4KDV

Crystal structure of a bacterial immunoglobulin-like domain from the M. primoryensis ice-binding adhesin

4KDV の概要

• エントリーDOI: 10.2210/pdb4kdv/pdb
• 関連するPDBエントリー: 3P4G 4KDW
• 分子名称: Antifreeze protein, CALCIUM ION (3 entities in total)
• 機能のキーワード: bacterial immunoglobulin-like beta-sandwich, extender domain, ca2+ -dependent, outer membrane (cell surface), adhesion protein., cell adhesion
• 由来する生物種: Marinomonas primoryensis
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 12337.02

構造登録者

Guo, S.,Garnham, C.P.,Karunan, S.P.,Campbell, R.L.,Allingham, J.S.,Davies, P.L. (登録日: 2013-04-25, 公開日: 2013-10-02, 最終更新日: 2024-02-28)

主引用文献

Guo, S.,Garnham, C.P.,Karunan Partha, S.,Campbell, R.L.,Allingham, J.S.,Davies, P.L.
Role of Ca(2+) in folding the tandem beta-sandwich extender domains of a bacterial ice-binding adhesin.
Febs J., 280:5919-5932, 2013

PubMed Abstract: A Ca(2+) -dependent 1.5-MDa antifreeze protein present in an Antarctic Gram-negative bacterium, Marinomonas primoryensis (MpAFP), has recently been reassessed as an ice-binding adhesin. The non-ice-binding region II (RII), one of five distinct domains in MpAFP, constitutes ~ 90% of the protein. RII consists of ~ 120 tandem copies of an identical 104-residue sequence. We used the Protein Homology/analogy Recognition Engine server to define the boundaries of a single 104-residue RII construct (RII monomer). CD demonstrated that Ca(2+) is required for RII monomer folding, and that the monomer is fully structured at a Ca(2+) /protein molar ratio of 10 : 1. The crystal structure of the RII monomer was solved to a resolution of 1.35 Å by single-wavelength anomalous dispersion and molecular replacement methods with Ca(2+) as the heavy atom to obtain phase information. The RII monomer folds as a Ca(2+) -bound immunoglobulin-like β-sandwich. Ca(2+) ions are coordinated at the interfaces between each RII monomer and its symmetry-related molecules, suggesting that these ions may be involved in the stabilization of the tandemly repeated RII. We hypothesize that > 600 Ca(2+) ions help to rigidify the chain of 104-residue repeats in order to project the ice-binding domain of MpAFP away from the bacterial cell surface. The proposed role of RII is to help the strictly aerobic bacterium bind surface ice in an Antarctic lake for better access to oxygen and nutrients. This work may give insights into other bacterial proteins that resemble MpAFP, especially those of the large repeats-in-toxin family that have been characterized as adhesins exported via the type I secretion pathway.

PubMed: 24024640
DOI: 10.1111/febs.12518

実験手法

X-RAY DIFFRACTION (2.42 Å)