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BMC Structural Biology

ISSN Print: 1472-6807

ISSN Online:

Website: http://www.biomedcentral.com/bmcstructbiol

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Annual acknowledgement of manuscript reviewers

Simon Harold

Structure Motivator: A tool for exploring small three-dimensional elements in proteins

David P Leader, E Milner-White

In silico identification and characterization of the ion transport specificity for P-type ATPases in the Mycobacterium tuberculosis complex

Lorena Novoa-Aponte, Andrés León-Torres, Miyer Pati？o-Ruiz, Jenifer Cuesta-Bernal, Luz-Mary Salazar, David Landsman, Leonardo Mari？o-Ramírez, Carlos-Yesid Soto

MTMDAT-HADDOCK: High-throughput, protein complex structure modeling based on limited proteolysis and mass spectrometry

Janosch Hennig, Sjoerd J de Vries, Klaus DM Hennig, Leah Randles, Kylie J Walters, Maria Sunnerhagen, Alexandre MJJ Bonvin

Evolutionarily consistent families in SCOP: sequence, structure and function

Ralph B Pethica, Michael Levitt, Julian Gough

Ternary complex structures of human farnesyl pyrophosphate synthase bound with a novel inhibitor and secondary ligands provide insights into the molecular details of the enzyme’s active site closure

Jaeok Park, Yih-Shyan Lin, Joris W De Schutter, Youla S Tsantrizos, Albert M Berghuis

Theoretical investigation on structural, functional and epitope of a 12？kDa excretory-secretory protein from Toxoplasma gondii

Yap Boon Wooi Tommy, Theam Soon Lim, Rahmah Noordin, Geita Saadatnia, Yee Siew Choong

Crystal structure of a new benzoic acid inhibitor of influenza neuraminidase bound with a new tilt induced by overpacking subsite C6

Lalitha Venkatramani, Eric S Johnson, Gundurao Kolavi, Gillian M Air, Wayne J Brouillette, Blaine HM Mooers

Are different stoichiometries feasible for complexes between lymphotoxin-alpha and tumor necrosis factor receptor 1?

Nahren Mascarenhas, Johannes K？stner

Reliable structural interpretation of small-angle scattering data from bio-molecules in solution - the importance of quality control and a standard reporting framework

David A Jacques, Jules Guss, Jill Trewhella

A three-dimensional topology of complex I inferred from evolutionary correlations

Philip R Kensche, Isabel Duarte, Martijn A Huynen

Enabling structure-based drug design of Tyk2 through co-crystallization with a stabilizing aminoindazole inhibitor

Maria A Argiriadi, Eric R Goedken, David Banach, David W Borhani, Andrew Burchat, Richard W Dixon, Doug Marcotte, Gary Overmeyer, Valerie Pivorunas, Ramkrishna Sadhukhan, Silvino Sousa, Nigel St Moore, Medha Tomlinson, Jeffrey Voss, Lu Wang, Neil Wishart, Kevin Woller, Robert V Talanian

Crystal structure of HutZ, a heme storage protein from Vibrio cholerae: A structural mismatch observed in the region of high sequence conservation

Xiuhua Liu, Jing Gong, Tiandi Wei, Zhi Wang, Qian Du, Deyu Zhu, Yan Huang, Sujuan Xu, Lichuan Gu

A structural model of the E. coli PhoB Dimer in the transcription initiation complex

Chang-Shung Tung, Benjamin H McMahon

Structural characterization of S100A15 reveals a novel zinc coordination site among S100 proteins and altered surface chemistry with functional implications for receptor binding

Jill I Murray, Michelle L Tonkin, Amanda L Whiting, Fangni Peng, Benjamin Farnell, Jay T Cullen, Fraser Hof, Martin J Boulanger

Comparison of tertiary structures of proteins in protein-protein complexes with unbound forms suggests prevalence of allostery in signalling proteins

Lakshmipuram S Swapna, Swapnil Mahajan, Alexandre G de Brevern, Narayanaswamy Srinivasan

Exploring functionally related enzymes using radially distributed properties of active sites around the reacting points of bound ligands

Keisuke Ueno, Katsuhiko Mineta, Kimihito Ito, Toshinori Endo

Integrative structural modeling with small angle X-ray scattering profiles

Dina Schneidman-Duhovny, Seung Kim, Andrej Sali

The possible mechanisms of CYP2E1 interactions with HSP90 and the influence of ethanol on them

Volodymyr O Kitam, Oksana V Maksymchuk, Mykola O Chashchyn

Protein Nano-Object Integrator (ProNOI) for generating atomic style objects for molecular modeling

Nicholas Smith, Brandon Campbell, Lin Li, Chuan Li, Emil Alexov

Crystal structures from the Plasmodium peroxiredoxins: new insights into oligomerization and product binding

Wei Qiu, Aiping Dong, Juan C Pizarro, Alexei Botchkarsev, Jinrong Min, Amy K Wernimont, Tanya Hills, Raymond Hui, Jennifer D Artz

A transcriptional-switch model for Slr1738-controlled gene expression in the cyanobacterium Synechocystis

Paul Garcin, Olivier Delalande, Ju-Yuan Zhang, Corinne Cassier-Chauvat, Franck Chauvat, Yves Boulard

Conservation and divergence between cytoplasmic and muscle-specific actin capping proteins: insights from the crystal structure of cytoplasmic Cap32/34 from Dictyostelium discoideum

Christian Eckert, Agnieszka Goretzki, Maria Faberova, Martin Kollmar

Modeling holo-ACP:DH and holo-ACP:KR complexes of modular polyketide synthases: a docking and molecular dynamics study

Swadha Anand, Debasisa Mohanty

Structural and molecular basis of interaction of HCV non-structural protein 5A with human casein kinase 1α and PKR

Govindarajan Sudha, Subburaj Yamunadevi, Nidhi Tyagi, Saumitra Das, Narayanaswamy Srinivasan

Structural and mechanistic investigations on Salmonella typhimurium acetate kinase (AckA): identification of a putative ligand binding pocket at the dimeric interface

Sagar Chittori, Handanahal S Savithri, Mathur RN Murthy

Exploring the binding of BACE-1 inhibitors using comparative binding energy analysis (COMBINE)

Shu Liu, Rao Fu, Xiao Cheng, Sheng-Ping Chen, Li-Hua Zhou

Functional region prediction with a set of appropriate homologous sequences-an index for sequence selection by integrating structure and sequence information with spatial statistics

Wataru Nemoto, Hiroyuki Toh

Correction: Prediction and analysis of the modular structure of cytochrome P450 monooxygenases

Demet Sirim, Michael Widmann, Florian Wagner, Jürgen Pleiss

Dependence of α-helical and β-sheet amino acid propensities on the overall protein fold type

Kazuo Fujiwara, Hiromi Toda, Masamichi Ikeguchi

Structural insight into the substrate- and dioxygen-binding manner in the catalytic cycle of rieske nonheme iron oxygenase system, carbazole 1,9a-dioxygenase

Yuji Ashikawa, Zui Fujimoto, Yusuke Usami, Kengo Inoue, Haruko Noguchi, Hisakazu Yamane, Hideaki Nojiri

Peptide binding to HLA-DP proteins at pH 5.0 and pH 7.0: a quantitative molecular docking study

Atanas Patronov, Ivan Dimitrov, Darren R Flower, Irini Doytchinova

Crystal structure of the Yersinia enterocolitica type III secretion chaperone SycD in complex with a peptide of the minor translocator YopD

Madeleine Schreiner, Hartmut H Niemann

Structure of human aspartyl aminopeptidase complexed with substrate analogue: insight into catalytic mechanism, substrate specificity and M18 peptidase family

Apirat Chaikuad, Ewa S Pilka, Antonio De Riso, Frank von Delft, Kathryn L Kavanagh, Catherine Vénien-Bryan, Udo Oppermann, Wyatt W Yue

Novel dimeric β-helical model of an ice nucleation protein with bridged active sites

Christopher P Garnham, Robert L Campbell, Virginia K Walker, Peter L Davies

Structural studies of the PARP-1 BRCT domain

Paul A Loeffler, Matthew J Cuneo, Geoffrey A Mueller, Eugene F DeRose, Scott A Gabel, Robert E London

Central domain deletions affect the SAXS solution structure and function of Yeast Hsp40 proteins Sis1 and Ydj1

Julio C Silva, Julio C Borges, Douglas M Cyr, Carlos HI Ramos, Iris L Torriani

Computational analysis of a novel mutation in ETFDH gene highlights its long-range effects on the FAD-binding motif

Tze-Kiong Er, Chih-Chieh Chen, Yen-Yi Liu, Hui-Chiu Chang, Yin-Hsiu Chien, Jan-Gowth Chang, Jenn-Kang Hwang, Yuh-Jyh Jong

Exploiting the high-resolution crystal structure of Staphylococcus aureus MenH to gain insight into enzyme activity

Alice Dawson, Paul K Fyfe, Florian Gillet, William N Hunter

Atomic resolution structure of EhpR: phenazine resistance in Enterobacter agglomerans Eh1087 follows principles of bleomycin/mitomycin C resistance in other bacteria

Shen Yu, Allegra Vit, Sean Devenish, H Khris Mahanty, Aymelt Itzen, Roger S Goody, Wulf Blankenfeldt

Structure of catalytic domain of Matriptase in complex with Sunflower trypsin inhibitor-1

Cai Yuan, Liqing Chen, Edward J Meehan, Norelle Daly, David J Craik, Mingdong Huang, Jacky C Ngo

A model for the Escherichia coli FtsB/FtsL/FtsQ cell division complex

Felipe Villanelo, Alexis Ordenes, Juan Brunet, Rosalba Lagos, Octavio Monasterio

A new in-silico method for determination of helical transmembrane domains based on the PepLook scan: application to IL-2Rβ and IL-2Rγc receptor chains

Yan Charlois, Laurence Lins, Robert Brasseur

A library of protein surface patches discriminates between native structures and decoys generated by structure prediction servers

Roi Gamliel, Klara Kedem, Rachel Kolodny, Chen Keasar

Binary classification of protein molecules into intrinsically disordered and ordered segments

Satoshi Fukuchi, Kazuo Hosoda, Keiichi Homma, Takashi Gojobori, Ken Nishikawa

Hydration sites of unpaired RNA bases: a statistical analysis of the PDB structures

Svetlana Kirillova, Oliviero Carugo

Structural characterization of a ribose-5-phosphate isomerase B from the pathogenic fungus Coccidioides immitis

Thomas E Edwards, Ariel B Abramov, Eric R Smith, Ruth O Baydo, Jess T Leonard, David J Leibly, Kaitlin B Thompkins, Matthew C Clifton, Anna S Gardberg, Bart L Staker, Wesley C Van Voorhis, Peter J Myler, Lance J Stewart

Comparative void-volume analysis of psychrophilic and mesophilic enzymes: Structural bioinformatics of psychrophilic enzymes reveals sources of core flexibility

Diana I Paredes, Kyle Watters, Derek J Pitman, Christopher Bystroff, Jonathan S Dordick

Evolutionary traces decode molecular mechanism behind fast pace of myosin XI

Divya P Syamaladevi, R Sowdhamini

Benchmarks for flexible and rigid transcription factor-DNA docking

RyangGuk Kim, Rosario I Corona, Bo Hong, Jun-tao Guo

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