SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_011652285.1 NCBI__GCF_000009265.1:WP_011652285.1 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 20 (the maximum) hits to proteins with known functional sites (download)

1hslA Refined 1.89 angstroms structure of the histidine-binding protein complexed with histidine and its relationship with many other active transport(slash)chemosensory receptors (see paper)
41% identity, 89% coverage: 28:256/257 of query aligns to 4:237/238 of 1hslA

query
sites
1hslA

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binding histidine: Y14 (= Y38), L52 (≠ W76), S69 (= S93), S70 (= S94), L71 (≠ M95), S72 (= S96), R77 (= R101), T120 (= T143), T121 (= T144), D161 (= D182)

P02910 Histidine-binding periplasmic protein; HBP from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
41% identity, 89% coverage: 28:256/257 of query aligns to 26:259/260 of P02910

query
sites
P02910

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E40 (= E42) mutation to K: Decrease in ATPase-inducing activity and histidine transport; when associated with K-47.
K42 (≠ V44) mutation to E: Increases ATPase-inducing activity and histidine transport; when associated with K-47.
E47 (≠ T49) mutation to K: Decrease in ATPase-inducing activity and histidine transport; when associated with K-40. Increases ATPase-inducing activity and histidine transport; when associated with E-42.
D171 (= D170) mutation D->A,N: Strong decrease in ATPase-inducing activity and histidine transport.
R176 (= R175) mutation R->D,S: Strong decrease in ATPase-inducing activity and histidine transport.
D178 (= D177) mutation to A: Slight decrease in ATPase-inducing activity and histidine transport.

Sites not aligning to the query:

1:22 signal peptide

P0AEU0 Histidine-binding periplasmic protein; HBP from Escherichia coli (strain K12) (see 3 papers)
41% identity, 88% coverage: 32:256/257 of query aligns to 30:259/260 of P0AEU0

query
sites
P0AEU0

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C60 (= C62) modified: Disulfide link with 67
C67 (= C69) modified: Disulfide link with 60
S91 (= S93) binding L-histidine
S92 (= S94) binding L-histidine
S94 (= S96) binding L-histidine
R99 (= R101) binding L-histidine
T143 (= T144) binding L-histidine
D183 (= D182) binding L-histidine

Sites not aligning to the query:

1:22 signal peptide

2y7iA Structural basis for high arginine specificity in salmonella typhimurium periplasmic binding protein stm4351. (see paper)
38% identity, 85% coverage: 32:250/257 of query aligns to 10:227/228 of 2y7iA

query
sites
2y7iA

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binding arginine: Y16 (= Y38), E20 (= E42), F54 (≠ W76), A71 (≠ S93), G72 (≠ S94), D74 (≠ S96), R79 (= R101), E118 (≠ Q140), T121 (= T143), T122 (= T144), D160 (= D182)
binding zinc ion: D23 (= D45), D25 (≠ S47), D55 (= D77), D67 (= D89), D140 (≠ E166)

Sites not aligning to the query:

binding zinc ion: 9

4zv2A An ancestral arginine-binding protein bound to glutamine (see paper)
39% identity, 85% coverage: 32:250/257 of query aligns to 8:223/225 of 4zv2A

query
sites
4zv2A

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binding glutamine: E11 (≠ D35), F14 (≠ Y38), F52 (≠ W76), G70 (≠ S94), M71 (= M95), T72 (≠ S96), R77 (= R101), S120 (≠ T143), T121 (= T144), D159 (= D182)

4zv1A An ancestral arginine-binding protein bound to arginine (see paper)
39% identity, 85% coverage: 32:250/257 of query aligns to 8:225/226 of 4zv1A

query
sites
4zv1A

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D

D

A

E

S

N

G

G

T

K

I

L

Q

V

G

G

F

F

D

D

I

I

D

D

I

L

T

A

K

K

A

A

L

I

C

A

A

K

E

K

M

L

K

G

A

V

E

K

C

V

S

E

F

F

V

K

S

P

T

M

D

D

W
x
F

D

D

G

G

I

I

P

P

A

A

L

L

N

Q

A

S

K

G

K

K

F

I

D

D

M

V

I

V

V

I

S
x
A

S
x
G

M
|
M

S
x
T

I

I

T

T

P

E

E

E

R
|
R

L

K

K

K

L

Q

V

V

D

D

F

F

S

S

N

D

K

P

Y

Y

Y

F

N

E

T

A

P

G

P

Q

A

A

I

I

A

V

V

V

P

K

K

K

-

G

D

N

S

D

T

S

I

I

S

K

D

S

V

L

A

E

G

D

L

L

K

K

G

G

K

K

V

K

I

V

G

G

A

V

Q
|
Q

T

L

S

G

T
x
S

T
|
T

H

S

A

E

N

Q

Y

H

A

V

E

K

K

K

H

V

L

A

A

K

D

D

-

A

-

G

T

V

E

K

L

V

K

K

L

K

Y

F

P

D

T

N

A

F

D

S

E

E

Y

A

K

F

L

Q

D

E

V

L

A

K

S

S

G

G

R

R

V

V

D

D

A

A

V

V

I

V

D

T

D
|
D

V

N

V

A

V

V

L

A

S

L

E

A

W

Y

V

V

K

K

S

Q

D

N

A

P

G

N

A

A

C

G

C

V

K

K

I

I

L

-

T

-

L

-

P

-

V

V

D

G

K

E

E

T

I

F

N

S

G

G

N

E

G

P

A

Y

G

G

I

I

A

A

I

V

R

R

K

K

G

G

D

N

-

S

P

E

L

L

K

L

E

E

K

K

L

I

N

N

T

K

A

A

I

L

A

E

I

M

R

K

A

K

S

D

G

G

E

T

Y

Y

K

D

K

K

I

I

Q

Y

D

E

K

K

Y

W

F

F

binding arginine: E11 (≠ D35), F14 (≠ Y38), F52 (≠ W76), A69 (≠ S93), G70 (≠ S94), M71 (= M95), T72 (≠ S96), R77 (= R101), Q117 (= Q140), S120 (≠ T143), T121 (= T144), D161 (= D182)

5owfA Structure of a lao-binding protein mutant with glutamine (see paper)
38% identity, 88% coverage: 32:257/257 of query aligns to 5:235/235 of 5owfA

query
sites
5owfA

I

I

G

G

T

T

D

D

S

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

F

S

V

K

D

D

A

A

S

K

G

G

T

E

I

F

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

E

L

M

C

C

A

K

E

R

M

M

K

Q

A

V

E

K

C

C

S

T

F

W

V

V

S

A

T

S

D

D

W
x
F

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

M

A

I

I

V

I

S
|
S

M

L

S
|
S

I

I

T

T

P

D

E

K

R
|
R

L

Q

K

Q

L

E

V

I

D

A

F

F

S

S

N

D

K

K

Y

L

Y

Y

N

A

T

A

P

D

P

S

A

R

I

L

A

I

V

A

P

A

K

K

D

G

S

S

T

P

I

I

S

Q

-

P

D

T

V

L

A

E

G

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
K

T

Q

S

G

T
x
S

T
|
T

H

Q

A

E

N

A

Y

Y

A

A

E

N

K

D

H

N

L

W

A

R

D

T

T

K

E

G

L

V

K

D

L

V

-

V

-

A

Y

Y

P

A

T

N

A

Q

D

D

E

L

Y

I

K

Y

L

S

D

D

V

L

A

T

S

A

G

G

R

R

V

L

D

D

A

A

V

A

I

L

D

Q

D
|
D

V

E

V

V

V

A

L

A

S

S

E

E

-

G

W

F

V

L

K

K

S

Q

D

P

A

A

G

G

A

K

C

E

C

Y

K

A

I

F

L

A

T

G

T

P

L

S

P

V

V

K

D

D

K

K

E

K

I

Y

N

F

G

G

N

D

G

G

A

T

G

G

I

V

A

G

I

L

R

R

K

K

G

D

D

D

-

T

P

E

L

L

K

K

E

A

K

A

L

F

N

D

T

K

A

A

I

L

A

T

A

E

I

L

R

R

A

Q

S

D

G

G

E

T

Y

Y

K

D

K

K

I

M

Q

A

D

K

K

K

Y

Y

F

F

D

D

F

F

D

N

V

V

Y

Y

G

G

E

D

binding glutamine: Y11 (= Y38), F49 (≠ W76), S66 (= S93), S67 (= S94), S69 (= S96), R74 (= R101), K114 (≠ Q140), S117 (≠ T143), T118 (= T144), D158 (= D182)

P02911 Lysine/arginine/ornithine-binding periplasmic protein; LAO-binding protein from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 4 papers)
38% identity, 88% coverage: 32:257/257 of query aligns to 30:260/260 of P02911

query
sites
P02911

I

I

G

G

T

T

D
|
D

S

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

F

S

V

K

D

D

A

A

S

K

G

G

T

E

I

F

Q

I

G

G

F

F

D
|
D

I

I

D

D

I

L

T

G

K

N

A

E

L

M

C
|
C

A

K

E

R

M

M

K

Q

A

V

E

K

C
|
C

S

T

F

W

V

V

S

A

T

S

D

D

W
x
F

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

M

A

I

I

V

I

S
|
S

M

L

S
|
S

I

I

T

T

P

D

E

K

R
|
R

L

Q

K

Q

L

E

V

I

D

A

F

F

S

S

N

D

K

K

Y

L

Y

Y

N

A

T

A

P

D

P

S

A

R

I

L

A

I

V

A

P

A

K

K

D

G

S

S

T

P

I

I

S

Q

-

P

D

T

V

L

A

E

G

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
L

T

Q

S

G

T

S

T
|
T

H

Q

A

E

N

A

Y

Y

A

A

E

N

K

D

H

N

L

W

-

R

-

T

A

K

D

G

T

V

E

D

L

V

K

V

L

A

Y

Y

P

A

T

N

A

Q

D

D

E

L

Y

I

K

Y

L

S

D

D

V

L

A

T

S

A

G

G

R

R

V

L

D

D

A

A

V

A

I

L

D

Q

D
|
D

V

E

V

V

V

A

L

A

S

S

E

E

-

G

W

F

V

L

K

K

S

Q

D

P

A

A

G

G

A

K

C

E

C

Y

K

A

I

F

L

A

T

G

T

P

L

S

P

V

V

K

D

D

K

K

E

K

I

Y

N

F

G

G

N

D

G

G

A

T

G

G

I

V

A

G

I

L

R

R

K

K

G

D

D

D

-

T

P

E

L

L

K

K

E

A

K

A

L

F

N

D

T

K

A

A

I

L

A

T

A

E

I

L

R

R

A

Q

S

D

G

G

E

T

Y

Y

K

D

K

K

I

M

Q

A

D

K

K

K

Y

Y

F

F

D

D

F

F

D

N

V

V

Y

Y

G

G

E

D

D33 (= D35) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
Y36 (= Y38) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
D52 (= D54) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
C60 (= C62) modified: Disulfide link with 67
C67 (= C69) modified: Disulfide link with 60
F74 (≠ W76) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
S91 (= S93) binding L-arginine; binding L-ornithine; mutation to A: Has no effect on the arginine and histidine binding affinity.
S92 (= S94) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
S94 (= S96) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
R99 (= R101) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
L139 (≠ Q140) mutation to K: Changes ligand specificity. Can bind glutamine. Still able to bind basic amino acids, however, with 1000-fold less affinity for arginine.; mutation to Q: Does not affect ligand preference.
T143 (= T144) binding L-arginine; binding L-lysine; binding L-ornithine
D183 (= D182) binding L-arginine; binding L-ornithine; mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.

1lstA Three-dimensional structures of the periplasmic lysine-, arginine-, ornithine-binding protein with and without a ligand (see paper)
38% identity, 88% coverage: 32:257/257 of query aligns to 8:238/238 of 1lstA

query
sites
1lstA

I

I

G

G

T

T

D

D

S

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

F

S

V

K

D

D

A

A

S

K

G

G

T

E

I

F

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

E

L

M

C

C

A

K

E

R

M

M

K

Q

A

V

E

K

C

C

S

T

F

W

V

V

S

A

T

S

D

D

W
x
F

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

M

A

I

I

V

I

S

S

S
|
S

M

L

S
|
S

I

I

T

T

P

D

E

K

R
|
R

L

Q

K

Q

L

E

V

I

D

A

F

F

S

S

N

D

K

K

Y

L

Y

Y

N

A

T

A

P

D

P

S

A

R

I

L

A

I

V

A

P

A

K

K

D

G

S

S

T

P

I

I

S

Q

-

P

D

T

V

L

A

E

G

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
L

T

Q

S

G

T
x
S

T
|
T

H
x
Q

A

E

N

A

Y

Y

A

A

E

N

K

D

H

N

L

W

A

R

D

T

T

K

E

G

L

V

K

D

L

V

-

V

-

A

Y

Y

P

A

T

N

A

Q

D

D

E

L

Y

I

K

Y

L

S

D

D

V

L

A

T

S

A

G

G

R

R

V

L

D

D

A

A

V

A

I

L

D

Q

D
|
D

V

E

V

V

V

A

L

A

S

S

E

E

-

G

W

F

V

L

K

K

S

Q

D

P

A

A

G

G

A

K

C

E

C

Y

K

A

I

F

L

A

T

G

T

P

L

S

P

V

V

K

D

D

K

K

E

K

I

Y

N

F

G

G

N

D

G

G

A

T

G

G

I

V

A

G

I

L

R

R

K

K

G

D

D

D

-

T

P

E

L

L

K

K

E

A

K

A

L

F

N

D

T

K

A

A

I

L

A

T

A

E

I

L

R

R

A

Q

S

D

G

G

E

T

Y

Y

K

D

K

K

I

M

Q

A

D

K

K

K

Y

Y

F

F

D

D

F

F

D

N

V

V

Y

Y

G

G

E

D

binding lysine: Y14 (= Y38), F52 (≠ W76), S70 (= S94), S72 (= S96), R77 (= R101), L117 (≠ Q140), S120 (≠ T143), T121 (= T144), Q122 (≠ H145), D161 (= D182)

1lahE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
38% identity, 88% coverage: 32:257/257 of query aligns to 8:238/238 of 1lahE

query
sites
1lahE

I

I

G

G

T

T

D

D

S

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

F

S

V

K

D

D

A

A

S

K

G

G

T

E

I

F

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

E

L

M

C

C

A

K

E

R

M

M

K

Q

A

V

E

K

C

C

S

T

F

W

V

V

S

A

T

S

D

D

W
x
F

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

M

A

I

I

V

I

S

S

S
|
S

M

L

S
|
S

I

I

T

T

P

D

E

K

R
|
R

L

Q

K

Q

L

E

V

I

D

A

F

F

S

S

N

D

K

K

Y

L

Y

Y

N

A

T

A

P

D

P

S

A

R

I

L

A

I

V

A

P

A

K

K

D

G

S

S

T

P

I

I

S

Q

-

P

D

T

V

L

A

E

G

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q

L

T

Q

S

G

T
x
S

T

T

H
x
Q

A

E

N

A

Y

Y

A

A

E

N

K

D

H

N

L

W

A

R

D

T

T

K

E

G

L

V

K

D

L

V

-

V

-

A

Y

Y

P

A

T

N

A

Q

D

D

E

L

Y

I

K

Y

L

S

D

D

V

L

A

T

S

A

G

G

R

R

V

L

D

D

A

A

V

A

I

L

D

Q

D
|
D

V

E

V

V

V

A

L

A

S

S

E

E

-

G

W

F

V

L

K

K

S

Q

D

P

A

A

G

G

A

K

C

E

C

Y

K

A

I

F

L

A

T

G

T

P

L

S

P

V

V

K

D

D

K

K

E

K

I

Y

N

F

G

G

N

D

G

G

A

T

G

G

I

V

A

G

I

L

R

R

K

K

G

D

D

D

-

T

P

E

L

L

K

K

E

A

K

A

L

F

N

D

T

K

A

A

I

L

A

T

A

E

I

L

R

R

A

Q

S

D

G

G

E

T

Y

Y

K

D

K

K

I

M

Q

A

D

K

K

K

Y

Y

F

F

D

D

F

F

D

N

V

V

Y

Y

G

G

E

D

binding L-ornithine: Y14 (= Y38), F52 (≠ W76), S70 (= S94), S72 (= S96), R77 (= R101), S120 (≠ T143), Q122 (≠ H145), D161 (= D182)

1lagE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
38% identity, 88% coverage: 32:257/257 of query aligns to 8:238/238 of 1lagE

query
sites
1lagE

I

I

G

G

T

T

D

D

S

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

F

S

V

K

D

D

A

A

S

K

G

G

T

E

I

F

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

E

L

M

C

C

A

K

E

R

M

M

K

Q

A

V

E

K

C

C

S

T

F

W

V

V

S

A

T

S

D

D

W
x
F

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

M

A

I

I

V

I

S
|
S

M
x
L

S
|
S

I

I

T

T

P

D

E

K

R
|
R

L

Q

K

Q

L

E

V

I

D

A

F

F

S

S

N

D

K

K

Y

L

Y

Y

N

A

T

A

P

D

P

S

A

R

I

L

A

I

V

A

P

A

K

K

D

G

S

S

T

P

I

I

S

Q

-

P

D

T

V

L

A

E

G

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
L

T

Q

S

G

T
x
S

T

T

H
x
Q

A

E

N

A

Y

Y

A

A

E

N

K

D

H

N

L

W

A

R

D

T

T

K

E

G

L

V

K

D

L

V

-

V

-

A

Y

Y

P

A

T

N

A

Q

D

D

E

L

Y

I

K

Y

L

S

D

D

V

L

A

T

S

A

G

G

R

R

V

L

D

D

A

A

V

A

I

L

D

Q

D
|
D

V

E

V

V

V

A

L

A

S

S

E

E

-

G

W

F

V

L

K

K

S

Q

D

P

A

A

G

G

A

K

C

E

C

Y

K

A

I

F

L

A

T

G

T

P

L

S

P

V

V

K

D

D

K

K

E

K

I

Y

N

F

G

G

N

D

G

G

A

T

G

G

I

V

A

G

I

L

R

R

K

K

G

D

D

D

-

T

P

E

L

L

K

K

E

A

K

A

L

F

N

D

T

K

A

A

I

L

A

T

A

E

I

L

R

R

A

Q

S

D

G

G

E

T

Y

Y

K

D

K

K

I

M

Q

A

D

K

K

K

Y

Y

F

F

D

D

F

F

D

N

V

V

Y

Y

G

G

E

D

binding histidine: Y14 (= Y38), F52 (≠ W76), S69 (= S93), S70 (= S94), L71 (≠ M95), S72 (= S96), R77 (= R101), L117 (≠ Q140), S120 (≠ T143), Q122 (≠ H145), D161 (= D182)

1lafE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
38% identity, 88% coverage: 32:257/257 of query aligns to 8:238/238 of 1lafE

query
sites
1lafE

I

I

G

G

T

T

D
|
D

S

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

F

S

V

K

D

D

A

A

S

K

G

G

T

E

I

F

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

E

L

M

C

C

A

K

E

R

M

M

K

Q

A

V

E

K

C

C

S

T

F

W

V

V

S

A

T

S

D

D

W
x
F

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

M

A

I

I

V

I

S
|
S

M

L

S
|
S

I

I

T

T

P

D

E

K

R
|
R

L

Q

K

Q

L

E

V

I

D

A

F

F

S

S

N

D

K

K

Y

L

Y

Y

N

A

T

A

P

D

P

S

A

R

I

L

A

I

V

A

P

A

K

K

D

G

S

S

T

P

I

I

S

Q

-

P

D

T

V

L

A

E

G

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
L

T

Q

S

G

T
x
S

T
|
T

H
x
Q

A

E

N

A

Y

Y

A

A

E

N

K

D

H

N

L

W

A

R

D

T

T

K

E

G

L

V

K

D

L

V

-

V

-

A

Y

Y

P

A

T

N

A

Q

D

D

E

L

Y

I

K

Y

L

S

D

D

V

L

A

T

S

A

G

G

R

R

V

L

D

D

A

A

V

A

I

L

D

Q

D
|
D

V

E

V

V

V

A

L

A

S

S

E

E

-

G

W

F

V

L

K

K

S

Q

D

P

A

A

G

G

A

K

C

E

C

Y

K

A

I

F

L

A

T

G

T

P

L

S

P

V

V

K

D

D

K

K

E

K

I

Y

N

F

G

G

N

D

G

G

A

T

G

G

I

V

A

G

I

L

R

R

K

K

G

D

D

D

-

T

P

E

L

L

K

K

E

A

K

A

L

F

N

D

T

K

A

A

I

L

A

T

A

E

I

L

R

R

A

Q

S

D

G

G

E

T

Y

Y

K

D

K

K

I

M

Q

A

D

K

K

K

Y

Y

F

F

D

D

F

F

D

N

V

V

Y

Y

G

G

E

D

binding arginine: D11 (= D35), Y14 (= Y38), F52 (≠ W76), S69 (= S93), S70 (= S94), S72 (= S96), R77 (= R101), L117 (≠ Q140), S120 (≠ T143), T121 (= T144), Q122 (≠ H145), D161 (= D182)

3tqlA Structure of the amino acid abc transporter, periplasmic amino acid- binding protein from coxiella burnetii. (see paper)
39% identity, 84% coverage: 34:250/257 of query aligns to 8:225/225 of 3tqlA

query
sites
3tqlA

T

T

D
x
E

S

A

T

T

Y
|
Y

P

P

F

Y

E

V

F

Y

V

M

D

-

A

-

S

G

G

G

T

Q

I

V

Q

E

G

G

F

F

D

G

I

A

D

D

I

I

T

V

K

K

A

A

L

V

C

C

A

K

E

Q

M

M

K

Q

A

A

E

V

C

C

S

T

F

I

V

S

S

N

T

Q

D

P

W
|
W

D

D

G

S

I

L

I

I

P

P

A

S

L

L

N

K

A

L

K

G

K

K

F

F

D

D

M

A

I

L

V

F

S
x
G

M

M

S
x
N

I

I

T

T

P

T

E

A

R
|
R

L

Q

K

K

L

E

V

V

D

D

F

F

S

T

N

D

K

P

Y

Y

N

T

T

N

P

S

P

V

A
x
S

I

F

A

I

V

A

P

D

K

K

D

N

S

T

T

P

I

L

S

T

-

L

D

S

V

K

A

Q

G

G

L

L

K

K

G

G

K

K

V

I

I

I

G

G

A

V

Q

Q

T

G

S

G

T

T

H

F

A

D

N

S

Y

Y

A

L

E

Q

K

D

H

S

L

F

A

G

D

N

T

S

-

I

E

T

L

I

K

Q

L

R

Y

Y

P

P

T

S

A

E

D

E

E

D

Y

A

K

L

L

M

D

D

V

L

A

T

S

S

G

G

R

R

V

V

D

D

A

A

V

V

I

V

D

G

D

D

V

T

V

P

V

L

L

I

S

K

E

Q

W

W

V

L

K

K

S

Q

D

N

A

-

G

G

A

R

C

R

C

E

K

Y

I

V

L

L

T

I

T

G

L

K

P

P

V

V

-

N

D

D

K

P

E

N

I

Y

N

F

G

G

N

K

G

G

A

V

G

G

I

I

A

A

I

V

R

K

K

K

G

G

D

N

P

Q

-

A

L

L

K

L

E

L

K

K

L

L

N

N

T

K

A

A

I

L

A

A

I

I

R

K

A

A

S

N

G

G

E

V

Y

Y

K

A

I

I

Q

V

D

Q

K

K

Y

Y

F

F

binding arginine: E9 (≠ D35), Y12 (= Y38), W48 (= W76), G65 (≠ S93), G66 (≠ S94), N68 (≠ S96), R73 (= R101), S89 (≠ A117)

8hqrA Crystal structure of the arginine-/lysine-binding protein sar11_1210 from 'candidatus pelagibacter ubique' htcc1062 bound to arginine (see paper)
34% identity, 91% coverage: 21:253/257 of query aligns to 4:264/267 of 8hqrA

query
sites
8hqrA

G

G

S

S

A

H

M

M

A

-

D

-

G

-

E

D

K

K

Y

I

V

K

I

I

G

G

T

T

D
x
E

S

G

T

A

Y
|
Y

P

P

F

W

E

N

F

S

V

K

D

D

A

A

S

S

G

G

T

A

I

L

Q

I

G

G

F

F

D

E

I

V

D

E

I

L

T

A

K

E

A

E

L

L

C

C

A

K

E

I

M

M

K

G

A

R

E

E

C

C

S

T

F

I

V

V

S

E

T

Q

D

D

W
|
W

D

D

G

G

I

M

I

I

P

P

A

A

L

L

N

L

A

M

K

R

K

K

F

F

D

D

M

A

I

I

V

M

S
x
A

S
x
G

M

M

S
|
S

I

I

T

T

P

A

E

E

R
|
R

L

Q

K

K

L

T

V

I

D

T

F

F

S

S

N

Q

K

G

Y

Y

Y

A

N

D

T
x
E

P

V

P

A

A

A

I

L

A

A

V

V

P

M

K

K

D

G

S

S

T

S

I

L

S

E

D

S

V

M

-

D

-

T

-

P

-

E

-

G

-

I

-

N

-

L

-

T

-

L

-

G

-

S

-

A

-

V

-

K

-

T

-

L

-

K

-

T

-

L

-

T

A

A

G

A

L

L

K

A

G

G

K

K

V

T

I

V

G

C

A

T

Q
|
Q

T

T

S

G

T
|
T

T
x
I

H

H

A

Q

N

N

Y

F

A

L

E

E

K

S

H

G

-

D

L

V

A

G

D

K

T

V

E

N

L

V

K

R

L

T

Y

Y

P

K

T

T

A

Q

D

D

E

E

Y

V

K

N

L

L

D

D

V

L

A

T

S

S

G

G

R

R

V

C

D

D

A

V

V

A

I

L

D

A

V

A

V

V

V

A

L

F

S

T

E

D

W

Y

V

-

K

-

S

A

D

D

A

K

G

S

A

G

C

K

C

P

K

V

I

V

L

L

T

V

T

G

L

P

P

T

V

F

D

S

K

G

E

G

I

A

N

F

G

G

N

N

G

G

A

V

G

G

I

V

A

G

I

I

R

R

K

Q

G

G

D

G

-

D

-

A

-

I

-

G

-

T

-

R

-

D

-

A

P

K

L

L

K

L

E

K

K

D

L

F

N

N

T

K

A

A

I

I

A

N

A

T

I

A

R

R

A

K

S

Q

G

G

E

I

Y

I

K

S

K

K

I

L

Q

A

D

I

K

K

Y

H

F

F

D

G

F

F

D

D

binding arginine: E15 (≠ D35), Y18 (= Y38), W56 (= W76), A73 (≠ S93), G74 (≠ S94), S76 (= S96), R81 (= R101), E94 (≠ T114), Q143 (= Q140), T146 (= T143), I147 (≠ T144)

5t0wA Crystal structure of the ancestral amino acid-binding protein anccdt- 1, a precursor of cyclohexadienyl dehydratase
38% identity, 85% coverage: 32:250/257 of query aligns to 14:228/229 of 5t0wA

query
sites
5t0wA

I

V

G

G

T

T

D
|
D

S

A

T

D

Y
|
Y

P

K

P

P

F

F

E

S

F

F

V

K

D

D

A

K

S

N

G

G

T

Q

I

Y

Q

T

G

G

F

F

D

D

I

I

D

D

I

L

T

A

K

K

A

A

L

L

C

A

A

K

E

E

M

L

K

G

A

V

E

K

C

V

S

E

F

F

V

V

S

P

T

T

D

T

W
|
W

D

D

G

G

I

I

P

P

A

A

L

L

N

Q

A

T

K

G

K

K

F

F

D

D

M

I

I

V

V

M

S
|
S

S
x
G

M
|
M

S
x
T

I

I

T

T

P

P

E

E

R
|
R

L

K

K

K

L

K

V

V

D

D

F

F

S

S

N

D

K

P

Y

Y

Y

M

N

T

T

A

P

G

P

Q

A

T

I

I

A

L

V

V

P

K

K

K

D

D

S

N

-

A

-

D

-

K

-

I

-

K

T

S

I

F

S

E

D

D

V

L

A

N

G

K

L

P

K

D

G

V

K

K

V

V

I

-

G

A

A

V

Q
|
Q

T

L

S

G

T
|
T

H

S

A

E

N

Q

Y

A

A

A

E

K

K

E

H

F

L

L

A

P

D

K

T

A

E

K

L

I

K

R

L

T

Y

F

P

E

T

N

A

N

D

A

E

E

Y

A

K

F

L

Q

D

E

V

V

A

V

S

S

G

G

R

R

V

A

D

D

A

A

V

M

I

V

D

T

D
|
D

V

S

V

P

V

V

L

A

S

A

E

Y

W

Y

V

A

K

K

S

-

D

-

A

-

G

-

A

-

C

-

K

-

I

-

L

L

T

A

T

V

L

V

P

V

V

V

D

D

K

E

E

P

I

F

N

T

G

H

N

E

G

P

A

L

G

G

I

F

A

A

I

I

R

R

K

K

G

G

D

D

P

P

-

E

L

L

K

L

E

N

K

W

L

V

N

N

T

N

A

W

I

L

A

K

A

Q

I

M

R

K

A

K

S

D

G

G

E

T

Y

Y

K

D

K

K

I

L

Q

Y

D

E

K

K

Y

W

F

F

binding arginine: D17 (= D35), Y20 (= Y38), W58 (= W76), S75 (= S93), G76 (≠ S94), M77 (= M95), T78 (≠ S96), R83 (= R101), Q126 (= Q140), T129 (= T143), T130 (= T144), D168 (= D182)

5orgA Structure of the periplasmic binding protein (pbp) occj from a. Tumefaciens b6 in complex with octopine. (see paper)
32% identity, 87% coverage: 32:254/257 of query aligns to 8:254/257 of 5orgA

query
sites
5orgA

I

I

G

A

T

T

D
x
E

S

G

T

G

Y
|
Y

P

A

P

P

F

W

E

N

F

F

V

S

D

G

A

P

S

G

G

G

T

K

I

L

Q

D

G

G

F

F

D

E

I

I

D

D

I

L

T

A

K

N

A

A

L

L

C

C

A

E

E

K

M

M

K

K

A

A

E

K

C

C

S

Q

F

I

V

V

S

A

T

Q

D

N

W
|
W

D

D

G

G

I

I

I

M

P

P

A

S

L

L

N

T

A

G

K

K

F

Y

D

D

M

A

I

I

V

M

S
x
A

M
|
M

S
|
S

I

V

T

T

P

P

E

K

R
|
R

L

Q

K

E

L

V

V

I

D

G

F

F

S

S

N

I

K

P

Y

Y

Y

A

N

A

T

G

P

I

P
x
N

A

G

I

F

A

A

V

V

P

M

K

G

D

D

S

S

T

K

I

L

S

A

D

E

V

M

A

P

G

G

-

L

-

G

-

E

-

T

-

Y

-

S

-

L

-

D

-

S

-

Q

-

A

-

D

-

A

-

K

-

A

-

I

-

A

-

D

-

I

-

S

-

F

L

L

K

N

G

G

K

T

V

T

I

V

G

G

A

V

Q
|
Q

T

G

S

S

T
|
T

H

A

A

S

N

T

Y

F

A

L

E

D

K

K

H

Y

L

F

-

K

A

G

D

S

T

V

E

D

L

I

K

K

L

E

Y

Y

P

K

T

S

A

V

D

E

E

E

Y

H

K

N

L

L

D

D

V

L

A

T

S

S

G

G

R

R

V

L

D

D

A

A

V

V

I

L

D

A

D
x
N

V

A

V

T

V

V

L

L

S

A

E

A

W

A

V

I

K

E

S

K

D

P

A

E

G

M

A

K

C

G

C

A

K

K

I

L

L

V

T

G

T

P

L

L

P

F

V

S

D

G

K

G

E

E

I

F

N

-

G

-

N

G

G

V

A

V

G

A

I

V

A

G

I

L

R

R

K

K

G

E

D

D

-

T

P

A

L

L

K

K

E

A

K

D

L

F

N

D

T

A

A

A

I

I

A

K

A

A

I

A

R

S

A

E

S

D

G

G

E

T

Y

I

K

K

K

T

I

L

Q

S

D

L

K

K

Y

W

F

F

D

K

F

V

D

D

V

V

binding octopine: E11 (≠ D35), Y14 (= Y38), W52 (= W76), A69 (≠ S93), A70 (≠ S94), M71 (= M95), S72 (= S96), R77 (= R101), N92 (≠ P116), Q140 (= Q140), T143 (= T143), T144 (= T144), N183 (≠ D182)

4ymxA Crystal structure of the substrate binding protein of an amino acid abc transporter (see paper)
37% identity, 86% coverage: 31:250/257 of query aligns to 4:222/224 of 4ymxA

query
sites
4ymxA

V

V

I

M

G

G

T

T

D
x
S

S

A

T
x
D

Y
x
F

P

P

F

F

E

E

F

F

V

H

D

K

A

V

S

E

G

G

-

G

-

K

-

D

T

E

I

I

Q

V

G

G

F

F

D

D

I

I

D

D

I

I

T

A

K

N

A

A

L

I

C

A

A

K

E

K

M

L

K

G

A

V

E

K

C

L

S

E

F

I

V

K

S

D

T

M

D

D

W
x
F

D

K

G

G

I

L

I

I

P

P

A

A

L

L

N

Q

A

A

K

G

K

R

F

V

D

D

M

M

I

V

V

I

S
x
A

S
x
G

M
|
M

S
x
T

I

P

T

T

P

A

E

E

R
|
R

L

K

K

K

L

S

V

V

D

D

F

F

S

S

N

D

K

L

Y

Y

N

D

T

S

P

R

P

Q

A

V

I

V

A

V

V

V

P

K

K

N

D

D

S

S

T

P

I

I

S

S

D

K

V

F

A

D

G

D

L

L

K

K

G

V

K

K

V

T

I

I

G

A

A

V

Q
|
Q

T

I

S

G

T
|
T

H

-

A

S

N

E

Y

E

A

A

E

A

K

K

H

K

L

I

A

P

D

N

T

V

E

K

L

L

K

K

-

Q

L

L

Y

N

P

R

T

V

A

S

D

D

E

E

Y

F

K

-

L

M

D

D

V

L

A

Q

S

N

G

G

R

R

V

C

D

D

A

A

V

I

I

V

D

V

D
x
E

V

D

V

T

V

V

L

A

S

K

E

A

W

Y

V

L

K

K

S

E

D

-

A

-

G

-

A

-

C

-

C

Y

K

K

I

D

L

M

T

K

T

I

L

L

P

Y

V

M

D

D

K

-

E

E

I

I

N

N

G

N

-

V

-

E

N

N

G

G

A

S

G

A

I

V

A

A

I

V

R

A

K

K

G

G

D

N

P

K

-

S

L

L

K

L

E

D

K

V

L

V

N

N

T

E

A

V

I

I

A

K

A

E

I

L

R

K

A

Q

S

S

G

G

E

E

Y

Y

K

D

K

K

I

L

Q

V

D

D

K

K

Y

W

F

F

binding arginine: S8 (≠ D35), D10 (≠ T37), F11 (≠ Y38), F52 (≠ W76), A69 (≠ S93), G70 (≠ S94), M71 (= M95), T72 (≠ S96), R77 (= R101), Q116 (= Q140), T119 (= T143), T120 (= T144), E157 (≠ D182)

5itoA Structure of the periplasmic binding protein m117n-noct from a. Tumefaciens in complex with octopine (see paper)
31% identity, 89% coverage: 26:253/257 of query aligns to 1:252/255 of 5itoA

query
sites
5itoA

D

D

G

Y

E

K

K

S

Y

I

V

T

I

I

G

A

T

T

D
x
E

S

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

F

F

V

K

D

D

A

A

S

G

G

G

T

K

I

L

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

D

L

L

C

C

A

K

E

R

M

M

K

N

A

I

E

E

C

C

S

K

F

F

V

V

S

E

T

Q

D

A

W
|
W

D

D

G

G

I

I

P

P

A

S

L

L

N

T

A

A

K

G

K

R

F

Y

D

D

M

A

I

I

V

M

S
x
A

M

M

S
x
G

I

I

T

Q

P

P

E

A

R
|
R

L

E

K

K

L

V

V

I

D

A

F

F

S

S

N

R

K

P

Y

Y

Y

L

N

L

T

T

P

P

P

N

A

T

I

F

A

L

V

T

P

T

K

A

D

D

S

S

T

P

I

L

-

L

-

K

S

T

D

Q

V

V

A

A

-

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

G

I

L

F

K

E

G

G

K

V

V

K

I

F

G

G

A

V

Q
|
Q

T

A

S

G

T
|
T

T
x
S

H
|
H

A

E

N

A

Y

F

A

M

E

K

K

Q

H

M

L

M

A

P

D

S

T

V

E

Q

L

I

K

S

L

T

Y

Y

P

D

T

T

A

I

D

D

E

N

Y

V

K

V

L

M

D

D

V

L

A

K

S

A

G

G

R

R

V

I

D

D

A

A

V

S

I

L

D

A

D
x
S

V

V

V

S

V

F

L

L

S

-

E

-

W

-

V

-

K

-

S

-

D

-

A

-

G

-

A

-

C

-

K

K

I

P

L

L

T

T

T

D

L

K

P

P

V

D

D

N

K

K

E

D

I

L

N

K

-

M

-

F

-

G

-

P

-

R

-

M

-

T

-

G

-

L

-

F

G

G

N

K

G

G

A

V

G

G

I

V

A

G

I

I

R

R

K

K

G

E

D

D

P

A

-

D

L

L

K

K

E

A

K

L

L

F

N

D

T

K

A

A

I

I

A

D

A

A

I

A

R

I

A

A

S

D

G

G

E

T

Y

V

K

Q

K

K

I

L

Q

S

D

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

binding octopine: E10 (≠ D35), Y13 (= Y38), W51 (= W76), A68 (≠ S93), A69 (≠ S94), G71 (≠ S96), R76 (= R101), Q139 (= Q140), T142 (= T143), S143 (≠ T144), H144 (= H145), S181 (≠ D182)

5ovzA High resolution structure of the pbp noct in complex with nopaline (see paper)
31% identity, 89% coverage: 26:253/257 of query aligns to 1:252/259 of 5ovzA

query
sites
5ovzA

D

D

G

Y

E

K

K

S

Y

I

V

T

I

I

G

A

T

T

D
x
E

S

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

F

F

V

K

D

D

A

A

S

G

G

G

T

K

I

L

Q

I

G

G

F

F

D

D

I

I

D

D

I

L

T

G

K

N

A

D

L

L

C

C

A

K

E

R

M

M

K

N

A

I

E

E

C

C

S

K

F

F

V

V

S

E

T

Q

D

A

W
|
W

D

D

G

G

I

I

P

P

A

S

L

L

N

T

A

A

K

G

K

R

F

Y

D

D

M

A

I

I

V

M

S
x
A

M

M

S
x
G

I

I

T

Q

P

P

E

A

R
|
R

L

E

K

K

L

V

V

I

D

A

F

F

S

S

N

R

K

P

Y

Y

Y

L

N

L

T

T

P

P

P
x
M

A

T

I

F

A

L

V

T

P

T

K

A

D

D

S

S

T

P

I

L

-

L

-

K

S

T

D

Q

V

V

A

A

-

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

G

I

L

F

K

E

G

G

K

V

V

K

I

F

G

G

A

V

Q
|
Q

T

A

S

G

T
|
T

T
x
S

H
|
H

A

E

N

A

Y

F

A

M

E

K

K

Q

H

M

L

M

A

P

D

S

T

V

E

Q

L

I

K

S

L

T

Y

Y

P

D

T

T

A

I

D

D

E

N

Y

V

K

V

L

M

D

D

V

L

A

K

S

A

G

G

R

R

V

I

D

D

A

A

V

S

I

L

D

A

D
x
S

V

V

V

S

V

F

L

L

S

-

E

-

W

-

V

-

K

-

S

-

D

-

A

-

G

-

A

-

C

-

K

K

I

P

L

L

T

T

T

D

L

K

P

P

V

D

D

N

K

K

E

D

I

L

N

K

-

M

-

F

-

G

-

P

-

R

-

M

-

T

-

G

-

L

-

F

G

G

N

K

G

G

A
x
V

G

G

I

V

A

G

I

I

R

R

K

K

G

E

D

D

P

A

-

D

L

L

K

K

E

A

K

L

L

F

N

D

T

K

A

A

I

I

A

D

A

A

I

A

R

I

A

A

S

D

G

G

E

T

Y

V

K

Q

K

K

I

L

Q

S

D

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

binding N-[(1S)-4-carbamimidamido-1-carboxybutyl]-D-glutamic acid: E10 (≠ D35), Y13 (= Y38), W51 (= W76), A68 (≠ S93), A69 (≠ S94), G71 (≠ S96), R76 (= R101), M91 (≠ P116), Q139 (= Q140), T142 (= T143), S143 (≠ T144), H144 (= H145), S181 (≠ D182), V213 (≠ A215)

1wdnA Glutamine-binding protein (see paper)
31% identity, 86% coverage: 29:250/257 of query aligns to 1:218/223 of 1wdnA

query
sites
1wdnA

K

K

Y

L

V

V

I

V

G

A

T

T

D

D

S

T

T

A

Y
x
F

P

V

P

P

F

F

E

E

F

F

V

K

D

Q

A

G

S

D

G

L

T

Y

I

V

Q

-

G

G

F

F

D

D

I

V

D

D

I

L

T

W

K

A

A

A

L

I

C

A

A

K

E

E

M

L

K

K

A

L

E

D

C

Y

S

E

F

L

V

K

S

P

T

M

D

D

W
x
F

D

S

G

G

I

I

P

P

A

A

L

L

N

Q

A

T

K

K

K

N

F

V

D

D

M

L

I

A

V

L

S

A

S
x
G

M

I

S
x
T

I

I

T

T

P

D

E

E

R
|
R

L

K

K

K

L

A

V

I

D

D

F

F

S

S

N

D

K

G

Y

Y

N

K

T

S

P

G

P

L

A

L

I

V

A

M

V

V

P

K

K

A

D

N

S

N

T

N

-

D

I

V

S

K

D

S

V

V

A

K

G

D

L

L

K

D

G

G

K

K

V

V

I

V

G

A

A

V

Q
x
K

T

S

S

G

T
|
T

T

G

H

S

A

V

N

D

Y

Y

A

A

E

K

K

A

H

N

L

I

A

K

D

T

T

K

E

D

L

L

K

R

L

Q

Y

F

P

P

T

N

A

I

D

D

E

N

Y

A

K

Y

L

M

D

E

V

L

A

G

S

T

G

N

R

R

V

A

D

D

A

A

V

V

I

L

D
x
H

D
|
D

V

T

V

P

V

N

L

I

S

L

E

Y

W

F

V

I

K

K

S

T

D

A

A

G

G

N

A

G

C

Q

C

F

K

K

I

-

L

-

T

-

L

-

P

A

V

V

D

G

K

D

E

S

I

L

N

E

G

A

N

Q

G

Q

A

Y

G

G

I

I

A

A

I

F

R

P

K

K

G

G

-

S

D

D

P

E

L

L

K

R

E

D

K

K

L

V

N

N

T

G

A

A

I

L

A

K

A

T

I

L

R

R

A

E

S

N

G

G

E

T

Y

Y

K

N

K

E

I

I

Q

Y

D

K

K

K

Y

W

F

F

binding glutamine: F10 (≠ Y38), F47 (≠ W76), G65 (≠ S94), T67 (≠ S96), R72 (= R101), K112 (≠ Q140), T115 (= T143), H153 (≠ D181), D154 (= D182)

Query Sequence

>WP_011652285.1 NCBI__GCF_000009265.1:WP_011652285.1
MLNSTRIFAAASIAAMSLFAGSAMADGEKYVIGTDSTYPPFEFVDASGTIQGFDIDITKA
LCAEMKAECSFVSTDWDGIIPALNAKKFDMIVSSMSITPERLKLVDFSNKYYNTPPAIAV
PKDSTISDVAGLKGKVIGAQTSTTHANYAEKHLADTELKLYPTADEYKLDVASGRVDAVI
DDVVVLSEWVKSDAGACCKILTTLPVDKEINGNGAGIAIRKGDPLKEKLNTAIAAIRASG
EYKKIQDKYFDFDVYGE

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