Bioisis

"PF0863 - Pyrococcus furiosus dimeric product"

Experimental SAS Curve

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Experimental Mass

42,622 Da

Experimental Details for BID:  1HYPHP
Experiment ID: 36
Collected at: ALS bl12.3.1 SIBYLS
Contributors: Rambo, R.P. ,  Hura, G.L. ,  Menon, A.L. ,  Adams, M.W.W. ,  Tainer, J.A.
This is the solved structure with floppy residues attached. PDB 1YEM. We expect some conformational flexibility given the fit to the data.

Electron Pair Distribution

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       Dmax → 90 Å


Guinier Plot

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     Guinier Rg → 27.4 Å

Real Space Rg → 28.7 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.


PDB Model fit to SAXS Data

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The red line is the calculated SAXS profile from a PDB model scaled to the experimental SAXS curve (cyan). The two curves agree with a Chi2 of 5.8.


DAMMIN/F Model

DAMMIN/F result was determined with the following:

Space GroupP1
NSD | RMSD0.688 
variance(NSD | RMSD)0.1 
Number of Models in Average

GASBOR Model

GASBOR result was determined with the following:

Space GroupP2
Chi1.64
NSD | RMSD1.37 
variance(NSD | RMSD)0.1 
Number of Models in Average
Superimposed model

Additional Experimental Details
Title

PF0863 - Pyrococcus furiosus dimeric product

Description

This is the solved structure with floppy residues attached. PDB 1YEM. We expect some conformational flexibility given the fit to the data.

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. ,  Adams, M.W.W. ,  Tainer, J.A.

Genomics and Proteomics

The experiment is composed of a single gene/ORF

Abbreviated name: PF0863

Annotation: hypothetical protein

AHHHHHHGSE VEIKFKIKLE DFLHTLNTFN PEFVRYEEQE DVYFEVPRPK LLRIRGVHNL KKYYLTFKEI LDENNEEFYE VEFEIGDFEK AVEVFKRLGF KIQATIKKKR WVYKLNGVTL EVNRVEGIGD FVDIEVISDS PEEAKEKIWE VAKMLGLKEE DVEPRLYLEL INELSGRSS
categoryamino acid composition(%)
HydrophobicI(6.7) V(8.9) L(9.5) M(0.6) A(2.8) G(5.0) P(2.8)
AromaticF(6.7) W(1.1) Y(3.9)
HydrophilicR(5.0) K(10.1) E(16.2) D(4.5) Q(1.1) N(4.5) H(4.5) S(3.4) T(2.8) C(0.0)