SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_104486271.1 NCBI__GCF_002936955.1:WP_104486271.1 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 DSM 14266 / JCM 13030 / NBRC 101832 / S2 / LL) (see paper)
37% identity, 91% coverage: 3:453/497 of query aligns to 5:453/453 of Q6LX42

query
sites
Q6LX42

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T75 (≠ R70) binding D-alanine; binding L-alanine
G79 (= G74) binding L-alanine
N80 (= N75) binding D-alanine; mutation to A: Markedly reduces L-alanine uptake; when associated with A-274 and A-308.
I165 (= I151) 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 (= Q161) binding D-alanine; binding L-alanine
F273 (≠ Y264) 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 (≠ YS 264:265) binding D-alanine
FSNE 273:276 (≠ YSNE 264:267) binding L-alanine
S274 (= S265) mutation to A: Markedly reduces L-alanine uptake; when associated with A-80 and A-308.
D308 (= D299) mutation to A: Markedly reduces L-alanine uptake; when associated with A-80 and A-274.
W370 (≠ Y372) 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)
39% identity, 86% coverage: 13:438/497 of query aligns to 1:412/431 of 6csfM

query
sites
6csfM

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binding d-alanine: T58 (≠ R70), G60 (= G72), G62 (= G74), N63 (= N75), Q150 (= Q161), F253 (≠ Y264), S254 (= S265)
binding sodium ion: T58 (≠ R70), I59 (≠ V71), N63 (= N75), S254 (= S265), D288 (= D299)

6cseM Crystal structure of sodium/alanine symporter agcs with l-alanine bound (see paper)
39% identity, 86% coverage: 13:438/497 of query aligns to 1:412/431 of 6cseM

query
sites
6cseM

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L

F

P

P

G

G

V

L

S

T

-

D

-

L

A

T

G

G

P

A

G

S

Y

L

T

T

Q

A

A

A

A

S

V

F

E

D

S

A

V

L

M

M

P

P

G

-

F

M

G

G

G

G

T

L

F

I

V

V

A

T

V

I

A

G

L

L

F

V

F

F

F

F

A

A

F

Y

T

S

T

T

I

V

L

L

A

G

Y

W

Y

S

Y

Y

I

Y

A

G

E

E

T

K

N

C

V

F

A

E

Y

Y

I

L

-

I

-

G

N

T

R

K

H

G

I

I

H

R

R

-

P

-

W

-

M

-

I

-

F

-

V

L

L

Y

K

R

I

I

A

A

L

F

M

V

A

L

S

V

V

A

V

F

Y

W

G

G

S

A

V

T

K

A

T

S

A

L

E

P

L

L

A

V

W

W

G

N

L

I

G

A

D

D

I

T

G

L

V

N

G

G

M

A

M

M

A

A

W

I

L

P

N

N

I

L

V

I

A

G

I

L

L

L

L

L

L

L

Q

S

binding alanine: A57 (≠ G69), T58 (≠ R70), G60 (= G72), N63 (= N75), Q150 (= Q161), F253 (≠ Y264), S254 (= S265), E256 (= E267)
binding sodium ion: T58 (≠ R70), I59 (≠ V71), N63 (= N75), S254 (= S265), D288 (= D299)

Query Sequence

>WP_104486271.1 NCBI__GCF_002936955.1:WP_104486271.1
MSDLVNGINSYIWSLPLIYLCLGVGLYFSLRTRFLQIRHIKEMVRLMFKGEASPAGITSF
QALTLSLSGRVGTGNIAGVATAITFGGPGAVFWMWMVAFLGAGTAFVESTLAQIYKEKDD
NGLYRGGPAYYIEKGLGMKWYAWTFAFATIIGCGLLLPGVQANSIASGIENAFGISTSVS
AAVVVVLLGLIIFGGVKRIAHFTQIVVPFMALGYILVAFVVIAMHIEMLPDVVGLIVGSA
FGMKAGFGAILGLAIEWGVKRGIYSNEAGQGTGPHPAAAAEVSHPAKQGLVQGFSVYVDT
LFVCTATAFMIIITGAYNVMGKAGEVIVEQLPGVSAGPGYTQAAVESVMPGFGGTFVAVA
LFFFAFTTILAYYYIAETNVAYINRHIHRPWMIFVLKIALMASVVYGSVKTAELAWGLGD
IGVGMMAWLNIVAILLLQKPALIALKDYEAQKAQGLDPTFDPIKLGIKNADIWVKDKKAK
TDAATDAVVTDAQAERG

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