Crystal structure of a formiminotetrahydrofolate cyclodeaminase (TM1560) from Thermotoga maritima at 2.80 Å resolution reveals a new fold

Proteins: Structure, Function and Genetics

Volumn 58, Issue 4, 2005, Pages 976-981

  Xu, Qingping ^a,b   Schwarzenbacher, Robert ^a,c   McMullan, Daniel ^a,d   Abdubek, Polat ^a,d   Ambing, Eileen ^a,d   Biorac, Tanya ^a,d   Canaves, Jaume M ^a,c   Chiu, Hsiu Ju ^a,b   Dai, Xiaoping ^a,f   Deacon, Ashley M ^a,b   DiDonato, Michael ^a,d   Elsliger, Marc André ^a,f   Godzik, Adam ^a,c   Grittini, Carina ^a,f   Grzechnik, Slawomir K ^a,c   Hampton, Eric ^a,d   Hornsby, Michael ^a,d   Jaroszewski, Lukasz ^a,c   Klock, Heath E ^a,d   Koesema, Eric ^a,d   Kreusch, Andreas ^a,d   Kuhn, Peter ^a,f   Lesley, Scott A ^a,d   Levin, Inna ^a,b   Miller, Mitchell D ^a,b   Morse, Andrew ^a,c   Moy, Kin ^a,f   Ouyang, Jie ^a,c   Page, Rebecca ^a,f   Quijano, Kevin ^a,d   Reyes, Ron ^a,b   Robb, Alyssa ^a,d   Sims, Eric ^a,f   Spraggon, Glen ^a,d   Stevens, Raymond C ^a,f   Van Den Bedem, Henry ^a,b   Velasquez, Jeff ^a,f   Vincent, Juli ^a,d   Von Delft, Frank ^a,f   Wang, Xianhong ^a,c   West, Bill ^a,c   White, Aprilfawn ^a,d   Wolf, Guenter ^a,b   Zagnitko, Olga ^a,c   Hodgson, Keith O ^a,b   Wooley, John ^a,c,e   Wilson, Ian A ^a,f   more..

^a STANFORD UNIVERSITY   (United States)

^b SLAC NATIONAL ACCELERATOR LABORATORY   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d GENOMICS INSTITUTE OF THE NOVARTIS RESEARCH FOUNDATION   (United States)

^e UNIVERSITY OF CALIFORNIA   (United States)

^f SCRIPPS RESEARCH INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ENZYME; DEAMINASE; FORMIMINOTETRAHYDROFOLATE CYCLODEAMINASE; UNCLASSIFIED DRUG;

ALPHA HELIX; AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENE; CATALYST; CRYSTAL STRUCTURE; ENZYME ACTIVE SITE; ENZYME ANALYSIS; ENZYME MECHANISM; ENZYME STRUCTURE; GENOME ANALYSIS; ISOELECTRIC POINT; MOLECULAR WEIGHT; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FOLDING; SEQUENCE HOMOLOGY; STEREOCHEMISTRY; STRUCTURE ANALYSIS; TECHNIQUE; THERMOTOGA MARITIMA;

AMINO ACID SEQUENCE; AMMONIA-LYASES; BINDING SITES; CRYSTALLIZATION; CRYSTALLOGRAPHY, X-RAY; ENZYME STABILITY; MODELS, CHEMICAL; MODELS, MOLECULAR; MOLECULAR CONFORMATION; MOLECULAR SEQUENCE DATA; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; THERMOTOGA MARITIMA;

EID: 13944282222     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.20364     Document Type: Article

References (17)

1. Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Barrell D, Bateman A, Binns D, Biswas M, Bradley P, Bork P, Bucher P, Copley RR, Courcelle E, Das U, Durbin R, Falquet L, Fleischmann W, Griffiths-Jones S, Haft D, Harte N, Hulo N, Kahn D, Kanapin A, Krestyaninova M, Lopez R, Letunic I, Lonsdale D, Silventoinen V, Orchard SE, Pagni M, Peyruc D, Ponting CP, Selengut JD, Servant F, Sigrist CJA, Vaughan R, Zdobnov JCM. The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res 2003;31:315-318.
2. Murley LL, MacKenzie RE. The two monofunctional domains of octameric formiminotransferase-cyclodeaminase exist as dimers. Biochemistry 1995;34:10358-10364.
3. Kohls D, Sulea T, Purisima EO, MacKenzie RE, Vrielink A. The crystal structure of the formiminotransferase domain of formimino-transferase- cyclodeaminase: implications for substrate channeling in a bifunctional enzyme. Struct Fold Des 2000;8:35-46.
4. Lesley SA, Kuhn P, Godzik A, Deacon AM, Mathews I, Kreusch A, Spraggon G, Klock HE, McMullan D, Shin T, Vincent J, Robb A, Brinen LS, Miller MD, Miller MA, Scheibe D, Canaves JM, Guda C, Jaroszewski L, Selby TL, Wooley J, Taylor SS, Wilson IA, Schultz PG, Stevens RC. Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline. Proc Natl Acad Sci USA 2002;99:11664-11669.
5. Collaborative Computational Project Number 4. The CCP4 Suite: programs for protein crystallography. Acta Crystallogr D Biol Crystallogr 1994;50:760-763.
6. Tickle IJ, Laskowski RA, Moss DS. Error estimates of protein structure coordinates and deviations from standard geometry by full-matrix refinement of gammaB- and betaB2-crystallin. Acta Crystallogr D Biol Crystallogr 1998;54:243-252.
7. Matthews BW. Solvent content of protein crystals. J Mol Biol 1968;33:491-497.
8. Lovell SC, Davis IW, Arendall WB III, de Bakker PI, Word JM, Prisant MG, Richardson JS, Richardson DC. Structure validation by Calpha geometry: phi,psi and Cbeta deviation. Proteins 2003;50: 437-450.
9. Holm L, Sander C. DALI: A network tool for protein structure comparison. Trends Biochem Sci 1995;20:478-480.
10. Hothorn M, D'Angelo I, Marquez JA, Greiner S, Scheffzek K. The invertase inhibitor Nt-CIF from tobacco: a highly thermostable four-helix bundle with an unusual N-terminal extension. J Mol Biol 2004;335:987-995.
11. Ko TP, Lin JJ, Hu CY, Hsu YH, Wang AH, Liaw SH. Crystal structure of yeast cytosine deaminase: insights into enzyme mechanism and evolution. J Biol Chem 2003;278:19111-19117.
12. Jaroszewski L, Li W, Godzik A. In search for more accurate alignments in the twilight zone. Protein Sci 2002;11:1702-1713.
13. Santarsiero BD, Yegian DT, Lee CC, Spraggon G, Gu J, Scheibe D, Über DC, Cornell EW, Nordmeyer RA, Kolbe WF, Jin J, Jones AL, Jaklevic JM, Schultz PG, Stevens RC. An approach to rapid protein crystallization using nanodroplets. J Appl Crystallogr 2002;35:278-281.
14. Leslie AGW. Recent changes to the MOSFLM package for process-ing film and image plate data. Joint CCP4 + ESF-EAMCB Newsletter on Protein Crystallography 1992;26.
15. Terwilliger TC, Berendzen J. Automated structure solution for MIR and MAD. Acta Crystallogr D Biol Crystallogr 1999;55:849-861.
16. McRee DE. XtalView/Xfit-a versatile program for manipulating atomic coordinates and electron density. J Struct Biol 1999;125: 156-165.
17. Vriend GJ. WHATIF: a molecular modeling and drug design program. Mol Graph 1990;8:52-56.