SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing GFF3967 FitnessBrowser__Marino:GFF3967 to proteins with known functional sites using BLASTp with E ≤ 0.001.

Or try Sites on a Tree, PaperBLAST, Conserved Domains, or compare to all protein structures

Found 3 hits to proteins with known functional sites (download)

Q6LX42 Sodium/alanine symporter AgcS; Alanine permease; Alanine/glycine:cation symporter from Methanococcus maripaludis (strain S2 / LL) (see paper)
52% identity, 99% coverage: 1:449/453 of query aligns to 1:447/453 of Q6LX42

query
sites
Q6LX42

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T75 (= T78) binding ; binding
G79 (= G82) binding
N80 (= N83) binding ; mutation to A: Markedly reduces L-alanine uptake; when associated with A-274 and A-308.
I165 (= I166) mutation to A: Shows poor substrate selectivity, allowing additional amino acids such as L-valine and L-leucine to be efficiently transported. Decreases L-alanine uptake.
Q170 (= Q171) binding ; binding
F273 (= F278) mutation to A: Shows poor substrate selectivity, allowing additional amino acids such as L-valine and L-leucine to be efficiently transported. Decreases L-alanine uptake.
FS 273:274 (= FS 278:279) binding
FSNE 273:276 (= FSNE 278:281) binding
S274 (= S279) mutation to A: Markedly reduces L-alanine uptake; when associated with A-80 and A-308.
D308 (= D313) mutation to A: Markedly reduces L-alanine uptake; when associated with A-80 and A-274.
W370 (= W372) mutation to Q: Does not change uptake of L-alanine, but reduces the ability to transport D-alanine.

6csfM Crystal structure of sodium/alanine symporter agcs with d-alanine bound (see paper)
53% identity, 96% coverage: 16:449/453 of query aligns to 1:427/431 of 6csfM

query
sites
6csfM

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binding d-alanine: T58 (= T78), G60 (= G80), G62 (= G82), N63 (= N83), Q150 (= Q171), F253 (= F278), S254 (= S279)
binding sodium ion: T58 (= T78), I59 (≠ V79), N63 (= N83), S254 (= S279), D288 (= D313)

6cseM Crystal structure of sodium/alanine symporter agcs with l-alanine bound (see paper)
53% identity, 96% coverage: 16:449/453 of query aligns to 1:427/431 of 6cseM

query
sites
6cseM

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M

P

P

G

-

V

M

G

G

N

G

Y

L

L

I

V

V

A

T

I

I

A

G

L

L

A

V

V

F

F

F

A

A

F

Y

T

S

T

T

I

V

L

L

G

G

W

W

S

S

F

Y

Y

Y

G

G

E

E

R

K

C

C

I

F

E

E

F

Y

L

L

F

I

G

G

V

T

K

K

A

G

I

I

V

R

P

L

Y

Y

R

R

I

I

A

A

W

F

I

V

L

L

A

V

I

A

P

F

V

W

G

G

A

A

T

T

L

A

N

S

L

L

G

P

F

L

V

V

W

W

L

N

V

I

A

A

D

D

T

T

L

L

N

N

A

G

M

A

M

M

A

A

L

I

P

P

N

N

L

L

I

I

A

G

L

L

L

L

M

L

L

L

S

S

P

G

I

V

V

V

F

V

K

S

L

E

T

T

R

K

E

A

H

F

F

N

E

E

K

I

E

R

K

K

binding alanine: A57 (= A77), T58 (= T78), G60 (= G80), N63 (= N83), Q150 (= Q171), F253 (= F278), S254 (= S279), E256 (= E281)
binding sodium ion: T58 (= T78), I59 (≠ V79), N63 (= N83), S254 (= S279), D288 (= D313)

Query Sequence

>GFF3967 FitnessBrowser__Marino:GFF3967
MEAISEFVGQINGLVWGPPMLVLILGVGLFLSLGLKLMPVLKLGAGFRLMWKGRSAAGSE
SEGEIPPFQALMTALSATVGTGNIAGVATAVFLGGPGALFWMWLTALVGMATKYSEAVLA
VRFREVDERGAHVGGPMYYIRNGLGRKWAWLGVLFAVFAAIAGFGIGNTVQANSVADVME
TNFGLPHWVTGLVLMVLVGMVLIGGIRRIGHVASALVPLMAVSYLLAGLVVLAINAADIP
AAFALVIKHAFSPIAAEGGFAGAAVWAAIRFGVARGIFSNEAGLGSAPIAHAAAQTRNPI
NQGMVAMLGTFIDTIIICTITGLVIITSGTWTSGESGAALTSMAFQEALPGVGNYLVAIA
LAVFAFTTILGWSFYGERCIEFLFGVKAIVPYRIAWILAIPVGATLNLGFVWLVADTLNA
MMALPNLIALLMLSPIVFKLTREHFEKEKALGV

Or try a new SitesBLAST search

SitesBLAST's Database

SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory