[ASAP] Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily

		BioNMR > Educational resources > Journal club
[ASAP] Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily

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

07-29-2020, 05:17 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,191

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

[ASAP] Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily

[ASAP] Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily

Biochemistry
DOI: 10.1021/acs.biochem.0c00515

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[ASAP] Structure and Catalytic Characterization of a Second Framework Al(IV) Site in Zeolite Catalysts Revealed by NMR at 35.2 T Structure and Catalytic Characterization of a Second Framework Al(IV) Site in Zeolite Catalysts Revealed by NMR at 35.2 T Kuizhi Chen†, Sarah Horstmeier‡, Vy. T. Nguyen?, Bin Wang?, Steven P. Crossley?, Tram Pham?, Zhehong Gan†, Ivan Hung†, and Jeffery L. White§ https://pubs.acs.org/na101/home/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/jacs.0c00590/20200413/images/medium/ja0c00590_0007.gif Journal of the American Chemical Society DOI: 10.1021/jacs.0c00590 http://feeds.feedburner.com/~r/acs/jacsat/~4/t3FuVeVyDZo	nmrlearner	Journal club	0	04-20-2020 05:10 PM
[ASAP] Comparative Analysis of CPI-Motif Regulation of Biochemical Functions of Actin Capping Protein Comparative Analysis of CPI-Motif Regulation of Biochemical Functions of Actin Capping Protein https://pubs.acs.org/na101/home/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.0c00092/20200310/images/medium/bi0c00092_0014.gif Biochemistry DOI: 10.1021/acs.biochem.0c00092 http://feeds.feedburner.com/~r/acs/bichaw/~4/-PoKJ0KXLq0 More...	nmrlearner	Journal club	0	03-16-2020 04:59 PM
[ASAP] Evaluation of Maltose Binding Protein-Tagged hATR Kinase Domain Catalytic Activity with p53 Ser-15 Phosphorylation Evaluation of Maltose Binding Protein-Tagged hATR Kinase Domain Catalytic Activity with p53 Ser-15 Phosphorylation https://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.8b00845/20181112/images/medium/bi-2018-00845m_0010.gif Biochemistry DOI: 10.1021/acs.biochem.8b00845 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/Tq4UYmY00_M More...	nmrlearner	Journal club	0	11-25-2018 06:02 AM
[NMR paper] Universality of Sodium Ion Binding Mechanism in Class A G-Protein-Coupled Receptors Universality of Sodium Ion Binding Mechanism in Class A G-Protein-Coupled Receptors The allosteric modulation of GPCRs by sodium (Na+) ions has drawn significant attention due to the availability of crystal structures of several receptors showing Na+ ions bound to the inactive conformations at the conserved Asp2.50. To date, structures from 24 families of GPCRs have been determined, though mechanistic insights into Na+ binding to the allosteric site are limited. We performed 100's of ?s long simulations of 15 GPCRs and elucidated their Na+ binding mechanism. In class A GPCRs, Na+ ion...	nmrlearner	Journal club	0	02-06-2018 07:42 PM
Selenoglutathione Diselenide: Unique Redox Reactionsin the GPx-Like Catalytic Cycle and Repairing of Disulfide Bonds inScrambled Protein Selenoglutathione Diselenide: Unique Redox Reactionsin the GPx-Like Catalytic Cycle and Repairing of Disulfide Bonds inScrambled Protein http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.7b00751/20171012/images/medium/bi-2017-00751x_0011.gif Biochemistry DOI: 10.1021/acs.biochem.7b00751 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/-9PJRYOwVz8 More...	nmrlearner	Journal club	0	10-13-2017 06:49 AM
Identification of a Conserved Histidine As Being Criticalfor the Catalytic Mechanism and Functional Switching of the MultifunctionalProline Utilization A Protein Identification of a Conserved Histidine As Being Criticalfor the Catalytic Mechanism and Functional Switching of the MultifunctionalProline Utilization A Protein http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.7b00046/20170608/images/medium/bi-2017-00046v_0008.gif Biochemistry DOI: 10.1021/acs.biochem.7b00046 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/QaVnb-Q_-nk More...	nmrlearner	Journal club	0	06-09-2017 09:13 AM
?-Hydroxyacyl-acyl Carrier Protein Dehydratase(FabZ) from Francisella tularensis and Yersinia pestis: Structure Determination, Enzymatic Characterization, and Cross-InhibitionStudies ?-Hydroxyacyl-acyl Carrier Protein Dehydratase(FabZ) from Francisella tularensis and Yersinia pestis: Structure Determination, Enzymatic Characterization, and Cross-InhibitionStudies http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.5b00832/20160209/images/medium/bi-2015-00832x_0011.gif Biochemistry DOI: 10.1021/acs.biochem.5b00832 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/oG_5lGFlSWI More...	nmrlearner	Journal club	0	02-10-2016 08:05 AM
[NMR paper] Design, synthesis, structural characterization by IR, (1) H, (13) C, (15) N, 2D-NMR, X-ray diffraction and evaluation of a new class of phenylaminoacetic acid benzylidene hydrazines as pfENR inhibitors. Design, synthesis, structural characterization by IR, (1) H, (13) C, (15) N, 2D-NMR, X-ray diffraction and evaluation of a new class of phenylaminoacetic acid benzylidene hydrazines as pfENR inhibitors. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--media.wiley.com-assets-2250-98-WileyOnlineLibrary-Button_120x27px_FullText.gif Related Articles Design, synthesis, structural characterization by IR, (1) H, (13) C, (15) N, 2D-NMR, X-ray diffraction and evaluation of a new class of phenylaminoacetic acid benzylidene hydrazines as pfENR inhibitors. ...	nmrlearner	Journal club	0	01-04-2014 01:39 AM

« 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