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Hypothetical Protein Annotation Exam 1

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Hypothetical Protein Annotation Exam 1

icarus July 9, 2024

Acquire the following protein sequences from NCBI Protein: WP_010907941.1 and WP_058199673.1. Note the organism each protein came from.

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Question 1 of 19

1. Question
From the first iteration of PSI-BLAST results comparing WP_010907941.1 to the non-redundant protein sequences (nr) database, what was the identity of top scoring protein?
- Hypothetical protein
- Sulfurtransferase
- RNA-directed DNA polymerase
- Rhodanese-like domain-containing protein
- None of the above
Question 2 of 19

2. Question
From the first iteration of PSI-BLAST results comparing WP_010907941.1 to the non-redundant protein sequences (nr) database, how many of the top 20 matches were hypothetical proteins?
- 19
- 13
- 7
- 3
- None of the above
Question 3 of 19

3. Question
Is WP_010907941.1 stable according to ProtParam?
- Yes
- No
Question 4 of 19

4. Question
What is the location for WP_010907941.1 according to PSORT?
- Periplasmic
- Outer Membrane
- Cytoplasmic
- Extracellular
- None of the above
Question 5 of 19

5. Question
For WP_010907941.1 analyzed by InterPro, which of the following identified domains are associated with quinohemoprotein? Select all that apply.
- PF00618
- SSF50998
- PTHR46793
- PS50212
- IPR011047
Question 6 of 19

6. Question
What percentage of WP_010907941.1 was modelled?
- 100%
- 92%
- 84%
- 58%
- None of the above
Question 7 of 19

7. Question
What was the confidence of the model prediction for WP_010907941.1 as a percentage?
- 100%
- 92%
- 86%
- 39%
- None of the above
Question 8 of 19

8. Question
What was the identity of the top template used for the WP_010907941.1 model prediction?
- Oxidoreductase
- Methanol dehydrogenase (cytochrome c)
- Quinohemoprotein alcohol dehydrogenase
- Lipid binding protein
- None of the above
Question 9 of 19

9. Question
Based on the evidence produced in this course so far, what should be the annotation for WP_010907941.1?
- Quinohemoprotein
- PQQ-binding-like beta-propeller repeat protein
- Hypothetical protein
- MFS transporter
- None of the above
Question 10 of 19

10. Question
Would WP_010907941.1 be a good candidate for further laboratory experiments?
- Yes. More experimental evidence is needed to assign annotation.
- Yes. More experimental evidence is needed to confirm predicted annotation.
- No. Enough evidence exists from the in-silico analysis performed in this course, making further experiments a waste of laboratory resources.
- No. The protein would be unstable in the laboratory.
Question 11 of 19

11. Question
From the first iteration of PSI-BLAST results comparing WP_058199673.1 to the non-redundant protein sequences (nr) database, what was the identity of top scoring protein?
- Sulfurtransferase
- Rhodanese-like domain-containing protein
- RNA-directed DNA polymerase
- Hypothetical protein
- None of the above
Question 12 of 19

12. Question
From the first iteration of PSI-BLAST results comparing WP_058199673.1 to the non-redundant protein sequences (nr) database, how many of the top 20 matches were hypothetical proteins?
- 20
- 17
- 9
- 5
- None of the above
Question 13 of 19

13. Question
Is WP_058199673.1 stable according to ProtParam?
- Yes
- No
Question 14 of 19

14. Question
What is the location for WP_058199673.1 according to PSORT?
- Periplasmic
- Outer Membrane
- Cytoplasmic Membrane
- Extracellular
- None of the above
Question 15 of 19

15. Question
For WP_058199673.1 analyzed by InterPro, which of the following identified domains spans more than half of the protein’s length?
- IPR001763
- PS51257
- SSF52009
- G3DSA
- None of the above
Question 16 of 19

16. Question
What percentage of WP_058199673.1 was modelled?
- 100%
- 96.2%
- 63.5%
- 16%
- None of the above
Question 17 of 19

17. Question
What was the confidence of the model prediction for WP_058199673.1 as a percentage?
- 100%
- 96.2%
- 63.5%
- 16%
- None of the above
Question 18 of 19

18. Question
Based on the evidence produced so far, what should be the annotation for WP_058199673.1?
- Hypothetical protein
- Rhodanese-like domain-containing protein
- PQQ-binding-like beta-propeller repeat protein
- Methanol dehydrogenase (cytochrome c)
- None of the above
Question 19 of 19

19. Question
Would WP_058199673.1 be a good candidate for further laboratory experiments?
- Yes. More experimental evidence is needed to assign annotation.
- Yes. More experimental evidence is needed to confirm predicted annotation.
- No. Enough evidence exists from the in-silico analysis performed in this course, making further experiments a waste of laboratory resources.
- No. The protein would be unstable in the laboratory.

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