Второй семестр

Protein search

Project can be founded here

task 1

Условия запроса

My sequence was Delta-aminolevulinic acid dehydratase (Organism: Pirellula staleyi). Protein sequences domains were searched in section: Sequence search. E-value
There were found 3 families: GTP EFTU, GTP EFTU D2 and GTP EFTU D3. GTP EFTU and GTP EFTU D2 both are from clan CL0023, the clan of the last one
is not defined, though I would suggest that this one is also from CL0023 (it has similar name ). This findings belong to A PFAM (not B Pfam). There are not much
information about them, but one thing that was mentioned in all three clans: they are all involved in binding not-initiator tRNAs to a ribosome.
I chose the first sequence, since it had the lowest e value (3.5e-57).

task 2

Then was made consensus alignment with a help of cons and consambling. Also was made graphic image of logo

Cons

Условия запроса

logo

Условия запроса

Task 3

I created strong and weak pattern: WEAK PATTERN [IFV]-[GAV]-[ITVF]-[IMV]-[GA]-H-x-[KDGHT]-[HAT]-G-K-[TKS]-[NTL]-[SLT]-x-x-x-[MLI]
107 findings
STRONG pattern
[IVF]-[GAV]-[ITVF]-[IMV]-[GA]-H-x-x-[HA]-G-K-[TS]-T-[LT]-[TL]-[DGAE]-[ARV]-[LI]
3 findings
Strong pattern should find all sequences and shouldn't count fake. However, it is not always possible to find all sequences.
Weak pattern will, in contrast to strong pattern, include all sequenses. However, it will also include fake swquences.

Второй семестр

Protein search

Второй семестр

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