Conserved protein YecM from Escherichia coli shows structural homology to metal-binding isomerases and oxygenases

Proteins: Structure, Function and Genetics

Volumn 51, Issue 2, 2003, Pages 311-314

  Zhang, Rong Guang ^a   Duke, Norma ^a   Laskowski, Roman ^b   Evdokimova, Elena ^c   Skarina, Tatiana ^c   Edwards, Aled ^c,d   Joachimiak, Andrzej ^a   Savchenko, Alexei ^c  

^a ARGONNE NATIONAL LABORATORY   (United States)

^b UNIVERSITY OF LONDON   (United Kingdom)

^c UNIVERSITY HEALTH NETWORK   (Canada)

^d UNIVERSITY OF TORONTO   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; ISOMERASE; OXYGENASE; PROTEIN YECM; UNCLASSIFIED DRUG;

ARTICLE; CRYSTALLIZATION; ESCHERICHIA COLI; METAL BINDING; MOLECULAR CLONING; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN PURIFICATION; STRUCTURAL HOMOLOGY;

AMINO ACID SEQUENCE; CARRIER PROTEINS; CLONING, MOLECULAR; CONSERVED SEQUENCE; CRYSTALLIZATION; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; ISOMERASES; METALS; MOLECULAR SEQUENCE DATA; OXYGENASES; PROTEIN STRUCTURE, SECONDARY; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; X-RAY DIFFRACTION;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0037403053     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.10307     Document Type: Article

References (13)

1. The YecM coordinates have been submitted to the Protein Data Bank, entry 1K4N. Sequence information may also be found under Swiss Protein Databank acquisition number: P52007. A fourresidue cloning tag (Gly-His-Met-Ile) has been added to the beginning of sequence P52007; in addition, the final two residues (Ser-Ala) are absent.
2. Pearson WR, Lipman DJ. Improved tools for biological sequence comparison. Proc Natl Acad Sci USA 1988;85:2444-2448.
3. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994;22:4673-4680.
4. Zhang Rg, Skarina T, Katz JE, Beasley S, Khachatryan A, Vyas S, Arrowsmith CH, Clarke S, Edwards A, Joachimiak A, Savchenko A. Structure of Thermotoga maritima SurE - stationary phase survival protein - a novel acid phosphatase, Structure 2001;9: 1095-1106.
5. Holm L, Sander C. Protein structure comparison by alignment of distance matrices. J Mol Biol 1993;233:123-138.
6. MaCarthy AA, Baker HM, Sherwy SC, Patchett ML, Baker EN. Crystal structure of methylmalonyl-coenzyme A epimerase from P. shermanii; a novel enzymatic function on an ancient metal binding scaffold. PBD acquisition number: 1JC4. Structure 2001;9: 637-646.
7. Kita A, Kita S, Fujisawa I, Inaka K, Ishida T, Horiike K, Nozaki M, Miki K. An archetypical extradiol-cleaving catecholic dioxygenase; the crystal structure of catechol 2,3-dioxygenase (metapyrocatechase) from Pseudomonas putida mt-2. PDB acquisition number: 1MPY. Structure 1994;7:25-34.
8. Serre L, Sailland A, Sy D, Boudec P, Rolland A, Pebay-Peyroula E, Cohen-Addad C. Crystal structure of Pseudomonas fluorescens 4-hydroyphenylpyruvate dioxygenase: an enzyme involved in the tyrosine degradation pathway. PDB acquisition number: 1CJX. Structure 1999;7:977-988.
9. Han S, Eltis LD, Timmis KN, Muchmore SW, Bolin JT. Crystal structure of the biphenyl-cleaving extradiol dioxygenase from a PCB-degrading pseudomonad. PDB acquisition number: 1HAN. Science 1995;270:976-980.
10. Cameron AD, Ridderstrom M, Olin B, Kavarana MJ, Creighton DJ, Mannervik B. Reaction mechanism of glyoxalase I explored by an X-ray crystallographic analysis of the human enzyme in complex with a transition state analogue. PDB acquisition number: 1QIP, Biochemistry 1999;38:13480-13490.
11. Bard J, Zhelkovsky AM, Helmling S, Earnest TN, Moor CL, Bohm A. Structure of yeast poly(A) polymerase alone and in complex with 3′-dATP. PDB adquisition number: 1FA0. Science 2000;289: 1346-1349.
12. Maruyama M, Kumagai T, Matoba Y, Hayashida M, Fujii T, Hata Y, Sugiyama M. Crystal structures of the transposon Tn5-carried bleomycin resistance determinant uncomplexed and complexed with bleomycin. PDB acquisition number: 1ECS. J Biol Chem 2001;276:9992-9999.
13. WebLab ViewerPro, Accelerys, 2001