Literature DB >> 20737437

Structure of a putative BenF-like porin from Pseudomonas fluorescens Pf-5 at 2.6 A resolution.

Parthasarathy Sampathkumar1, Frances Lu, Xun Zhao, Zhenzhen Li, Jeremiah Gilmore, Kevin Bain, Marc E Rutter, Tarun Gheyi, Kenneth D Schwinn, Jeffrey B Bonanno, Ursula Pieper, J Eduardo Fajardo, Andras Fiser, Steven C Almo, Subramanyam Swaminathan, Mark R Chance, David Baker, Shane Atwell, Devon A Thompson, J Spencer Emtage, Stephen R Wasserman, Andrej Sali, J Michael Sauder, Stephen K Burley.   

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Year:  2010        PMID： 20737437      PMCID： PMC2989796          DOI： 10.1002/prot.22829

Source DB:  PubMed          Journal:  Proteins        ISSN： 0887-3585


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  24 in total

Review 1.  Molecular basis of bacterial outer membrane permeability revisited.

Authors:  Hiroshi Nikaido
Journal:  Microbiol Mol Biol Rev       Date:  2003-12       Impact factor: 11.056

2.  Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions.

Authors:  E Krissinel; K Henrick
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2004-11-26

3.  HOLE: a program for the analysis of the pore dimensions of ion channel structural models.

Authors:  O S Smart; J G Neduvelil; X Wang; B A Wallace; M S Sansom
Journal:  J Mol Graph       Date:  1996-12

4.  Protein D2 channel of the Pseudomonas aeruginosa outer membrane has a binding site for basic amino acids and peptides.

Authors:  J Trias; H Nikaido
Journal:  J Biol Chem       Date:  1990-09-15       Impact factor: 5.157

5.  Role of the novel OprD family of porins in nutrient uptake in Pseudomonas aeruginosa.

Authors:  Sandeep Tamber; Martina M Ochs; Robert E W Hancock
Journal:  J Bacteriol       Date:  2006-01       Impact factor: 3.490

6.  Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440.

Authors:  K E Nelson; C Weinel; I T Paulsen; R J Dodson; H Hilbert; V A P Martins dos Santos; D E Fouts; S R Gill; M Pop; M Holmes; L Brinkac; M Beanan; R T DeBoy; S Daugherty; J Kolonay; R Madupu; W Nelson; O White; J Peterson; H Khouri; I Hance; P Chris Lee; E Holtzapple; D Scanlan; K Tran; A Moazzez; T Utterback; M Rizzo; K Lee; D Kosack; D Moestl; H Wedler; J Lauber; D Stjepandic; J Hoheisel; M Straetz; S Heim; C Kiewitz; J A Eisen; K N Timmis; A Düsterhöft; B Tümmler; C M Fraser
Journal:  Environ Microbiol       Date:  2002-12       Impact factor: 5.491

7.  Large-scale protein structure modeling of the Saccharomyces cerevisiae genome.

Authors:  R Sánchez; A Sali
Journal:  Proc Natl Acad Sci U S A       Date:  1998-11-10       Impact factor: 11.205

8.  Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5.

Authors:  Ian T Paulsen; Caroline M Press; Jacques Ravel; Donald Y Kobayashi; Garry S A Myers; Dmitri V Mavrodi; Robert T DeBoy; Rekha Seshadri; Qinghu Ren; Ramana Madupu; Robert J Dodson; A Scott Durkin; Lauren M Brinkac; Sean C Daugherty; Stephen A Sullivan; Mary J Rosovitz; Michelle L Gwinn; Liwei Zhou; Davd J Schneider; Samuel W Cartinhour; William C Nelson; Janice Weidman; Kisha Watkins; Kevin Tran; Hoda Khouri; Elizabeth A Pierson; Leland S Pierson; Linda S Thomashow; Joyce E Loper
Journal:  Nat Biotechnol       Date:  2005-06-26       Impact factor: 54.908

9.  MolProbity: all-atom contacts and structure validation for proteins and nucleic acids.

Authors:  Ian W Davis; Andrew Leaver-Fay; Vincent B Chen; Jeremy N Block; Gary J Kapral; Xueyi Wang; Laura W Murray; W Bryan Arendall; Jack Snoeyink; Jane S Richardson; David C Richardson
Journal:  Nucleic Acids Res       Date:  2007-04-22       Impact factor: 16.971

10.  Phaser crystallographic software.

Authors:  Airlie J McCoy; Ralf W Grosse-Kunstleve; Paul D Adams; Martyn D Winn; Laurent C Storoni; Randy J Read
Journal:  J Appl Crystallogr       Date:  2007-07-13       Impact factor: 3.304
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  7 in total

1.  OccK channels from Pseudomonas aeruginosa exhibit diverse single-channel electrical signatures but conserved anion selectivity.

Authors:  Jiaming Liu; Elif Eren; Jagamya Vijayaraghavan; Belete R Cheneke; Mridhu Indic; Bert van den Berg; Liviu Movileanu
Journal:  Biochemistry       Date:  2012-03-08       Impact factor: 3.162

2.  Structural basis for alginate secretion across the bacterial outer membrane.

Authors:  John C Whitney; Iain D Hay; Canhui Li; Paul D W Eckford; Howard Robinson; Maria F Amaya; Lynn F Wood; Dennis E Ohman; Christine E Bear; Bernd H Rehm; P Lynne Howell
Journal:  Proc Natl Acad Sci U S A       Date:  2011-07-21       Impact factor: 11.205

3.  Wzi is an outer membrane lectin that underpins group 1 capsule assembly in Escherichia coli.

Authors:  Simon R Bushell; Iain L Mainprize; Martin A Wear; Hubing Lou; Chris Whitfield; James H Naismith
Journal:  Structure       Date:  2013-04-25       Impact factor: 5.006

4.  ModBase, a database of annotated comparative protein structure models, and associated resources.

Authors:  Ursula Pieper; Benjamin M Webb; David T Barkan; Dina Schneidman-Duhovny; Avner Schlessinger; Hannes Braberg; Zheng Yang; Elaine C Meng; Eric F Pettersen; Conrad C Huang; Ruchira S Datta; Parthasarathy Sampathkumar; Mallur S Madhusudhan; Kimmen Sjölander; Thomas E Ferrin; Stephen K Burley; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2010-11-19       Impact factor: 16.971

5.  Substrate specificity within a family of outer membrane carboxylate channels.

Authors:  Elif Eren; Jagamya Vijayaraghavan; Jiaming Liu; Belete R Cheneke; Debra S Touw; Bryan W Lepore; Mridhu Indic; Liviu Movileanu; Bert van den Berg
Journal:  PLoS Biol       Date:  2012-01-17       Impact factor: 8.029

6.  Comparative proteomic analysis reveals mechanistic insights into Pseudomonas putida F1 growth on benzoate and citrate.

Authors:  Manolis Mandalakis; Nicolai Panikov; Shujia Dai; Somak Ray; Barry L Karger
Journal:  AMB Express       Date:  2013-10-25       Impact factor: 3.298

7.  ModBase, a database of annotated comparative protein structure models and associated resources.

Authors:  Ursula Pieper; Benjamin M Webb; Guang Qiang Dong; Dina Schneidman-Duhovny; Hao Fan; Seung Joong Kim; Natalia Khuri; Yannick G Spill; Patrick Weinkam; Michal Hammel; John A Tainer; Michael Nilges; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2013-11-23       Impact factor: 16.971
  7 in total

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