Packing contacts in orthorhombic and monoclinic crystals of a thermophilic aspartyl-tRNA synthetase favor the hydrophobic regions of the protein

被引:8
作者
Charron, C [1 ]
Sauter, C [1 ]
Zhu, DW [1 ]
Ng, JD [1 ]
Kern, D [1 ]
Lorber, B [1 ]
Giegé, R [1 ]
机构
[1] CNRS, Inst Biol Mol & Cellulaire, UPR 9002, Dept Mecanismes & Macromol Synth Prote & Cristall, F-67084 Strasbourg, France
关键词
crystal engineering; crystal packing; crystal structure; X-ray diffraction; aspartyl-tRNA synthetase; proteins;
D O I
10.1016/S0022-0248(01)01074-0
中图分类号
O7 [晶体学];
学科分类号
0702 ; 070205 ; 0703 ; 080501 ;
摘要
The thermostable aspartyl-tRNA synthetase (AspRS-1) from Thermus thermophilus is a 132 kDa homodimer with a subunit composed of 580 amino acids. It catalyses the aminoacylation of tRNA(Asp) with aspartic acid in the process of translating genetic information. Here we present data on crystals grown in the presence of two different crystallizing agents. A first crystal form (form A) grows in the presence of 0.8 M ammonium sulfate and exhibits the orthorhombic space group P2(1)2(1)2(1). Monoclinic plates (form B) grow in an aqueous solution of 6% (m/v) PEG-8000. In this study, the monoclinic crystal structure (form B) was solved by molecular replacement using the orthorhombic crystal structure as a model and refined to a 2.65 Angstrom resolution limit. The contacts between molecules in both crystalline lattices are compared. Although the overall-accessible surface of the protein is more hydrophilic than average, the packing contacts in both lattices comprise mainly hydrophobic van der Waals interactions and only a few salt bridges and hydrogen bonds. Interaction areas are much larger in the orthorhombic than in the monoclinic lattice, and only 6 contact residues out of 134 are common. (C) 2001 Elsevier Science B.V. All rights reserved.
引用
收藏
页码:376 / 386
页数:11
相关论文
共 35 条
  • [1] Existence of two distinct aspartyl-tRNA synthetases in Thermus thermophilus. Structural and biochemical properties of the two enzymes
    Becker, HD
    Reinbolt, J
    Kreutzer, R
    Giege, R
    Kern, D
    [J]. BIOCHEMISTRY, 1997, 36 (29) : 8785 - 8797
  • [2] Identity of prokaryotic and eukaryotic tRNA(Asp) for aminoacylation by aspartyl-tRNA synthetase from Thermus thermophilus
    Becker, HD
    Giege, R
    Kern, D
    [J]. BIOCHEMISTRY, 1996, 35 (23) : 7447 - 7458
  • [3] Crystallography & NMR system:: A new software suite for macromolecular structure determination
    Brunger, AT
    Adams, PD
    Clore, GM
    DeLano, WL
    Gros, P
    Grosse-Kunstleve, RW
    Jiang, JS
    Kuszewski, J
    Nilges, M
    Pannu, NS
    Read, RJ
    Rice, LM
    Simonson, T
    Warren, GL
    [J]. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 1998, 54 : 905 - 921
  • [4] THE ACTIVE-SITE OF YEAST ASPARTYL-TRANSFER-RNA SYNTHETASE - STRUCTURAL AND FUNCTIONAL-ASPECTS OF THE AMINOACYLATION REACTION
    CAVARELLI, J
    ERIANI, G
    REES, B
    RUFF, M
    BOEGLIN, M
    MITSCHLER, A
    MARTIN, F
    GANGLOFF, J
    THIERRY, JC
    MORAS, D
    [J]. EMBO JOURNAL, 1994, 13 (02) : 327 - 337
  • [5] Crystal growth and crystallography
    Chernov, AA
    [J]. ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES, 1998, 54 : 859 - 872
  • [6] CRYSTAL PACKING IN 6 CRYSTAL FORMS OF PANCREATIC RIBONUCLEASE
    CROSIO, MP
    JANIN, J
    JULLIEN, M
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 1992, 228 (01) : 243 - 251
  • [7] CRYSTAL-STRUCTURE OF A PROKARYOTIC ASPARTYL TRANSFER-RNA-SYNTHETASE
    DELARUE, M
    POTERSZMAN, A
    NIKONOV, S
    GARBER, M
    MORAS, D
    THIERRY, JC
    [J]. EMBO JOURNAL, 1994, 13 (14) : 3219 - 3229
  • [8] DUCRUIX A, 1999, CRYSTALLIZATION NUCL, P435
  • [9] PARTITION OF TRANSFER-RNA SYNTHETASES INTO 2 CLASSES BASED ON MUTUALLY EXCLUSIVE SETS OF SEQUENCE MOTIFS
    ERIANI, G
    DELARUE, M
    POCH, O
    GANGLOFF, J
    MORAS, D
    [J]. NATURE, 1990, 347 (6289) : 203 - 206
  • [10] Crystallogenesis of biological macromolecules. Biological, microgravity and other physicochemical aspects
    Giege, R
    Drenth, J
    Ducruix, A
    McPherson, A
    Saenger, W
    [J]. PROGRESS IN CRYSTAL GROWTH AND CHARACTERIZATION OF MATERIALS, 1995, 30 (04) : 237 - 281