J, Turnbull AP, Hargreaves D, Fisher M, de Geus D, Sedelnikova SE, Berrisford JM, Baker PJ, Verhees CH, van der Oost J, Rice DW.

Acta Crystallogr D Biol Crystallogr. 2003 Oct;59(Pt 10):1822-3. Epub 2003 Sep 19.

PMID:
14501126
20.

Crystal structure of Pyrococcus furiosus phosphoglucose isomerase. Implications for substrate binding and catalysis.

Berrisford JM, Akerboom J, Turnbull AP, de Geus D, Sedelnikova SE, Staton I, McLeod CW, Verhees CH, van der Oost J, Rice DW, Baker PJ.

J Biol Chem. 2003 Aug 29;278(35):33290-7. Epub 2003 Jun 9.

21.

Implications of pet-facilitated therapy in palliative nursing.

Berrisford JA.

Int J Palliat Nurs. 1995 Apr 2;1(2):86-89. doi: 10.12968/ijpn.1995.1.2.86.

PMID:
29323582

Supplemental Content

Loading ...
Support Center