SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing GFF293 FitnessBrowser__WCS417:GFF293 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)
37% identity, 98% coverage: 5:249/250 of query aligns to 2:257/260 of P02911

query
sites
P02911

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D33 (≠ E31) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
Y36 (= Y34) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
D52 (= D50) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
C60 (= C58) modified: Disulfide link with 67
C67 (= C66) modified: Disulfide link with 60
F74 (≠ W73) mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
S91 (= S90) binding L-arginine; binding L-ornithine; mutation to A: Has no effect on the arginine and histidine binding affinity.
S92 (= S91) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
S94 (= S93) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Decreases arginine and histidine binding affinity.
R99 (= R98) binding L-arginine; binding L-lysine; binding L-ornithine; mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.
L139 (≠ Q139) 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 (≠ L143) binding L-arginine; binding L-lysine; binding L-ornithine
D183 (= D181) binding L-arginine; binding L-ornithine; mutation to A: Shows a drastic decrease in arginine and histidine binding affinity.

4zv2A An ancestral arginine-binding protein bound to glutamine (see paper)
39% identity, 90% coverage: 22:245/250 of query aligns to 2:223/225 of 4zv2A

query
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4zv2A

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binding glutamine: E11 (= E31), F14 (≠ Y34), F52 (≠ W73), G70 (≠ S91), M71 (≠ L92), T72 (≠ S93), R77 (= R98), S120 (≠ T142), T121 (≠ L143), D159 (= D181)

4zv1A An ancestral arginine-binding protein bound to arginine (see paper)
39% identity, 90% coverage: 22:245/250 of query aligns to 2:225/226 of 4zv1A

query
sites
4zv1A

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binding arginine: E11 (= E31), F14 (≠ Y34), F52 (≠ W73), A69 (≠ S90), G70 (≠ S91), M71 (≠ L92), T72 (≠ S93), R77 (= R98), Q117 (= Q139), S120 (≠ T142), T121 (≠ L143), D161 (= D181)

1lstA Three-dimensional structures of the periplasmic lysine-, arginine-, ornithine-binding protein with and without a ligand (see paper)
38% identity, 92% coverage: 21:249/250 of query aligns to 1:235/238 of 1lstA

query
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1lstA

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binding lysine: Y14 (= Y34), F52 (≠ W73), S70 (= S91), S72 (= S93), R77 (= R98), L117 (≠ Q139), S120 (≠ T142), T121 (≠ L143), Q122 (≠ A144), D161 (= D181)

1lahE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
38% identity, 92% coverage: 21:249/250 of query aligns to 1:235/238 of 1lahE

query
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1lahE

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G

G

T

T

Y

Y

K

D

K

K

I

M

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

N

I

V

binding L-ornithine: Y14 (= Y34), F52 (≠ W73), S70 (= S91), S72 (= S93), R77 (= R98), S120 (≠ T142), Q122 (≠ A144), D161 (= D181)

1lagE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
38% identity, 92% coverage: 21:249/250 of query aligns to 1:235/238 of 1lagE

query
sites
1lagE

A

A

M

L

A

P

E

Q

T

T

L

V

K

R

M

I

G

G

I

T

E

D

A

T

Y
|
Y

P

A

P

P

F

F

N

S

K

K

D

D

A

A

S

K

G

G

N

E

V

F

V

I

G

G

F

F

D

D

K

I

D

D

I

L

G

G

D

N

A

E

L

M

C

C

A

K

K

R

M

M

K

Q

V

V

E

-

K

K

C

C

E

T

V

W

Y

V

V

A

S

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

F

A

L

I

V

I

S
|
S

L
|
L

S
|
S

I

I

T

T

E

D

E

K

R
|
R

K

Q

A

Q

A

E

V

I

D

A

F

F

T

S

D

D

P

K

Y

L

Y

Y

S

A

N

A

K

D

L

S

Q

R

F

L

I

I

A

A

P

A

K

K

A

G

T

S

A

P

D

-

F

I

K

Q

T

P

D

T

A

L

A

E

Y

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
L

R

Q

A

G

T
x
S

L

T

A
x
Q

G

E

T

A

Y

Y

L

A

E

N

D

D

-

N

-

W

K

R

L

T

P

K

D

G

T

V

E

D

A

V

K

V

L

A

Y

Y

D

A

T

N

Q

Q

E

D

N

L

A

I

Y

Y

L

S

D

D

L

L

T

T

S

A

G

G

R

R

L

L

D

D

G

A

I

A

L

L

A

Q

D
|
D

K

E

Y

V

V

A

Q

A

Y

S

E

E

-

G

W

F

L

L

K

K

S

Q

K

P

D

A

G

G

S

K

A

E

Y

Y

E

A

F

F

K

A

G

G

D

P

P

S

V

V

V

K

E

D

-

K

-

Y

-

F

S

G

D

D

K

G

I

T

G

G

I

V

A

G

V

L

R

R

K

K

G

D

D

D

P

T

-

E

L

L

R

K

E

A

R

A

L

F

N

D

K

K

A

A

L

L

A

T

E

E

I

L

K

R

A

Q

D

D

G

G

T

T

Y

Y

K

D

K

K

I

M

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

N

I

V

binding histidine: Y14 (= Y34), F52 (≠ W73), S69 (= S90), S70 (= S91), L71 (= L92), S72 (= S93), R77 (= R98), L117 (≠ Q139), S120 (≠ T142), Q122 (≠ A144), D161 (= D181)

1lafE Structural bases for multiple ligand specificity of the periplasmic lysine-, arginine-, ornithine-binding protein (see paper)
38% identity, 92% coverage: 21:249/250 of query aligns to 1:235/238 of 1lafE

query
sites
1lafE

A

A

M

L

A

P

E

Q

T

T

L

V

K

R

M

I

G

G

I

T

E
x
D

A

T

Y
|
Y

P

A

P

P

F

F

N

S

K

K

D

D

A

A

S

K

G

G

N

E

V

F

V

I

G

G

F

F

D

D

K

I

D

D

I

L

G

G

D

N

A

E

L

M

C

C

A

K

K

R

M

M

K

Q

V

V

E

-

K

K

C

C

E

T

V

W

Y

V

V

A

S

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

F

A

L

I

V

I

S
|
S

L

L

S
|
S

I

I

T

T

E

D

E

K

R
|
R

K

Q

A

Q

A

E

V

I

D

A

F

F

T

S

D

D

P

K

Y

L

Y

Y

S

A

N

A

K

D

L

S

Q

R

F

L

I

I

A

A

P

A

K

K

A

G

T

S

A

P

D

-

F

I

K

Q

T

P

D

T

A

L

A

E

Y

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
L

R

Q

A

G

T
x
S

L
x
T

A
x
Q

G

E

T

A

Y

Y

L

A

E

N

D

D

-

N

-

W

K

R

L

T

P

K

D

G

T

V

E

D

A

V

K

V

L

A

Y

Y

D

A

T

N

Q

Q

E

D

N

L

A

I

Y

Y

L

S

D

D

L

L

T

T

S

A

G

G

R

R

L

L

D

D

G

A

I

A

L

L

A

Q

D
|
D

K

E

Y

V

V

A

Q

A

Y

S

E

E

-

G

W

F

L

L

K

K

S

Q

K

P

D

A

G

G

S

K

A

E

Y

Y

E

A

F

F

K

A

G

G

D

P

P

S

V

V

V

K

E

D

-

K

-

Y

-

F

S

G

D

D

K

G

I

T

G

G

I

V

A

G

V

L

R

R

K

K

G

D

D

D

P

T

-

E

L

L

R

K

E

A

R

A

L

F

N

D

K

K

A

A

L

L

A

T

E

E

I

L

K

R

A

Q

D

D

G

G

T

T

Y

Y

K

D

K

K

I

M

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

N

I

V

binding arginine: D11 (≠ E31), Y14 (= Y34), F52 (≠ W73), S69 (= S90), S70 (= S91), S72 (= S93), R77 (= R98), L117 (≠ Q139), S120 (≠ T142), T121 (≠ L143), Q122 (≠ A144), D161 (= D181)

5owfA Structure of a lao-binding protein mutant with glutamine (see paper)
38% identity, 90% coverage: 24:249/250 of query aligns to 1:232/235 of 5owfA

query
sites
5owfA

E

Q

T

T

L

V

K

R

M

I

G

G

I

T

E

D

A

T

Y
|
Y

P

A

P

P

F

F

N

S

K

K

D

D

A

A

S

K

G

G

N

E

V

F

V

I

G

G

F

F

D

D

K

I

D

D

I

L

G

G

D

N

A

E

L

M

C

C

A

K

K

R

M

M

K

Q

V

V

E

-

K

K

C

C

E

T

V

W

Y

V

V

A

S

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

F

A

L

I

V

I

S
|
S

L

L

S
|
S

I

I

T

T

E

D

E

K

R
|
R

K

Q

A

Q

A

E

V

I

D

A

F

F

T

S

D

D

P

K

Y

L

Y

Y

S

A

N

A

K

D

L

S

Q

R

F

L

I

I

A

A

P

A

K

K

A

G

T

S

A

P

D

-

F

I

K

Q

T

P

D

T

A

L

A

E

Y

S

L

L

K

K

G

G

K

K

V

H

I

V

G

G

A

V

Q
x
K

R

Q

A

G

T
x
S

L
x
T

A

Q

G

E

T

A

Y

Y

L

A

E

N

D

D

-

N

-

W

K

R

L

T

P

K

D

G

T

V

E

D

A

V

K

V

L

A

Y

Y

D

A

T

N

Q

Q

E

D

N

L

A

I

Y

Y

L

S

D

D

L

L

T

T

S

A

G

G

R

R

L

L

D

D

G

A

I

A

L

L

A

Q

D
|
D

K

E

Y

V

V

A

Q

A

Y

S

E

E

-

G

W

F

L

L

K

K

S

Q

K

P

D

A

G

G

S

K

A

E

Y

Y

E

A

F

F

K

A

G

G

D

P

P

S

V

V

V

K

E

D

-

K

-

Y

-

F

S

G

D

D

K

G

I

T

G

G

I

V

A

G

V

L

R

R

K

K

G

D

D

D

P

T

-

E

L

L

R

K

E

A

R

A

L

F

N

D

K

K

A

A

L

L

A

T

E

E

I

L

K

R

A

Q

D

D

G

G

T

T

Y

Y

K

D

K

K

I

M

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

N

I

V

binding glutamine: Y11 (= Y34), F49 (≠ W73), S66 (= S90), S67 (= S91), S69 (= S93), R74 (= R98), K114 (≠ Q139), S117 (≠ T142), T118 (≠ L143), D158 (= D181)

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)
38% identity, 92% coverage: 21:249/250 of query aligns to 1:235/238 of 1hslA

query
sites
1hslA

A

A

M

I

A

P

E

Q

T

K

L

I

K

R

M

I

G

G

I

T

E

D

A

P

A

T

Y
|
Y

P

A

P

P

F

F

N

E

N

S

K

K

D

N

A

A

S

Q

G

G

N

E

V

L

V

V

G

G

F

F

D

D

K

I

D

D

I

L

G

A

D

K

A

E

L

L

C

C

A

K

K

R

M

I

K

N

V

T

E

Q

K

-

C

C

E

T

V

F

Y

V

V

E

S

N

D

P

W
x
L

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

F

A

L

I

V

M

S
|
S

L
|
L

S
|
S

I

I

T

T

E

E

E

K

R
|
R

K

Q

A

Q

A

E

V

I

D

A

F

F

T

T

D

D

P

K

Y

L

Y

Y

S

A

N

A

K

D

L

S

Q

R

F

L

I

V

A

V

P

A

K

K

A

-

T

N

A

S

D

D

F

I

K

Q

T

P

D

T

A

V

A

A

Y

S

L

L

K

K

G

G

K

K

V

R

I

V

G

G

A

V

Q

L

R

Q

A

G

T
|
T

L
x
T

A

Q

G

E

T

T

Y

F

L

G

E

N

D

E

K

H

L

W

P

A

-

P

-

K

D

G

T

I

E

E

A

I

K

V

L

S

Y

Y

D

Q

T

G

Q

Q

E

D

N

N

A

I

Y

Y

L

S

D

D

L

L

T

T

S

A

G

G

R

R

L

I

D

D

G

A

I

A

L

F

A

Q

D
|
D

K

E

Y

V

V

A

Q

A

Y

S

E

E

-

G

W

F

L

L

K

K

S

Q

K

P

D

V

G

G

S

K

A

D

Y

Y

E

K

F

F

K

-

G

G

D

G

P

P

V

A

V

V

E

K

S

D

D

E

K

K

I

L

-

F

-

G

-

V

-

G

-

T

G

G

I

M

A

G

V

L

R

R

K

K

G

E

D

D

-

N

P

E

L

L

R

R

E

E

R

A

L

L

N

N

K

K

A

A

L

F

A

A

E

E

I

M

K

R

A

A

D

D

G

G

T

T

Y

Y

K

E

K

K

I

L

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

D

I

V

binding histidine: Y14 (= Y34), L52 (≠ W73), S69 (= S90), S70 (= S91), L71 (= L92), S72 (= S93), R77 (= R98), T120 (= T142), T121 (≠ L143), D161 (= D181)

P02910 Histidine-binding periplasmic protein; HBP from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
38% identity, 91% coverage: 22:249/250 of query aligns to 24:257/260 of P02910

query
sites
P02910

M

I

A

P

E

Q

T

K

L

I

K

R

M

I

G

G

I

T

E

D

A

P

A

T

Y

Y

P

A

P

P

F

F

N
x
E

N

S

K
|
K

D

N

A

A

S

Q

G

G

N
x
E

V

L

V

V

G

G

F

F

D

D

K

I

D

D

I

L

G

A

D

K

A

E

L

L

C

C

A

K

K

R

M

I

K

N

V

T

E

Q

K

-

C

C

E

T

V

F

Y

V

V

E

S

N

D

P

W

L

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

F

A

L

I

V

M

S

S

L

L

S

S

I

I

T

T

E

E

E

K

R

R

K

Q

A

Q

A

E

V

I

D

A

F

F

T

T

D

D

P

K

Y

L

Y

Y

S

A

N

A

K

D

L

S

Q

R

F

L

I

V

A

V

P

A

K

K

A

-

T

N

A

S

D

D

F

I

K

Q

T

P

D

T

A

V

A

A

Y

S

L

L

K

K

G

G

K

K

V

R

I

V

G

G

A

V

Q

L

R

Q

A

G

T

T

L

T

A

Q

G

E

T

T

Y

F

L

G

E

N

D

E

K

H

L

W

P

A

-

P

-

K

D

G

T

I

E

E

A

I

K

V

L

S

Y

Y

D

Q

T

G

Q

Q

E

D

N

N

A

I

Y

Y

L

S

D
|
D

L

L

T

T

S

A

G

G

R
|
R

L

I

D
|
D

G

A

I

A

L

F

A

Q

D

D

K

E

Y

V

V

A

Q

A

Y

S

E

E

-

G

W

F

L

L

K

K

S

Q

K

P

D

V

G

G

S

K

A

D

Y

Y

E

K

F

F

K

-

G

G

D

G

P

P

V

A

V

V

E

K

S

D

D

E

K

K

I

L

-

F

-

G

-

V

-

G

-

T

G

G

I

M

A

G

V

L

R

R

K

K

G

E

D

D

-

N

P

E

L

L

R

R

E

E

R

A

L

L

N

N

K

K

A

A

L

F

A

A

E

E

I

M

K

R

A

A

D

D

G

G

T

T

Y

Y

K

E

K

K

I

L

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

D

I

V

E40 (≠ N38) mutation to K: Decrease in ATPase-inducing activity and histidine transport; when associated with K-47.
K42 (= K40) mutation to E: Increases ATPase-inducing activity and histidine transport; when associated with K-47.
E47 (≠ N45) 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 (= D169) mutation D->A,N: Strong decrease in ATPase-inducing activity and histidine transport.
R176 (= R174) mutation R->D,S: Strong decrease in ATPase-inducing activity and histidine transport.
D178 (= D176) 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)
37% identity, 91% coverage: 22:249/250 of query aligns to 24:257/260 of P0AEU0

query
sites
P0AEU0

M

I

A

P

E

Q

T

N

L

I

K

R

M

I

G

G

I

T

E

D

A

P

A

T

Y

Y

P

A

P

P

F

F

N

E

N

S

K

K

D

N

A

S

S

Q

G

G

N

E

V

L

V

V

G

G

F

F

D

D

K

I

D

D

I

L

G

A

D

K

A

E

L

L

C
|
C

A

K

K

R

M

I

K

N

V

T

E

Q

K

-

C
|
C

E

T

V

F

Y

V

V

E

S

N

D

P

W

L

D

D

G

A

I

L

I

I

P

P

A

S

L

L

N

K

A

A

K

K

F

I

D

D

F

A

L

I

V

M

S
|
S

L

L

S
|
S

I

I

T

T

E

E

E

K

R
|
R

K

Q

A

Q

A

E

V

I

D

A

F

F

T

T

D

D

P

K

Y

L

Y

Y

S

A

N

A

K

D

L

S

Q

R

F

L

I

V

A

V

P

A

K

K

A

-

T

N

A

S

D

D

F

I

K

Q

T

P

D

T

A

V

A

E

Y

S

L

L

K

K

G

G

K

K

V

R

I

V

G

G

A

V

Q

L

R

Q

A

G

T

T

L
x
T

A

Q

G

E

T

T

Y

F

L

G

E

N

D

E

K

H

L

W

P

A

-

P

-

K

D

G

T

I

E

E

A

I

K

V

L

S

Y

Y

D

Q

T

G

Q

Q

E

D

N

N

A

I

Y

Y

L

S

D

D

L

L

T

T

S

A

G

G

R

R

L

I

D

D

G

A

I

A

L

F

A

Q

D
|
D

K

E

Y

V

V

A

Q

A

Y

S

E

E

-

G

W

F

L

L

K

K

S

Q

K

P

D

V

G

G

S

K

A

D

Y

Y

E

K

F

F

K

-

G

G

D

G

P

P

V

S

V

V

E

K

S

D

D

E

K

K

I

L

-

F

-

G

-

V

-

G

-

T

G

G

I

M

A

G

V

L

R

R

K

K

G

E

D

D

-

N

P

E

L

L

R

R

E

E

R

A

L

L

N

N

K

K

A

A

L

F

A

A

E

E

I

M

K

R

A

A

D

D

G

G

T

T

Y

Y

K

E

K

K

I

L

N

A

D

K

K

K

Y

Y

F

F

P

D

F

F

S

D

I

V

C60 (= C58) modified: Disulfide link with 67
C67 (= C66) modified: Disulfide link with 60
S91 (= S90) binding L-histidine
S92 (= S91) binding L-histidine
S94 (= S93) binding L-histidine
R99 (= R98) binding L-histidine
T143 (≠ L143) binding L-histidine
D183 (= D181) binding L-histidine

Sites not aligning to the query:

1:22 signal peptide

3tqlA Structure of the amino acid abc transporter, periplasmic amino acid- binding protein from coxiella burnetii. (see paper)
41% identity, 89% coverage: 23:245/250 of query aligns to 1:225/225 of 3tqlA

query
sites
3tqlA

A

T

E

D

T

T

L

I

K

K

M

F

G

A

I

T

E
|
E

A

A

A

T

Y
|
Y

P

P

F

Y

N

V

N

Y

K

-

D

-

A

M

S

G

G

G

N

Q

V

V

V

E

G

G

F

F

D

G

K

A

D

D

I

I

G

V

D

K

A

A

L

V

C

C

A

K

K

Q

M

M

K

Q

V

A

E

V

K

-

C

C

E

T

V

I

Y

S

V

N

S

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

F

A

L

L

V

F

S
x
G

L

M

S
x
N

I

I

T

T

E

T

E

A

R
|
R

K

Q

A

K

A

E

V

V

D

D

F

F

T

T

D

D

P

P

Y

Y

S

T

N

N

K

S

L

V

Q
x
S

F

F

I

I

A

A

P

D

K

K

A

N

T

T

A

P

D

-

F

L

K

T

T

L

D

S

A

K

A

Q

Y

G

L

L

K

K

G

G

K

K

V

I

I

I

G

G

A

V

Q

Q

R

G

A

G

T

T

L

T

A

F

G

D

T

S

Y

Y

L

L

E

Q

D

D

K

S

L

F

P

G

D

N

T

S

-

I

E

T

A

I

K

Q

L

R

Y

Y

D

P

T

S

Q

E

E

E

N

D

A

A

Y

L

L

M

D

D

L

L

T

T

S

S

G

G

R

R

L

V

D

D

G

A

I

V

L

V

A

G

D

D

K

T

Y

P

V

L

Q

I

Y

K

E

Q

W

W

L

L

K

K

S

Q

K

N

D

G

G

R

S

R

A

E

Y

Y

E

V

F

L

K

I

G

G

D

K

P

P

V

V

V

N

E

D

S

P

D

N

-

Y

-

F

-

G

-

K

K

G

I

V

G

G

I

I

A

A

V

V

R

K

K

K

G

G

D

N

P

Q

-

A

L

L

R

L

E

L

R

K

L

L

N

N

K

K

A

A

L

L

A

A

E

A

I

I

K

K

A

A

D

N

G

G

T

V

Y

Y

K

A

I

I

N

V

D

Q

K

K

Y

Y

F

F

binding arginine: E9 (= E31), Y12 (= Y34), W48 (= W73), G65 (≠ S90), G66 (≠ S91), N68 (≠ S93), R73 (= R98), S89 (≠ Q114)

2y7iA Structural basis for high arginine specificity in salmonella typhimurium periplasmic binding protein stm4351. (see paper)
35% identity, 91% coverage: 19:245/250 of query aligns to 1:227/228 of 2y7iA

query
sites
2y7iA

A

A

T

S

A

V

M

S

A

A

E

R

T

T

L

L

K
x
H

M

F

G

G

I

T

E

S

A

A

A

T

Y
|
Y

P

A

P

P

F

Y

N
x
E

N

F

K

V

D
|
D

A

A

S
x
D

G

N

N

K

V

I

V

V

G

G

F

F

D

D

K

I

D

D

I

V

G

A

D

N

A

A

L

V

C

C

A

K

K

E

M

M

K

Q

V

A

E

E

K

-

C

C

E

S

V

F

Y

T

V

N

S

Q

D

S

W
x
F

D
|
D

G

S

I

L

I

I

P

P

A

S

L

L

N

R

A

F

K

K

F

F

D
|
D

F

A

L

V

V

I

S
x
A

S
x
G

L

M

S
x
D

I

M

T

T

E

P

E

K

R
|
R

K

E

A

Q

V

V

D

S

F

F

T

S

D

Q

P

P

Y

Y

S

E

N

G

K

L

L

S

Q

A

F

V

I

V

A

V

P

T

K

R

A

K

T

G

A

A

D

-

F

Y

K

H

T

T

D

F

A

A

A

D

Y

-

L

L

K

K

G

G

K

K

V

K

I

V

G

G

A

L

Q
x
E

R

N

A

G

T
|
T

L
x
T

A

H

G

Q

T

R

Y

Y

L

L

E

Q

D

D

K

K

L

Q

P

Q

D

A

T

I

E

T

A

P

K

V

L

A

Y

Y

D
|
D

T

S

Q

Y

E

L

N

N

A

A

Y

F

L

T

D

D

L

L

T

K

S

N

G

N

R

R

L

L

D

E

G

G

I

V

L

F

A

G

D
|
D

K

V

Y

A

V

A

Q

I

Y

G

E

K

W

W

L

L

K

K

S

N

K

N

D

P

G

D

S

Y

A

A

Y

I

-

M

-

D

E

E

F

R

K

A

G

S

D

D

P

P

V

D

V

Y

E

Y

S

G

D

K

K

G

I

L

G

G

I

I

A

A

V

V

R

R

K

K

-

D

G

N

D

D

P

A

L

L

R

L

E

Q

R

E

L

I

N

N

K

A

A

A

L

L

A

D

E

K

I

V

K

K

A

A

D

S

G

P

T

E

Y

Y

K

A

K

Q

I

M

N

Q

D

E

K

K

Y

W

F

F

binding arginine: Y16 (= Y34), E20 (≠ N38), F54 (≠ W73), A71 (≠ S90), G72 (≠ S91), D74 (≠ S93), R79 (= R98), E118 (≠ Q139), T121 (= T142), T122 (≠ L143), D160 (= D181)
binding zinc ion: H9 (≠ K27), D23 (= D41), D25 (≠ S43), D55 (= D74), D67 (= D86), D140 (= D161)

3vv5A Crystal structure of ttc0807 complexed with (s)-2-aminoethyl-l- cysteine (aec) (see paper)
34% identity, 92% coverage: 16:245/250 of query aligns to 5:230/237 of 3vv5A

query
sites
3vv5A

A

S

F

F

S

E

A

E

T

I

A

K

M

R

A

S

E

G

T

E

L

I

K

R

M

I

G

G

I

T

E
|
E

A

G

A

A

Y
x
F

P

P

F

F

N
|
N

N

Y

K

F

D

D

A

E

S

R

G

N

N

Q

V

L

V

T

G

G

F

F

D

E

K

V

D

D

I

L

G

G

D

N

A

A

L

I

C

A

A

E

K

R

M

L

K

G

V

L

E

-

K

K

C

P

E

R

V

W

Y

I

V

A

S

Q

D

S

W
x
F

D

D

G

T

I

L

P

I

A

Q

L

L

N

N

A

Q

K

G

K

R

F

F

D

D

F

F

L

V

V

I

S
x
A

S
|
S

L

H

S
x
G

I

I

T

T

E

E

R
|
R

K

A

A

R

A

A

V

V

D

D

F

F

T

T

D

N

P

P

Y

H

Y

Y

S

C

N

T

K

G

L

G

Q

V

F

I

I

V

A

S

P

R

K

K

A

G

T

G

A

P

D

R

F

T

K

A

T

K

D

D

A

-

Y

-

L

L

K

Q

G

G

K

K

V

V

I

V

G

G

A

V

Q

Q

R

V

A

G

T
|
T

L

-

A

-

G

-

T
|
T

Y
|
Y

L

M

E

E

-

A

D

Q

K

K

L

I

P

P

D

G

T

I

-

K

E

E

A

V

K

R

L

T

Y

Y

D

Q

T

R

Q

D

E

P

N

D

A

A

Y

L

L

Q

D

D

L

L

T

L

S

A

G

G

R

R

L

I

D

D

G

T

I

W

L

I

A

T

D

D

K

R

Y

F

V

V

Q

A

Y

K

E

E

W

A

L

I

K

K

S

E

K

R

D

K

G

L

S

E

A

N

Y

T

E

L

F

Q

K

V

G

G

D

E

P

L

V

V

V

F

E

Q

S

-

D

E

K

R

I

V

G

A

I

M

A

A

V

V

R

A

K

K

G

G

D

N

-

K

P

S

L

L

R

L

E

D

R

A

L

L

N

N

K

R

A

A

L

L

A

A

E

E

I

L

K

M

A

Q

D

D

G

G

T

T

Y

Y

K

A

K

R

I

I

N

S

D

Q

K

K

Y

W

F

F

binding l-thialysine: E20 (= E31), F23 (≠ Y34), N27 (= N38), F61 (≠ W73), A78 (≠ S90), S79 (= S91), G81 (≠ S93), R86 (= R98), T127 (= T142), T128 (= T146), Y129 (= Y147)

3vvfA Crystal structure of ttc0807 complexed with arginine (see paper)
34% identity, 92% coverage: 16:245/250 of query aligns to 9:234/241 of 3vvfA

query
sites
3vvfA

A

S

F

F

S

E

A

E

T

I

A

K

M

R

A

S

E

G

T

E

L

I

K

R

M

I

G

G

I

T

E
|
E

A

G

A

A

Y
x
F

P

P

F

F

N

N

N

Y

K

F

D

D

A

E

S

R

G

N

N

Q

V

L

V

T

G

G

F

F

D

E

K

V

D

D

I

L

G

G

D

N

A

A

L

I

C

A

A

E

K

R

M

L

K

G

V

L

E

-

K

K

C

P

E

R

V

W

Y

I

V

A

S

Q

D

S

W
x
F

D

D

G

T

I

L

P

I

A

Q

L

L

N

N

A

Q

K

G

K

R

F

F

D

D

F

F

L

V

V

I

S
x
A

S
|
S

L
x
H

S
x
G

I

I

T

T

E

E

R
|
R

K

A

A

R

A

A

V

V

D

D

F

F

T

T

D

N

P

P

Y

H

Y

Y

S

C

N

T

K

G

L

G

Q

V

F

I

I

V

A

S

P

R

K

K

A

G

T

G

A

P

D

R

F

T

K

A

T

K

D

D

A

-

Y

-

L

L

K

Q

G

G

K

K

V

V

I

V

G

G

A

V

Q
|
Q

R

V

A

G

T
|
T

L

-

A

-

G

-

T
|
T

Y
|
Y

L

M

E

E

-

A

D

Q

K

K

L

I

P

P

D

G

T

I

-

K

E

E

A

V

K

R

L

T

Y

Y

D

Q

T

R

Q

D

E

P

N

D

A

A

Y

L

L

Q

D

D

L

L

T

L

S

A

G

G

R

R

L

I

D

D

G

T

I

W

L

I

A

T

D

D

K

R

Y

F

V

V

Q

A

Y

K

E

E

W

A

L

I

K

K

S

E

K

R

D

K

G

L

S

E

A

N

Y

T

E

L

F

Q

K

V

G

G

D

E

P

L

V

V

V

F

E

Q

S

-

D
x
E

K

R

I

V

G

A

I

M

A

A

V

V

R

A

K

K

G

G

D

N

-

K

P

S

L

L

R

L

E

D

R

A

L

L

N

N

K

R

A

A

L

L

A

A

E

E

I

L

K

M

A

Q

D

D

G

G

T

T

Y

Y

K

A

K

R

I

I

N

S

D

Q

K

K

Y

W

F

F

binding arginine: E24 (= E31), F27 (≠ Y34), F65 (≠ W73), A82 (≠ S90), S83 (= S91), H84 (≠ L92), G85 (≠ S93), R90 (= R98), Q128 (= Q139), T131 (= T142), T132 (= T146), Y133 (= Y147), E196 (≠ D208)

3vveA Crystal structure of ttc0807 complexed with lysine (see paper)
34% identity, 92% coverage: 16:245/250 of query aligns to 9:234/241 of 3vveA

query
sites
3vveA

A

S

F

F

S

E

A

E

T

I

A

K

M

R

A

S

E

G

T

E

L

I

K

R

M

I

G

G

I

T

E
|
E

A

G

A

A

Y
x
F

P

P

F

F

N

N

N

Y

K

F

D

D

A

E

S

R

G

N

N

Q

V

L

V

T

G

G

F

F

D

E

K

V

D

D

I

L

G

G

D

N

A

A

L

I

C

A

A

E

K

R

M

L

K

G

V

L

E

-

K

K

C

P

E

R

V

W

Y

I

V

A

S

Q

D

S

W
x
F

D

D

G

T

I

L

P

I

A

Q

L

L

N

N

A

Q

K

G

K

R

F

F

D

D

F

F

L

V

V

I

S

A

S
|
S

L
x
H

S

G

I

I

T

T

E

E

R
|
R

K

A

A

R

A

A

V

V

D

D

F

F

T

T

D

N

P

P

Y

H

Y

Y

S

C

N

T

K

G

L

G

Q

V

F

I

I

V

A

S

P

R

K

K

A

G

T

G

A

P

D

R

F

T

K

A

T

K

D

D

A

-

Y

-

L

L

K

Q

G

G

K

K

V

V

I

V

G

G

A

V

Q
|
Q

R

V

A

G

T
|
T

L

-

A

-

G

-

T
|
T

Y
|
Y

L

M

E

E

-

A

D

Q

K

K

L

I

P

P

D

G

T

I

-

K

E

E

A

V

K

R

L

T

Y

Y

D

Q

T

R

Q

D

E

P

N

D

A

A

Y

L

L

Q

D

D

L

L

T

L

S

A

G

G

R

R

L

I

D

D

G

T

I

W

L

I

A

T

D

D

K

R

Y

F

V

V

Q

A

Y

K

E

E

W

A

L

I

K

K

S

E

K

R

D

K

G

L

S

E

A

N

Y

T

E

L

F

Q

K

V

G

G

D

E

P

L

V

V

V

F

E

Q

S

-

D
x
E

K

R

I

V

G

A

I

M

A

A

V

V

R

A

K

K

G

G

D

N

-

K

P

S

L

L

R

L

E

D

R

A

L

L

N

N

K

R

A

A

L

L

A

A

E

E

I

L

K

M

A

Q

D

D

G

G

T

T

Y

Y

K

A

K

R

I

I

N

S

D

Q

K

K

Y

W

F

F

binding lysine: E24 (= E31), F27 (≠ Y34), F65 (≠ W73), S83 (= S91), H84 (≠ L92), R90 (= R98), Q128 (= Q139), T131 (= T142), T132 (= T146), Y133 (= Y147), E196 (≠ D208)

3vvdA Crystal structure of ttc0807 complexed with ornithine (see paper)
34% identity, 92% coverage: 16:245/250 of query aligns to 9:234/241 of 3vvdA

query
sites
3vvdA

A

S

F

F

S

E

A

E

T

I

A

K

M

R

A

S

E

G

T

E

L

I

K

R

M

I

G

G

I

T

E
|
E

A

G

A

A

Y

F

P

P

F

F

N

N

N

Y

K

F

D

D

A

E

S

R

G

N

N

Q

V

L

V

T

G

G

F

F

D

E

K

V

D

D

I

L

G

G

D

N

A

A

L

I

C

A

A

E

K

R

M

L

K

G

V

L

E

-

K

K

C

P

E

R

V

W

Y

I

V

A

S

Q

D

S

W
x
F

D

D

G

T

I

L

P

I

A

Q

L

L

N

N

A

Q

K

G

K

R

F

F

D

D

F

F

L

V

V

I

S

A

S
|
S

L
x
H

S
x
G

I

I

T

T

E

E

R
|
R

K

A

A

R

A

A

V

V

D

D

F

F

T

T

D

N

P

P

Y

H

Y

Y

S

C

N

T

K

G

L

G

Q

V

F

I

I

V

A

S

P

R

K

K

A

G

T

G

A

P

D

R

F

T

K

A

T

K

D

D

A

-

Y

-

L

L

K

Q

G

G

K

K

V

V

I

V

G

G

A

V

Q
|
Q

R

V

A

G

T
|
T

L

-

A

-

G

-

T
|
T

Y
|
Y

L

M

E

E

-

A

D

Q

K

K

L

I

P

P

D

G

T

I

-

K

E

E

A

V

K

R

L

T

Y

Y

D

Q

T

R

Q

D

E

P

N

D

A

A

Y

L

L

Q

D

D

L

L

T

L

S

A

G

G

R

R

L

I

D

D

G

T

I

W

L

I

A

T

D

D

K

R

Y

F

V

V

Q

A

Y

K

E

E

W

A

L

I

K

K

S

E

K

R

D

K

G

L

S

E

A

N

Y

T

E

L

F

Q

K

V

G

G

D

E

P

L

V

V

V

F

E

Q

S

-

D
x
E

K

R

I

V

G

A

I

M

A

A

V

V

R

A

K

K

G

G

D

N

-

K

P

S

L

L

R

L

E

D

R

A

L

L

N

N

K

R

A

A

L

L

A

A

E

E

I

L

K

M

A

Q

D

D

G

G

T

T

Y

Y

K

A

K

R

I

I

N

S

D

Q

K

K

Y

W

F

F

binding L-ornithine: E24 (= E31), F65 (≠ W73), S83 (= S91), H84 (≠ L92), G85 (≠ S93), R90 (= R98), Q128 (= Q139), T131 (= T142), T132 (= T146), Y133 (= Y147), E196 (≠ D208)

5t0wA Crystal structure of the ancestral amino acid-binding protein anccdt- 1, a precursor of cyclohexadienyl dehydratase
36% identity, 88% coverage: 25:245/250 of query aligns to 11:228/229 of 5t0wA

query
sites
5t0wA

T

T

L

L

K

R

M

V

G

G

I

T

E
x
D

A

A

A

D

Y
|
Y

P

K

P

P

F

F

N

S

N

F

K

K

D

D

A

K

S

N

G

G

N

Q

V

Y

V

T

G

G

F

F

D

D

K

I

D

D

I

L

G

A

D

K

A

A

L

L

C

A

A

K

K

E

M

L

K

G

V

V

E

-

K

K

C

V

E

E

V

F

Y

V

V

P

S

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

F

I

L

V

V

M

S
|
S

S
x
G

L
x
M

S
x
T

I

I

T

T

E

P

E

E

R
|
R

K

K

A

K

V

V

D

D

F

F

T

S

D

D

P

P

Y

Y

Y

M

S

T

N

A

K

G

L

Q

Q

T

F

I

I

L

A

V

P

K

K

K

A

D

T

N

A

A

D

D

-

K

F

I

K

K

T

S

D

F

A

E

A

D

Y

L

L

N

K

K

G

P

K

D

V

V

-

K

I

V

G

A

A

V

Q
|
Q

R

L

A

G

T
|
T

L
x
T

A

S

G

E

T

Q

Y

A

L

A

E

K

D

E

K

F

L

L

P

P

D

K

T

A

E

K

A

I

K

R

L

T

Y

F

D

E

T

N

Q

N

E

A

N

E

A

A

Y

F

L

Q

D

E

L

V

T

V

S

S

G

G

R

R

L

A

D

D

G

A

I

M

L

V

A

T

D
|
D

K

S

Y

P

V

V

Q

-

Y

-

E

-

W

-

L

-

K

-

S

-

K

-

D

-

G

-

S

A

A

A

Y

Y

E

Y

F

A

K

K

G

L

D

A

P

V

V

V

-

V

-

D

-

E

-

P

-

F

E

T

S

H

D

E

K

P

I

L

G

G

I

F

A

A

V

I

R

R

K

K

G

G

D

D

P

P

-

E

L

L

R

L

E

N

R

W

L

V

N

N

K

N

A

W

L

L

A

K

E

Q

I

M

K

K

A

K

D

D

G

G

T

T

Y

Y

K

D

K

K

I

L

N

Y

D

E

K

K

Y

W

F

F

binding arginine: D17 (≠ E31), Y20 (= Y34), W58 (= W73), S75 (= S90), G76 (≠ S91), M77 (≠ L92), T78 (≠ S93), R83 (= R98), Q126 (= Q139), T129 (= T142), T130 (≠ L143), D168 (= D181)

8hqrA Crystal structure of the arginine-/lysine-binding protein sar11_1210 from 'candidatus pelagibacter ubique' htcc1062 bound to arginine
31% identity, 89% coverage: 26:247/250 of query aligns to 10:263/267 of 8hqrA

query
sites
8hqrA

L

I

K

K

M

I

G

G

I

T

E
|
E

A

G

A

A

Y
|
Y

P

P

F

W

N

N

N

S

K

K

D

D

A

A

S

S

G

G

N

A

V

L

V

I

G

G

F

F

D

E

K

V

D

E

I

L

G

A

D

E

A

E

L

L

C

C

A

K

K

I

M

M

K

G

V

R

E

E

K

-

C

C

E

T

V

I

Y

V

V

E

S

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

F

A

L

I

V

M

S
x
A

S
x
G

L

M

S
|
S

I

I

T

T

E

A

E

E

R
|
R

K

Q

A

K

A

T

V

I

D

T

F

F

T

S

D

Q

P

G

Y

Y

Y

A

S

D

N
x
E

K

V

L

A

Q

A

F

L

I

A

A

V

P

M

K

K

A

G

T

S

A

S

-

L

-

E

-

S

-

M

-

D

-

T

-

P

-

E

-

G

-

I

-

N

-

L

-

T

-

L

-

G

-

S

-

A

-

V

-

K

D

T

F

L

K

K

T

T

D

L

A

T

A

A

Y

A

L

L

K

A

G

G

K

K

V

T

I

V

G

C

A

T

Q
|
Q

R

T

A

G

T
|
T

L
x
I

A

H

G

Q

T

N

Y

F

L

L

E

E

D

S

K

G

-

D

L

V

P

G