SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing 5207980 Shew_0496 amino acid carrier protein (RefSeq) 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)
50% identity, 99% coverage: 1:452/457 of query aligns to 1:452/453 of Q6LX42

query
sites
Q6LX42

M

M

N

D

F

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V

A

S

L

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T75 (= T72) binding ; binding
G79 (= G76) binding
N80 (= N77) binding ; mutation to A: Markedly reduces L-alanine uptake; when associated with A-274 and A-308.
I165 (= I159) 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 (= Q164) binding ; binding
F273 (= F271) 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 271:272) binding
FSNE 273:276 (= FSNE 271:274) binding
S274 (= S272) mutation to A: Markedly reduces L-alanine uptake; when associated with A-80 and A-308.
D308 (= D306) mutation to A: Markedly reduces L-alanine uptake; when associated with A-80 and A-274.
W370 (= W366) 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)
51% identity, 95% coverage: 15:449/457 of query aligns to 1:429/431 of 6csfM

query
sites
6csfM

W

W

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I
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G

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binding d-alanine: T58 (= T72), G60 (= G74), G62 (= G76), N63 (= N77), Q150 (= Q164), F253 (= F271), S254 (= S272)
binding sodium ion: T58 (= T72), I59 (= I73), N63 (= N77), S254 (= S272), D288 (= D306)

6cseM Crystal structure of sodium/alanine symporter agcs with l-alanine bound (see paper)
51% identity, 95% coverage: 15:449/457 of query aligns to 1:429/431 of 6cseM

query
sites
6cseM

W

W

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M

V

P

I

M

G

G

Q

G

Y

L

L

I

V

V

T

T

I

I

A

G

L

L

V

V

C

F

F

F

A

A

F

Y

T

S

T

T

I

V

L

L

G

G

W

W

H

S

Y

Y

Y

Y

G

G

E

E

R

K

C

C

W

F

Y

E

Y

Y

L

L

T

-

G

-

H

-

K

-

L

I

G

G

E

T

R

K

G

G

I

I

K

R

I

L

Y

Y

Q

R

F

I

I

A

F

F

L

V

S

L

L

V

I

A

A

F

V

W

G

G

A

A

F

T

I

A

Q

S

L

L

D

P

L

L

I

V

W

W

L

N

L

I

A

A

D

D

T

T

V

L

N

N

G

G

L

A

M

M

A

A

I

I

P

P

N

N

L

L

I

I

A

G

L

L

I

L

G

L

L

L

R

S

K

G

V

V

I

V

I

V

A

S

D

E

T

T

L

K

S

A

Y

F

F

N

A

E

A

I

R

R

D

K

S

N

Q

E

binding alanine: A57 (= A71), T58 (= T72), G60 (= G74), N63 (= N77), Q150 (= Q164), F253 (= F271), S254 (= S272), E256 (= E274)
binding sodium ion: T58 (= T72), I59 (= I73), N63 (= N77), S254 (= S272), D288 (= D306)

Query Sequence

>5207980 Shew_0496 amino acid carrier protein (RefSeq)
MNFHALLSEINAIVWGPITLCLLVGTGLYLTLRLRLIQVFKLPLALRLLFKPASGQGDLS
SFAALCTALSATIGTGNIVGVATAIKVGGPGALFWMWLAAFFGMATKYGECMLALKYRTT
DARGNIAGGPMYYIERGLGLGWLAKLFALFGVGVAFFGIGTFAQVNAISDAMTIAFHVPA
WVTALVLTLLVAAVTLGGVKRIAKVAQKLVPSMALGYVLACLWILVTFSEQIIPALQLVI
HSAFSPISAAGGFLGATVAQAIQIGIARGVFSNESGLGSAPIAAAAAKTKEPVEQGLVSM
TGTFFDTLLICTITGLVLIITGVWSGDAAGAAMTSAAFATGGSAVIGQYLVTIALVCFAF
TTILGWHYYGERCWYYLTGHKLGERGIKIYQFIFLSLIAVGAFIQLDLIWLLADTVNGLM
AIPNLIALIGLRKVIIADTLSYFAARDSQGAQQELTA

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