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Results: 1 to 20 of 99

1.

Characterizing protein domain associations by Small-molecule ligand binding.

Li Q, Cheng T, Wang Y, Bryant SH.

J Proteome Sci Comput Biol. 2012 Dec 3;1. pii: 6.

PMID:
23745168
[PubMed]
Free PMC Article
2.

Protein promiscuity: drug resistance and native functions--HIV-1 case.

Fernández A, Tawfik DS, Berkhout B, Sanders R, Kloczkowski A, Sen T, Jernigan B.

J Biomol Struct Dyn. 2005 Jun;22(6):615-24.

PMID:
15842167
[PubMed - indexed for MEDLINE]
3.

Domain-based small molecule binding site annotation.

Snyder KA, Feldman HJ, Dumontier M, Salama JJ, Hogue CW.

BMC Bioinformatics. 2006 Mar 17;7:152.

PMID:
16545112
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Mapping small molecule binding data to structural domains.

Kruger FA, Rostom R, Overington JP.

BMC Bioinformatics. 2012;13 Suppl 17:S11. doi: 10.1186/1471-2105-13-S17-S11. Epub 2012 Dec 13.

PMID:
23282026
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Bioactivity-guided navigation of chemical space.

Bon RS, Waldmann H.

Acc Chem Res. 2010 Aug 17;43(8):1103-14. doi: 10.1021/ar100014h.

PMID:
20481515
[PubMed - indexed for MEDLINE]
6.

The overlap of small molecule and protein binding sites within families of protein structures.

Davis FP, Sali A.

PLoS Comput Biol. 2010 Feb 5;6(2):e1000668. doi: 10.1371/journal.pcbi.1000668.

PMID:
20140189
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

PDBLIG: classification of small molecular protein binding in the Protein Data Bank.

Chalk AJ, Worth CL, Overington JP, Chan AW.

J Med Chem. 2004 Jul 15;47(15):3807-16.

PMID:
15239659
[PubMed - indexed for MEDLINE]
8.

Identification and specificity studies of small-molecule ligands for SH3 protein domains.

Inglis SR, Stojkoski C, Branson KM, Cawthray JF, Fritz D, Wiadrowski E, Pyke SM, Booker GW.

J Med Chem. 2004 Oct 21;47(22):5405-17.

PMID:
15481978
[PubMed - indexed for MEDLINE]
9.

Ligand-protein docking: cancer research at the interface between biology and chemistry.

Glen RC, Allen SC.

Curr Med Chem. 2003 May;10(9):763-7. Review.

PMID:
12678780
[PubMed - indexed for MEDLINE]
10.

Knowledge-based annotation of small molecule binding sites in proteins.

Thangudu RR, Tyagi M, Shoemaker BA, Bryant SH, Panchenko AR, Madej T.

BMC Bioinformatics. 2010 Jul 1;11:365. doi: 10.1186/1471-2105-11-365.

PMID:
20594344
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Sequence, structure and energetic determinants of phosphopeptide selectivity of SH2 domains.

Sheinerman FB, Al-Lazikani B, Honig B.

J Mol Biol. 2003 Dec 5;334(4):823-41.

PMID:
14636606
[PubMed - indexed for MEDLINE]
12.

Prediction of small molecule binding property of protein domains with Bayesian classifiers based on Markov chains.

Bulashevska A, Stein M, Jackson D, Eils R.

Comput Biol Chem. 2009 Dec;33(6):457-60. doi: 10.1016/j.compbiolchem.2009.09.005. Epub 2009 Oct 9.

PMID:
19892602
[PubMed - indexed for MEDLINE]
13.

Predicting the multi-modal binding propensity of small molecules: towards an understanding of drug promiscuity.

Park K, Lee S, Ahn HS, Kim D.

Mol Biosyst. 2009 Aug;5(8):844-53. doi: 10.1039/b901356c. Epub 2009 May 28.

PMID:
19603120
[PubMed - indexed for MEDLINE]
14.

Building novel binding ligands to B7.1 and B7.2 based on human antibody single variable light chain domains.

van den Beucken T, van Neer N, Sablon E, Desmet J, Celis L, Hoogenboom HR, Hufton SE.

J Mol Biol. 2001 Jul 13;310(3):591-601.

PMID:
11439026
[PubMed - indexed for MEDLINE]
15.

[Development of antituberculous drugs: current status and future prospects].

Tomioka H, Namba K.

Kekkaku. 2006 Dec;81(12):753-74. Review. Japanese.

PMID:
17240921
[PubMed - indexed for MEDLINE]
16.

The unfoldomics decade: an update on intrinsically disordered proteins.

Dunker AK, Oldfield CJ, Meng J, Romero P, Yang JY, Chen JW, Vacic V, Obradovic Z, Uversky VN.

BMC Genomics. 2008 Sep 16;9 Suppl 2:S1. doi: 10.1186/1471-2164-9-S2-S1.

PMID:
18831774
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Identification of putative domain linkers by a neural network - application to a large sequence database.

Miyazaki S, Kuroda Y, Yokoyama S.

BMC Bioinformatics. 2006 Jun 27;7:323.

PMID:
16800897
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

sc-PDB: an annotated database of druggable binding sites from the Protein Data Bank.

Kellenberger E, Muller P, Schalon C, Bret G, Foata N, Rognan D.

J Chem Inf Model. 2006 Mar-Apr;46(2):717-27.

PMID:
16563002
[PubMed - indexed for MEDLINE]
19.

Identification of chemogenomic features from drug-target interaction networks using interpretable classifiers.

Tabei Y, Pauwels E, Stoven V, Takemoto K, Yamanishi Y.

Bioinformatics. 2012 Sep 15;28(18):i487-i494. doi: 10.1093/bioinformatics/bts412.

PMID:
22962471
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Enhancing the accuracy of chemogenomic models with a three-dimensional binding site kernel.

Meslamani J, Rognan D.

J Chem Inf Model. 2011 Jul 25;51(7):1593-603. doi: 10.1021/ci200166t. Epub 2011 Jun 21.

PMID:
21644501
[PubMed - indexed for MEDLINE]

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