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Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis

Background and Objective: A 22 kDa FK506-binding protein from a psychrophilic bacterium Shewanella sp. SIB1 (SIB1 FKBP22) is a member of peptidyl prolyl cis-trans isomerase (PPIase). This protein is homodimer with a V-shaped form, consisting of N and C-domains, that are connected through a long α-he...

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Main Authors: Cahyo Budiman, Clement Anglawidjadja, Shigenori Kanaya
Format: Article
Language:English
English
Published: ANSInet 2016
Online Access:https://eprints.ums.edu.my/id/eprint/19164/1/Crystallizability%20of%20an%20engineered%20monomeric%20mutant%20of%20FK506.pdf
https://eprints.ums.edu.my/id/eprint/19164/7/Crystallizability%20of%20an%20Engineered%20Monomeric%20Mutant%20of.pdf
https://eprints.ums.edu.my/id/eprint/19164/
http://dx.doi.org/10.3923/jbs.2016.141.147
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spelling my.ums.eprints.191642020-12-18T03:51:44Z https://eprints.ums.edu.my/id/eprint/19164/ Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis Cahyo Budiman Clement Anglawidjadja Shigenori Kanaya Background and Objective: A 22 kDa FK506-binding protein from a psychrophilic bacterium Shewanella sp. SIB1 (SIB1 FKBP22) is a member of peptidyl prolyl cis-trans isomerase (PPIase). This protein is homodimer with a V-shaped form, consisting of N and C-domains, that are connected through a long α-helix, responsible for dimerization and PPIase activity, respectively. Understanding on structural mechanisms behind the function of SIB1 FKBP22 is limited by unsuccessful attempts on crystallization of the full length SIB1 FKBP22 homodimer due to its flexibility and low stability. Despite the isolated N-domain, with the absence of α-helix and C-domain was successfully crystallized and structurally solved, the comprehensive structural arrangement of SIB1 FKBP22 remains missing. The objective of this study is to construct a crystallizable SIB1 FKBP22 derivatives consisting of N and C-domains with its α-helix that reflect full length of SIB1 FKBP22 and a platform for comprehensive structural analysis. Materials and Methods: A monomeric mutant of SIB1 FKBP22 was constructed by combining two gene fragments encoding Met 8-Ile 205 and Met 1-Ala 60 of the first and second monomer of SIB1 FKBP22, respectively, with three glycine residues. This design yielded the mutant has tandemly repeated N-domain connected to C-domain through a long α-helix hence designated as NNC-FKBP22. Results: The NNC-FKBP22 was monomeric in solution implying that it did not form a V-shaped dimeric structure. The crystallization of NNC-FKBP22 was attempted under sitting-drop vapor diffusion. The crystals were obtained under 1.0 M sodium citrate with 10 mM CHES/sodium hydroxide at pH 9.5. The crystal was in the space group of P212121 with unit cell dimension a = 94.635, b = 92.479 and c = 337.327 Å. A complete native data was collected from a rotating anode source to a resolution of 3.5 Å at 100 K with an Rmerge value of 25.50. Conclusion: The NNC-FKBP22 was successfully crystallized implying that stabilization of SIB1 FKBP22 under protein engineering platform is promising approach to decipher its atomic structure. Protein engineering technique used in this study would also be applicable for other cold-adapted proteins with high structural flexibility and low stability. ANSInet 2016 Article PeerReviewed text en https://eprints.ums.edu.my/id/eprint/19164/1/Crystallizability%20of%20an%20engineered%20monomeric%20mutant%20of%20FK506.pdf text en https://eprints.ums.edu.my/id/eprint/19164/7/Crystallizability%20of%20an%20Engineered%20Monomeric%20Mutant%20of.pdf Cahyo Budiman and Clement Anglawidjadja and Shigenori Kanaya (2016) Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis. Journal of Biological Sciences, 16 (4). pp. 141-147. ISSN 1727-3048 http://dx.doi.org/10.3923/jbs.2016.141.147
institution Universiti Malaysia Sabah
building UMS Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaysia Sabah
content_source UMS Institutional Repository
url_provider http://eprints.ums.edu.my/
language English
English
description Background and Objective: A 22 kDa FK506-binding protein from a psychrophilic bacterium Shewanella sp. SIB1 (SIB1 FKBP22) is a member of peptidyl prolyl cis-trans isomerase (PPIase). This protein is homodimer with a V-shaped form, consisting of N and C-domains, that are connected through a long α-helix, responsible for dimerization and PPIase activity, respectively. Understanding on structural mechanisms behind the function of SIB1 FKBP22 is limited by unsuccessful attempts on crystallization of the full length SIB1 FKBP22 homodimer due to its flexibility and low stability. Despite the isolated N-domain, with the absence of α-helix and C-domain was successfully crystallized and structurally solved, the comprehensive structural arrangement of SIB1 FKBP22 remains missing. The objective of this study is to construct a crystallizable SIB1 FKBP22 derivatives consisting of N and C-domains with its α-helix that reflect full length of SIB1 FKBP22 and a platform for comprehensive structural analysis. Materials and Methods: A monomeric mutant of SIB1 FKBP22 was constructed by combining two gene fragments encoding Met 8-Ile 205 and Met 1-Ala 60 of the first and second monomer of SIB1 FKBP22, respectively, with three glycine residues. This design yielded the mutant has tandemly repeated N-domain connected to C-domain through a long α-helix hence designated as NNC-FKBP22. Results: The NNC-FKBP22 was monomeric in solution implying that it did not form a V-shaped dimeric structure. The crystallization of NNC-FKBP22 was attempted under sitting-drop vapor diffusion. The crystals were obtained under 1.0 M sodium citrate with 10 mM CHES/sodium hydroxide at pH 9.5. The crystal was in the space group of P212121 with unit cell dimension a = 94.635, b = 92.479 and c = 337.327 Å. A complete native data was collected from a rotating anode source to a resolution of 3.5 Å at 100 K with an Rmerge value of 25.50. Conclusion: The NNC-FKBP22 was successfully crystallized implying that stabilization of SIB1 FKBP22 under protein engineering platform is promising approach to decipher its atomic structure. Protein engineering technique used in this study would also be applicable for other cold-adapted proteins with high structural flexibility and low stability.
format Article
author Cahyo Budiman
Clement Anglawidjadja
Shigenori Kanaya
spellingShingle Cahyo Budiman
Clement Anglawidjadja
Shigenori Kanaya
Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis
author_facet Cahyo Budiman
Clement Anglawidjadja
Shigenori Kanaya
author_sort Cahyo Budiman
title Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis
title_short Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis
title_full Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis
title_fullStr Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis
title_full_unstemmed Crystallizability of an engineered monomeric mutant of FK506-binding protein from Shewanella sp. SIB1: preliminary diffraction data analysis
title_sort crystallizability of an engineered monomeric mutant of fk506-binding protein from shewanella sp. sib1: preliminary diffraction data analysis
publisher ANSInet
publishDate 2016
url https://eprints.ums.edu.my/id/eprint/19164/1/Crystallizability%20of%20an%20engineered%20monomeric%20mutant%20of%20FK506.pdf
https://eprints.ums.edu.my/id/eprint/19164/7/Crystallizability%20of%20an%20Engineered%20Monomeric%20Mutant%20of.pdf
https://eprints.ums.edu.my/id/eprint/19164/
http://dx.doi.org/10.3923/jbs.2016.141.147
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score 13.211869

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