NMR paper 1H, 13C and 15N NMR assignments of cyclophilin LRT2 (OsCYP2) from rice.

		BioNMR > Educational resources > Journal club
[NMR paper] 1H, 13C and 15N NMR assignments of cyclophilin LRT2 (OsCYP2) from rice.

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

Torsion angles from chemical shifts:

Preditor

TALOS

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

TALOS

MICS caps, β-turns

d2D

PECAN

Flexibility from chemical shifts:

RCI

Interactions from chemical shifts:

HADDOCK

Chemical shifts re-referencing:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

Quality Control Check

NMR spectrum prediction:

FANDAS

MestReS

V-NMR

Flexibility from structure:

Backbone S2

Methyl S2

B-factor

Molecular dynamics:

Gromacs

Amber

Antechamber

Chemical shifts prediction:

From structure:

Shiftx2

Sparta+

Camshift

CH3shift- Methyl

ArShift- Aromatic

ShiftS

Proshift

PPM

CheShift-2- Cα

From sequence:

Shifty

Camcoil

Poulsen_rc_CS

Disordered proteins:

MAXOCC

Format conversion & validation:

CCPN

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

DisMeta

Protein solubility:

Isotope labeling:

Solid-state NMR:

View First Unread

Thread Tools

Search this Thread

Rate Thread

Display Modes

01-22-2018, 01:16 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,174

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

1H, 13C and 15N NMR assignments of cyclophilin LRT2 (OsCYP2) from rice.

1H, 13C and 15N NMR assignments of cyclophilin LRT2 (OsCYP2) from rice.

1H, 13C and 15N NMR assignments of cyclophilin LRT2 (OsCYP2) from rice.

Biomol NMR Assign. 2018 Jan 20;:

Authors: Acevedo LA, Nicholson LK

Abstract
Cyclophilins are enzymes that catalyze the isomerization of a prolyl-peptide bond and are found in both prokaryotes and eukaryotes. LRT2 (also known as OsCYP2) is a cyclophilin in rice (Oryza sativa), that has importance in lateral root development and stress tolerance. LRT2 is 172 amino acids long and has a molecular weight of 18.3*kDa. Here, we report the backbone and sidechain resonance assignments of 1H, 13C, 15N in the LRT2 protein using several 2D and 3D heteronuclear NMR experiments at pH 6.7 and 298*K. Our chemical shift data analysis predicts a secondary structure like the cytosolic wheat cyclophilin TaCypA-1 with 87.7% sequence identity. These assignments will be useful for further analysis in the NMR studies for function and structure of this enzyme.

PMID: 29353448 [PubMed - as supplied by publisher]

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] NMR assignments of mitochondrial cyclophilin Cpr3 from Saccharomyces cerevisiae. NMR assignments of mitochondrial cyclophilin Cpr3 from Saccharomyces cerevisiae. NMR assignments of mitochondrial cyclophilin Cpr3 from Saccharomyces cerevisiae. Biomol NMR Assign. 2016 Feb 20; Authors: Shukla VK, Singh JS, Trivedi D, Hosur RV, Kumar A Abstract Cyclophilins regulate protein folding, transport and signalling through catalysis of proline isomerization, and are ubiquitously expressed in both prokaryotes and eukaryotes. Cpr3 is the yeast mitochondrial cyclophilin and it is structurally and biophysically...	nmrlearner	Journal club	0	02-22-2016 12:44 PM
[NMR paper] The retrogradation properties of glutinous rice and buckwheat starches as observed with FT-IR, (13)C NMR and DSC. The retrogradation properties of glutinous rice and buckwheat starches as observed with FT-IR, (13)C NMR and DSC. Related Articles The retrogradation properties of glutinous rice and buckwheat starches as observed with FT-IR, (13)C NMR and DSC. Int J Biol Macromol. 2013 Dec 17; Authors: Xijun L, Changjun W, Kunsheng Z, Lin L Abstract The experiment was conducted to study the retrogradation properties of glutinous rice and buckwheat starch with wavelengths of maximum absorbance, FT-IR, (13)C NMR, and DSC. The results show that the starches...	nmrlearner	Journal club	0	12-24-2013 01:04 PM
[NMR paper] Comparison of GC-MS and NMR for metabolite profiling of rice subjected to submergence stress. Comparison of GC-MS and NMR for metabolite profiling of rice subjected to submergence stress. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-pubmed-acspubs.jpg Related Articles Comparison of GC-MS and NMR for metabolite profiling of rice subjected to submergence stress. J Proteome Res. 2013 Feb 1;12(2):898-909 Authors: Barding GA, Béni S, Fukao T, Bailey-Serres J, Larive CK Abstract Natural disasters such as drought, extreme temperatures, and flooding can severely impact crop production....	nmrlearner	Journal club	0	07-06-2013 09:57 PM
NMR assignments of ubiquitin fold domain (UFD) in SUMO-activating enzyme subunit 2 from rice. NMR assignments of ubiquitin fold domain (UFD) in SUMO-activating enzyme subunit 2 from rice. NMR assignments of ubiquitin fold domain (UFD) in SUMO-activating enzyme subunit 2 from rice. Biomol NMR Assign. 2011 Apr 27; Authors: Suzuki R, Tsuchiya W, Shindo H, Yamazaki T The small ubiquitin-related modifier (SUMO) is a ubiquitin-like post-translational modifier that alters the localization, activity, or stability of many proteins. In the sumoylation process, an activated SUMO is transferred from SUMO-activating enzyme E1 complex (SAE1/SAE2) to...	nmrlearner	Journal club	0	04-28-2011 03:12 PM
[NMR paper] The NMR solution conformation of unligated human cyclophilin A. The NMR solution conformation of unligated human cyclophilin A. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles The NMR solution conformation of unligated human cyclophilin A. J Mol Biol. 1997 Sep 12;272(1):64-81 Authors: Ottiger M, Zerbe O, GÃ¼ntert P, WÃ¼thrich K The nuclear magnetic resonance (NMR) solution structure of free, unligated cyclophilin A (CypA), which is an 18 kDa protein from human T-lymphocytes that was expressed in Escherichia coli for the present...	nmrlearner	Journal club	0	08-22-2010 05:08 PM
[NMR paper] The NMR structure of cyclosporin A bound to cyclophilin in aqueous solution. The NMR structure of cyclosporin A bound to cyclophilin in aqueous solution. Related Articles The NMR structure of cyclosporin A bound to cyclophilin in aqueous solution. Biochemistry. 1991 Jul 2;30(26):6563-74 Authors: Weber C, Wider G, von Freyberg B, Traber R, Braun W, Widmer H, WÃ¼thrich K Cyclosporin A bound to the presumed receptor protein cyclophilin was studied in aqueous solution at pH 6.0 by nuclear magnetic resonance spectroscopy using uniform 15N- or 13C-labeling of cyclosporin A and heteronuclear spectral editing techniques....	nmrlearner	Journal club	0	08-21-2010 11:12 PM
[NMR paper] The NMR structure of cyclosporin A bound to cyclophilin in aqueous solution. The NMR structure of cyclosporin A bound to cyclophilin in aqueous solution. Related Articles The NMR structure of cyclosporin A bound to cyclophilin in aqueous solution. Biochemistry. 1991 Jul 2;30(26):6563-74 Authors: Weber C, Wider G, von Freyberg B, Traber R, Braun W, Widmer H, WÃ¼thrich K Cyclosporin A bound to the presumed receptor protein cyclophilin was studied in aqueous solution at pH 6.0 by nuclear magnetic resonance spectroscopy using uniform 15N- or 13C-labeling of cyclosporin A and heteronuclear spectral editing techniques....	nmrlearner	Journal club	0	08-21-2010 11:12 PM
[NMR paper] 1H NMR studies on bovine cyclophilin: preliminary structural characterization of its 1H NMR studies on bovine cyclophilin: preliminary structural characterization of its complex with cyclosporin A. Related Articles 1H NMR studies on bovine cyclophilin: preliminary structural characterization of its complex with cyclosporin A. Biochemistry. 1990 May 8;29(18):4466-78 Authors: Heald SL, Harding MW, Handschumacher RE, Armitage IM Cyclophilin (163 residues, Mr 17737), a peptidyl prolyl cis-trans isomerase, is a cytosolic protein that specifically binds the potent immunosuppressant cyclosporin A (CsA). The native form of the major...	nmrlearner	Journal club	0	08-21-2010 10:48 PM

« Previous Thread | Next Thread »

Posting Rules
You may not post new threads You may not post replies You may not post attachments You may not edit your posts BB code is On Smilies are On [IMG] code is On HTML code is On Trackbacks are Off Pingbacks are Off Refbacks are Off