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Items: 1 to 20 of 101

1.

Identifying DNA-binding proteins using structural motifs and the electrostatic potential.

Shanahan HP, Garcia MA, Jones S, Thornton JM.

Nucleic Acids Res. 2004 Sep 8;32(16):4732-41. Print 2004.

2.

HTHquery: a method for detecting DNA-binding proteins with a helix-turn-helix structural motif.

Ferrer-Costa C, Shanahan HP, Jones S, Thornton JM.

Bioinformatics. 2005 Sep 15;21(18):3679-80. Epub 2005 Jul 19.

3.

Using structural motif templates to identify proteins with DNA binding function.

Jones S, Barker JA, Nobeli I, Thornton JM.

Nucleic Acids Res. 2003 Jun 1;31(11):2811-23.

4.
5.

Detecting DNA-binding helix-turn-helix structural motifs using sequence and structure information.

Pellegrini-Calace M, Thornton JM.

Nucleic Acids Res. 2005 Apr 14;33(7):2129-40. Print 2005.

6.

The helix-hairpin-helix DNA-binding motif: a structural basis for non-sequence-specific recognition of DNA.

Doherty AJ, Serpell LC, Ponting CP.

Nucleic Acids Res. 1996 Jul 1;24(13):2488-97.

7.

Common fold in helix-hairpin-helix proteins.

Shao X, Grishin NV.

Nucleic Acids Res. 2000 Jul 15;28(14):2643-50.

8.

A structural-alphabet-based strategy for finding structural motifs across protein families.

Wu CY, Chen YC, Lim C.

Nucleic Acids Res. 2010 Aug;38(14):e150. doi: 10.1093/nar/gkq478. Epub 2010 Jun 4.

9.
10.

Local combinational variables: an approach used in DNA-binding helix-turn-helix motif prediction with sequence information.

Xiong W, Li T, Chen K, Tang K.

Nucleic Acids Res. 2009 Sep;37(17):5632-40. doi: 10.1093/nar/gkp628. Epub 2009 Aug 3.

11.

Repeat of a helix-turn-helix module in DNA-binding proteins.

Yura K, Tomoda S, Go M.

Protein Eng. 1993 Aug;6(6):621-8.

PMID:
8234232
12.

Regulation of TCF ETS-domain transcription factors by helix-loop-helix motifs.

Stinson J, Inoue T, Yates P, Clancy A, Norton JD, Sharrocks AD.

Nucleic Acids Res. 2003 Aug 15;31(16):4717-28.

15.

Structural basis of DNA bridging by barrier-to-autointegration factor.

Umland TC, Wei SQ, Craigie R, Davies DR.

Biochemistry. 2000 Aug 8;39(31):9130-8.

PMID:
10924106
16.

Identification of the domains for DNA binding and transactivation function of C protein from bacteriophage Mu.

Paul BD, Kanhere A, Chakraborty A, Bansal M, Nagaraja V.

Proteins. 2003 Aug 1;52(2):272-82.

PMID:
12833550
17.

Novel DNA binding motifs in the DNA repair enzyme endonuclease III crystal structure.

Thayer MM, Ahern H, Xing D, Cunningham RP, Tainer JA.

EMBO J. 1995 Aug 15;14(16):4108-20.

18.
19.

Secondary structure and interaction of phage D108 Ner repressor with a 61-base-pair operator: evidence for altered protein and DNA structures in the complex.

Benevides JM, Kukolj G, Autexier C, Aubrey KL, DuBow MS, Thomas GJ Jr.

Biochemistry. 1994 Sep 6;33(35):10701-10.

PMID:
8075070
20.

Structural comparison of the PhoB and OmpR DNA-binding/transactivation domains and the arrangement of PhoB molecules on the phosphate box.

Okamura H, Hanaoka S, Nagadoi A, Makino K, Nishimura Y.

J Mol Biol. 2000 Feb 4;295(5):1225-36.

PMID:
10653699
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