Using Tryptophan Mutants To Probe the Structural andFunctional Status of BsSCO, a Copper Binding, Cytochrome c Oxidase Assembly Protein from Bacillus subtilis

		BioNMR > Educational resources > Journal club
Using Tryptophan Mutants To Probe the Structural andFunctional Status of BsSCO, a Copper Binding, Cytochrome c Oxidase Assembly Protein from Bacillus subtilis

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:

Thread Tools

Search this Thread

Rate Thread

Display Modes

11-20-2017, 02:16 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,734

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

Using Tryptophan Mutants To Probe the Structural andFunctional Status of BsSCO, a Copper Binding, Cytochrome c Oxidase Assembly Protein from Bacillus subtilis

Using Tryptophan Mutants To Probe the Structural andFunctional Status of BsSCO, a Copper Binding, Cytochrome c Oxidase Assembly Protein from Bacillus subtilis

Biochemistry
DOI: 10.1021/acs.biochem.7b00833

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
NMR basis for interprotein electron transfer gating between cytochrome c and cytochrome c oxidase [Biochemistry] NMR basis for interprotein electron transfer gating between cytochrome c and cytochrome c oxidase Sakamoto, K., Kamiya, M., Imai, M., Shinzawa-Itoh, K., Uchida, T., Kawano, K., Yoshikawa, S., Ishimori, K.... Date: 2011-07-26 The final interprotein electron transfer (ET) in the mammalian respiratory chain, from cytochrome c (Cyt c) to cytochrome c oxidase (CcO) is investigated by 1H-15N heteronuclear single quantum coherence spectral analysis. The chemical shift perturbation in isotope-labeled Cyt c induced by addition of unlabeled CcO indicates that the hydrophobic heme periphery and...	nmrlearner	Journal club	0	07-26-2011 11:22 PM
[NMR paper] NMR assignment of new thioredoxin-like protein YkuV from Bacillus subtilis. NMR assignment of new thioredoxin-like protein YkuV from Bacillus subtilis. Related Articles NMR assignment of new thioredoxin-like protein YkuV from Bacillus subtilis. J Biomol NMR. 2005 Jul;32(3):258 Authors: Zhang X, Yu C, Xia B, Jin C	nmrlearner	Journal club	0	12-01-2010 06:56 PM
[NMR paper] Interaction of the replication terminator protein of Bacillus subtilis with DNA probed by NMR spectroscopy. Interaction of the replication terminator protein of Bacillus subtilis with DNA probed by NMR spectroscopy. Related Articles Interaction of the replication terminator protein of Bacillus subtilis with DNA probed by NMR spectroscopy. Biochem Biophys Res Commun. 2005 Sep 23;335(2):361-6 Authors: Hastings AF, Otting G, Folmer RH, Duggin IG, Wake RG, Wilce MC, Wilce JA Termination of DNA replication in Bacillus subtilis involves the polar arrest of replication forks by a specific complex formed between the dimeric 29 kDa replication terminator...	nmrlearner	Journal club	0	12-01-2010 06:56 PM
[NMR paper] Solution structure of the peptidoglycan binding domain of Bacillus subtilis cell wall lytic enzyme CwlC: characterization of the sporulation-related repeats by NMR. Solution structure of the peptidoglycan binding domain of Bacillus subtilis cell wall lytic enzyme CwlC: characterization of the sporulation-related repeats by NMR. Related Articles Solution structure of the peptidoglycan binding domain of Bacillus subtilis cell wall lytic enzyme CwlC: characterization of the sporulation-related repeats by NMR. Biochemistry. 2005 Aug 2;44(30):10153-63 Authors: Mishima M, Shida T, Yabuki K, Kato K, Sekiguchi J, Kojima C Bacillus subtilis CwlC is a cell wall lytic N-acetylmuramoyl-l-alanine amidase that plays an...	nmrlearner	Journal club	0	12-01-2010 06:56 PM
[NMR paper] Interaction of cytochrome c with cytochrome c oxidase: an NMR study on two soluble fr Interaction of cytochrome c with cytochrome c oxidase: an NMR study on two soluble fragments derived from Paracoccus denitrificans. Related Articles Interaction of cytochrome c with cytochrome c oxidase: an NMR study on two soluble fragments derived from Paracoccus denitrificans. Biochemistry. 2003 May 27;42(20):6005-12 Authors: Wienk H, Maneg O, Lücke C, Pristovsek P, Löhr F, Ludwig B, Rüterjans H The functional interactions between the various components of the respiratory chain are relatively short-lived, thus allowing high turnover numbers...	nmrlearner	Journal club	0	11-24-2010 09:01 PM
[NMR paper] Cobalt(II) and copper(II) binding of Bacillus cereus trinuclear phospholipase C: a no Cobalt(II) and copper(II) binding of Bacillus cereus trinuclear phospholipase C: a novel 1H NMR spectrum of a 'Tri-Cu(II)' center in protein. Related Articles Cobalt(II) and copper(II) binding of Bacillus cereus trinuclear phospholipase C: a novel 1H NMR spectrum of a 'Tri-Cu(II)' center in protein. J Inorg Biochem. 2001 Dec 1;87(3):149-56 Authors: Epperson JD, Ming LJ The phosphatidylcholine-preferring phospholipase C from Bacillus cereus (PC-PLC(Bc)) is a tri-Zn enzyme with two 'tight binding' and one 'loose binding' sites. The Zn2+ ions can...	nmrlearner	Journal club	0	11-19-2010 08:44 PM
Probing the Folding Intermediate of Bacillus subtilis RNase P protein by NMR. Probing the Folding Intermediate of Bacillus subtilis RNase P protein by NMR. Related Articles Probing the Folding Intermediate of Bacillus subtilis RNase P protein by NMR. Biochemistry. 2010 Sep 15; Authors: Chang YC, Franch WR, Oas TG Protein folding intermediates are often imperative to overall folding processes and consequent biological functions. However, the low population and transient nature of the intermediate states often hinder the biochemical and biophysical characterization. Previous studies have demonstrated that Bacillus...	nmrlearner	Journal club	0	09-17-2010 04:14 PM
[NMR paper] Solution structure of the phosphocarrier protein HPr from Bacillus subtilis by two-di Solution structure of the phosphocarrier protein HPr from Bacillus subtilis by two-dimensional NMR spectroscopy. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Solution structure of the phosphocarrier protein HPr from Bacillus subtilis by two-dimensional NMR spectroscopy. Protein Sci. 1992 Oct;1(10):1363-76 Authors: Wittekind...	nmrlearner	Journal club	0	08-21-2010 11:45 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