Benjamin Basanta

Affiliations

Department of Structural and Computational Biology, Scripps Research.

Publications (10)

Fabrication of Monolayer Graphene-Coated Grids for Cryoelectron Microscopy.

Journal of visualized experiments : JoVE

Avec: Benjamin Basanta , Wenqian Chen , Daniel E Pride , Gabriel C Lander

Interplay of disordered and ordered regions of a human small heat shock protein yields an ensemble of 'quasi-ordered' states.

eLife

Avec: Amanda F Clouser , Hannah Er Baughman , Benjamin Basanta , Miklos Guttman , Abhinav Nath , Rachel E Klevit

An enumerative algorithm for de novo design of proteins with diverse pocket structures.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Benjamin Basanta , Matthew J Bick , Asim K Bera , Christoffer Norn , Cameron M Chow , Lauren P Carter , Inna Goreshnik , Frank Dimaio , David Baker

A case for glycerol as an acceptable additive for single-particle cryoEM samples.

Acta crystallographica. Section D, Structural biology

Avec: Benjamin Basanta , Marscha M Hirschi , Danielle A Grotjahn , Gabriel C Lander

The conformational landscape of human transthyretin revealed by cryo-EM.

bioRxiv : the preprint server for biology

Avec: Benjamin Basanta , Karina Nugroho , Nicholas L Yan , Gabriel M Kline , Evan T Powers , Felix J Tsai , Mengyu Wu , Althea Hansel-Harris , Jason S Chen , Stefano Forli , Jeffrey W Kelly , Gabriel C Lander

High-resolution single-particle imaging at 100-200 keV with the Gatan Alpine direct electron detector.

Journal of structural biology

Avec: Lieza M Chan , Brandon J Courteau , Allison Maker , Mengyu Wu , Benjamin Basanta , Hevatib Mehmood , David Bulkley , David Joyce , Brian C Lee , Stephen Mick , Cory Czarnik , Sahil Gulati , Gabriel C Lander , Kliment A Verba

Macromolecular modeling and design in Rosetta: recent methods and frameworks.

Nature methods

Avec: Julia Koehler Leman , Brian D Weitzner , Steven M Lewis , Jared Adolf-Bryfogle , Nawsad Alam , Rebecca F Alford , Melanie Aprahamian , David Baker , Kyle A Barlow , Patrick Barth , Benjamin Basanta , Brian J Bender , Kristin Blacklock , Jaume Bonet , Scott E Boyken , Phil Bradley , Chris Bystroff , Patrick Conway , Seth Cooper , Bruno E Correia , Brian Coventry , Rhiju Das , René M De Jong , Frank DiMaio , Lorna Dsilva , Roland Dunbrack , Alexander S Ford , Brandon Frenz , Darwin Y Fu , Caleb Geniesse , Lukasz Goldschmidt , Ragul Gowthaman , Jeffrey J Gray , Dominik Gront , Sharon Guffy , Scott Horowitz , Po-Ssu Huang , Thomas Huber , Tim M Jacobs , Jeliazko R Jeliazkov , David K Johnson , Kalli Kappel , John Karanicolas , Hamed Khakzad , Karen R Khar , Sagar D Khare , Firas Khatib , Alisa Khramushin , Indigo C King , Robert Kleffner , Brian Koepnick , Tanja Kortemme , Georg Kuenze , Brian Kuhlman , Daisuke Kuroda , Jason W Labonte , Jason K Lai , Gideon Lapidoth , Andrew Leaver-Fay , Steffen Lindert , Thomas Linsky , Nir London , Joseph H Lubin , Sergey Lyskov , Jack Maguire , Lars Malmström , Enrique Marcos , Orly Marcu , Nicholas A Marze , Jens Meiler , Rocco Moretti , Vikram Khipple Mulligan , Santrupti Nerli , Christoffer Norn , Shane Ó'Conchúir , Noah Ollikainen , Sergey Ovchinnikov , Michael S Pacella , Xingjie Pan , Hahnbeom Park , Ryan E Pavlovicz , Manasi Pethe , Brian G Pierce , Kala Bharath Pilla , Barak Raveh , P Douglas Renfrew , Shourya S Roy Burman , Aliza Rubenstein , Marion F Sauer , Andreas Scheck , William Schief , Ora Schueler-Furman , Yuval Sedan , Alexander M Sevy , Nikolaos G Sgourakis , Lei Shi , Justin B Siegel , Daniel-Adriano Silva , Shannon Smith , Yifan Song , Amelie Stein , Maria Szegedy , Frank D Teets , Summer B Thyme , Ray Yu-Ruei Wang , Andrew Watkins , Lior Zimmerman , Richard Bonneau

Design and optimization of enzymatic activity in a de novo β-barrel scaffold.

Protein science : a publication of the Protein Society

Avec: Yakov Kipnis , Anissa Ouald Chaib , Anastassia A Vorobieva , Guangyang Cai , Gabriella Reggiano , Benjamin Basanta , Eshan Kumar , Peer R E Mittl , Donald Hilvert , David Baker

High-resolution single particle imaging at 100-200 keV with the Gatan Alpine direct electron detector.

bioRxiv : the preprint server for biology

Avec: Lieza M Chan , Brandon J Courteau , Allison Maker , Mengyu Wu , Benjamin Basanta , Hevatib Mehmood , David Bulkley , David Joyce , Brian C Lee , Stephen Mick , Sahil Gulati , Gabriel C Lander , Kliment A Verba

Toggle switch residues control allosteric transitions in bacterial adhesins by participating in a concerted repacking of the protein core.

PLoS pathogens

Avec: Dagmara I Kisiela , Pearl Magala , Gianluca Interlandi , Laura A Carlucci , Angelo Ramos , Veronika Tchesnokova , Benjamin Basanta , Vladimir Yarov-Yarovoy , Hovhannes Avagyan , Anahit Hovhannisyan , Wendy E Thomas , Ronald E Stenkamp , Rachel E Klevit , Evgeni V Sokurenko

Réseau de co-auteurs

Gabriel C Lander 5 collaborations

David Baker 3 collaborations

Mengyu Wu 3 collaborations

Rachel E Klevit 2 collaborations

Christoffer Norn 2 collaborations

Lieza M Chan 2 collaborations

Brandon J Courteau 2 collaborations

Allison Maker 2 collaborations

Hevatib Mehmood 2 collaborations

David Bulkley 2 collaborations

David Joyce 2 collaborations

Brian C Lee 2 collaborations

Stephen Mick 2 collaborations

Sahil Gulati 2 collaborations

Kliment A Verba 2 collaborations

Wenqian Chen 1 collaboration

Daniel E Pride 1 collaboration

Amanda F Clouser 1 collaboration

Hannah Er Baughman 1 collaboration

Miklos Guttman 1 collaboration

Abhinav Nath 1 collaboration

Matthew J Bick 1 collaboration

Asim K Bera 1 collaboration

Cameron M Chow 1 collaboration

Lauren P Carter 1 collaboration

Inna Goreshnik 1 collaboration

Frank Dimaio 1 collaboration

Marscha M Hirschi 1 collaboration

Danielle A Grotjahn 1 collaboration

Karina Nugroho 1 collaboration

Nicholas L Yan 1 collaboration

Gabriel M Kline 1 collaboration

Evan T Powers 1 collaboration

Felix J Tsai 1 collaboration

Althea Hansel-Harris 1 collaboration

Jason S Chen 1 collaboration

Stefano Forli 1 collaboration

Jeffrey W Kelly 1 collaboration

Cory Czarnik 1 collaboration

Julia Koehler Leman 1 collaboration

Brian D Weitzner 1 collaboration

Steven M Lewis 1 collaboration

Jared Adolf-Bryfogle 1 collaboration

Nawsad Alam 1 collaboration

Rebecca F Alford 1 collaboration

Melanie Aprahamian 1 collaboration

Kyle A Barlow 1 collaboration

Patrick Barth 1 collaboration

Brian J Bender 1 collaboration

Kristin Blacklock 1 collaboration

Jaume Bonet 1 collaboration

Scott E Boyken 1 collaboration

Phil Bradley 1 collaboration

Chris Bystroff 1 collaboration

Patrick Conway 1 collaboration

Seth Cooper 1 collaboration

Bruno E Correia 1 collaboration

Brian Coventry 1 collaboration

Rhiju Das 1 collaboration

René M De Jong 1 collaboration

Frank DiMaio 1 collaboration

Lorna Dsilva 1 collaboration

Roland Dunbrack 1 collaboration

Alexander S Ford 1 collaboration

Brandon Frenz 1 collaboration

Darwin Y Fu 1 collaboration

Caleb Geniesse 1 collaboration

Lukasz Goldschmidt 1 collaboration

Ragul Gowthaman 1 collaboration

Jeffrey J Gray 1 collaboration

Dominik Gront 1 collaboration

Sharon Guffy 1 collaboration

Scott Horowitz 1 collaboration

Po-Ssu Huang 1 collaboration

Thomas Huber 1 collaboration

Tim M Jacobs 1 collaboration

Jeliazko R Jeliazkov 1 collaboration

David K Johnson 1 collaboration

Kalli Kappel 1 collaboration

John Karanicolas 1 collaboration

Hamed Khakzad 1 collaboration

Karen R Khar 1 collaboration

Sagar D Khare 1 collaboration

Firas Khatib 1 collaboration

Alisa Khramushin 1 collaboration

Indigo C King 1 collaboration

Robert Kleffner 1 collaboration

Brian Koepnick 1 collaboration

Tanja Kortemme 1 collaboration

Georg Kuenze 1 collaboration

Brian Kuhlman 1 collaboration

Daisuke Kuroda 1 collaboration

Jason W Labonte 1 collaboration

Jason K Lai 1 collaboration

Gideon Lapidoth 1 collaboration

Andrew Leaver-Fay 1 collaboration

Steffen Lindert 1 collaboration

Thomas Linsky 1 collaboration

Nir London 1 collaboration

Joseph H Lubin 1 collaboration

Sergey Lyskov 1 collaboration

Jack Maguire 1 collaboration

Lars Malmström 1 collaboration

Enrique Marcos 1 collaboration

Orly Marcu 1 collaboration

Nicholas A Marze 1 collaboration

Jens Meiler 1 collaboration

Rocco Moretti 1 collaboration

Vikram Khipple Mulligan 1 collaboration

Santrupti Nerli 1 collaboration

Shane Ó'Conchúir 1 collaboration

Noah Ollikainen 1 collaboration

Sergey Ovchinnikov 1 collaboration

Michael S Pacella 1 collaboration

Xingjie Pan 1 collaboration

Hahnbeom Park 1 collaboration

Ryan E Pavlovicz 1 collaboration

Manasi Pethe 1 collaboration

Brian G Pierce 1 collaboration

Kala Bharath Pilla 1 collaboration

Barak Raveh 1 collaboration

P Douglas Renfrew 1 collaboration

Shourya S Roy Burman 1 collaboration

Aliza Rubenstein 1 collaboration

Marion F Sauer 1 collaboration

Andreas Scheck 1 collaboration

William Schief 1 collaboration

Ora Schueler-Furman 1 collaboration

Yuval Sedan 1 collaboration

Alexander M Sevy 1 collaboration

Nikolaos G Sgourakis 1 collaboration

Lei Shi 1 collaboration

Justin B Siegel 1 collaboration

Daniel-Adriano Silva 1 collaboration

Shannon Smith 1 collaboration

Yifan Song 1 collaboration

Amelie Stein 1 collaboration

Maria Szegedy 1 collaboration

Frank D Teets 1 collaboration

Summer B Thyme 1 collaboration

Ray Yu-Ruei Wang 1 collaboration

Andrew Watkins 1 collaboration

Lior Zimmerman 1 collaboration

Richard Bonneau 1 collaboration

Yakov Kipnis 1 collaboration

Anissa Ouald Chaib 1 collaboration

Anastassia A Vorobieva 1 collaboration

Guangyang Cai 1 collaboration

Gabriella Reggiano 1 collaboration

Eshan Kumar 1 collaboration

Peer R E Mittl 1 collaboration

Donald Hilvert 1 collaboration

Dagmara I Kisiela 1 collaboration

Pearl Magala 1 collaboration

Gianluca Interlandi 1 collaboration

Laura A Carlucci 1 collaboration

Angelo Ramos 1 collaboration

Veronika Tchesnokova 1 collaboration

Vladimir Yarov-Yarovoy 1 collaboration

Hovhannes Avagyan 1 collaboration

Anahit Hovhannisyan 1 collaboration

Wendy E Thomas 1 collaboration

Ronald E Stenkamp 1 collaboration

Evgeni V Sokurenko 1 collaboration