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GO:0042597periplasmic spacePMID:20734329IDA: Inferred from Direct Assay C
This annotation made on page: LAMBD:SPAN1
By: JPShaw (group Team RNA) on 2014-11-23 16:30:30 CST.



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Entry TypeChallenging User,GroupTime/DateChallenge ReasonPoints/Assessment
ChallengeJPShaw,
Team RNA
2014-11-24 01:18:54 CST
  • Correction to Defense: Figure 7 does *not show protein localization to this domain.
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ChallengeJPShaw,
Team RNA
2014-11-24 01:04:22 CST

DEFENSE: figure 7 only shows the dimensions of the periplasmic space, and does show protein localization in this domain.

"Determination of periplasmic dimensions using cryo-electron microscopy. E. coli K-12 cells in logarithmic phase were plunged into liquid ethane and imaged by cryo-electron microscopy. Shown is a representative whole, frozen-hydrated cell with an inset box indicating the region of interest. The average distance between the inner and outer membranes at the mid-length of 31 such cells was 25.5 ± 3.1 nm. The periplasmic distance increases at the poles as shown in this example"

While a GO-term describing protein localization to the outer membrane is fitting to this protein, this paper shows it has a domain in the periplasm...which is what the annotation is describing. A second annotation from a separate paper would be needed to properly demonstrate and annotate protein localization to the outer membrane.

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ChallengeRoosheel,
Team Thoth
2014-11-23 19:11:21 CST

Figure 2 shows the purification of the proteins. The actual periplasmic localization of the Rz and Rz1 domains is seen in figure 7. A better GO term would be: 0089705: Protien localization to outer membrane

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JimHu2014-12-02 13:20:27 CST

This paper shows interaction of Rz and Rz1 which cannot be annotated with GO terms allowed in CACAO. Periplasmic localization was shown in other work.

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