Bioisis

"Mostly folded dimer ORF PF0715, annotated as NADH oxidase"

Experimental SAS Curve

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Low_res_thumbnail

Experimental Mass

42,774 Da

Experimental Details for BID:  1NADHP
Experiment ID: 4
Collected at: ALS BL 12.3.1
Contributors: Rambo, R.P. ,  Hura, G.L. ,  Menon, A.L. ,  Hamel, M. ,  Adams, M.W.W. ,  Tainer, J.A.
Part of a set of samples prepared recombinantly by Mike Adams group in Georgia. Has his-tag attached see sequence. The Kratky plot and the P(r) function suggest some regions are unfolded. This may be the his-tag Data is not on an absolute scale and is a compilation of several data sets collected at different energies.

Electron Pair Distribution

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       Dmax → 96 Å


Guinier Plot

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     Guinier Rg → 23.1 Å

Real Space Rg → 23.5 Å

The Guinier plot is used to estimate the radius of gyration, Rg, which is taken from the slope of a line observed at low scattering angles (typically in the range where q* Rg < 1.3). This should be in reasonable agreement with the real space Rg.


Kratky Plot

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The Kratky plot can be used to visually assess the degree of "unfoldedness" of a protein or RNA sample. The plot of a well-behaved folded protein approaches the baseline at high q values creating a parabolic shape.


DAMMIN/F Model

DAMMIN/F result was determined with the following:

Space GroupP1
NSD | RMSD0.571 
variance(NSD | RMSD)0.1 
Number of Models in Average10 

GASBOR Model

GASBOR result was determined with the following:

Space GroupP2
Chi4.01
NSD | RMSD0.91 
variance(NSD | RMSD)0.1 
Number of Models in Average10 
Superimposed model10 

Additional Experimental Details
Title

Mostly folded dimer ORF PF0715, annotated as NADH oxidase

Description

Part of a set of samples prepared recombinantly by Mike Adams group in Georgia. Has his-tag attached see sequence. The Kratky plot and the P(r) function suggest some regions are unfolded. This may be the his-tag Data is not on an absolute scale and is a compilation of several data sets collected at different energies.

Publication

Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS). Nat Methods. 2009 Aug;6(8):606-12.

Contributors

Rambo, R.P. ,  Hura, G.L. ,  Menon, A.L. ,  Hamel, M. ,  Adams, M.W.W. ,  Tainer, J.A.

Genomics and Proteomics

The experiment is composed of a single gene/ORF

Abbreviated name: PF0715

Annotation: NAD(P)H oxidase

AHHHHHHGSE FFEVLKKRRS IRRFQDKPVP RELIEKLLEA AFLSPSSYNK RPCHFIVVDD REKLEALSKS KLGASGLKTA PVAIVVTADE SKSDVWIEDA SIAAEHIHLA SYALGLASFW VQIRNRMHNE TKTAEEYVRE LLNIPENYRV LCIIGVGYPA EDKPPHGNEV FEWEKVSYNE FGKRFK
categoryamino acid composition(%)
HydrophobicI(5.9) V(7.5) L(8.1) M(0.5) A(8.6) G(4.3) P(4.8)
AromaticF(4.8) W(1.6) Y(3.2)
HydrophilicR(6.5) K(8.1) E(10.8) D(3.8) Q(1.1) N(3.8) H(5.9) S(7.5) T(2.2) C(1.1)