Preprints of submitted manuscripts


Structural basis for piRNA-targeting
Anzelon TA, Chowdhury S, Hughes SM, Xiao Y, Lander GC, MacRae IJ
Online December 7, 2020
Structures of the Human LONP1 Protease Reveal Regulatory Steps Involved in Protease Activation
Shin M, Watson ER, Novick SJ, Griffin PR, Wiseman L, Lander GC
Online November 23, 2020
A guided approach for subtomogram averaging of challenging macromolecular assemblies
Grotjahn D, Chowdhury S, Lander GC
Online February 02, 2020



Peer-reviewed publications


Journal names have been removed from the list below.
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2020


Present and Emerging Methodologies in Cryo-EM Single-Particle Analysis.
Wu M, Lander GC
Published Sep 1, 2020
Sub-2 Angstrom resolution structure determination using single-particle cryo-EM at 200keV.
Wu M, Lander GC, Herzik MA Jr
Published 2020
Associated preprint (posted November 26, 2019)
Associated Depositions:
EMD-21023 | 6V20 | EMPIAR-10338
EMD-21024 | 6V21 | EMPIAR-10337
How low can we go? Structure determination of small biological complexes using single-particle cryo-EM.
Wu M, Lander GC
Published Jun 26, 2020
Structural basis for distinct operational modes and protease activation in AAA+ protease Lon.
Shin M, Puchades C, Asmita A, Puri N, Adjei E, Wiseman RL, Karzai AW, Lander GC
Published May 2020
Associated preprint (posted April 24, 2019)
Associated Depositions:
EMD-20133 | 6ON2
EMD-21009 | 6V11
AcrIF9 tethers non-sequence specific dsDNA to the CRISPR RNA-guided surveillance complex.
Hirschi M, Lu WT, Santiago-Frangos A, Wilkinson R, Golden SM, Davidson AR, Lander GC, Wiedenheft B
Published Jun 1, 2020
Associated Depositions:
EMD-21516 | 6W1X
EMD-21517 | 6WHI
Dynamics at the serine loop underlie differential affinity of cryptochromes for CLOCK:BMAL1 to control circadian timing.
Fribourgh JL, Srivastava A, Sandate CR, Michael AK, Hsu PL, Rakers C, Nguyen LT, Torgrimson MR, Parico GCG, Tripathi S, Zheng N, Lander GC, Hirota T, Tama F, Partch CL
Published Feb 26, 2020
Associated preprint (posted August 20, 2019)
Associated Depositions:
6OF7
The molecular principles governing the activity and functional diversity of AAA+ proteins.
Puchades C, Sandate CR, Lander GC
Published Jan 2020



2019


Specific lid-base contacts in the 26s proteasome control the conformational switching required for substrate degradation.
Greene ER, Goodall EA, de la Pena AH, Matyskiela ME, Lander GC, Martin A
Published Nov 28, 2019
Associated preprint (posted July 2, 2019)
Current outcomes when optimizing 'standard' sample preparation for single-particle cryo-EM.
Carragher B, Cheng Y, Frost A, Glaeser RM, Lander GC, Nogales E, Wang HW
Published Oct 2019
Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel.
Yin Y, Wu M, Hsu AL, Borschel WF, Borgnia MJ, Lander GC, Lee SY
Published Aug 20, 2019
Associated preprint (posted January 9, 2019)
Associated Depositions:
EMD-20367 | 6PKV
EMD-20368 | 6PKW
EMD-7822 | 6D73
EMD-20369 | 6PKX
Unique Structural Features of the Mitochondrial AAA+ Protease AFG3L2 Reveal the Molecular Basis for Activity in Health and Disease.
Puchades C, Ding B, Song A, Wiseman RL, Lander GC, Glynn SE
Published Sep 5, 2019
Associated preprint (posted February 15, 2019)
Associated Depositions:
EMD-362 | 6NYY
An allosteric network in spastin couples multiple activities required for microtubule severing.
Sandate CR, Szyk A, Zehr EA, Lander GC, Roll-Mecak A
Published Aug 2019
Associated Depositions:
EMD-20226 | 6P07
Setting the dynein motor in motion: New insights from electron tomography.
Grotjahn DA, Lander GC
Published Sep 6, 2019
Structure Reveals a Mechanism of CRISPR-RNA-Guided Nuclease Recruitment and Anti-CRISPR Viral Mimicry.
Rollins MF, Chowdhury S, Carter J, Golden SM, Miettinen HM, Santiago-Frangos A, Faith D, Lawrence CM, Lander GC, Wiedenheft B
Published Apr 4, 2019
Associated preprint (posted October 26, 2018)
Associated Depositions:
EMD-9191 | 6NE0
High-resolution structure determination of sub-100 kDa complexes using conventional cryo-EM.
Herzik MA Jr, Wu M, Lander GC
Published Mar 4, 2019
Associated preprint (posted December 7, 2018)
A Multi-model Approach to Assessing Local and Global Cryo-EM Map Quality.
Herzik MA Jr, Fraser JS, Lander GC
Published Feb 5, 2019
Associated preprint (posted April 19, 2017)



2018


The rod-shaped ATG2A-WIPI4 complex tethers membranes in vitro.
Otomo T, Chowdhury S, Lander GC
Published Jan-Dec 2018
Conformational ensemble of the human TRPV3 ion channel.
Zubcevic L, Herzik MA Jr, Wu M, Borschel WF, Hirschi M, Song AS, Lander GC, Lee SY
Published Nov 14, 2018
Associated preprint (posted August 20, 2018)
Associated Depositions:
EMD-9115 | 6MHO
EMD-9117 | 6MHS
EMD-9119 | 6MHV
EMD-9120 | 6MHW
EMD-9121 | 6MHX
Substrate-engaged 26S proteasome structures reveal mechanisms for ATP-hydrolysis-driven translocation.
de la Pena AH, Goodall EA, Gates SN, Lander GC, Martin A
Published Nov 30, 2018
Associated preprint (posted August 16, 2018)
Associated Depositions:
EMD-9042 | 6EF0
EMD-9043 | 6EF1
EMD-9044 | 6EF2
EMD-9045 | 6EF3
Insights into autophagosome biogenesis from structural and biochemical analyses of the ATG2A-WIPI4 complex.
Chowdhury S, Otomo C, Leitner A, Ohashi K, Aebersold R, Lander GC, Otomo T
Published Oct 16, 2018
Associated preprint (posted August 24, 2017)
Cryo-EM structure of a mitochondrial calcium uniporter.
Yoo J, Wu M, Yin Y, Herzik MA Jr, Lander GC, Lee SY
Published Aug 3, 2018
Associated Depositions:
EMD-8911 | 6DT0
Exploring applications of crowdsourcing to cryo-EM.
Bruggemann J, Lander GC, Su AI
Published Jul 2018
Associated preprint (posted November 15, 2017)
Cryo-electron tomography reveals that dynactin recruits a team of dyneins for processive motility.
Grotjahn DA, Chowdhury S, Xu Y, McKenney RJ, Schroer TA, Lander GC
Published Mar 2018
Associated preprint (posted August 31, 2017)
Associated Depositions:
EMD-7000
EMD-7001
The peroxisomal AAA-ATPase Pex1/Pex6 unfolds substrates by processive threading.
Gardner BM, Castanzo DT, Chowdhury S, Stjepanovic G, Stefely MS, Hurley JH, Lander GC, Martin A
Published Jan 10, 2018
Associated Depositions:
EMD-7005
5VXV
Structure of the cold- and menthol-sensing ion channel TRPM8.
Yin Y, Wu M, Zubcevic L, Borschel WF, Lander GC, Lee SY
Published Jan 12, 2018
Associated Depositions:
EMD-7127 | 6BPQ



2017


Structure of the mitochondrial inner membrane AAA+ protease YME1 gives insight into substrate processing.
Puchades C, Rampello AJ, Shin M, Giuliano CJ, Wiseman RL, Glynn SE, Lander GC
Published Nov 3, 2017
Associated preprint (posted September 15, 2017)
Associated Depositions:
EMD-7023 | 6AZ0
Cryo-electron microscopy structure of the lysosomal calcium-permeable channel TRPML3.
Hirschi M, Herzik MA Jr, Wie J, Suo Y, Borschel WF, Ren D, Lander GC, Lee SY
Published Oct 19, 2017
Associated Depositions:
EMD-8764 | 5W3S
Achieving better-than-3-A resolution by single-particle cryo-EM at 200 keV.
Herzik MA Jr, Wu M, Lander GC
Published Nov 2017
Associated preprint (posted May 25, 2017)
The endoplasmic reticulum HSP40 co-chaperone ERdj3/DNAJB11 assembles and functions as a tetramer.
Chen KC, Qu S, Chowdhury S, Noxon IC, Schonhoft JD, Plate L, Powers ET, Kelly JW, Lander GC, Wiseman RL
Published Aug 1, 2017
Associated Depositions:
EMD-8707
Cas1 and the Csy complex are opposing regulators of Cas2/3 nuclease activity.
Rollins MF, Chowdhury S, Carter J, Golden SM, Wilkinson RA, Bondy-Denomy J, Lander GC, Wiedenheft B
Published Jun 27, 2017
Associated Depositions:
EMD-8558
Structure Reveals Mechanisms of Viral Suppressors that Intercept a CRISPR RNA-Guided Surveillance Complex.
Chowdhury S, Carter J, Rollins MF, Golden SM, Jackson RN, Hoffmann C, Nosaka L, Bondy-Denomy J, Maxwell KL, Davidson AR, Fischer ER, Lander GC, Wiedenheft B
Published Mar 23, 2017
Associated Depositions:
EMD-8624 | 5ZU9



2016


What's the Key to Unlocking the Proteasome's Gate?
de la Pena AH, Lander GC
Published Dec 6, 2016
Isolation of yeast complex IV in native lipid nanodiscs.
Smirnova IA, Sjostrand D, Li F, Bjorck M, Schafer J, Ostbye H, Hogbom M, von Ballmoos C, Lander GC, Adelroth P, Brzezinski P
Published Dec 2016
A novel cereblon modulator recruits GSPT1 to the CRL4(CRBN) ubiquitin ligase.
Matyskiela ME, Lu G, Ito T, Pagarigan B, Lu CC, Miller K, Fang W, Wang NY, Nguyen D, Houston J, Carmel G, Tran T, Riley M, Nosaka L, Lander GC, Gaidarova S, Xu S, Ruchelman AL, Handa H, Carmichael J, Daniel TO, Cathers BE, Lopez-Girona A, Chamberlain PP
Published Jul 14, 2016
Associated Depositions:
5HXB
Cryo-electron microscopy structure of the TRPV2 ion channel.
Zubcevic L, Herzik MA Jr, Chung BC, Liu Z, Lander GC, Lee SY
Published Feb 2016
Associated Depositions:
EMD-6455 | 5AN8
Atomic structure of the 26S proteasome lid reveals the mechanism of deubiquitinase inhibition.
Dambacher CM, Worden EJ, Herzik MA, Martin A, Lander GC
Published Jan 8, 2016
Associated Depositions:
EMD-6479 | 3JCK



2015


Thermodynamic Interrogation of the Assembly of a Viral Genome Packaging Motor Complex.
Yang TC, Ortiz D, Nosaka L, Lander GC, Catalano CE
Published Oct 20, 2015
Protein domain mapping by internal labeling and single particle electron microscopy.
Ciferri C, Lander GC, Nogales E
Published Nov 2015
Site-specific labeling of proteins for electron microscopy.
Dambacher CM, Lander GC
Published Nov 2015
Ubp6 deubiquitinase controls conformational dynamics and substrate degradation of the 26S proteasome.
Bashore C, Dambacher CM, Goodall EA, Matyskiela ME, Lander GC, Martin A
Published Sep 2015
Associated Depositions:
EMD-2995
EMD-6334
Architecture of the Complex Formed by Large and Small Terminase Subunits from Bacteriophage P22.
McNulty R, Lokareddy RK, Roy A, Yang Y, Lander GC, Heck AJR, Johnson JE, Cingolani G
Published Oct 9, 2015
Associated Depositions:
EMD-6429
3P9A
4IEE
Multivalent Microtubule Recognition by Tubulin Tyrosine Ligase-like Family Glutamylases.
Garnham CP, Vemu A, Wilson-Kubalek EM, Yu I, Szyk A, Lander GC, Milligan RA, Roll-Mecak A
Published May 21, 2015
Associated Depositions:
EMD-6307
4YLR
4YLS
Structural organization of the dynein-dynactin complex bound to microtubules.
Chowdhury S, Ketcham SA, Schroer TA, Lander GC
Published Apr 2015
Associated Depositions:
EMD-6289
EMD-6290
The Pex1/Pex6 complex is a heterohexameric AAA+ motor with alternating and highly coordinated subunits.
Gardner BM, Chowdhury S, Lander GC, Martin A
Published Mar 27, 2015
Associated Depositions:
EMD-6253
EMD-6254
EMD-6255



2014


Solid-to-fluid-like DNA transition in viruses facilitates infection.
Liu T, Sae-Ueng U, Li D, Lander GC, Zuo X, Jonsson B, Rau D, Shefer I, Evilevitch A
Published Oct 14, 2014
High-resolution microtubule structures reveal the structural transitions in alphabeta-tubulin upon GTP hydrolysis.
Alushin GM, Lander GC, Kellogg EH, Zhang R, Baker D, Nogales E
Published May 22, 2014
Associated Depositions:
EMD-5895 | 3J6E
EMD-5896 | 36JF
EMD-5897 | 3J6G
EMD-5898
EMD-5899
Characterization of virus-like particles in GARDASIL(R) by cryo transmission electron microscopy.
Zhao Q, Potter CS, Carragher B, Lander G, Sworen J, Towne V, Abraham D, Duncan P, Washabaugh MW, Sitrin RD
Published 2014
Associated Depositions:
EMD-5837
EMD-5838
EMD-5839
EMD-5840



2013


Conformational switching of the 26S proteasome enables substrate degradation.
Matyskiela ME, Lander GC, Martin A
Published Jul 2013
Associated Depositions:
EMD-5668
EMD-5669
The proteasome under the microscope: the regulatory particle in focus.
Lander GC, Martin A, Nogales E
Published Apr 2013
DNA bending-induced phase transition of encapsidated genome in phage lambda.
Lander GC, Johnson JE, Rau DC, Potter CS, Carragher B, Evilevitch A
Published Apr 2013



2012


Molecular architecture of human polycomb repressive complex 2.
Ciferri C, Lander GC, Maiolica A, Herzog F, Aebersold R, Nogales E
Published Oct 30, 2012
Associated Depositions:
EMD-2236
Go hybrid: EM, crystallography, and beyond.
Lander GC, Saibil HR, Nogales E
Published Oct 2012
Small terminase couples viral DNA binding to genome-packaging ATPase activity.
Roy A, Bhardwaj A, Datta P, Lander GC, Cingolani G
Published Aug 8, 2012
Associated Depositions:
3P9A
Capsomer dynamics and stabilization in the T = 12 marine bacteriophage SIO-2 and its procapsid studied by CryoEM.
Lander GC, Baudoux AC, Azam F, Potter CS, Carragher B, Johnson JE
Published Mar 7, 2012
Associated Depositions:
EMD-5382
EMD-5383
Complete subunit architecture of the proteasome regulatory particle.
Lander GC, Estrin E, Matyskiela ME, Bashore C, Nogales E, Martin A
Published Jan 11, 2012
Associated Depositions:
EMD-1992
EMD-1993
EMD-1994
Genomic and functional analysis of Vibrio phage SIO-2 reveals novel insights into ecology and evolution of marine siphoviruses.
Baudoux AC, Hendrix RW, Lander GC, Bailly X, Podell S, Paillard C, Johnson JE, Potter CS, Carragher B, Azam F
Published Aug 2012
Associated Depositions:
EMD-5382
EMD-5383



2011


Structures of the RNA-guided surveillance complex from a bacterial immune system.
Wiedenheft B, Lander GC, Zhou K, Jore MM, Brouns SJJ, van der Oost J, Doudna JA, Nogales E
Published Sep 21, 2011
Associated Depositions:
EMD-5314
EMD-5315
Peering down the barrel of a bacteriophage portal: the genome packaging and release valve in p22.
Tang J, Lander GC, Olia AS, Li R, Casjens S, Prevelige P Jr, Cingolani G, Baker TS, Johnson JE
Published Apr 13, 2011
Associated Depositions:
EMD-5231
EMD-5232
Molecular architecture and connectivity of the budding yeast Mtw1 kinetochore complex.
Hornung P, Maier M, Alushin GM, Lander GC, Nogales E, Westermann S
Published Jan 14, 2011



2010


Crystal structure of group II chaperonin in the open state.
Huo Y, Hu Z, Zhang K, Wang L, Zhai Y, Zhou Q, Lander G, Zhu J, He Y, Pang X, Xu W, Bartlam M, Dong Z, Sun F
Published Oct 13, 2010
Associated Depositions:
EMD-5154
EMD-5157
EMD-5159
3KO1
Subunits fold at position-dependent rates during maturation of a eukaryotic RNA virus.
Matsui T, Lander GC, Khayat R, Johnson JE
Published Aug 10, 2010
Associated Depositions:
EMD-5425
EMD-5426
EMD-5427
EMD-5428
An automated procedure for detecting protein folds from sub-nanometer resolution electron density.
Khayat R, Lander GC, Johnson JE
Published Jun 2010
A toolbox for ab initio 3-D reconstructions in single-particle electron microscopy.
Voss NR, Lyumkis D, Cheng A, Lau PW, Mulder A, Lander GC, Brignole EJ, Fellmann D, Irving C, Jacovetty EL, Leung A, Pulokas J, Quispe JD, Winkler H, Yoshioka C, Carragher B, Potter CS
Published Mar 2010



2009


The P22 tail machine at subnanometer resolution reveals the architecture of an infection conduit.
Lander GC, Khayat R, Li R, Prevelige PE, Potter CS, Carragher B, Johnson JE
Published Jun 10, 2009
Associated Depositions:
EMD-5049
EMD-5050
EMD-5051
Drosophila A virus is an unusual RNA virus with a T=3 icosahedral core and permuted RNA-dependent RNA polymerase.
Ambrose RL, Lander GC, Maaty WS, Bothner B, Johnson JE, Johnson KN
Published Sep 2009
Ab initio maximum likelihood reconstruction from cryo electron microscopy images of an infectious virion of the tailed bacteriophage P22 and maximum likelihood versions of Fourier Shell Correlation appropriate for measuring resolution of spherical or cylindrical objects.
Prust CJ, Doerschuk PC, Lander GC, Johnson JE
Published Sep 2009
Appion: an integrated, database-driven pipeline to facilitate EM image processing.
Lander GC, Stagg SM, Voss NR, Cheng A, Fellmann D, Pulokas J, Yoshioka C, Irving C, Mulder A, Lau PW, Lyumkis D, Potter CS, Carragher B
Published Apr 2009
Characterization of large conformational changes and autoproteolysis in the maturation of a T=4 virus capsid.
Matsui T, Lander G, Johnson JE
Published Jan 2009



2008


Bacteriophage lambda stabilization by auxiliary protein gpD: timing, location, and mechanism of attachment determined by cryo-EM.
Lander GC, Evilevitch A, Jeembaeva M, Potter CS, Carragher B, Johnson JE
Published Sep 10, 2008
Associated Depositions:
EMD-1502
EMD-5012
Assembly architecture and DNA binding of the bacteriophage P22 terminase small subunit.
Nemecek D, Lander GC, Johnson JE, Casjens SR, Thomas GJ Jr
Published Nov 14, 2008
A test-bed for optimizing high-resolution single particle reconstructions.
Stagg SM, Lander GC, Quispe J, Voss NR, Cheng A, Bradlow H, Bradlow S, Carragher B, Potter CS
Published Jul 2008
Associated Depositions:
EMD-1457
EMD-1458
Polyvalent display of heme on hepatitis B virus capsid protein through coordination to hexahistidine tags.
Prasuhn DE Jr, Kuzelka J, Strable E, Udit AK, Cho SH, Lander GC, Quispe JD, Diers JR, Bocian DF, Potter C, Carragher B, Finn MG
Published May 2008
Unnatural amino acid incorporation into virus-like particles.
Strable E, Prasuhn DE Jr, Udit AK, Brown S, Link AJ, Ngo JT, Lander G, Quispe J, Potter CS, Carragher B, Tirrell DA, Finn MG
Published Apr 2008
Development of bacteriophage p22 as a platform for molecular display: genetic and chemical modifications of the procapsid exterior surface.
Kang S, Lander GC, Johnson JE, Prevelige PE
Published Mar 3, 2008



2006


Capsid conformational sampling in HK97 maturation visualized by X-ray crystallography and cryo-EM.
Gan L, Speir JA, Conway JF, Lander G, Cheng N, Firek BA, Hendrix RW, Duda RL, Liljas L, Johnson JE
Published Nov 2006
Associated Depositions:
2FTE
2FRP
2FSY
2FS3
2FT1



2007


Macromolecular mass spectrometry and electron microscopy as complementary tools for investigation of the heterogeneity of bacteriophage portal assemblies.
Poliakov A, van Duijn E, Lander G, Fu CY, Johnson JE, Prevelige PE Jr, Heck AJ
Published Feb 2007



2006


Automated cryoEM data acquisition and analysis of 284742 particles of GroEL.
Stagg SM, Lander GC, Pulokas J, Fellmann D, Cheng A, Quispe JD, Mallick SP, Avila RM, Carragher B, Potter CS
Published Sep 2006
Associated Depositions:
EMD-1200
The structure of an infectious P22 virion shows the signal for headful DNA packaging.
Lander GC, Tang L, Casjens SR, Gilcrease EB, Prevelige P, Poliakov A, Potter CS, Carragher B, Johnson JE
Published Jun 23, 2006
Associated Depositions:
EMD-1220
VIPERdb: a relational database for structural virology.
Shepherd CM, Borelli IA, Lander G, Natarajan P, Siddavanahalli V, Bajaj C, Johnson JE, Brooks CL 3rd, Reddy VS
Published Jan 1, 2006



2005


Exploring icosahedral virus structures with VIPER.
Natarajan P, Lander GC, Shepherd CM, Reddy VS, Brooks CL 3rd, Johnson JE
Published Oct 2005



2004


Functional annotation of the Arabidopsis genome using controlled vocabularies.
Berardini TZ, Mundodi S, Reiser L, Huala E, Garcia-Hernandez M, Zhang P, Mueller LA, Yoon J, Doyle A, Lander G, Moseyko N, Yoo D, Xu I, Zoeckler B, Montoya M, Miller N, Weems D, Rhee SY
Published Jun 2004



2003


The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community.
Rhee SY, Beavis W, Berardini TZ, Chen G, Dixon D, Doyle A, Garcia-Hernandez M, Huala E, Lander G, Montoya M, Miller N, Mueller LA, Mundodi S, Reiser L, Tacklind J, Weems DC, Wu Y, Xu I, Yoo D, Yoon J, Zhang P
Published Jan 1, 2003