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Items: 1 to 20 of 1631


An efficient algorithm for protein structure comparison using elastic shape analysis.

Srivastava S, Lal SB, Mishra DC, Angadi UB, Chaturvedi KK, Rai SN, Rai A.

Algorithms Mol Biol. 2016 Sep 29;11:27.


ProFold: Protein Fold Classification with Additional Structural Features and a Novel Ensemble Classifier.

Chen D, Tian X, Zhou B, Gao J.

Biomed Res Int. 2016;2016:6802832. Epub 2016 Aug 28.


Genome-wide survey and phylogeny of S-Ribosylhomocysteinase (LuxS) enzyme in bacterial genomes.

Rao RM, Pasha SN, Sowdhamini R.

BMC Genomics. 2016 Sep 20;17(1):742. doi: 10.1186/s12864-016-3002-x.


Protein secondary structure prediction using a small training set (compact model) combined with a Complex-valued neural network approach.

Rashid S, Saraswathi S, Kloczkowski A, Sundaram S, Kolinski A.

BMC Bioinformatics. 2016 Sep 13;17(1):362. doi: 10.1186/s12859-016-1209-0.


Classification of the treble clef zinc finger: noteworthy lessons for structure and function evolution.

Kaur G, Subramanian S.

Sci Rep. 2016 Aug 26;6:32070. doi: 10.1038/srep32070.


Prediction of allosteric sites and mediating interactions through bond-to-bond propensities.

Amor BR, Schaub MT, Yaliraki SN, Barahona M.

Nat Commun. 2016 Aug 26;7:12477. doi: 10.1038/ncomms12477.


Crystal structure of an Fe-S cluster-containing fumarate hydratase enzyme from Leishmania major reveals a unique protein fold.

Feliciano PR, Drennan CL, Nonato MC.

Proc Natl Acad Sci U S A. 2016 Aug 30;113(35):9804-9. doi: 10.1073/pnas.1605031113. Epub 2016 Aug 15.


Did Viruses Evolve As a Distinct Supergroup from Common Ancestors of Cells?

Harish A, Abroi A, Gough J, Kurland C.

Genome Biol Evol. 2016 Aug 27;8(8):2474-81. doi: 10.1093/gbe/evw175.


GIRAF: a method for fast search and flexible alignment of ligand binding interfaces in proteins at atomic resolution.

Kinjo AR, Nakamura H.

Biophysics (Nagoya-shi). 2012 May 31;8:79-94. doi: 10.2142/biophysics.8.79. eCollection 2012.


GPU-Acceleration of Sequence Homology Searches with Database Subsequence Clustering.

Suzuki S, Kakuta M, Ishida T, Akiyama Y.

PLoS One. 2016 Aug 2;11(8):e0157338. doi: 10.1371/journal.pone.0157338. eCollection 2016.


Improvement in Protein Domain Identification Is Reached by Breaking Consensus, with the Agreement of Many Profiles and Domain Co-occurrence.

Bernardes J, Zaverucha G, Vaquero C, Carbone A.

PLoS Comput Biol. 2016 Jul 29;12(7):e1005038. doi: 10.1371/journal.pcbi.1005038. eCollection 2016 Jul.


Quantifying Nonnative Interactions in the Protein-Folding Free-Energy Landscape.

Mouro PR, de Godoi Contessoto V, Chahine J, Junio de Oliveira R, Pereira Leite VB.

Biophys J. 2016 Jul 26;111(2):287-93. doi: 10.1016/j.bpj.2016.05.041.


The Crystal Structure of the C-Terminal Domain of the Salmonella enterica PduO Protein: An Old Fold with a New Heme-Binding Mode.

Ortiz de Orué Lucana D, Hickey N, Hensel M, Klare JP, Geremia S, Tiufiakova T, Torda AE.

Front Microbiol. 2016 Jun 28;7:1010. doi: 10.3389/fmicb.2016.01010. eCollection 2016.


Sensing and signaling of oxidative stress in chloroplasts by inactivation of the SAL1 phosphoadenosine phosphatase.

Chan KX, Mabbitt PD, Phua SY, Mueller JW, Nisar N, Gigolashvili T, Stroeher E, Grassl J, Arlt W, Estavillo GM, Jackson CJ, Pogson BJ.

Proc Natl Acad Sci U S A. 2016 Aug 2;113(31):E4567-76. doi: 10.1073/pnas.1604936113. Epub 2016 Jul 18.


Protein-protein docking by fast generalized Fourier transforms on 5D rotational manifolds.

Padhorny D, Kazennov A, Zerbe BS, Porter KA, Xia B, Mottarella SE, Kholodov Y, Ritchie DW, Vajda S, Kozakov D.

Proc Natl Acad Sci U S A. 2016 Jul 26;113(30):E4286-93. doi: 10.1073/pnas.1603929113. Epub 2016 Jul 13.


Evolution of the Calcium-Based Intracellular Signaling System.

Marchadier E, Oates ME, Fang H, Donoghue PC, Hetherington AM, Gough J.

Genome Biol Evol. 2016 Jul 14;8(7):2118-32. doi: 10.1093/gbe/evw139.


Sequence- and Structure-Based Analysis of Tissue-Specific Phosphorylation Sites.

Karabulut NP, Frishman D.

PLoS One. 2016 Jun 22;11(6):e0157896. doi: 10.1371/journal.pone.0157896. eCollection 2016.


Lessons from making the Structural Classification of Proteins (SCOP) and their implications for protein structure modelling.

Andreeva A.

Biochem Soc Trans. 2016 Jun 15;44(3):937-43. doi: 10.1042/BST20160053. Review.


Protein rethreading: A novel approach to protein design.

Agah S, Poulos S, Yu A, Kucharska I, Faham S.

Sci Rep. 2016 May 27;6:26847. doi: 10.1038/srep26847.


Advances of Proteomic Sciences in Dentistry.

Khurshid Z, Zohaib S, Najeeb S, Zafar MS, Rehman R, Rehman IU.

Int J Mol Sci. 2016 May 13;17(5). pii: E728. doi: 10.3390/ijms17050728. Review.

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