Ahmad S - Search Results

1

Brefeldin A-inhibited guanine nucleotide-exchange protein 3 (BIG3) is predicted to interact with its partner through an ARM-type α-helical structure.

Chen YA, Murakami Y, Ahmad S, Yoshimaru T, Katagiri T, Mizuguchi K. Chen YA, et al. Among authors: ahmad s. BMC Res Notes. 2014 Jul 6;7:435. doi: 10.1186/1756-0500-7-435. BMC Res Notes. 2014. PMID: 24997568 Free PMC article.

2

Prediction of mono- and di-nucleotide-specific DNA-binding sites in proteins using neural networks.

Andrabi M, Mizuguchi K, Sarai A, Ahmad S. Andrabi M, et al. Among authors: ahmad s. BMC Struct Biol. 2009 May 13;9:30. doi: 10.1186/1472-6807-9-30. BMC Struct Biol. 2009. PMID: 19439068 Free PMC article.

3

Integrated prediction of one-dimensional structural features and their relationships with conformational flexibility in helical membrane proteins.

Ahmad S, Singh YH, Paudel Y, Mori T, Sugita Y, Mizuguchi K. Ahmad S, et al. BMC Bioinformatics. 2010 Oct 27;11:533. doi: 10.1186/1471-2105-11-533. BMC Bioinformatics. 2010. PMID: 20977780 Free PMC article.

4

Lipid recognition propensities of amino acids in membrane proteins from atomic resolution data.

Morita M, Katta AM, Ahmad S, Mori T, Sugita Y, Mizuguchi K. Morita M, et al. Among authors: ahmad s. BMC Biophys. 2011 Dec 14;4:21. doi: 10.1186/2046-1682-4-21. BMC Biophys. 2011. PMID: 22168953 Free PMC article.

5

Partner-aware prediction of interacting residues in protein-protein complexes from sequence data.

Ahmad S, Mizuguchi K. Ahmad S, et al. PLoS One. 2011;6(12):e29104. doi: 10.1371/journal.pone.0029104. Epub 2011 Dec 14. PLoS One. 2011. PMID: 22194998 Free PMC article.

6

Integrating sequence and gene expression information predicts genome-wide DNA-binding proteins and suggests a cooperative mechanism.

Ahmad S, Prathipati P, Tripathi LP, Chen YA, Arya A, Murakami Y, Mizuguchi K. Ahmad S, et al. Nucleic Acids Res. 2018 Jan 9;46(1):54-70. doi: 10.1093/nar/gkx1166. Nucleic Acids Res. 2018. PMID: 29186632 Free PMC article.

7

Conformational changes in DNA-binding proteins: relationships with precomplex features and contributions to specificity and stability.

Andrabi M, Mizuguchi K, Ahmad S. Andrabi M, et al. Among authors: ahmad s. Proteins. 2014 May;82(5):841-57. doi: 10.1002/prot.24462. Epub 2013 Nov 22. Proteins. 2014. PMID: 24265157 Free article.

8

CCRXP: exploring clusters of conserved residues in protein structures.

Ahmad S, Keskin O, Mizuguchi K, Sarai A, Nussinov R. Ahmad S, et al. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W398-401. doi: 10.1093/nar/gkq360. Epub 2010 May 10. Nucleic Acids Res. 2010. PMID: 20457748 Free PMC article.

9

Integrated pathway clusters with coherent biological themes for target prioritisation.

Chen YA, Tripathi LP, Dessailly BH, Nyström-Persson J, Ahmad S, Mizuguchi K. Chen YA, et al. Among authors: ahmad s. PLoS One. 2014 Jun 11;9(6):e99030. doi: 10.1371/journal.pone.0099030. eCollection 2014. PLoS One. 2014. PMID: 24918583 Free PMC article.

10

Improved pose and affinity predictions using different protocols tailored on the basis of data availability.

Prathipati P, Nagao C, Ahmad S, Mizuguchi K. Prathipati P, et al. Among authors: ahmad s. J Comput Aided Mol Des. 2016 Sep;30(9):817-828. doi: 10.1007/s10822-016-9982-4. Epub 2016 Oct 6. J Comput Aided Mol Des. 2016. PMID: 27714493

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