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Cacao

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Contributes toGO:0003677DNA bindingPMID:18157148IDA: Inferred from Direct Assay F
This annotation made on page: BPSPP:Q38152
By: Flounlackerkm (group Team DirtyChubi) on 2016-04-25 10:13:47 CDT.




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Entry TypeChallenging User,GroupTime/DateChallenge ReasonPoints/Assessment
ChallengeKaycee.Bartels,
Team Tiger1		2016-04-29 23:41:55 CDT

First of all, binding terms are not allowed so this would not be valid. Looking at Figure 1 and Figure 4 I do not see anything even related to DNA binding. Figure 4 has the bulk of information on this gene, and it is showing helicase activity and helicase-primase interactions. Using the information from this figure, I would suggest the GO term: DNA Helicase activity (GO:0003678).

2
Private
Assessment		Suzialeksander2016-06-28 14:56:16 CDTYou need to be an instructor to view these notes.Updated by Instructor
Private
Assessment		Suzialeksander2016-06-28 14:52:37 CDTYou need to be an instructor to view these notes.Updated by Instructor
Private
Assessment		Suzialeksander2016-05-23 13:41:04 CDTYou need to be an instructor to view these notes.Requires Changes
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Assessment		AAJohnson2016-05-16 09:03:11 CDT

5/11 entry looks good.

Acceptable
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Assessment		DanielRenfro2016-05-11 07:58:56 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
Contributes to GO:0032508 DNA duplex unwinding PMID:18157148 IMP: Inferred from Mutant Phenotype P figure 1 shows the hexameric structure of the SPP1 helicase, determined with x-ray crystallography. Figure 4 shows the effect of mutated residues on the protein and how the mutations effect the binding ability of the protein to primase using gel electrophoresus. Helicase binds to and unwinds the DNA prior to replication, and in complex with primase, puts down the DNA primer to initiate replication. When mutated the protein does no properly function and complex with primase to activate primase and initiate replication.

Table 1 shows the series of deletions and mutations done to assess the helicase and ATPase activity in the presence and absence primase. DeltaN92 is the first series of deletions performed, deleting amino acids 1 to 92, this mutation decreased the DNA unwinding ability of the protein from 100% to 66% activity. DeltaN112 deleted amino acids 1-112. This deletion caused the DNA unwinding ability of helicase to stop almost completely, with a drop from 100% activity to 3% activity with this deletion. The double point mutation mt1 changed the amino acids I121A and E122A, resulting in a decrease in helicase activity to 7%. ||complete
CACAO 11918

on BPSPP:Q38152
Flagged
Public
Assessment		AAJohnson2016-05-09 08:59:40 CDT

This annotation is very close. For an IMP submission, you should describe the nature of the mutation with more specificity (your description of 4e isn't complete, and is better for 4d). What is the assay shown in 4e, and how does a mutant phenotype support the GO term you chose? You should probably also include data from Table 1 describing their mutation studies! It is o.k. to pick one mutant and follow it's path through the assays to support the GO term for DNA unwinding. You might also find a GO term for interaction with primase and submit an additional annotation with that evidence.

Requires Changes
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Assessment		DanielRenfro2016-05-06 12:40:45 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
Contributes to GO:0032508 DNA duplex unwinding PMID:18157148 IMP: Inferred from Mutant Phenotype P figure 1 shows the hexameric structure of the SPP1 helicase, determined with x-ray crystallography. Figure 4 shows the effect of mutated residues on the protein and how the mutations effect the binding ability of the protein to primase using gel electrophoresus. Fig. 4f shows the ability of helicase to form a complex with primase to initiate DNA replication. Helicase binds to and unwinds the DNA prior to replication, and in complex with primase, puts down the DNA primer to initiate replication. When mutated the protein does no properly function and complex with primase to activate primase and initiate replication. Additionally, fig. 3 shows the ATP binding domains that give the enzyme the energy needed to break the hydrogen bonds between the 2 stands of DNA. complete
CACAO 11918
on BPSPP:Q38152
Flagged
Public
Assessment		AAJohnson2016-05-03 15:52:03 CDT

This annotation has problems with the Go term (see the GONUTS rules, you can't use "binding"), and therefore with the notes and evidence. I might suggest GO:0032508 "DNA Duplex Unwinding" as a GO term. Evidence from Figure 4f should be clearly explained- you will have to work to understand how adding helicase to a primase assay shows unwinding of the DNA. "IMP" evidence code should be used if you describe an experiment using a mutant helicase protein.

Requires Changes
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