Ardan Patwardhan

Ardan Patwardhan

Project leader EMDB - Kleywegt team: Protein Data Bank in Europe

ORCID iD: 0000-0001-7663-9028

Tel:+44 (0) 1223 492 649 / Fax:

Publications

2014

A 3D cellular context for the macromolecular world.
Patwardhan A, Ashton A, Brandt R, Butcher S, Carzaniga R, Chiu W, Collinson L, Doux P, Duke E, Ellisman MH, Franken E, Grünewald K, Heriche JK, Koster A, Kühlbrandt W, Lagerstedt I, Larabell C, Lawson CL, Saibil HR, Sanz-García E, Subramaniam S, Verkade P, Swedlow JR, Kleywegt GJ.
Nat Struct Mol Biol Volume 21 (2014) p.841-845
DOI: 10.1038/nsmb.2897

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 Volume 42 (2014) p.d285-91
DOI: 10.1093/nar/gkt1180

2013

Web-based visualisation and analysis of 3D electron-microscopy data from EMDB and PDB.
Lagerstedt I, Moore WJ, Patwardhan A, Sanz-García E, Best C, Swedlow JR, Kleywegt GJ.
J Struct Biol Volume 184 (2013) p.173-181
DOI: 10.1016/j.jsb.2013.09.021

The role of structural bioinformatics resources in the era of integrative structural biology.
Gutmanas A, Oldfield TJ, Patwardhan A, Sen S, Velankar S, Kleywegt GJ.
Acta Crystallogr D Biol Crystallogr Volume 69 (2013) p.710-721
DOI: 10.1107/s0907444913001157

Cryo-electron microscopy--a primer for the non-microscopist.
Milne JL, Borgnia MJ, Bartesaghi A, Tran EE, Earl LA, Schauder DM, Lengyel J, Pierson J, Patwardhan A, Subramaniam S.
FEBS J Volume 280 (2013) p.28-45
DOI: 10.1111/febs.12078

2012

Data management challenges in three-dimensional EM.
Patwardhan A, Carazo JM, Carragher B, Henderson R, Heymann JB, Hill E, Jensen GJ, Lagerstedt I, Lawson CL, Ludtke SJ, Mastronarde D, Moore WJ, Roseman A, Rosenthal P, Sorzano CO, Sanz-García E, Scheres SH, Subramaniam S, Westbrook J, Winn M, Swedlow JR, Kleywegt GJ.
Nat Struct Mol Biol Volume 19 (2012) p.1203-1207
DOI: 10.1038/nsmb.2426

PDBe: Protein Data Bank in Europe.
Velankar S, Alhroub Y, Best C, Caboche S, Conroy MJ, Dana JM, Fernandez Montecelo MA, van Ginkel G, Golovin A, Gore SP, Gutmanas A, Haslam P, Hendrickx PM, Heuson E, Hirshberg M, John M, Lagerstedt I, Mir S, Newman LE, Oldfield TJ, Patwardhan A, Rinaldi L, Sahni G, Sanz-García E, Sen S, Slowley R, Suarez-Uruena A, Swaminathan GJ, Symmons MF, Vranken WF, Wainwright M, Kleywegt GJ.
Nucleic Acids Res Volume 40 (2012) p.d445-52
DOI: 10.1093/nar/gkr998

OMERO: flexible, model-driven data management for experimental biology.
Allan C, Burel JM, Moore J, Blackburn C, Linkert M, Loynton S, Macdonald D, Moore WJ, Neves C, Patterson A, Porter M, Tarkowska A, Loranger B, Avondo J, Lagerstedt I, Lianas L, Leo S, Hands K, Hay RT, Patwardhan A, Best C, Kleywegt GJ, Zanetti G, Swedlow JR.
Nat Methods Volume 9 (2012) p.245-253
DOI: 10.1038/nmeth.1896

2011

Atomic resolution insights into curli fiber biogenesis.
Taylor JD, Zhou Y, Salgado PS, Patwardhan A, McGuffie M, Pape T, Grabe G, Ashman E, Constable SC, Simpson PJ, Lee WC, Cota E, Chapman MR, Matthews SJ.
Structure Volume 19 (2011) p.1307-1316
DOI: 10.1016/j.str.2011.05.015

2008

A novel mirror-symmetry analysis approach for the study of macromolecular assemblies imaged by electron microscopy.
Costa A, Patwardhan A.
J Mol Biol Volume 378 (2008) p.273-283
DOI: 10.1016/j.jmb.2008.02.054

Cryo-electron microscopy reveals a novel DNA-binding site on the MCM helicase.
Costa A, van Duinen G, Medagli B, Chong J, Sakakibara N, Kelman Z, Nair SK, Patwardhan A, Onesti S.
EMBO J Volume 27 (2008) p.2250-2258
DOI: 10.1038/emboj.2008.135

2007

Different quaternary structures of human RECQ1 are associated with its dual enzymatic activity.
Muzzolini L, Beuron F, Patwardhan A, Popuri V, Cui S, Niccolini B, Rappas M, Freemont PS, Vindigni A.
PLoS Biol Volume 5 (2007) p.e20
DOI: 10.1371/journal.pbio.0050020

2006

Structural basis of the Methanothermobacter thermautotrophicus MCM helicase activity.
Costa A, Pape T, van Heel M, Brick P, Patwardhan A, Onesti S.
Nucleic Acids Res Volume 34 (2006) p.5829-5838
DOI: 10.1093/nar/gkl708

Structural studies of the archaeal MCM complex in different functional states.
Costa A, Pape T, van Heel M, Brick P, Patwardhan A, Onesti S.
J Struct Biol Volume 156 (2006) p.210-219
DOI: 10.1016/j.jsb.2006.04.001

2005

Magnification variations due to illumination curvature and object defocus in transmission electron microscopy.
van Duinen G, van Heel M, Patwardhan A.
Opt Express Volume 13 (2005) p.9085-9093
DOI: 10.1364/opex.13.009085

Conformational changes of Escherichia coli sigma54-RNA-polymerase upon closed-promoter complex formation.
Ray P, Hall RJ, Finn RD, Chen S, Patwardhan A, Buck M, van Heel M.
J Mol Biol Volume 354 (2005) p.201-205
DOI: 10.1016/j.jmb.2005.09.057

2004

Single particle analysis of filamentous and highly elongated macromolecular assemblies.
Paul D, Patwardhan A, Squire JM, Morris EP.
J Struct Biol Volume 148 (2004) p.236-250
DOI: 10.1016/j.jsb.2004.05.004

A measure for the angle between projections based on the extent of correlation between corresponding central sections.
Patwardhan A, Paul D, Al-Khayat HA, Morris EP.
J Mol Biol Volume 344 (2004) p.707-724
DOI: 10.1016/j.jmb.2004.09.068

A two step approach for semi-automated particle selection from low contrast cryo-electron micrographs.
Hall RJ, Patwardhan A.
J Struct Biol Volume 145 (2004) p.19-28
DOI: 10.1016/j.jsb.2003.10.024

2003

Transmission electron microscopy of weakly scattering objects described by operator algebra.
Patwardhan A.
J Opt Soc Am A Opt Image Sci Vis Volume 20 (2003) p.1210-1222
DOI: 10.1364/josaa.20.001210

2000

Single-particle electron cryo-microscopy: towards atomic resolution.
van Heel M, Gowen B, Matadeen R, Orlova EV, Finn R, Pape T, Cohen D, Stark H, Schmidt R, Schatz M, Patwardhan A.
Q Rev Biophys Volume 33 (2000) p.307-369
DOI: 10.1017/s0033583500003644

1999

The Escherichia coli large ribosomal subunit at 7.5 A resolution.
Matadeen R, Patwardhan A, Gowen B, Orlova EV, Pape T, Cuff M, Mueller F, Brimacombe R, van Heel M.
Structure Volume 7 (1999) p.1575-1583
DOI: 10.1016/s0969-2126(00)88348-3

1998

HLA-DM is expressed on the cell surface and colocalizes with HLA-DR and invariant chain in human Langerhans cells.
Andersson T, Patwardhan A, Emilson A, Carlsson K, Scheynius A.
Arch Dermatol Res Volume 290 (1998) p.674-680
DOI: 10.1007/s004030050372

Reconstructed human epidermis composed of keratinocytes, melanocytes and Langerhans cells.
Régnier M, Patwardhan A, Scheynius A, Schmidt R.
Med Biol Eng Comput Volume 36 (1998) p.821-824
DOI: 10.1007/bf02518889

1997

A study of the precision of confocal, ratiometric, Fura-2-based [Ca2+] measurements.
Helm PJ, Patwardhan A, Manders EM.
Cell Calcium Volume 22 (1997) p.287-298
DOI: 10.1016/s0143-4160(97)90067-1

1996

Transport and localization of troxerutin in the venous wall
Carlsson K, Patwardhan A, Poullain JC, Gerentes I.
J Mal Vasc Volume 21 Suppl C (1996) p.270-274

1995

The affinity of troxerutin for the venous wall measured by laser scanning microscopy.
Patwardhan A, Carlsson K, Poullain JC, Taccoen A, Gerentes I.
J Cardiovasc Surg (Torino) Volume 36 (1995) p.381-385