Bioisis

"Characterization of Cu,Zn Superoxide Dismutase from the pathogen Neisseria meningitidis "

Experimental SAS Curve

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Experimental Mass

32,670 Da

Experimental Details for BID:  NMSODP
Experiment ID: 76
Collected at: ALS BL12.3.1
Contributors: Pratt, AJ ,  Didonato, M ,  Shin, DS ,  Kassmann, CJ ,  Bruns, CK ,  Tainer, JA ,  Getzoff, ED
Mortality rates from N. meningitidis infections remain high despite availability of potent antibiotic treatments. The pathogen contains periplasmic Cu,Zn superoxide dismutase (NmSOD). NmSOD is responsible for detoxifying superoxide radicals generated by the host immune response, and thereby contributes to its virulence. SAXS data obtained for the enzyme confirm the dimeric structure obtained by X-ray crystallography.
Data were collected at 1.18, 1.3 and 2.35 mg/mL in phosphate buffered saline, and profiles superimposed well. Gel filtration matched buffer was used for buffer subtraction. X-ray exposure data from 0.5 to 5 seconds for the 1.3 mg/mL sample were used for m

Electron Pair Distribution

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       Dmax → 80 Å


Guinier Plot

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     Guinier Rg → 21.9 Å

Real Space Rg → 22.64 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 1.1.


Additional Experimental Details
Title

Characterization of Cu,Zn Superoxide Dismutase from the pathogen Neisseria meningitidis

Description

Mortality rates from N. meningitidis infections remain high despite availability of potent antibiotic treatments. The pathogen contains periplasmic Cu,Zn superoxide dismutase (NmSOD). NmSOD is responsible for detoxifying superoxide radicals generated by the host immune response, and thereby contributes to its virulence. SAXS data obtained for the enzyme confirm the dimeric structure obtained by X-ray crystallography.

Publication

To be published

Contributors

Pratt, AJ ,  Didonato, M ,  Shin, DS ,  Kassmann, CJ ,  Bruns, CK ,  Tainer, JA ,  Getzoff, ED

Genomics and Proteomics

The experiment is composed of a single gene/ORF

Abbreviated name: NmSOD

Annotation: metalloenzyme; P-class SOD

ASIEVKVQQL DPVNGNKDVG TVTITESNYG LVFTPDLQGL SEGLHGFHIH ENPSCEPKEK EGKLTAGLGA GGHWDPKGAK QHGYPWQDDA HLGDLPALTV LHDGTATNPV LAPRLKHLDD VRGHSIMIHT GGDNHSDHPA PLGGGGPRMA CGVIK
categoryamino acid composition(%)
HydrophobicI(3.9) V(6.5) L(9.7) M(1.3) A(6.5) G(14.8) P(7.7)
AromaticF(1.3) W(1.3) Y(1.3)
HydrophilicR(1.9) K(5.8) E(4.5) D(7.7) Q(3.2) N(3.9) H(7.7) S(3.9) T(5.8) C(1.3)