THE CRYSTAL-STRUCTURE OF THE OPEN AND THE CLOSED CONFORMATION OF THE FLEXIBLE LOOP OF TRYPANOSOMAL TRIOSEPHOSPHATE ISOMERASE

RK WIERENGA*, MEM NOBLE, JPM POSTMA, H GROENDIJK, KH KALK, WGJ HOL, FR OPPERDOES

*Corresponding author for this work

    Research output: Contribution to journalArticleAcademicpeer-review

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    Abstract

    Triosephosphate isomerase has an important loop near the active site which can exist in a "closed" and in an "open" conformation. Here we describe the structural properties of this "flexible" loop observed in two different structures of trypanosomal triosephosphate isomerase. Trypanosomal triosephosphate isomerase, crystallized in the presence of 2.4 M ammonium sulfate, packs as an asymmetric dimer of 54,000 Da in the crystallographic asymmetric unit. Due to different crystal contacts, peptide 167-180 (the flexible loop of subunit-1) is an open conformation, whereas in subunit-2, this peptide (residues 467-480) is in a closed conformation. In the closed conformation, a hydrogen bond exists between the tip of the loop and a well-defined sulfate ion which is bound to the active site of subunit-2. Such an active site sulfate is not present in subunit-1 due to crystal contacts. When the native (2.4 M ammonium sulfate) crystals are transferred to a sulfate-free mother liquor, the flexible loop of subunit-2 adopts the open conformation. From a closed starting model, this open conformation was discovered through molecular dynamics refinement without manual intervention, despite involving C-alpha shifts of up to 7 angstrom. The tip of the loop, residues 472, 473, 474, and 475, moves as a rigid body. Our analysis shows that in this crystal form the flexible loop of subunit-2 faces a solvent channel. Therefore the open and the closed conformations of this flexible loop are virtually unaffected by crystal contacts. The actual observed conformation depends only on the absence or presence of a suitable ligand in the active site.

    Original languageEnglish
    Pages (from-to)33-49
    Number of pages17
    JournalProteins-Structure Function and Bioinformatics
    Volume10
    Issue number1
    Publication statusPublished - 1991

    Keywords

    • TIM
    • MOLECULAR DYNAMICS REFINEMENT
    • LOOP MOVEMENT
    • CONFORMATIONAL CHANGE
    • CRYSTAL CONTACTS
    • SLEEPING SICKNESS
    • SURAMINE
    • TRIOSE PHOSPHATE ISOMERASE
    • MOLECULAR-DYNAMICS
    • CRYSTALLOGRAPHIC REFINEMENT
    • MACROMOLECULAR STRUCTURES
    • COMPUTER-GRAPHICS
    • BRUCEI-BRUCEI
    • RESOLUTION
    • ENZYME
    • CATALYSIS

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