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Items: 1 to 20 of 314

1.

The PAS fold. A redefinition of the PAS domain based upon structural prediction.

Hefti MH, Fran├žoijs KJ, de Vries SC, Dixon R, Vervoort J.

Eur J Biochem. 2004 Mar;271(6):1198-208.

PMID:
15009198
2.
3.

Photoactive yellow protein: a structural prototype for the three-dimensional fold of the PAS domain superfamily.

Pellequer JL, Wager-Smith KA, Kay SA, Getzoff ED.

Proc Natl Acad Sci U S A. 1998 May 26;95(11):5884-90.

4.

Structural and functional studies of S-adenosyl-L-methionine binding proteins: a ligand-centric approach.

Gana R, Rao S, Huang H, Wu C, Vasudevan S.

BMC Struct Biol. 2013 Apr 25;13:6. doi: 10.1186/1472-6807-13-6.

5.

Assignment of protein sequences to existing domain and family classification systems: Pfam and the PDB.

Xu Q, Dunbrack RL Jr.

Bioinformatics. 2012 Nov 1;28(21):2763-72. doi: 10.1093/bioinformatics/bts533. Epub 2012 Aug 31.

6.

PASS2: an automated database of protein alignments organised as structural superfamilies.

Bhaduri A, Pugalenthi G, Sowdhamini R.

BMC Bioinformatics. 2004 Apr 2;5:35.

7.
8.

More than 1,001 problems with protein domain databases: transmembrane regions, signal peptides and the issue of sequence homology.

Wong WC, Maurer-Stroh S, Eisenhaber F.

PLoS Comput Biol. 2010 Jul 29;6(7):e1000867. doi: 10.1371/journal.pcbi.1000867.

9.

Identifying protein domains with the Pfam database.

Finn R, Griffiths-Jones S, Bateman A.

Curr Protoc Bioinformatics. 2003 May;Chapter 2:Unit 2.5. doi: 10.1002/0471250953.bi0205s01.

PMID:
18428696
10.

Pfam: a comprehensive database of protein domain families based on seed alignments.

Sonnhammer EL, Eddy SR, Durbin R.

Proteins. 1997 Jul;28(3):405-20.

PMID:
9223186
11.

PAS domains. Common structure and common flexibility.

Vreede J, van der Horst MA, Hellingwerf KJ, Crielaard W, van Aalten DM.

J Biol Chem. 2003 May 16;278(20):18434-9. Epub 2003 Mar 14.

13.

Structural genomics of Caenorhabditis elegans: crystal structure of the tropomodulin C-terminal domain.

Lu S, Symersky J, Li S, Carson M, Chen L, Meehan E, Luo M.

Proteins. 2004 Aug 1;56(2):384-6. No abstract available.

PMID:
15211521
15.

Conservation and specialization in PAS domain dynamics.

Pandini A, Bonati L.

Protein Eng Des Sel. 2005 Mar;18(3):127-37. Epub 2005 Apr 8.

PMID:
15820977
16.

Pfam: multiple sequence alignments and HMM-profiles of protein domains.

Sonnhammer EL, Eddy SR, Birney E, Bateman A, Durbin R.

Nucleic Acids Res. 1998 Jan 1;26(1):320-2.

17.

The Pfam protein families database.

Bateman A, Birney E, Cerruti L, Durbin R, Etwiller L, Eddy SR, Griffiths-Jones S, Howe KL, Marshall M, Sonnhammer EL.

Nucleic Acids Res. 2002 Jan 1;30(1):276-80.

18.
19.

Profile-profile comparisons by COMPASS predict intricate homologies between protein families.

Sadreyev RI, Baker D, Grishin NV.

Protein Sci. 2003 Oct;12(10):2262-72.

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