SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_085635989.1 NCBI__GCF_002115805.1:WP_085635989.1 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)

4pcdA Crystal structure of a trap periplasmic solute binding protein from roseobacter denitrificans och 114 (rd1_1052, target efi-510238) with bound l-galactonate (see paper)
27% identity, 71% coverage: 25:259/332 of query aligns to 7:239/300 of 4pcdA

query
sites
4pcdA

L

L

K

K

M

L

S

G

H

H

V

L

R

A

P

N

Q

E

D

Q

A

N

T

A

I

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D

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E

A

L

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R

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A

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F

F

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K

E

A

E

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L

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S

D

T

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L

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T

G

D

G

G

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R

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I

N

A

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V

E

E

I

V

F

F

P

P

A

N

S

E

A

S

L

L

G

G

D

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Y
x
E

T

I

T

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V

L

Q

I

E

N

R

G

I

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S

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V

L

G

G

A

T

I

V

D

D

M

M

A

T

T

I

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T

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x
G

A
x
E

A
x
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T

L

A

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A

N

D

W

R

A

R

P

M

M

Q

A

-

A

I

L

S

L

S

A

F

V

P

P

Y

Y

L

A

A

Y

G

K

N

S

W

L

D

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H

A

M

R

D

A

E

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V

Y

-

G

A

P

S

G

G

G

E

V

I

V

G

R

E

E

Q

V

I

M

-

A

-

G

-

L

-

Y

-

S

K

E

Q

Q

Q

D

I

I

I

T

E

M

K

L

A

A

Q

A

V

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R

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P

V

I

Y

A

F

F

-

F

-

A

-
x
R

G

G

G

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I
x
R

S

N

L

L

N

T

V

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Q

N

R

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P

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I

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T

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S

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L

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N

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A

E
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L

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R

Y

S

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A

S

N

F

F

R

N

D

E

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T

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K

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Y

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A

binding L-galactonic acid: E51 (≠ Y69), G69 (≠ P87), E70 (≠ A88), S71 (≠ A89), R124 (vs. gap), R127 (≠ I147), R147 (= R167), N187 (≠ G207), L191 (≠ E211)

4pc9A Crystal structure of a trap periplasmic solute binding protein from rosenbacter denitrificans och 114 (rd1_1052, target efi-510238) with bound d-mannonate (see paper)
27% identity, 71% coverage: 25:259/332 of query aligns to 7:239/300 of 4pc9A

query
sites
4pc9A

L

L

K

K

M

L

S

G

H

H

V
x
L

R

A

P

N

Q

E

D

Q

A

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T

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I

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D

H

V

L

E

A

L

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R

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A

K

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F

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G

K

E

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E

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S

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G

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N

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I

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F

F

P

P

A

N

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E

A

S

L

L

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G

D

K

Y
x
E

T

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N

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L

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G

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D

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M

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x
G

A
x
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x
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T

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N

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A

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M

M

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-

A

I

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L

A

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-

A

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G

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-

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-
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G

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x
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L

L

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N

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F
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S

E

E

A

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F

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A

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Q

T

N

G

G

V

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I

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D

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Q

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G
x
N

S

P

G

L

A

A

E
x
L

G

I

Y

R

Y

S

A

A

S

N

F

F

R

N

D

E

V

V

T

-

K

Q

T

G

Y

Y

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V

P

N

A

Q

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T

T

E

H

H

F

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E

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V

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W

W

-

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M

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I

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N

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E

S

S

T

L

W

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A

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K

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S

D

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D

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binding d-mannonic acid: L12 (≠ V30), E51 (≠ Y69), G69 (≠ P87), E70 (≠ A88), S71 (≠ A89), R124 (vs. gap), R127 (≠ I147), R147 (= R167), P149 (= P169), F170 (= F190), N187 (≠ G207), L191 (≠ E211)

Q16BC9 Solute-binding protein RD1_1052 from Roseobacter denitrificans (strain ATCC 33942 / OCh 114) (Erythrobacter sp. (strain OCh 114)) (Roseobacter denitrificans) (see paper)
27% identity, 71% coverage: 25:259/332 of query aligns to 31:263/325 of Q16BC9

query
sites
Q16BC9

L

L

K

K

M

L

S

G

H

H

V

L

R

A

P

N

Q

E

D

Q

A

N

T

A

I

W

D

H

V

L

E

A

L

A

R

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A

K

F

F

S

G

K

E

A

E

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L

A

S

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T

A

L

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T

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D

G

G

D

R

V

I

N

A

V

V

E

E

I

V

F

F

P

P

A

N

S

E

A

S

L

L

G

G

D

K

Y
x
E

T

I

T

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V

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Q

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N

R

G

I

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S

Q

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L

G

G

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D

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M

A

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T

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x
G

A
x
E

A
x
S

T

L

A

Q

A

N

D

W

R

A

R

P

M

M

Q

A

-

A

I

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S

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F

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Y

Y

L

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A

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E

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V

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M

-

A

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G

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Q

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I

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Y

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F

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-

F

-

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-
x
R

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G

G
x
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I
x
R

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L

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A

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Q

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N

G

G

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D

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G

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Q

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E

G
x
N

S

P

G

L

A

A

E

L

G

I

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R

Y

S

A

A

S

N

F

F

R

N

D

E

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-

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G

Y

Y

I

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P

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A

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N

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T

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H

H

F

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E

R

V

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W

W

-

I

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Y

M

L

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T

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I

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A

N

E

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S

S

T

L

W

A

A

S

K

L

L

S

S

D

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A

E75 (≠ Y69) binding D-mannonate; binding L-galactonate
GES 93:95 (≠ PAA 87:89) binding D-mannonate; binding L-galactonate
RGPR 148:151 (≠ -GGI 145:147) binding D-mannonate; binding L-galactonate
R171 (= R167) binding D-mannonate; binding L-galactonate
N211 (≠ G207) binding D-mannonate; binding L-galactonate

Q0B2F6 Solute-binding protein Bamb_6123 from Burkholderia ambifaria (strain ATCC BAA-244 / DSM 16087 / CCUG 44356 / LMG 19182 / AMMD) (Burkholderia cepacia (strain AMMD)) (see paper)
26% identity, 91% coverage: 7:308/332 of query aligns to 10:308/328 of Q0B2F6

query
sites
Q0B2F6

T

T

T

A

A

L

A

A

A

V

A

A

L

L

M

M

V

A

-

G

L

F

G

A

S

M

Y

S

A

A

E

Q

A

A

Q

R

D

V

L

F

K

R

M

S

S

A

H

D

V

V

R
x
H

P

G

Q

D

D

S

A

F

T

P

I

T

D

N

V

M

E

A

L

V

R

K

A

F

F

M

S

G

K

D

A

E

V

L

A

S

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K

A

L

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T

G

G

D

K

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D

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E

K

I

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F

F

P

G

A

N

S

S

A

A

L

L

G

G

D

S

Y
x
E

T

K

T

D

V

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Q

V

E

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R

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I

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S

R

V

I

G

G

A

A

I

I

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D

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M

A

A

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x
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G

A

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S

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F

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N

D

E

-

I

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L

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Y

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L

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A

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N

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D

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H

A

F

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R

-

K

A

A

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Y

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G

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P

G

A

G

G

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R

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G

G

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V

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D

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V

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A

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x
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Y

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Y

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A

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H35 (≠ R31) binding beta-D-galacturonate; binding beta-D-glucuronate
E73 (≠ Y69) binding beta-D-galacturonate; binding beta-D-glucuronate
R89 (≠ T85) binding beta-D-galacturonate; binding beta-D-glucuronate
R149 (≠ I147) binding beta-D-galacturonate; binding beta-D-glucuronate
N209 (≠ G212) binding beta-D-galacturonate; binding beta-D-glucuronate
E236 (vs. gap) binding beta-D-galacturonate; binding beta-D-glucuronate

E1VBK1 Ectoine-binding periplasmic protein TeaA from Halomonas elongata (strain ATCC 33173 / DSM 2581 / NBRC 15536 / NCIMB 2198 / 1H9) (see 2 papers)
25% identity, 98% coverage: 3:329/332 of query aligns to 4:330/341 of E1VBK1

query
sites
E1VBK1

H
x
Y

A
x
K

M
x
L

L
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L

T
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T

A
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A

A
x
S

A
x
I

A
x
G

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x
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x
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G

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Q

H

D

G

I

L

T

E

M

L

L

L

A

K

A

M

Y

Y

P

P

V

E

Y

-

F

-

G

G

G

E

I

M

S

V

L

V

N

T

V

A

E

D

N

E

P

P

N

I

A

T

G

S

S

P

V

E

E

D

P

F

N

D

G

N

I

K

K

K

V

I

R

R

V

T

P

M

G

T

I

N

K

P

S

L

F

L

Q

A

L

E

T

T

G

Y

E

K

A

A

L

F

G

G

Y

A

I

T

P

P

S

T

P

P

I

L

P

P

F

W

S

G

E

E

A

V

F

Y

T

G

A

G

V

L

Q

Q

T

T

G

G

V

I

D

D

G

G

V

Q

-

E

-

N

-

P

-

I

-

F

-

W

I

I

G

E

S

S

G

G

A

-

E

-

G

G

Y

L

Y

Y

A

E

S

V

F

S

R

P

D

N

V

L

T

T

K

F

T

T

Y

-

I

-

P

-

A

-

N

-

T

S

H

H

F

-

E

-

V

G

W

W

Y

F

-

T

-

A

M

M

I

M

I

A

S

N

N

Q

E

D

S

F

L

Y

A

E

S

G

L

L

S

S

D

E

E

E

D

D

Q

Q

A

Q

A

L

L

V

K

Q

E

D

Q

A

A

A

-

D

A

A

F

Y

E

D

A

H

T

T

R

I

W

E

E

H

V

I

A

K

E
x
G

A
x
L

D
x
S

Q

E

A

E

R

S

N

L

E

E

Q

K

R

I

L

K

V

A

D

A

E

S

L

D

G

E

A

V

T

T

V

V

V

T

A

R

L

L

S

N

D

D

D

E

E

Q

L

I

A

Q

A

A

M

F

A

-

K

K

T

E

R

R

A

A

D

P

V

Q

W

V

P

E

A

E

V

K

L

F

E

I

D

E

V

M

G

T

A

G

D

E

W

Q

G

G

Q

Q

S

E

I

L

L

L

D

D

K

Q

V

F

A

K

A

A

G273 (≠ E270) mutation to P: Conformationally unbiased. Has wild-type affinity for ectoine.
GLS 273:275 (≠ EAD 270:272) mutation to AAA: Strongly biased toward the open conformation. Has lower affinity for ectoine. Does not affect the structure of the substrate-binding site.

Sites not aligning to the query:

1:25 signal peptide

4n17A Crystal structure of a trap periplasmic solute binding protein from burkholderia ambifaria (bam_6123), target efi-510059, with bound beta-d-galacturonate (see paper)
27% identity, 79% coverage: 48:308/332 of query aligns to 26:282/301 of 4n17A

query
sites
4n17A

V

L

A

S

D

K

A

L

T

T

G

G

D

K

V

D

N

S

V

I

E

K

I

V

F

F

P

G

A

N

S

S

A

A

L

L

G

G

D

S

Y
x
E

T

K

T

D

V

T

Q

V

E

D

R

Q

I

V

S

R

V

I

G

G

A

A

I

I

D

D

M

M

A

A

T
x
R

Q

V

P
x
N

A

G

A

A

T

S

A

F

A

N

D

E

-

I

-

V

R

P

R

E

M

S

Q

L

I

I

S

P

S

S

F

F

P

P

Y

F

L

L

A

F

G

R

N

D

W

V

D

D

Q

H

A

F

R

R

-

K

A

A

V

M

Y

Y

G

G

P

P

G

A

G

G

V

-

R

-

E

Q

V

K

M

I

A

L

G

D

L

A

Y

F

S

A

E

A

Q

K

D

G

I

M

T

I

M

A

L

L

A

T

A

F

Y

Y

P

E

V

S

Y

-

F

-

G

G

G

A

I
x
R

S

S

L

I

N

Y

V

A

E

K

N

R

P

P

N

V

A

R

G

T

S

P

V

A

E

D

P

M

N

K

G

G

I

L

K

K

V

V

R
|
R

V

V

P
x
Q

G

P

I

S

K

D

S

L

F

M

Q

V

L

D

T

E

G

I

E

R

A

A

L

M

G

G

Y

G

I

T

P

P

S

T

P

P

I

M

P

P

F
|
F

S

A

E

E

A

V

F

Y

T

T

A

G

V

L

Q

K

T

T

G

G

V

L

V

V

D

D

G

-

V

-

I

-

G

-

S

-

G

A

A

A

E

E

G
x
N

Y

N

Y

L

A

P

S

S

F

Y

R

E

D

E

V

-

T

T

K

K

T

H

Y

F

I

E

P

V

A

A

N

P

T

D

H

Y

F

S

E

E

V

T

W

Q

Y

H

-

A

-

M

-

T

-

P

-
x
E

-

V

M

L

I

V

I

F

S

S

N

K

E

K

S

I

L

W

A

D

S

T

L

L

S

S

D

P

E

Q

D

E

Q

Q

A

A

L

I

K

R

E

K

Q

A

A

A

-

D

-

S

-

V

A

P

F

Y

E

Y

A

Q

T

K

R

L

W

W

E

T

V

A

A

R

E

E

A

A

D

-

Q

-

A

-

R

-

N

S

E

A

Q

Q

R

Q

L

A

V

V

D

T

E

K

L

G

G

G

A

A

T

N

V

I

V

L

A

P

L

A

S

A

D

Q

D

V

E

D

L

R

A

A

M

F

A

-

A

V

K

K

T

A

R

M

A

Q

D

P

V

L

W

W

binding beta-D-galactopyranuronic acid: E47 (≠ Y69), R63 (≠ T85), N65 (≠ P87), R123 (≠ I147), R143 (= R167), Q145 (≠ P169), F166 (= F190), N183 (≠ G212), E210 (vs. gap)

Sites not aligning to the query:

binding beta-D-galactopyranuronic acid: 9

4n15A Crystal structure of a trap periplasmic solute binding protein from burkholderia ambifaria (bam_6123), target efi-510059, with bound beta-d-glucuronate (see paper)
27% identity, 79% coverage: 48:308/332 of query aligns to 26:282/301 of 4n15A

query
sites
4n15A

V

L

A

S

D

K

A

L

T

T

G

G

D

K

V

D

N

S

V

I

E

K

I

V

F

F

P

G

A

N

S

S

A

A

L

L

G

G

D

S

Y
x
E

T

K

T

D

V

T

Q

V

E

D

R

Q

I

V

S

R

V

I

G

G

A

A

I

I

D

D

M

M

A

A

T
x
R

Q

V

P
x
N

A

G

A

A

T

S

A

F

A

N

D

E

-

I

-

V

R

P

R

E

M

S

Q

L

I

I

S

P

S

S

F

F

P

P

Y

F

L

L

A

F

G

R

N

D

W

V

D

D

Q

H

A

F

R

R

-

K

A

A

V

M

Y

Y

G

G

P

P

G

A

G

G

V

-

R

-

E

Q

V

K

M

I

A

L

G

D

L

A

Y

F

S

A

E

A

Q

K

D

G

I

M

T

I

M

A

L

L

A

T

A

F

Y

Y

P

E

V

S

Y

-

F

-

G

G

G

A

I
x
R

S

S

L

I

N

Y

V

A

E

K

N

R

P

P

N

V

A

R

G

T

S

P

V

A

E

D

P

M

N

K

G

G

I

L

K

K

V

V

R
|
R

V

V

P
x
Q

G

P

I

S

K

D

S

L

F

M

Q

V

L

D

T

E

G

I

E

R

A

A

L

M

G

G

Y

G

I

T

P

P

S

T

P

P

I

M

P

P

F
|
F

S

A

E

E

A

V

F

Y

T

T

A

G

V

L

Q

K

T

T

G

G

V

L

V

V

D

D

G

-

V

-

I

-

G

-

S

-

G

A

A

A

E

E

G
x
N

Y

N

Y

L

A

P

S

S

F

Y

R

E

D

E

V

-

T

T

K

K

T

H

Y

F

I

E

P

V

A

A

N

P

T

D

H

Y

F

S

E

E

V

T

W

Q

Y

H

-

A

-

M

-

T

-

P

-
x
E

-

V

M

L

I

V

I

F

S

S

N

K

E

K

S

I

L

W

A

D

S

T

L

L

S

S

D

P

E

Q

D

E

Q

Q

A

A

L

I

K

R

E

K

Q

A

A

A

-

D

-

S

-

V

A

P

F

Y

E

Y

A

Q

T

K

R

L

W

W

E

T

V

A

A

R

E

E

A

A

D

-

Q

-

A

-

R

-

N

S

E

A

Q

Q

R

Q

L

A

V

V

D

T

E

K

L

G

G

G

A

A

T

N

V

I

V

L

A

P

L

A

S

A

D

Q

D

V

E

D

L

R

A

A

M

F

A

-

A

V

K

K

T

A

R

M

A

Q

D

P

V

L

W

W

binding beta-D-glucopyranuronic acid: E47 (≠ Y69), R63 (≠ T85), N65 (≠ P87), R123 (≠ I147), R143 (= R167), Q145 (≠ P169), F166 (= F190), N183 (≠ G212), E210 (vs. gap)

Sites not aligning to the query:

binding beta-D-glucopyranuronic acid: 9

4mmpA Structure of sialic acid binding protein from pasturella multocida (see paper)
26% identity, 63% coverage: 44:251/332 of query aligns to 25:232/308 of 4mmpA

query
sites
4mmpA

F

F

S

A

K

K

A

E

V

V

A

K

D

E

A

K

T

S

G

N

G

G

D

K

V

I

N

D

V

V

E

A

I

I

F

F

P

P

A

S

S

S

A

Q

L

L

G

G

D

D

Y
x
D

T

R

T

V

V

M

Q

I

E

K

R

Q

I

L

S

K

V

D

G

G

A

A

I

L

D

D

M

F

A

T

T
x
L

Q

G

P
x
E

A

S

A

A

T

-

A

-

D

-

R

-

R
|
R

M

F

Q

Q

I

I

S

Y

-

F

-

P

-

E

-

A

-

E

-

V

-

F

S

A

F

L

P

P

Y

Y

L

M

A

I

G

P

N

N

W

F

D

E

Q

T

A

S

R

K

A

K

V

A

Y

L

G

L

P

D

G

T

G

K

V

F

V

G

R

Q

E

G

V

L

M

L

A

K

G

K

L

I

Y

D

S

K

E

E

Q

L

D

N

I

V

T

Q

M

V

L

L

A

S

A

-

Y

-

P

-

V

V

Y

A

F

Y

G

N

G

G

I

T

S
x
R

L

Q

N

T

V

T

E

S

N

N

P

R

N

A

A

I

G

N

S

S

V

I

E

E

P

D

-

M

N

K

G

G

I

L

K

K

V

L

R
|
R

V

V

P

P

G

N

I

A

K

A

S

T

F

N

Q

L

L

A

T

Y

G

A

E

K

A

Y

L

V

G

G

Y

A

I

A

P

P

S

T

P

P

I

M

P

A

F
|
F

S

S

E

E

A

V

F

Y

T

L

A

A

V

L

Q

Q

T

T

G

N

V

S

V

V

D

D

G

G

V

Q

I

E

G
x
N

S

P

G

L

A

P

E

T

G

I

Y

Q

Y

A

A

Q

S

K

F

F

R

Y

D

E

V

V

T

Q

K

K

T

Y

Y

L

I

A

P

L

A

T

N

N

T

H

H

I

F

L

E

N

V

D

W
x
Q

Y

L

M

Y

I

L

I

I

S

S

N

N

E

D

S

T

L

L

A

A

S

D

L

L

S

P

D

E

E

D

D

L

Q

Q

binding N-acetyl-beta-neuraminic acid: D50 (≠ Y69), L66 (≠ T85), E68 (≠ P87), R71 (= R95), R128 (≠ S148), R148 (= R167), F171 (= F190), N188 (≠ G207), Q215 (≠ W234)

Sites not aligning to the query:

binding N-acetyl-beta-neuraminic acid: 11

4x8rA Crystal structure of a trap periplasmic solute binding protein from rhodobacter sphaeroides (rsph17029_2138, target efi-510205) with bound glucuronate
28% identity, 80% coverage: 25:289/332 of query aligns to 6:268/304 of 4x8rA

query
sites
4x8rA

L

L

K

R

M

S

S

S

H

D

V

T

R
x
H

P

P

Q

-

D

D

A

G

T

Y

I

P

D

T

V

V

E

E

-

G

L

V

R

K

A

F

F

M

S

A

K

E

A

R

V

A

A

K

D

E

A

L

T

S

G

N

G

G

D

R

V

I

N

C

V

I

E

E

I

V

F

F

P

P

A

S

S

S

A

Q

L

L

G

G

D

E

Y
x
E

T

K

T

D

V

T

Q

I

E

E

R

Q

I

T

S

Q

V

F

G

G

A

V

I

I

D

D

M

M

A

V

T
x
R

Q

A

P

S

A

F

A

G

T

S

A

F

A

N

D

D

-

I

-

V

R

P

R

E

M

A

Q

Q

I

L

S

L

S

S

F

L

P

P

Y

Y

L

L

A

F

G

R

N

S

W

E

D

E

Q

H

A

L

R

H

A
x
N

V

V

Y

M

-

D

G

G

P

P

G

I

G
|
G

V

-

R

-

E

D

V

E

M

L

A

A

G

K

L

A

Y

F

S
x
E

E

A

Q

K

D

D

I

L

T

I

M

A

L

V

A

A

A

-

Y

-

P

-

V

-

Y

Y

F

Y

G

D

G

G

I

G

S

S

-
x
R

-

S

-

F

L

Y

N

N

V

S

E

Q

N

K

P

P

N

I

A

T

G

K

S

V

V

E

E

D

P

L

N

K

G

G

I

M

K

K

V

F

R
|
R

V

V

P
x
M

G

Q

I

S

K

D

S

V

F

F

Q

V

L

D

T

M

G

M

E

S

A

A

L

L

G

G

Y

A

I

N

P

A

S

T

P

P

I

M

P

P

F
x
Y

S

G

E

E

A

V

F

Y

T

S

A

S

V

I

Q

Q

T

T

G

G

V

V

V

I

D

D

G

-

V

-

I

-

G

-

S

-

G

G

A

A

E

E

G
x
N

Y

N

Y

W

A

P

S
|
S

F

Y

R

D

-

S

-

G

-

H

-

F

D

E

V

V

T

A

K

K

T

Y

Y

Y

I

T

P

-

A

L

N

D

T

Q

H

H

F

L

E

M

V

V

W

P

Y
x
E

M
x
L

I

V

-

A

I

I

S

S

N

K

E

I

S

K

L

W

A

D

S

A

L

L

S

S

D

P

E

E

D

D

Q

Q

A

Q

A

V

L

L

K

R

E

Q

Q

A

A

A

A

E

F

S

E

E

A

P

T

V

R

Q

W

R

E

K

V

L

A

W

E

A

A

E

D

Q

Q

E

A

K

R

A

N

S

E

E

Q

E

R

K

L

V

V

V

D

A

E

S

L

-

G

G

A

A

T

E

V

V

active site: N96 (≠ A113), G103 (= G119), E111 (≠ S130), L215 (≠ M236)
binding beta-D-glucopyranuronic acid: H12 (≠ R31), E50 (≠ Y69), R66 (≠ T85), R126 (vs. gap), R147 (= R167), M149 (≠ P169), Y170 (≠ F190), N187 (≠ G212), S191 (= S216), E214 (≠ Y235)

9dsyA Crystal structure of c4-dicarboxylate-binding periplasmic protein (pa5167) of tripartite atp-independent periplasmic transporter family from pseudomonas aeruginosa pao1 in complex with succinic acid
25% identity, 93% coverage: 25:332/332 of query aligns to 4:303/303 of 9dsyA

query
sites
9dsyA

L

I

K

K

M

F

S

S

H

H

V

V

R

V

P

A

Q

E

D
x
H

A

T

T

P

I

K

D

G

V

Q

E

G

L

A

R

L

A

L

F

F

S

K

K

K

A

L

V

V

A

E

D

E

A

R

T

L

G

P

G

G

D

K

V

V

N

K

V

V

E

E

I

V

F

Y

P

P

A

N

S

S

A

S

L

L

G

F

D

G

Y

D

T

G

T

K

V

E

Q

M

E

E

R

A

I

L

S

L

V

L

G

G

A

D

I

V

D

Q

M

I

A

I

T

A

Q

P

P

S

A

L

A

A

T

K

A

F

A

E

D

Q

-

Y

-

T

R

K

M

L

Q

Q

I

I

S

F

S

D

F

L

P

P

Y

F

L

L

A

F

G

D

N

N

W

I

D

Q

Q

A

A

V

-
x
D

R

R

A

F

V

Q

Y

Q

G

S

P

P

G

Q

G

G

V

-

R

K

E

E

V

L

M

L

A

T

G

S

L

M

Y

-

S

Q

E

D

Q

K

D

G

I

I

T

T

M

G

L

L

A

G

A

Y

Y

W

P

-

V

-

Y
x
H

F

N

G

G

G

M

I

K

S

Q

L

L

N

S

V

A

E

N

N

K

P

P

N

L

A

R

G

E

S

P

V

K

E

D

P

A

N

R

G

G

I

L

K

K

V

F

R

R

V

V

P

Q

G

A

I

S

K

K

S

V

F

L

Q

E

L

E

T

Q

G

F

E

K

A

A

L

V

G

R

Y

A

I

N

P

P

S

R

P

K

I

M

P

S

F

F

S

A

E

E

A

V

F

Y

T

Q

A

G

V

L

Q

Q

T

T

G

G

V

V

D

N

G

G

V

T

I

E

G

N

S

P

G

W

A

S

E

N

G

I

Y

Y

Y

S

A

Q

S

K

F

M

R

H

D

E

V

V

T

Q

K

K

T

-

Y

Y

I

I

P

T

A

E

N

S

T

D

H

H

F

G

E

V

V

L

W

D

Y

Y

M

M

I

V

I

I

S

T

N

N

E

T

S

K

L

F

A

W

S

N

L

G

S

L

D

P

E

E

D

D

Q

V

A

R

A

G

L

V

K

-

E

-

Q

L

A

A

A

K

A

T

F

M

E

D

A

E

T

V

R

T

W

V

E

E

V

V

A

N

E

K

A

Q

D

A

Q

E

A

A

R

L

N

N

E

Q

-

G

-

D

-

K

Q

Q

R
|
R

L

I

V

V

D

E

E

A

L

K

G

T

A

S

T

E

V

I

A

E

L

L

S

T

D

P

D

E

E

Q

L

R

A

A

A

E

M

W

A

-

A

R

K

K

T

A

R

M

A

Q

D

P

V

V

W

W

P

K

A

K

V

F

L

E

E

G

D

E

V

I

G

G

A

A

D

D

W

-

G

-

Q

-

S

-

I

-

L

L

D

I

K

K

V

A

A

A

A

E

A

A

G

A

N

N

binding zinc ion: H13 (≠ D34), D93 (vs. gap), H120 (≠ Y143), R256 (= R279)

4n8gA Crystal structure of a trap periplasmic solute binding protein from chromohalobacter salexigens dsm 3043 (csal_0660), target efi-501075, with bound d-alanine-d-alanine (see paper)
25% identity, 88% coverage: 22:313/332 of query aligns to 1:290/325 of 4n8gA

query
sites
4n8gA

A

A

Q

T

D

T

L

L

K

N

M

L

S

S

H

Y

V

N

R

G

P

P

Q

P

D

D

A

T

T

D

I

K

D

N

-

A

V

V

E

H

L

L

R

F

A

A

-

S

-

N

F

L

S

K

K

R

A

L

V

V

A

E

D

E

A

K

T

T

G

D

G

G

D

D

V

I

N

Q

V

L

E

K

I

L

F

Y

P

P

A

N

S

S

A

M

L

L

G

G

D

E

Y

E

T

Q

T

E

V

R

Q

M

E

E

R

Q

-

V

I

I

S

N

V

T

G

P

A

S

I

L

D

N

M

I

A

A

T

S

Q

F

P

A

A

G

A

L

T

S

A

P

A

I

D

V

R

P

R

E

M

I

Q

Y

I

V

S

S

S

A

F

I

P

P

Y

F

L

L

A

F

G

E

N

D

W

Y

D

E

Q

A

A

A

R

H

A

Q

V

F

Y

F

G

D

P

E

G

G

G

D

V

Y

V

W

R

N

E

K

V

V

M

E

A

D

G

T

L

L

Y

E

S

E

E

R

Q

T

D

G

I

A

T

E

M

L

L

L

A

G

A

V

Y

-

P

-

V

I

Y

E

F
x
E

G

G

I

F

-

L

-

D

S

F

L

T

N

N

V

S

E

K

N

R

P

P

N

I

A

S

G

S

S

P

V

E

E

D

P

F

N

E

G

G

I

L

K

R

V

F

R
|
R

V

A

P
x
M

G

D

I

P

K

S

S

Q

F

V

Q

A

L

L

T

Y

G

-

E

E

A

A

L

F

G

G

Y

A

I

S

P

G

S

T

P

P

I

I

P

P

F
x
W

S

T

E

D

A

T

F

Y

T

M

A

A

V

L

Q

K

T

T

G

N

V

V

V

A

D

D

G

G

V

Q

I

M

G
x
N

S

P

G

P

A

M

E
x
Y

G

I

Y

I

Y

M

A

G

S

S

F

L

R

Y

D

E

V

V

T

Q

K

K

T

Y

Y

L

I

T

P

L

A

A

N

N

T

V

H

Q

F

Y

E
x
S

V
x
D

W
x
Q

Y

F

M

L

I

I

I

A

S

N

N

G

E

E

S

W

L

Y

A

D

S

D

L

L

S

S

D

E

E

E

D

N

Q

R

A

Q

A

A

L

I

K

-

E

-

Q

E

A

A

A

V

F

Q

E

E

A

A

T

S

R

E

W

L

E

N

V

R

A

E

E

D

A

V

D

E

Q

K

A

R

R

V

N

D

E

E

-

R

-

I

Q

Q

R

F

L

L

V

A

D

D

E

Q

L

-

G

G

A

M

T

E

V

V

V

I

A

E

L

P

S

T

D

E

D

D

E

E

L

L

A

A

M

F

A

R

A

E

K

K

T

G

R

Q

A

-

D

-

V

-

W

-

P

P

A

A

V

Y

L

I

E

E

binding d-alanine: E125 (≠ F144), R150 (= R167), M152 (≠ P169), M152 (≠ P169), W172 (≠ F190), N189 (≠ G207), N189 (≠ G207), Y193 (≠ E211), Y193 (≠ E211), S214 (≠ E232), D215 (≠ V233), Q216 (≠ W234)

2cexA Structure of a sialic acid binding protein (siap) in the presence of the sialic acid acid analogue neu5ac2en (see paper)
23% identity, 69% coverage: 44:272/332 of query aligns to 23:254/304 of 2cexA

query
sites
2cexA

F

F

S

A

K

K

A

E

V

V

A

K

D

E

A

K

T

S

G

Q

G

G

D

K

V

I

N

E

V

I

E

S

I

L

F

Y

P

P

A

S

S

S

A

Q

L

L

G

G

D

D

Y

D

T

R

T

A

V

M

Q

L

E

K

R

Q

I

L

S

K

V

D

G

G

A

S

I

L

D

D

M

F

A

T

T

F

Q

A

P

E

A

S

A

A

T

-

A

-

D

-

R

-

R

R

M

F

Q

Q

-

L

-

F

-

Y

-

P

-

E

-

A

I

V

S

F

S

A

F

L

P

P

Y

Y

L

V

A

I

G

S

N

N

W

Y

D

N

Q

V

A

A

R

Q

A

K

V

A

Y

L

G

F

P

D

G

T

G

E

V

F

V

G

R

K

E

D

V

L

M

I

A

K

G

K

L

M

Y

D

S

K

E

D

Q

L

D

G

I

V

T

T

M

L

L

L

A

S

A

Q

Y

A

P

-

V

-

Y

-

F

Y

G

N

G

G

I

T

S

R

L

Q

N

T

V

T

E

S

N

N

P

R

N

A

A

I

G

N

S

S

V

I

-

A

E

D

P

M

N

K

G

G

I

L

K

K

V

L

R

R

V

V

P

P

G

N

I

A

K

A

S

T

F

N

Q

L

L

A

T

Y

G

A

E

K

A

Y

L

V

G

G

Y

A

I

S

P

P

S

T

P

P

I

M

P

A

F

F

S

S

E

E

A

V

F

Y

T

L

A

A

V

L

Q

Q

T

T

G

N

V

A

V

V

D

D

G

G

V

Q

I

E

G

N

S

P

G

L

A

A

E

A

G

V

Y

Q

Y

A

A

Q

S

K

F

F

R

Y

D

E

V

V

T

Q

K

K

T

F

Y

L

I

A

P

M

A

T

N

N

T

H

H

I

F

L

E

N

V

D

W

Q

Y

L

M

Y

I

L

I

V

S

S

N

N

E

E

S

T

L

Y

A

K

S

E

L

L

S

P

D

E

E

D

D

L

Q

Q

A

K

A

V

L

V

K

K

-

D

-

A

E

E

Q

N

A

A

A

K

F

Y

E

H

A

T

T

K

R

L

W

F

E

V

V

D

A

G

E

E

A

K

D

D

Sites not aligning to the query:

binding zinc ion: 1, 3

P44542 Sialic acid-binding periplasmic protein SiaP; Extracytoplasmic solute receptor protein SiaP; N-acetylneuraminic-binding protein; Neu5Ac-binding protein from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (see 2 papers)
23% identity, 69% coverage: 44:272/332 of query aligns to 47:278/329 of P44542

query
sites
P44542

F

F

S

A

K

K

A

E

V

V

A

K

D

E

A

K

T

S

G

Q

G

G

D

K

V

I

N

E

V

I

E

S

I

L

F

Y

P

P

A

S

S

S

A

Q

L

L

G

G

D

D

Y
x
D

T

R

T

A

V

M

Q

L

E

K

R

Q

I

L

S

K

V

D

G

G

A

S

I

L

D

D

M

F

A
x
T

T

F

Q

A

P
x
E

A

S

A

A

T

-

A

-

D

-

R

-

R

R

M

F

Q

Q

-

L

-

F

-

Y

-

P

-

E

-

A

I

V

S

F

S

A

F

L

P

P

Y

Y

L

V

A

I

G

S

N

N

W

Y

D

N

Q

V

A

A

R

Q

A

K

V

A

Y

L

G

F

P

D

G

T

G

E

V

F

V

G

R

K

E

D

V

L

M

I

A

K

G

K

L

M

Y

D

S

K

E

D

Q

L

D

G

I

V

T

T

M

L

L

L

A

S

A

Q

Y

A

P

-

V

-

Y

-

F

Y

G

N

G

G

I

T

S
x
R

L

Q

N

T

V

T

E

S

N

N

P

R

N

A

A

I

G

N

S

S

V

I

-

A

E

D

P

M

N

K

G

G

I

L

K

K

V

L

R
|
R

V

V

P

P

G

N

I

A

K

A

S

T

F

N

Q

L

L

A

T

Y

G

A

E

K

A

Y

L

V

G

G

Y

A

I

S

P

P

S

T

P

P

I

M

P

A

F

F

S

S

E

E

A

V

F

Y

T

L

A

A

V

L

Q

Q

T

T

G

N

V

A

V

V

D

D

G

G

V

Q

I

E

G
x
N

S

P

G

L

A

A

E

A

G

V

Y

Q

Y

A

A

Q

S

K

F

F

R

Y

D

E

V

V

T

Q

K

K

T

F

Y

L

I

A

P

M

A

T

N

N

T

H

H

I

F

L

E

N

V

D

W

Q

Y

L

M

Y

I

L

I

V

S

S

N

N

E

E

S

T

L

Y

A

K

S

E

L

L

S

P

D

E

E

D

D

L

Q

Q

A

K

A

V

L

V

K

K

-

D

-

A

E

E

Q

N

A

A

A

K

F

Y

E

H

A

T

T

K

R

L

W

F

E

V

V

D

A

G

E

E

A

K

D

D

D72 (≠ Y69) binding N-acetyl-beta-neuraminate; mutation to A: Complete loss of incorporation of N-acetyl-beta-neuraminate into the LOS.
T87 (≠ A84) mutation to R: Complete loss of incorporation of N-acetyl-beta-neuraminate into the LOS.
E90 (≠ P87) binding N-acetyl-beta-neuraminate
R150 (≠ S148) binding N-acetyl-beta-neuraminate; mutation to A: Complete loss of incorporation of N-acetyl-beta-neuraminate into the LOS.; mutation to K: Reduced incorporation of N-acetyl-beta-neuraminate into the LOS.
R170 (= R167) binding N-acetyl-beta-neuraminate; mutation R->A,K: Complete loss of incorporation of N-acetyl-beta-neuraminate into the LOS. Large defect in N-acetyl-beta-neuraminate uptake and binding.
N210 (≠ G207) binding N-acetyl-beta-neuraminate

Sites not aligning to the query:

33 binding N-acetyl-beta-neuraminate

2wx9A Crystal structure of the sialic acid binding periplasmic protein siap (see paper)
23% identity, 69% coverage: 44:272/332 of query aligns to 24:255/308 of 2wx9A

query
sites
2wx9A

F

F

S

A

K

K

A

E

V

V

A

K

D

E

A

K

T

S

G

Q

G

G

D

K

V

I

N

E

V

I

E

S

I

L

F

Y

P

P

A

S

S

S

A

Q

L

L

G

G

D

D

Y
x
D

T

R

T

A

V

M

Q

L

E

K

R

Q

I

L

S

K

V

D

G

G

A

S

I

L

D

D

M

F

A

T

T
x
F

Q
x
A

P
x
E

A

S

A

A

T

-

A

-

D

-

R

-

R

R

M

F

Q

Q

-

L

-

F

-

Y

-

P

-

E

-

A

I

V

S

F

S

A

F

L

P

P

Y

Y

L

V

A

I

G

S

N

N

W

Y

D

N

Q

V

A

A

R

Q

A

K

V

A

Y

L

G

F

P

D

G

T

G

E

V

F

V

G

R

K

E

D

V

L

M

I

A

K

G

K

L

M

Y

D

S

K

E

D

Q

L

D

G

I

V

T

T

M

L

L

L

A

S

A

Q

Y

A

P

-

V

-

Y

-

F

Y

G

N

G

G

I

T

S
x
R

L

Q

N

T

V

T

E

S

N

N

P

R

N

A

A

I

G

N

S

S

V

I

-

A

E

D

P

M

N

K

G

G

I

L

K

K

V

L

R
|
R

V

V

P

P

G

N

I

A

K

A

S

T

F

N

Q

L

L

A

T

Y

G

A

E

K

A

Y

L

V

G

G

Y

A

I

S

P

P

S

T

P

P

I

M

P

A

F
|
F

S

S

E

E

A

V

F

Y

T

L

A

A

V

L

Q

Q

T

T

G

N

V

A

V

V

D

D

G

G

V

Q

I

E

G
x
N

S

P

G

L

A

A

E

A

G

V

Y

Q

Y

A

A

Q

S

K

F

F

R

Y

D

E

V

V

T

Q

K

K

T

F

Y

L

I

A

P

M

A

T

N

N

T

H

H

I

F

L

E

N

V

D

W
x
Q

Y

L

M

Y

I

L

I

V

S

S

N

N

E

E

S

T

L

Y

A

K

S

E

L

L

S

P

D

E

E

D

D

L

Q

Q

A

K

A

V

L

V

K

K

-

D

-

A

E

E

Q

N

A

A

A

K

F

Y

E

H

A

T

T

K

R

L

W

F

E

V

V

D

A

G

E

E

A

K

D

D

binding N-glycolyl-beta-neuraminic acid: D49 (≠ Y69), F65 (≠ T85), A66 (≠ Q86), E67 (≠ P87), R127 (≠ S148), R147 (= R167), F170 (= F190), N187 (≠ G207), Q214 (≠ W234)

Sites not aligning to the query:

binding N-glycolyl-beta-neuraminic acid: 10

2v4cA Structure of sialic acid binding protein (siap) in the presence of kdn (see paper)
23% identity, 69% coverage: 44:272/332 of query aligns to 24:255/309 of 2v4cA

query
sites
2v4cA

F

F

S

A

K

K

A

E

V

V

A

K

D

E

A

K

T

S

G

Q

G

G

D

K

V

I

N

E

V

I

E

S

I

L

F

Y

P

P

A

S

S

S

A

Q

L

L

G

G

D

D

Y
x
D

T

R

T

A

V

M

Q

L

E

K

R

Q

I

L

S

K

V

D

G

G

A

S

I

L

D

D

M

F

A

T

T

F

Q

A

P
x
E

A

S

A

A

T

-

A

-

D

-

R

-

R

R

M

F

Q

Q

-

L

-

F

-

Y

-

P

-

E

-

A

I

V

S

F

S

A

F

L

P

P

Y

Y

L

V

A

I

G

S

N

N

W

Y

D

N

Q

V

A

A

R

Q

A

K

V

A

Y

L

G

F

P

D

G

T

G

E

V

F

V

G

R

K

E

D

V

L

M

I

A

K

G

K

L

M

Y

D

S

K

E

D

Q

L

D

G

I

V

T

T

M

L

L

L

A

S

A

Q

Y

A

P

-

V

-

Y

-

F

Y

G

N

G

G

I

T

S
x
R

L

Q

N

T

V

T

E

S

N

N

P

R

N

A

A

I

G

N

S

S

V

I

-

A

E

D

P

M

N

K

G

G

I

L

K

K

V

L

R
|
R

V

V

P

P

G

N

I

A

K

A

S

T

F

N

Q

L

L

A

T

Y

G

A

E

K

A

Y

L

V

G

G

Y

A

I

S

P

P

S

T

P

P

I

M

P

A

F
|
F

S

S

E

E

A

V

F

Y

T

L

A

A

V

L

Q

Q

T

T

G

N

V

A

V

V

D

D

G

G

V

Q

I

E

G
x
N

S

P

G

L

A

A

E

A

G

V

Y

Q

Y

A

A

Q

S

K

F

F

R

Y

D

E

V

V

T

Q

K

K

T

F

Y

L

I

A

P

M

A

T

N

N

T

H

H

I

F

L

E

N

V

D

W

Q

Y

L

M

Y

I

L

I

V

S

S

N

N

E

E

S

T

L

Y

A

K

S

E

L

L

S

P

D

E

E

D

D

L

Q

Q

A

K

A

V

L

V

K

K

-

D

-

A

E

E

Q

N

A

A

A

K

F

Y

E

H

A

T

T

K

R

L

W

F

E

V

V

D

A

G

E

E

A

K

D

D

binding deamino-beta-neuraminic acid: D49 (≠ Y69), E67 (≠ P87), R127 (≠ S148), R147 (= R167), F170 (= F190), N187 (≠ G207)

4n8yA Crystal structure of a trap periplasmic solute binding protein from bradyrhizobium sp. Btai1 b (bbta_0128), target efi-510056 (bbta_0128), complex with alpha/beta-d-galacturonate (see paper)
26% identity, 82% coverage: 23:295/332 of query aligns to 1:271/300 of 4n8yA

query
sites
4n8yA

Q

R

D

D

L

F

K

R

M

S

S

A

H

D

V

V

R
x
H

P

P

Q

A

D

D

A

Y

T

P

I

T

D

V

V

E

E

A

L

V

R

K

A

F

F

M

S

G

K

K

A

Q

V

L

A

A

D

A

A

A

T

S

G

G

D

K

V

L

N

G

V

V

E

K

I

V

F

F

P

P

A

N

S

G

A

A

L

L

G

G

D

S

Y
x
E

T

K

T

D

V

T

Q

I

E

E

R

Q

I

L

S

K

V

I

G

G

A

A

I

L

D

D

M

M

A

M

-
x
R

-

I

-

N

T

S

Q

S

P

P

A

L

A

N

T

N

A

F

A

V

D

P

R

E

R

T

M

V

Q

A

I

L

S

-

S

C

F

L

P

P

Y

F

L

V

A

F

G

R

N

D

W

T

D

Q

Q

H

A

M

R

R

A

N

V

V

Y

L

-

D

G

G

P

P

G

I

G

G

V

-

R

D

E

E

V

I

M

L

A

A

G

A

L

M

Y

-

S

E

E

P

Q

A

D

G

I

L

T

V

M

G

L

L

A

A

A

Y

Y

Y

P

D

V

S

Y

-

F

-

G

G

G

A

I
x
R

S

S

L

I

-

Y

N

T

V

V

E

K

N

A

P

P

N

V

A

K

G

S

S

L

V

A

E

D

P

L

N

K

G

G

I

L

K

K

V

I

R
|
R

V

V

P
x
Q

G

Q

I

S

K

D

S

L

F

W

Q

V

L

G

T

M

G

I

E

Q

A

S

L

L

G

G

Y

A

I

N

P

P

S

T

P

P

I

M

P

P

F
x
Y

S

G

E

E

A

V

F

Y

T

T

A

A

V

L

Q

K

T

T

G

G

V

L

V

V

D

D

G

-

V

-

I

-

G

-

S

-

G

A

A

A

E

E

G
x
N

Y

N

Y

W

A

P

S
|
S

F

Y

R

E

-

S

-

R

-

H

-

F

D

E

V

A

T

A

K

K

T

F

Y

Y

I

N

P

I

A

T

N

E

T

H

H

S

F

L

E

A

V

P

W
x
E

Y

V

M

L

I

V

I

M

S

S

N

K

E

K

S

V

L

W

A

D

S

T

L

L

S

S

D

K

E

E

D

D

Q

Q

A

A

A

L

L

V

K

R

E

K

Q

A

A

A

A

K

-

D

A

S

F

V

E

P

A

V

T

M

R

R

W

K

E

L

V

W

A

D

E

E

A

R

D

E

Q

Q

A

A

R

-

N

-

E

S

Q

R

R

K

L

A

V

V

D

E

E

A

L

A

G

G

A

V

T

Q

V

V

A

T

L

V

S

A

D

N

D

K

E

Q

binding alpha-D-galactopyranuronic acid: H9 (≠ R31), E47 (≠ Y69), R63 (vs. gap), R123 (≠ I147), R144 (= R167), Q146 (≠ P169), Y167 (≠ F190), N184 (≠ G212), S188 (= S216), E211 (≠ W234)
binding beta-D-galactopyranuronic acid: H9 (≠ R31), E47 (≠ Y69), R63 (vs. gap), R123 (≠ I147), R144 (= R167), Q146 (≠ P169), Y167 (≠ F190), N184 (≠ G212), S188 (= S216), E211 (≠ W234)

2cexB Structure of a sialic acid binding protein (siap) in the presence of the sialic acid acid analogue neu5ac2en (see paper)
23% identity, 69% coverage: 44:272/332 of query aligns to 23:254/305 of 2cexB

query
sites
2cexB

F

F

S

A

K

K

A

E

V

V

A

K

D

E

A

K

T

S

G

Q

G

G

D

K

V

I

N

E

V

I

E

S

I

L

F

Y

P

P

A

S

S

S

A

Q

L

L

G

G

D

D

Y

D

T

R

T

A

V

M

Q

L

E

K

R

Q

I

L

S

K

V

D

G

G

A

S

I

L

D

D

M

F

A

T

T

F

Q

A

P
x
E

A

S

A

A

T

-

A

-

D

-

R

-

R

R

M

F

Q

Q

-

L

-

F

-

Y

-

P

-

E

-

A

I

V

S

F

S

A

F

L

P

P

Y

Y

L

V

A

I

G

S

N

N

W

Y

D

N

Q

V

A

A

R

Q

A

K

V

A

Y

L

G

F

P

D

G

T

G

E

V

F

V

G

R

K

E

D

V

L

M

I

A

K

G

K

L

M

Y

D

S

K

E

D

Q

L

D

G

I

V

T

T

M

L

L

L

A

S

A

Q

Y

A

P

-

V

-

Y

-

F

Y

G

N

G

G

I

T

S

R

L

Q

N

T

V

T

E

S

N

N

P

R

N

A

A

I

G

N

S

S

V

I

-

A

E

D

P

M

N

K

G

G

I

L

K

K

V

L

R
|
R

V

V

P

P

G

N

I

A

K

A

S

T

F

N

Q

L

L

A

T

Y

G

A

E

K

A

Y

L

V

G

G

Y

A

I

S

P

P

S

T

P

P

I

M

P

A

F
|
F

S

S

E

E

A

V

F

Y

T

L

A

A

V

L

Q

Q

T

T

G

N

V

A

V

V

D

D

G

G

V

Q

I

E

G
x
N

S

P

G

L

A

A

E

A

G

V

Y

Q

Y

A

A

Q

S

K

F

F

R

Y

D

E

V

V

T

Q

K

K

T

F

Y

L

I

A

P

M

A

T

N

N

T

H

H

I

F

L

E

N

V

D

W

Q

Y

L

M

Y

I

L

I

V

S

S

N

N

E

E

S

T

L

Y

A

K

S

E

L

L

S

P

D

E

E

D

D

L

Q

Q

A

K

A

V

L

V

K

K

-

D

-

A

E

E

Q

N

A

A

A

K

F

Y