ISDA: 1D3A

Deposition Date 1999-09-28

Release Date 2000-03-20

Last Version Date 2024-02-07

Entry Detail

PDB ID:

1D3A

Keywords:

OXIDOREDUCTASE

Title:

CRYSTAL STRUCTURE OF THE WILD TYPE HALOPHILIC MALATE DEHYDROGENASE IN THE APO FORM

Biological Source:

Source Organism(s):

Haloarcula marismortui (Taxon ID: 2238)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.94 Å

R-Value Free:

0.24

R-Value Work:

0.20

Space Group:

C 2 2 21

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:HALOPHILIC MALATE DEHYDROGENASE
Gene (Uniprot):mdh
Chain IDs:A, B
Chain Length:303
Number of Molecules:2
Biological Source:Haloarcula marismortui

UniProt ID:Q07841 Pfam ID:PF00056, PF02866 EC:1.1.1.37

Ligand Molecules

Primary Citation

Halophilic adaptation: novel solvent protein interactions observed in the 2.9 and 2.6 A resolution structures of the wild type and a mutant of malate dehydrogenase from Haloarcula marismortui.

Richard, S.B, Madern, D, Garcin, E, Zaccai, G, Richard, S.B, Bonnete, F, Dym, O, Zaccai, G, Dym, O, Mevarech, M, Sussman, J.L, Madern, D, Pfister, C, Zaccai, G, Cendrin, F, Chroboczek, J, Zaccai, G, Eisenberg, H, Mevarech, M.Show

Biochemistry 39 992 1000 (2000)

PMID: 10653643 DOI: 10.1021/bi991001a

Abstact

Previous biophysical studies of tetrameric malate dehydrogenase from the halophilic archaeon Haloarcula marismortui (Hm MalDH) have revealed the importance of protein-solvent interactions for its adaptation to molar salt conditions that strongly affect protein solubility, stability, and activity, in general. The structures of the E267R stability mutant of apo (-NADH) Hm MalDH determined to 2.6 A resolution and of apo (-NADH) wild type Hm MalDH determined to 2.9 A resolution, presented here, highlight a variety of novel protein-solvent features involved in halophilic adaptation. The tetramer appears to be stabilized by ordered water molecule networks and intersubunit complex salt bridges "locked" in by bound solvent chloride and sodium ions. The E267R mutation points into a central ordered water cavity, disrupting protein-solvent interactions. The analysis of the crystal structures showed that halophilic adaptation is not aimed uniquely at "protecting" the enzyme from the extreme salt conditions, as may have been expected, but, on the contrary, consists of mechanisms that harness the high ionic concentration in the environment.

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Primary Citation of related structures

Abstact

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