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Results: 1 to 20 of 88

1.

Three-Dimensional Compound Comparison Methods and Their Application in Drug Discovery.

Shin WH, Zhu X, Bures MG, Kihara D.

Molecules. 2015 Jul 16;20(7):12841-62. doi: 10.3390/molecules200712841.

2.

Tuning of pectin methylesterification: PECTIN METHYLESTERASE INHIBITOR 7 modulates the processive activity of co-expressed PECTIN METHYLESTERASE 3 in a pH-dependent manner.

Senechal F, L' Enfant M, Domon JM, Rosiau E, Crepeau MJ, Surcouf O, Esquivel-Rodriguez J, Marcelo P, Mareck A, Guerineau F, Kim HR, Mravec J, Bonnin E, Jamet E, Kihara D, Lerouge P, Ralet MC, Pelloux J, Rayon C.

J Biol Chem. 2015 Jul 16. pii: jbc.M115.639534. [Epub ahead of print]

3.

Navigating 3D electron microscopy maps with EM-SURFER.

Esquivel-Rodríguez J, Xiong Y, Han X, Guang S, Christoffer C, Kihara D.

BMC Bioinformatics. 2015 May 30;16:181. doi: 10.1186/s12859-015-0580-6.

4.

On the origin of protein superfamilies and superfolds.

Magner A, Szpankowski W, Kihara D.

Sci Rep. 2015 Feb 23;5:8166. doi: 10.1038/srep08166.

5.

Structure and inhibition of EV-D68, a virus that causes respiratory illness in children.

Liu Y, Sheng J, Fokine A, Meng G, Shin WH, Long F, Kuhn RJ, Kihara D, Rossmann MG.

Science. 2015 Jan 2;347(6217):71-4. doi: 10.1126/science.1261962.

PMID:
25554786
6.

Genome-scale identification and characterization of moonlighting proteins.

Khan I, Chen Y, Dong T, Hong X, Takeuchi R, Mori H, Kihara D.

Biol Direct. 2014 Dec 11;9:30. doi: 10.1186/s13062-014-0030-9.

7.

Computational characterization of moonlighting proteins.

Khan IK, Kihara D.

Biochem Soc Trans. 2014 Dec;42(6):1780-5. doi: 10.1042/BST20140214. Review.

PMID:
25399606
8.

GenoBase: comprehensive resource database of Escherichia coli K-12.

Otsuka Y, Muto A, Takeuchi R, Okada C, Ishikawa M, Nakamura K, Yamamoto N, Dose H, Nakahigashi K, Tanishima S, Suharnan S, Nomura W, Nakayashiki T, Aref WG, Bochner BR, Conway T, Gribskov M, Kihara D, Rudd KE, Tohsato Y, Wanner BL, Mori H.

Nucleic Acids Res. 2015 Jan;43(Database issue):D606-17. doi: 10.1093/nar/gku1164. Epub 2014 Nov 15.

9.

Large-scale binding ligand prediction by improved patch-based method Patch-Surfer2.0.

Zhu X, Xiong Y, Kihara D.

Bioinformatics. 2015 Mar 1;31(5):707-13. doi: 10.1093/bioinformatics/btu724. Epub 2014 Oct 29.

PMID:
25359888
10.

A proteomic strategy for global analysis of plant protein complexes.

Aryal UK, Xiong Y, McBride Z, Kihara D, Xie J, Hall MC, Szymanski DB.

Plant Cell. 2014 Oct;26(10):3867-82. doi: 10.1105/tpc.114.127563. Epub 2014 Oct 7.

11.

PFP/ESG: automated protein function prediction servers enhanced with Gene Ontology visualization tool.

Khan IK, Wei Q, Chitale M, Kihara D.

Bioinformatics. 2015 Jan 15;31(2):271-2. doi: 10.1093/bioinformatics/btu646. Epub 2014 Oct 1.

PMID:
25273111
12.

PL-PatchSurfer: a novel molecular local surface-based method for exploring protein-ligand interactions.

Hu B, Zhu X, Monroe L, Bures MG, Kihara D.

Int J Mol Sci. 2014 Aug 27;15(9):15122-45. doi: 10.3390/ijms150915122.

13.

Detecting local residue environment similarity for recognizing near-native structure models.

Kim H, Kihara D.

Proteins. 2014 Dec;82(12):3255-72. doi: 10.1002/prot.24658. Epub 2014 Oct 30.

PMID:
25132526
14.

The structure of the catalytic domain of a plant cellulose synthase and its assembly into dimers.

Olek AT, Rayon C, Makowski L, Kim HR, Ciesielski P, Badger J, Paul LN, Ghosh S, Kihara D, Crowley M, Himmel ME, Bolin JT, Carpita NC.

Plant Cell. 2014 Jul;26(7):2996-3009. doi: 10.1105/tpc.114.126862. Epub 2014 Jul 10.

15.

Comparison of image patches using local moment invariants.

Sit A, Kihara D.

IEEE Trans Image Process. 2014 May;23(5):2369-79.

PMID:
24718574
16.

Assessment of protein side-chain conformation prediction methods in different residue environments.

Peterson LX, Kang X, Kihara D.

Proteins. 2014 Sep;82(9):1971-84. doi: 10.1002/prot.24552. Epub 2014 Mar 31.

PMID:
24619909
17.

Pairwise and multimeric protein-protein docking using the LZerD program suite.

Esquivel-Rodriguez J, Filos-Gonzalez V, Li B, Kihara D.

Methods Mol Biol. 2014;1137:209-34. doi: 10.1007/978-1-4939-0366-5_15.

PMID:
24573484
18.

3D-SURFER 2.0: web platform for real-time search and characterization of protein surfaces.

Xiong Y, Esquivel-Rodriguez J, Sael L, Kihara D.

Methods Mol Biol. 2014;1137:105-17. doi: 10.1007/978-1-4939-0366-5_8.

PMID:
24573477
19.

Efficient strategy for detecting gene × gene joint action and its application in schizophrenia.

Won S, Kwon MS, Mattheisen M, Park S, Park C, Kihara D, Cichon S, Ophoff R, Nöthen MM, Rietschel M, Baur M, Uitterlinden AG, Hofmann A; GROUP Investigators, Lange C.

Genet Epidemiol. 2014 Jan;38(1):60-71. doi: 10.1002/gepi.21779. Epub 2013 Nov 23.

PMID:
24272960
20.

Structure-function analysis of the DNA translocating portal of the bacteriophage T4 packaging machine.

Padilla-Sanchez V, Gao S, Kim HR, Kihara D, Sun L, Rossmann MG, Rao VB.

J Mol Biol. 2014 Mar 6;426(5):1019-38. doi: 10.1016/j.jmb.2013.10.011. Epub 2013 Oct 11.

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