SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing AO356_23515 FitnessBrowser__pseudo5_N2C3_1:AO356_23515 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)

P02911 Lysine/arginine/ornithine-binding periplasmic protein; LAO-binding protein from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 4 papers)
50% identity, 99% coverage: 1:253/256 of query aligns to 1:257/260 of P02911

query
sites
P02911

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D33 (= D29) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
Y36 (= Y32) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
D52 (= D48) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
C60 (= C56) modified: Disulfide link with 67
C67 (= C63) modified: Disulfide link with 60
F74 (= F70) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
S91 (= S87) binding L-arginine; binding L-ornithine; mutation to A: Has no effect on the arginine and histidine binding affinity.
S92 (≠ A88) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
S94 (= S90) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
R99 (= R95) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
L139 (≠ Q135) 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 (≠ V139) binding L-arginine; binding L-lysine; binding L-ornithine
D183 (= D179) binding L-arginine; binding L-ornithine; mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.

5owfA Structure of a lao-binding protein mutant with glutamine (see paper)
52% identity, 91% coverage: 22:253/256 of query aligns to 1:232/235 of 5owfA

query
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5owfA

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binding glutamine: Y11 (= Y32), F49 (= F70), S66 (= S87), S67 (≠ A88), S69 (= S90), R74 (= R95), K114 (≠ Q135), S117 (= S138), T118 (≠ V139), D158 (= D179)

1lstA Three-dimensional structures of the periplasmic lysine-, arginine-, ornithine-binding protein with and without a ligand (see paper)
52% identity, 91% coverage: 22:253/256 of query aligns to 4:235/238 of 1lstA

query
sites
1lstA

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binding lysine: Y14 (= Y32), F52 (= F70), S70 (≠ A88), S72 (= S90), R77 (= R95), L117 (≠ Q135), S120 (= S138), T121 (≠ V139), Q122 (≠ F140), D161 (= D179)

1lahE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
52% identity, 91% coverage: 22:253/256 of query aligns to 4:235/238 of 1lahE

query
sites
1lahE

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binding L-ornithine: Y14 (= Y32), F52 (= F70), S70 (≠ A88), S72 (= S90), R77 (= R95), S120 (= S138), Q122 (≠ F140), D161 (= D179)

1lagE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
52% identity, 91% coverage: 22:253/256 of query aligns to 4:235/238 of 1lagE

query
sites
1lagE

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A

L

L

E

T

R

E

L

L

H

R

R

Q

N

D

G

G

T

T

Y

Y

E

D

R

K

I

M

A

A

S

K

K

K

Y

Y

F

F

D

D

F

F

D

N

I

V

binding histidine: Y14 (= Y32), F52 (= F70), S69 (= S87), S70 (≠ A88), L71 (= L89), S72 (= S90), R77 (= R95), L117 (≠ Q135), S120 (= S138), Q122 (≠ F140), D161 (= D179)

1lafE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
52% identity, 91% coverage: 22:253/256 of query aligns to 4:235/238 of 1lafE

query
sites
1lafE

E

Q

E

T

L

V

R

R

F

I

G

G

V

T

D
|
D

P

T

T

T

Y
|
Y

P

A

P

P

F

F

E

S

S

S

K

K

R

D

P

A

D

K

G

G

S

E

L

F

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

E

L

M

C

C

S

K

E

R

L

M

Q

Q

R

V

R

K

C

C

V

T

W

W

V

V

E

A

N

S

A

D

F
|
F

D

D

G

A

M

L

V

I

S

P

A

S

L

L

K

K

G

A

R

K

K

K

F

I

D

D

G

A

I

I

L

I

S
|
S

A
x
S

L

L

S
|
S

I

I

T

T

E

D

A

K

R
|
R

K

Q

A

Q

E

E

I

I

A

A

F

F

S

S

N

D

T

K

L

L

Y

Y

D

A

T

A

P

D

A

S

R

R

L

L

V

I

A

A

P

A

E

K

G

G

S

S

P

P

L

I

Q

Q

P

P

T

T

A

L

E

E

S

S

L

L

R

K

G

G

K

K

R

H

I

V

G

G

V

V

Q
x
L

Q

Q

G

G

S
|
S

V
x
T

F
x
Q

E

E

V

A

Y

Y

A

A

K

N

R

D

M

N

W

W

G

R

L

T

K

K

G

G

V

V

E

D

V

V

P

A

Y

Y

Q

A

S

N

S

Q

D

D

L

L

T

I

Y

Y

S

S

D

D

L

L

I

T

N

A

G

G

R

R

L

L

D

D

A

A

F

L

D

Q

D
|
D

A

E

I

V

A

A

V

A

S

S

E

E

G

G

L

F

L

L

K

K

K

Q

P

P

A

A

G

G

K

K

G

E

F

Y

G

A

Y

F

A

A

G

G

E

P

V

S

V

V

K

K

S

D

P

K

E

K

I

Y

F

F

G

G

P

D

G

G

T

T

G

G

I

V

G

G

L

L

R

R

K

K

S

D

D

D

T

T

A

E

L

L

A

K

G

A

E

A

I

F

N

D

Q

K

A

A

L

L

E

T

R

E

L

L

H

R

R

Q

N

D

G

G

T

T

Y

Y

E

D

R

K

I

M

A

A

S

K

K

K

Y

Y

F

F

D

D

F

F

D

N

I

V

binding arginine: D11 (= D29), Y14 (= Y32), F52 (= F70), S69 (= S87), S70 (≠ A88), S72 (= S90), R77 (= R95), L117 (≠ Q135), S120 (= S138), T121 (≠ V139), Q122 (≠ F140), D161 (= D179)

P0AEU0 Histidine-binding periplasmic protein; HBP from Escherichia coli (strain K12) (see 3 papers)
50% identity, 91% coverage: 22:253/256 of query aligns to 26:257/260 of P0AEU0

query
sites
P0AEU0

E

Q

E

N

L

I

R

R

F

I

G

G

V

T

D

D

P

P

T

T

Y

Y

P

A

P

P

F

F

E

E

S

S

K

K

R

N

P

S

D

Q

G

G

S

E

L

L

T

V

G

G

F

F

D

D

I

I

E

D

L

L

G

A

E

K

S

E

L

L

C
|
C

S

K

E

R

L

I

Q

N

R

T

R

Q

C
|
C

V

T

W

F

V

V

E

E

N

N

A

P

F

L

D

D

G

A

M

L

V

I

S

P

A

S

L

L

K

K

G

A

R

K

K

K

F

I

D

D

G

A

I

I

L

M

S
|
S

A
x
S

L

L

S
|
S

I

I

T

T

E

E

A

K

R
|
R

K

Q

A

Q

E

E

I

I

A

A

F

F

S

T

N

D

T

K

L

L

Y

Y

D

A

T

A

P

D

A

S

R

R

L

L

V

V

A

V

P

A

E

K

G

N

S

S

P

D

L

I

Q

Q

P

P

T

T

A

V

E

E

S

S

L

L

R

K

G

G

K

K

R

R

I

V

G

G

V

V

Q

L

Q

Q

G

G

S

T

V
x
T

F

Q

E

E

V

T

Y

F

A

G

K

N

R

E

M

H

W

W

G

A

L

P

K

K

G

G

V

I

E

E

V

I

V

V

P

S

Y

Y

Q

Q

S

G

S

Q

D

D

L

N

T

I

Y

Y

S

S

D

D

L

L

I

T

N

A

G

G

R

R

L

I

D

D

A

A

F

F

D

Q

D
|
D

A

E

I

V

A

A

V

A

S

S

E

E

G

G

L

F

L

L

K

K

K

Q

P

P

A

V

G

G

K

K

G

D

F

Y

G

K

Y

F

A

G

G

G

E

P

V

S

V

V

K

K

S

D

P

E

E

K

I

L

F

F

G

G

P

V

G

G

T

T

G

G

I

M

G

G

L

L

R

R

K

K

S

E

D

D

T

N

A

E

L

L

A

R

G

E

E

A

I

L

N

N

Q

K

A

A

L

F

E

A

R

E

L

M

H

R

R

A

N

D

G

G

T

T

Y

Y

E

E

R

K

I

L

A

A

S

K

K

K

Y

Y

F

F

D

D

F

F

D

D

I

V

C60 (= C56) modified: Disulfide link with 67
C67 (= C63) modified: Disulfide link with 60
S91 (= S87) binding L-histidine
S92 (≠ A88) binding L-histidine
S94 (= S90) binding L-histidine
R99 (= R95) binding L-histidine
T143 (≠ V139) binding L-histidine
D183 (= D179) binding L-histidine

Sites not aligning to the query:

1:22 signal peptide

P02910 Histidine-binding periplasmic protein; HBP from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
50% identity, 91% coverage: 22:253/256 of query aligns to 26:257/260 of P02910

query
sites
P02910

E

Q

E

K

L

I

R

R

F

I

G

G

V

T

D

D

P

P

T

T

Y

Y

P

A

P

P

F

F

E
|
E

S

S

K
|
K

R

N

P

A

D

Q

G

G

S
x
E

L

L

T

V

G

G

F

F

D

D

I

I

E

D

L

L

G

A

E

K

S

E

L

L

C

C

S

K

E

R

L

I

Q

N

R

T

R

Q

C

C

V

T

W

F

V

V

E

E

N

N

A

P

F

L

D

D

G

A

M

L

V

I

S

P

A

S

L

L

K

K

G

A

R

K

K

K

F

I

D

D

G

A

I

I

L

M

S

S

A

S

L

L

S

S

I

I

T

T

E

E

A

K

R

R

K

Q

A

Q

E

E

I

I

A

A

F

F

S

T

N

D

T

K

L

L

Y

Y

D

A

T

A

P

D

A

S

R

R

L

L

V

V

A

V

P

A

E

K

G

N

S

S

P

D

L

I

Q

Q

P

P

T

T

A

V

E

A

S

S

L

L

R

K

G

G

K

K

R

R

I

V

G

G

V

V

Q

L

Q

Q

G

G

S

T

V

T

F

Q

E

E

V

T

Y

F

A

G

K

N

R

E

M

H

W

W

G

A

L

P

K

K

G

G

V

I

E

E

V

I

V

V

P

S

Y

Y

Q

Q

S

G

S

Q

D

D

L

N

T

I

Y

Y

S

S

D
|
D

L

L

I

T

N

A

G

G

R
|
R

L

I

D
|
D

A

A

F

F

D

Q

D

D

A

E

I

V

A

A

V

A

S

S

E

E

G

G

L

F

L

L

K

K

K

Q

P

P

A

V

G

G

K

K

G

D

F

Y

G

K

Y

F

A

G

G

G

E

P

V

A

V

V

K

K

S

D

P

E

E

K

I

L

F

F

G

G

P

V

G

G

T

T

G

G

I

M

G

G

L

L

R

R

K

K

S

E

D

D

T

N

A

E

L

L

A

R

G

E

E

A

I

L

N

N

Q

K

A

A

L

F

E

A

R

E

L

M

H

R

R

A

N

D

G

G

T

T

Y

Y

E

E

R

K

I

L

A

A

S

K

K

K

Y

Y

F

F

D

D

F

F

D

D

I

V

E40 (= E36) mutation to K: Decrease in ATPase-inducing activity and histidine transport; when associated with K-47.
K42 (= K38) mutation to E: Increases ATPase-inducing activity and histidine transport; when associated with K-47.
E47 (≠ S43) 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 (= D167) mutation D->A,N: Strong decrease in ATPase-inducing activity and histidine transport.
R176 (= R172) mutation R->D,S: Strong decrease in ATPase-inducing activity and histidine transport.
D178 (= D174) mutation to A: Slight decrease in ATPase-inducing activity and histidine transport.

Sites not aligning to the query:

1:22 signal peptide

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)
50% identity, 91% coverage: 22:253/256 of query aligns to 4:235/238 of 1hslA

query
sites
1hslA

E

Q

E

K

L

I

R

R

F

I

G

G

V

T

D

D

P

P

T

T

Y
|
Y

P

A

P

P

F

F

E

E

S

S

K

K

R

N

P

A

D

Q

G

G

S

E

L

L

T

V

G

G

F

F

D

D

I

I

E

D

L

L

G

A

E

K

S

E

L

L

C

C

S

K

E

R

L

I

Q

N

R

T

R

Q

C

C

V

T

W

F

V

V

E

E

N

N

A

P

F
x
L

D

D

G

A

M

L

V

I

S

P

A

S

L

L

K

K

G

A

R

K

K

K

F

I

D

D

G

A

I

I

L

M

S
|
S

A
x
S

L
|
L

S
|
S

I

I

T

T

E

E

A

K

R
|
R

K

Q

A

Q

E

E

I

I

A

A

F

F

S

T

N

D

T

K

L

L

Y

Y

D

A

T

A

P

D

A

S

R

R

L

L

V

V

A

V

P

A

E

K

G

N

S

S

P

D

L

I

Q

Q

P

P

T

T

A

V

E

A

S

S

L

L

R

K

G

G

K

K

R

R

I

V

G

G

V

V

Q

L

Q

Q

G

G

S
x
T

V
x
T

F

Q

E

E

V

T

Y

F

A

G

K

N

R

E

M

H

W

W

G

A

L

P

K

K

G

G

V

I

E

E

V

I

V

V

P

S

Y

Y

Q

Q

S

G

S

Q

D

D

L

N

T

I

Y

Y

S

S

D

D

L

L

I

T

N

A

G

G

R

R

L

I

D

D

A

A

F

F

D

Q

D
|
D

A

E

I

V

A

A

V

A

S

S

E

E

G

G

L

F

L

L

K

K

K

Q

P

P

A

V

G

G

K

K

G

D

F

Y

G

K

Y

F

A

G

G

G

E

P

V

A

V

V

K

K

S

D

P

E

E

K

I

L

F

F

G

G

P

V

G

G

T

T

G

G

I

M

G

G

L

L

R

R

K

K

S

E

D

D

T

N

A

E

L

L

A

R

G

E

E

A

I

L

N

N

Q

K

A

A

L

F

E

A

R

E

L

M

H

R

R

A

N

D

G

G

T

T

Y

Y

E

E

R

K

I

L

A

A

S

K

K

K

Y

Y

F

F

D

D

F

F

D

D

I

V

binding histidine: Y14 (= Y32), L52 (≠ F70), S69 (= S87), S70 (≠ A88), L71 (= L89), S72 (= S90), R77 (= R95), T120 (≠ S138), T121 (≠ V139), D161 (= D179)

4zv1A An ancestral arginine-binding protein bound to arginine (see paper)
33% identity, 88% coverage: 24:249/256 of query aligns to 6:225/226 of 4zv1A

query
sites
4zv1A

L

L

R

R

F

V

G

G

V

T

D
x
E

P

A

T

T

Y
x
F

P

P

F

F

E

G

S

F

K

K

R

D

P

E

D

N

G

G

S

K

L

L

T

V

G

G

F

F

D

D

I

I

E

D

L

L

G

A

E

K

S

A

L

I

C

A

S

K

E

K

L

L

Q

G

R

V

R

K

C

V

V

E

W

F

V

K

E

P

N

M

A

D

F
|
F

D

D

G

G

M

I

V

I

S

P

A

A

L

L

K

Q

G

S

R

G

K

K

F

I

D

D

G

V

I

V

L

I

S
x
A

A
x
G

L
x
M

S
x
T

I

I

T

T

E

E

A

E

R
|
R

K

K

A

K

E

Q

I

V

A

D

F

F

S

S

N

D

T

P

L

Y

Y

F

D

E

T

A

P

G

A

Q

R

A

L

I

V

V

A

V

P

K

E

K

G

G

S

N

P

D

L

S

Q

I

P

K

T

S

A

L

E

E

S

D

L

L

R

K

G

G

K

K

R

K

I

V

G

G

V

V

Q
|
Q

Q

L

G

G

S
|
S

V
x
T

F

S

E

E

V

Q

Y

H

A

V

K

K

R

K

M

V

W

A

G

K

L

D

K

A

G

G

V

V

E

K

V

V

V

K

P

K

Y

F

Q

D

S

N

S

F

D

S

L

E

T

A

Y

F

S

Q

D

E

L

L

I

K

N

S

G

G

R

R

L

V

D

D

A

A

A

V

F

V

D

T

D
|
D

A

N

I

-

A

A

V

V

S

A

E

L

G

A

L

Y

L

V

K

K

K

Q

P

N

A

P

G

N

K

A

G

G

F

V

G

K

Y

I

A

V

G

G

E

E

V

T

V

F

K

S

S

-

P

-

E

-

I

-

F

-

G

G

P

E

G

P

T

Y

G

G

I

I

G

A

L

V

R

R

K

K

S

G

D

N

T

S

A

E

L

L

A

L

G

E

E

K

I

I

N

N

Q

K

A

A

L

L

E

E

R

E

L

M

H

K

R

K

N

D

G

G

T

T

Y

Y

E

D

R

K

I

I

A

Y

S

E

K

K

Y

W

F

F

binding arginine: E11 (≠ D29), F14 (≠ Y32), F52 (= F70), A69 (≠ S87), G70 (≠ A88), M71 (≠ L89), T72 (≠ S90), R77 (= R95), Q117 (= Q135), S120 (= S138), T121 (≠ V139), D161 (= D179)

4zv2A An ancestral arginine-binding protein bound to glutamine (see paper)
33% identity, 88% coverage: 24:249/256 of query aligns to 6:223/225 of 4zv2A

query
sites
4zv2A

L

L

R

R

F

V

G

G

V

T

D
x
E

P

A

T

T

Y
x
F

P

P

F

F

E

G

S

F

K

K

R

D

P

E

D

N

G

G

S

K

L

L

T

V

G

G

F

F

D

D

I

I

E

D

L

L

G

A

E

K

S

A

L

I

C

A

S

K

E

K

L

L

Q

G

R

V

R

K

C

V

V

E

W

F

V

K

E

P

N

M

A

D

F
|
F

D

D

G

G

M

I

V

I

S

P

A

A

L

L

K

Q

G

S

R

G

K

K

F

I

D

D

G

V

I

V

L

I

S

A

A
x
G

L
x
M

S
x
T

I

I

T

T

E

E

A

E

R
|
R

K

K

A

K

E

Q

I

V

A

D

F

F

S

S

N

D

T

P

L

Y

Y

F

D

E

T

A

P

G

A

Q

R

A

L

I

V

V

A

V

P

K

E

K

G

G

S

N

P

D

L

S

Q

I

P

K

T

S

A

L

E

E

S

D

L

L

R

K

G

G

K

K

R

K

I

V

G

G

V

V

Q

Q

Q

L

G

G

S
|
S

V
x
T

F

S

E

E

V

Q

Y

H

A

V

K

K

R

K

M

V

W

A

G

A

L

-

K

-

G

G

V

V

E

K

V

V

V

K

P

K

Y

F

Q

D

S

N

S

F

D

S

L

E

T

A

Y

F

S

Q

D

E

L

L

I

K

N

S

G

G

R

R

L

V

D

D

A

A

A

V

F

V

D

T

D
|
D

A

N

I

-

A

A

V

V

S

A

E

L

G

A

L

Y

L

V

K

K

K

Q

P

N

A

P

G

N

K

A

G

G

F

V

G

K

Y

I

A

V

G

G

E

E

V

T

V

F

K

S

S

-

P

-

E

-

I

-

F

-

G

G

P

E

G

P

T

Y

G

G

I

I

G

A

L

V

R

R

K

K

S

G

D

N

T

S

A

E

L

L

A

L

G

E

E

K

I

I

N

N

Q

K

A

A

L

L

E

E

R

E

L

M

H

K

R

K

N

D

G

G

T

T

Y

Y

E

D

R

K

I

I

A

Y

S

E

K

K

Y

W

F

F

binding glutamine: E11 (≠ D29), F14 (≠ Y32), F52 (= F70), G70 (≠ A88), M71 (≠ L89), T72 (≠ S90), R77 (= R95), S120 (= S138), T121 (≠ V139), D159 (= D179)

2y7iA Structural basis for high arginine specificity in salmonella typhimurium periplasmic binding protein stm4351. (see paper)
29% identity, 88% coverage: 24:249/256 of query aligns to 8:227/228 of 2y7iA

query
sites
2y7iA

L

L

R
x
H

F

F

G

G

V

T

D

S

P

A

T

T

Y
|
Y

P

A

P

P

F

Y

E
|
E

S

F

K

V

R
x
D

P

A

D
|
D

G

N

S

K

L

I

T

V

G

G

F

F

D

D

I

I

E

D

L

V

G

A

E

N

S

A

L

V

C

C

S

K

E

E

L

M

Q

Q

R

A

R

E

C

C

V

S

W

F

V

T

E

N

N

Q

A

S

F
|
F

D
|
D

G

S

M

L

V

I

S

P

A

S

L

L

K

R

G

F

R

K

K

K

F

F

D
|
D

G

A

I

V

L

I

S
x
A

A
x
G

L

M

S
x
D

I

M

T

T

E

P

A

K

R
|
R

K

E

A

Q

E

Q

I

V

A

S

F

F

S

S

N

Q

T

P

L

Y

Y

Y

D

E

T

G

P

L

A

S

R

A

L

V

V

V

A

V

P

T

E

R

G

K

S

G

P

A

L

Y

Q

H

P

T

T

F

A

A

E

D

S

-

L

L

R

K

G

G

K

K

R

K

I

V

G

G

V

L

Q
x
E

Q

N

G

G

S
x
T

V
x
T

F

H

E

Q

V

R

Y

Y

A

L

K

Q

R

D

M

K

W

Q

G

-

L

-

K

Q

G

A

V

I

E

T

V

P

V

V

P

A

Y

Y

Q
x
D

S

S

S

Y

D

L

L

N

T

A

Y

F

S

T

D

D

L

L

I

K

N

N

G

N

R

R

L

L

D

E

A

G

A

V

F

F

D

G

D
|
D

A

V

I

A

A

A

V

I

S

G

E

K

G

W

L

L

L

K

K

N

P

P

A

-

G

-

K

-

G

D

F

Y

G

A

Y

I

A

M

G

D

E

E

V

R

V

A

K

S

S

D

P

P

E

D

I

Y

F

Y

G

G

P

K

G

G

T

L

G

G

I

I

G

A

L

V

R

R

K

K

S

D

D

N

T

D

A

A

L

L

A

L

G

Q

E

E

I

I

N

N

Q

A

A

A

L

L

E

D

R

K

L

V

H

K

R

A

N

S

G

P

T

E

Y

Y

E

A

R

Q

I

M

A

Q

S

E

K

K

Y

W

F

F

binding arginine: Y16 (= Y32), E20 (= E36), F54 (= F70), A71 (≠ S87), G72 (≠ A88), D74 (≠ S90), R79 (= R95), E118 (≠ Q135), T121 (≠ S138), T122 (≠ V139), D160 (= D179)
binding zinc ion: H9 (≠ R25), D23 (≠ R39), D25 (= D41), D55 (= D71), D67 (= D83), D140 (≠ Q159)

5otcA Structure of the periplasmic binding protein (pbp) noct from agrobacterium tumefaciens c58 in complex with noroctopinic acid. (see paper)
29% identity, 92% coverage: 22:256/256 of query aligns to 2:255/256 of 5otcA

query
sites
5otcA

E

K

E

S

L

I

R

T

F

I

G

A

V

T

D
x
E

P

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

S

F

K

K

R

D

P

A

D

G

G

G

S

K

L

L

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

D

L

L

C

C

S

K

E

R

L

M

Q

N

R

I

R

E

C

C

V

K

W

F

V

V

E

E

N

Q

A

A

F
x
W

D

D

G

G

M

I

V

I

S

P

A

S

L

L

K

T

G

A

R

G

K

R

F

Y

D

D

G

A

I

I

L

M

S

A

A
|
A

L

M

S
x
G

I

I

T

Q

E

P

A

A

R
|
R

K

E

A

K

E

V

I

I

A

A

F

F

S

S

N

R

T

P

L

Y

Y

L

D

L

T

T

P

P

A

M

R

T

L

F

V

L

A

T

P

T

E

A

G

D

S

S

P

P

L

L

Q

L

P

K

T

T

A

Q

E

V

S

A

L

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

-

I

-

F

R

E

G

G

K

V

R

K

I

F

G

G

V

V

Q
|
Q

Q

A

G

G

S
x
T

V
x
S

F
x
H

E

E

V

A

Y

F

A

M

K

K

R

Q

M

M

W

-

G

-

L

M

K

P

G

S

V

V

E

Q

V

I

V

S

P

T

Y

Y

Q

D

S

T

S

I

D

D

L

N

T

V

Y

V

S

M

D

D

L

L

I

K

N

A

G

G

R

R

L

I

D

D

A

A

A

S

F

L

D

-

D

A

A
x
S

I

V

A

S

V

F

S

L

E

K

G

P

L

L

L

T

K

D

K

K

P

P

A

D

G

N

K

K

G

D

F

L

G

K

Y

M

A

F

G

G

E

P

V

R

V

M

K

-

S

T

P

G

E

G

I

L

F

F

G

G

P

K

G

G

T

V

G

G

I

V

G

G

L

I

R

R

K

K

S

E

D

D

T

A

A

D

L

L

A

K

G

A

E

L

I

F

N

D

Q

K

A

A

L

I

E

D

R

A

L

A

H

I

R

A

N

D

G

G

T

T

Y

V

E

Q

R

K

I

L

A

S

S

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

I

A

S

S

P

P

K

K

binding (2~{S})-5-azanyl-2-(2-hydroxy-2-oxoethylamino)pentanoic acid: E9 (≠ D29), Y12 (= Y32), W50 (≠ F70), A68 (= A88), G70 (≠ S90), R75 (= R95), Q138 (= Q135), T141 (≠ S138), S142 (≠ V139), H143 (≠ F140), S180 (≠ A180)

5ovzA High resolution structure of the pbp noct in complex with nopaline (see paper)
29% identity, 92% coverage: 22:256/256 of query aligns to 3:256/259 of 5ovzA

query
sites
5ovzA

E

K

E

S

L

I

R

T

F

I

G

A

V

T

D
x
E

P

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

S

F

K

K

R

D

P

A

D

G

G

G

S

K

L

L

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

D

L

L

C

C

S

K

E

R

L

M

Q

N

R

I

R

E

C

C

V

K

W

F

V

V

E

E

N

Q

A

A

F
x
W

D

D

G

G

M

I

V

I

S

P

A

S

L

L

K

T

G

A

R

G

K

R

F

Y

D

D

G

A

I

I

L

M

S
x
A

A
|
A

L

M

S
x
G

I

I

T

Q

E

P

A

A

R
|
R

K

E

A

K

E

V

I

I

A

A

F

F

S

S

N

R

T

P

L

Y

Y

L

D

L

T

T

P

P

A
x
M

R

T

L

F

V

L

A

T

P

T

E

A

G

D

S

S

P

P

L

L

Q

L

P

K

T

T

A

Q

E

V

S

A

L

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

-

I

-

F

R

E

G

G

K

V

R

K

I

F

G

G

V

V

Q
|
Q

Q

A

G

G

S
x
T

V
x
S

F
x
H

E

E

V

A

Y

F

A

M

K

K

R

Q

M

M

W

-

G

-

L

M

K

P

G

S

V

V

E

Q

V

I

V

S

P

T

Y

Y

Q

D

S

T

S

I

D

D

L

N

T

V

Y

V

S

M

D

D

L

L

I

K

N

A

G

G

R

R

L

I

D

D

A

A

A

S

F

L

D

-

D

A

A
x
S

I

V

A

S

V

F

S

L

E

K

G

P

L

L

L

T

K

D

K

K

P

P

A

D

G

N

K

K

G

D

F

L

G

K

Y

M

A

F

G

G

E

P

V

R

V

M

K

-

S

T

P

G

E

G

I

L

F

F

G

G

P

K

G

G

T
x
V

G

G

I

V

G

G

L

I

R

R

K

K

S

E

D

D

T

A

A

D

L

L

A

K

G

A

E

L

I

F

N

D

Q

K

A

A

L

I

E

D

R

A

L

A

H

I

R

A

N

D

G

G

T

T

Y

V

E

Q

R

K

I

L

A

S

S

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

I

A

S

S

P

P

K

K

binding N-[(1S)-4-carbamimidamido-1-carboxybutyl]-D-glutamic acid: E10 (≠ D29), Y13 (= Y32), W51 (≠ F70), A68 (≠ S87), A69 (= A88), G71 (≠ S90), R76 (= R95), M91 (≠ A110), Q139 (= Q135), T142 (≠ S138), S143 (≠ V139), H144 (≠ F140), S181 (≠ A180), V213 (≠ T213)

5otaA Structure of the periplasmic binding protein (pbp) noct from agrobacterium tumefaciens c58 in complex with octopinic acid (see paper)
29% identity, 91% coverage: 22:255/256 of query aligns to 2:254/254 of 5otaA

query
sites
5otaA

E

K

E

S

L

I

R

T

F

I

G

A

V

T

D
x
E

P

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

S

F

K

K

R

D

P

A

D

G

G

G

S

K

L

L

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

D

L

L

C

C

S

K

E

R

L

M

Q

N

R

I

R

E

C

C

V

K

W

F

V

V

E

E

N

Q

A

A

F
x
W

D

D

G

G

M

I

V

I

S

P

A

S

L

L

K

T

G

A

R

G

K

R

F

Y

D

D

G

A

I

I

L

M

S

A

A
|
A

L

M

S
x
G

I

I

T

Q

E

P

A

A

R
|
R

K

E

A

K

E

V

I

I

A

A

F

F

S

S

N

R

T

P

L

Y

Y

L

D

L

T

T

P

P

A
x
M

R

T

L

F

V

L

A

T

P

T

E

A

G

D

S

S

P

P

L

L

Q

L

P

K

T

T

A

Q

E

V

S

A

L

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

-

I

-

F

R

E

G

G

K

V

R

K

I

F

G

G

V

V

Q
|
Q

Q

A

G

G

S
x
T

V
x
S

F
x
H

E

E

V

A

Y

F

A

M

K

K

R

Q

M

M

W

-

G

-

L

M

K

P

G

S

V

V

E

Q

V

I

V

S

P

T

Y

Y

Q

D

S

T

S

I

D

D

L

N

T

V

Y

V

S

M

D

D

L

L

I

K

N

A

G

G

R

R

L

I

D

D

A

A

A

S

F

L

D

-

D

A

A
x
S

I

V

A

S

V

F

S

L

E

K

G

P

L

L

L

T

K

D

K

K

P

P

A

D

G

N

K

K

G

D

F

L

G

K

Y

M

A

F

G

G

E

P

V

R

V

M

K

-

S

T

P

G

E

G

I

L

F

F

G

G

P

K

G

G

T

V

G

G

I

V

G

G

L

I

R

R

K

K

S

E

D

D

T

A

A

D

L

L

A

K

G

A

E

L

I

F

N

D

Q

K

A

A

L

I

E

D

R

A

L

A

H

I

R

A

N

D

G

G

T

T

Y

V

E

Q

R

K

I

L

A

S

S

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

I

A

S

S

P

P

binding (2~{S})-5-azanyl-2-[[(2~{R})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]pentanoic acid: E9 (≠ D29), Y12 (= Y32), W50 (≠ F70), A68 (= A88), G70 (≠ S90), R75 (= R95), M90 (≠ A110), Q138 (= Q135), T141 (≠ S138), S142 (≠ V139), H143 (≠ F140), S180 (≠ A180)

5ot9A Structure of the periplasmic binding protein (pbp) noct from a.Tumefaciens c58 in complex with histopine. (see paper)
29% identity, 91% coverage: 22:255/256 of query aligns to 2:254/254 of 5ot9A

query
sites
5ot9A

E

K

E

S

L

I

R

T

F

I

G

A

V

T

D
x
E

P

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

S

F

K

K

R

D

P

A

D

G

G

G

S

K

L

L

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

D

L

L

C

C

S

K

E

R

L

M

Q

N

R

I

R

E

C

C

V

K

W

F

V

V

E

E

N

Q

A

A

F
x
W

D

D

G

G

M

I

V

I

S

P

A

S

L

L

K

T

G

A

R

G

K

R

F

Y

D

D

G

A

I

I

L

M

S
x
A

A
|
A

L

M

S

G

I

I

T

Q

E

P

A

A

R
|
R

K

E

A

K

E

V

I

I

A

A

F

F

S

S

N

R

T

P

L

Y

Y

L

D

L

T

T

P

P

A
x
M

R

T

L

F

V

L

A

T

P

T

E

A

G

D

S

S

P

P

L

L

Q

L

P

K

T

T

A

Q

E

V

S

A

L

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

-

I

-

F

R

E

G

G

K

V

R

K

I

F

G

G

V

V

Q
|
Q

Q

A

G

G

S
x
T

V
x
S

F
x
H

E

E

V

A

Y

F

A

M

K

K

R

Q

M

M

W

-

G

-

L

M

K

P

G

S

V

V

E

Q

V

I

V

S

P

T

Y

Y

Q

D

S

T

S

I

D

D

L

N

T

V

Y

V

S

M

D

D

L

L

I

K

N

A

G

G

R

R

L

I

D

D

A

A

A

S

F

L

D

-

D

A

A
x
S

I

V

A

S

V

F

S

L

E

K

G

P

L

L

L

T

K

D

K

K

P

P

A

D

G

N

K

K

G

D

F

L

G

K

Y

M

A

F

G

G

E

P

V

R

V

M

K

-

S

T

P

G

E

G

I

L

F

F

G

G

P

K

G

G

T

V

G

G

I

V

G

G

L

I

R

R

K

K

S

E

D

D

T

A

A

D

L

L

A

K

G

A

E

L

I

F

N

D

Q

K

A

A

L

I

E

D

R

A

L

A

H

I

R

A

N

D

G

G

T

T

Y

V

E

Q

R

K

I

L

A

S

S

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

I

A

S

S

P

P

binding Histopine: E9 (≠ D29), Y12 (= Y32), W50 (≠ F70), A67 (≠ S87), A68 (= A88), R75 (= R95), M90 (≠ A110), Q138 (= Q135), T141 (≠ S138), S142 (≠ V139), H143 (≠ F140), S180 (≠ A180)

4powA Structure of the pbp noct in complex with pyronopaline (see paper)
29% identity, 91% coverage: 22:255/256 of query aligns to 2:254/254 of 4powA

query
sites
4powA

E

K

E

S

L

I

R

T

F

I

G

A

V

T

D
x
E

P

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

S

F

K

K

R

D

P

A

D

G

G

G

S

K

L

L

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

D

L

L

C

C

S

K

E

R

L

M

Q

N

R

I

R

E

C

C

V

K

W

F

V

V

E

E

N

Q

A

A

F
x
W

D

D

G

G

M

I

V

I

S

P

A

S

L

L

K

T

G

A

R

G

K

R

F

Y

D

D

G

A

I

I

L

M

S
x
A

A
|
A

L

M

S
x
G

I

I

T

Q

E

P

A

A

R
|
R

K

E

A

K

E

V

I

I

A

A

F

F

S

S

N

R

T

P

L

Y

Y

L

D

L

T

T

P

P

A
x
M

R

T

L

F

V

L

A

T

P

T

E

A

G

D

S

S

P

P

L

L

Q

L

P

K

T

T

A

Q

E

V

S

A

L

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

-

I

-

F

R

E

G

G

K

V

R

K

I

F

G

G

V

V

Q
|
Q

Q

A

G

G

S
x
T

V
x
S

F
x
H

E

E

V

A

Y

F

A

M

K

K

R

Q

M

M

W

-

G

-

L

M

K

P

G

S

V

V

E

Q

V

I

V

S

P

T

Y

Y

Q

D

S

T

S

I

D

D

L

N

T

V

Y

V

S

M

D

D

L

L

I

K

N

A

G

G

R

R

L

I

D

D

A

A

A

S

F

L

D

-

D

A

A
x
S

I

V

A

S

V

F

S

L

E

K

G

P

L

L

L

T

K

D

K

K

P

P

A

D

G

N

K

K

G

D

F

L

G

K

Y

M

A

F

G

G

E

P

V

R

V

M

K

-

S

T

P

G

E

G

I

L

F

F

G

G

P

K

G

G

T

V

G

G

I

V

G

G

L

I

R

R

K

K

S

E

D

D

T

A

A

D

L

L

A

K

G

A

E

L

I

F

N

D

Q

K

A

A

L

I

E

D

R

A

L

A

H

I

R

A

N

D

G

G

T

T

Y

V

E

Q

R

K

I

L

A

S

S

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

I

A

S

S

P

P

binding 1-[(1S)-4-carbamimidamido-1-carboxybutyl]-5-oxo-D-proline: E9 (≠ D29), Y12 (= Y32), W50 (≠ F70), A67 (≠ S87), A68 (= A88), G70 (≠ S90), R75 (= R95), M90 (≠ A110), Q138 (= Q135), T141 (≠ S138), S142 (≠ V139), H143 (≠ F140), S180 (≠ A180)

5itoA Structure of the periplasmic binding protein m117n-noct from a. Tumefaciens in complex with octopine (see paper)
29% identity, 91% coverage: 22:255/256 of query aligns to 3:255/255 of 5itoA

query
sites
5itoA

E

K

E

S

L

I

R

T

F

I

G

A

V

T

D
x
E

P

G

T

S

Y
|
Y

P

A

P

P

F

Y

E

N

S

F

K

K

R

D

P

A

D

G

G

G

S

K

L

L

T

I

G

G

F

F

D

D

I

I

E

D

L

L

G

G

E

N

S

D

L

L

C

C

S

K

E

R

L

M

Q

N

R

I

R

E

C

C

V

K

W

F

V

V

E

E

N

Q

A

A

F
x
W

D

D

G

G

M

I

V

I

S

P

A

S

L

L

K

T

G

A

R

G

K

R

F

Y

D

D

G

A

I

I

L

M

S
x
A

A
|
A

L

M

S
x
G

I

I

T

Q

E

P

A

A

R
|
R

K

E

A

K

E

V

I

I

A

A

F

F

S

S

N

R

T

P

L

Y

Y

L

D

L

T

T

P

P

A

N

R

T

L

F

V

L

A

T

P

T

E

A

G

D

S

S

P

P

L

L

Q

L

P

K

T

T

A

Q

E

V

S

A

L

I

-

E

-

N

-

L

-

P

-

L

-

D

-

N

-

I

-

T

-

P

-

E

-

Q

-

K

-

A

-

E

-

L

-

D

-

K

-

F

-

T

-

K

-

I

-

F

R

E

G

G

K

V

R

K

I

F

G

G

V

V

Q
|
Q

Q

A

G

G

S
x
T

V
x
S

F
x
H

E

E

V

A

Y

F

A

M

K

K

R

Q

M

M

W

-

G

-

L

M

K

P

G

S

V

V

E

Q

V

I

V

S

P

T

Y

Y

Q

D

S

T

S

I

D

D

L

N

T

V

Y

V

S

M

D

D

L

L

I

K

N

A

G

G

R

R

L

I

D

D

A

A

A

S

F

L

D

-

D

A

A
x
S

I

V

A

S

V

F

S

L

E

K

G

P

L

L

L

T

K

D

K

K

P

P

A

D

G

N

K

K

G

D

F

L

G

K

Y

M

A

F

G

G

E

P

V

R

V

M

K

-

S

T

P

G

E

G

I

L

F

F

G

G

P

K

G

G

T

V

G

G

I

V

G

G

L

I

R

R

K

K

S

E

D

D

T

A

A

D

L

L

A

K

G

A

E

L

I

F

N

D

Q

K

A

A

L

I

E

D

R

A

L

A

H

I

R

A

N

D

G

G

T

T

Y

V

E

Q

R

K

I

L

A

S

S

Q

K

Q

Y

W

F

F

D

G

F

Y

D

D

I

A

S

S

P

P

binding octopine: E10 (≠ D29), Y13 (= Y32), W51 (≠ F70), A68 (≠ S87), A69 (= A88), G71 (≠ S90), R76 (= R95), Q139 (= Q135), T142 (≠ S138), S143 (≠ V139), H144 (≠ F140), S181 (≠ A180)

8hqrA Crystal structure of the arginine-/lysine-binding protein sar11_1210 from 'candidatus pelagibacter ubique' htcc1062 bound to arginine (see paper)
30% identity, 91% coverage: 22:254/256 of query aligns to 8:266/267 of 8hqrA

query
sites
8hqrA

E

D

E

K

L

I

R

K

F

I

G

G

V

T

D
x
E

P
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