SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing PP_5181 FitnessBrowser__Putida:PP_5181 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 16 hits to proteins with known functional sites (download)

Q9I6J1 Putrescine-binding periplasmic protein SpuD from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
70% identity, 100% coverage: 1:365/365 of query aligns to 2:367/367 of Q9I6J1

query
sites
Q9I6J1

M

M

N

K

K

R

M

F

G

G

K

K

T

T

L

L

A

A

A

L

A

T

L

L

M

A

G

G

A

S

M

V

A

A

S

G

A

M

V

A

Q

Q

A

A

E

A

D

D

-

N

K

K

V

V

L

L

N

H

V

V

Y

Y

N

N

W

W

S
|
S

D
|
D

Y

Y

I

I

A

A

P

P

D

D

T

T

I

L

A

E

K

K

F

F

E

T

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F

Y

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

A

K

K

L

L

A

A

G

G

K

K

S

S

G

G

Y

Y

D

D

I

V

V

V

P

P

S

S

N

N

N

S

F

F

L

L

A

A

K

K

Q

Q

I

I

K

K

A

A

G

G

V

V

Y

Y

E

Q

E

K

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

N

W

W

K

K

N

N

L

L

D

N

P

K

D

D

L

L

L

M

K

H

A

T

V

L

G

-

D

E

A

V

S

S

D

D

K

P

D

G

N

N

K

E

H

H

A

A

F

I

P

P

Y

Y

M

M

W

W

G

G

S

T

I

I

G

G

I

I

G

G

Y

Y

N

N

P

P

E

D

K

K

V

V

K

K

A

A

L

F

G

G

V

D

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

V

F

F

K

K

P

P

E

E

N

N

I

I

A

Q

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L

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C
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C

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G

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F

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L

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D

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T

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E

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L

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P

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A

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Y

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D

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D

E

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K

A

A

E

E

D

E

L

L

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F

L

L

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K

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I

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R

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P

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Y

I

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T

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Y

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F

H

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S

S

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K

Y

Y

I

I

G

S

D

D

M

L

A

A

N

N

G

G

N

N

I

I

C
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C

V

V

A

A

V

I

G

G

Y

Y

S

S

G

G

D
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D

L

I

E

Y

Q

Q

S

A

K

K

A

S

R

R

A

A

H

E

E

E

A

A

G

K

D

N

K

K

V

V

K

T

V

V

D

K

Y

Y

V

N

I

I

P

P

K

K

E

E

G

G

A

A

G

G

T

S

F
|
F

Y

F

D
|
D

M

M

V

V

A

A

I

I

P

P

K

K

D

D

A

A

E

E

H

N

K

T

D

E

A

G

A

A

Y

L

E

A

F

F

M

V

N

N

F

F

L

L

M

M

Q

K

P

P

E

E

I

I

M

M

A

A

E

E

I

I

T

T

N

D

A

V

V

V

R

Q

F

F

P

P

N

N

G

G

N

N

A

A

T

T

P

P

F

L

V

V

D

S

K

E

D

A

I

I

T

R

S

N

D

D

P

P

S

G

I

I

Y

Y

P

P

P

S

A

E

E

E

V

V

K

M

K

K

Q

K

L

L

Y

Y

A

T

I

F

A

P

A

D

P

L

D

P

A

A

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T

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Q

R

R

V

A

I

M

T

T

R

R

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S

W

W

T

T

K

K

I

I

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K

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S

G

G

K

K

SD 36:37 (= SD 34:35) binding
C173 (= C171) modified: Disulfide link with 236
C236 (= C234) modified: Disulfide link with 173
D244 (= D242) binding
F273 (= F271) mutation to W: Significant decrease in affinity for putrescine (to KD=0.75 uM).
D275 (= D273) binding

3ttmA Crystal structure of spud in complex with putrescine (see paper)
71% identity, 93% coverage: 24:364/365 of query aligns to 1:341/341 of 3ttmA

query
sites
3ttmA

E

D

D

N

K

K

V

V

L

L

N

H

V

V

Y

Y

N

N

W
|
W

S
|
S

D
|
D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

L

A

E

K

K

F

F

E

T

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F

Y

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

A

K

K

L

L

A

A

G

G

K

K

S

S

G

G

Y

Y

D

D

I

V

V

V

P

P

S

S

N

N

N

S

F

F

L

L

A

A

K

K

Q

Q

I

I

K

K

A

A

G

G

V

V

Y

Y

E

Q

E

K

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

N

W

W

K

K

N

N

L

L

D

N

P

K

D

D

L

L

L

M

K

H

A

T

V

L

G

-

D

E

A

V

S

S

D

D

K

P

D

G

N

N

K

E

H

H

A

A

F

I

P

P

Y

Y

M

M

W

W

G

G

S

T

I

I

G

G

I

I

G

G

Y

Y

N

N

P

P

E

D

K

K

V

V

K

K

A

A

L

F

G

G

V

D

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

V

F

F

K

K

P

P

E

E

N

N

I

I

A

Q

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K

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L

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Q

C

C

G

G

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V

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F

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L

D

D

A

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A

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Y

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Y

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D

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E

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L

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A

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E

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D

E

L

L

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F

L

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K

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I

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R

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P

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Y

I

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T

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Y

F

F

H

H

S

S

K

K

Y

Y

I

I

G

S

D

D

M

L

A

A

N

N

G

G

N

N

I

I

C

C

V

V

A

A

V

I

G

G

Y
|
Y

S

S

G

G

D
|
D

L

I

E

Y

Q

Q

S

A

K

K

A

S

R

R

A

A

H

E

E

E

A

A

G

K

D

N

K

K

V

V

K

T

V

V

D

K

Y

Y

V

N

I

I

P

P

K

K

E

E

G

G

A

A

G

G

T

S

F
|
F

Y

F

D
|
D

M

M

V

V

A

A

I

I

P

P

K

K

D

D

A

A

E

E

H

N

K

T

D

E

A

G

A

A

Y

L

E

A

F

F

M

V

N

N

F

F

L

L

M

M

Q

K

P

P

E

E

I

I

M

M

A

A

E

E

I

I

T

T

N

D

A

V

V

V

R

Q

F
|
F

P

P

N

N

G

G

N

N

A

A

T

T

P

P

F

L

V

V

D

S

K

E

D

A

I

I

T

R

S

N

D

D

P

P

S

G

I

I

Y

Y

P

P

P

S

A

E

E

E

V

V

K

M

K

K

Q

K

L

L

Y

Y

A

T

I

F

A

P

A

D

P

L

D

P

A

A

S

K

V

T

Q

Q

R

R

V

A

I

M

T

T

R

R

S

S

W

W

T

T

K

K

I

I

K

K

S

S

G

G

binding 1,4-diaminobutane: W10 (= W33), S11 (= S34), D12 (= D35), Y13 (= Y36), Y216 (= Y239), D219 (= D242), F248 (= F271), D250 (= D273), F286 (= F309)

P31133 Putrescine-binding periplasmic protein PotF from Escherichia coli (strain K12) (see 3 papers)
57% identity, 98% coverage: 8:365/365 of query aligns to 12:370/370 of P31133

query
sites
P31133

L
|
L

L
x
V

A
|
A

A
x
G

A
|
A

L
|
L

M
|
M

G
x
A

A
x
V

M
x
S

A
x
V

S
x
G

A
x
T

V
x
L

Q
x
A

A

A

E

E

D

Q

K

K

V

T

L

L

N

H

V

I

Y

Y

N

N

W

W

S
|
S

D

D

Y

Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E

E

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S

S

N

A

N

S

F

F

L

L

A

E

K

R

Q

Q

I

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K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A

L

V

V

G

A

D

K

A

-

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W

W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C
|
C

G

G

V

V

S

S

F

F

L

L

D

D

A

A

P

P

T

E

E

E

M

V

L

F

P

A

A

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A

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L

L

H

N

Y

Y

L

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K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C
|
C

V

V

A

A

V

I

G

G

Y

W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F

F

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H

N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F

Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

A

A

E

D

V

V

K

R

K

A

Q

K

L

L

Y

F

A

T

I

L

A

K

A

V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

K

K

S38 (= S34) binding
C175 (= C171) modified: Disulfide link with 239
C239 (= C234) modified: Disulfide link with 175
D247 (= D242) binding
D278 (= D273) binding

Sites not aligning to the query:

1:26 signal peptide

Q9I6J0 Spermidine-binding periplasmic protein SpuE from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
56% identity, 100% coverage: 2:365/365 of query aligns to 3:365/365 of Q9I6J0

query
sites
Q9I6J0

N

H

K

S

M

I

G

G

K

K

T

T

L

L

A

V

A

A

L

L

M

A

G

T

A

A

M

I

A

A

S

G

A

P

V

V

Q

Q

A

A

E

E

D

K

K

K

V

S

L

L

N

H

V

I

Y

Y

N

N

W

W

S
x
T

D

D

Y

Y

I

I

A

A

P

P

D

T

T

T

I

L

A

K

K

D

F

F

E

T

K

K

Q

E

T

S

G

G

I

I

K

D

V

V

K

S

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

T

L

L

E

E

A

G

K

K

L

L

L

V

A

S

G

G

K

H

S

S

G

G

Y

Y

D

D

I

I

V

V

P

P

S

S

N

N

F

F

L

L

A

G

K

K

Q

Q

I

I

K

Q

A

A

G

G

V

A

Y

F

E

Q

E

K

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

N

W

W

K

K

N

N

L

L

D

D

P

P

D

A

L

L

K

K

A

Q

V

L

G

-

D

E

A

V

S

S

D

D

K

P

D

G

N

N

K

Q

H

Y

A

A

F

V

P

P

Y

Y

M

L

W

W

G

G

S

T

I

N

G

G

I

I

G

G

Y

Y

N

N

P

V

E

A

K

K

V

V

K

K

A

E

A

V

L

L

G

G

V

D

D

Q

K

P

I

I

D

D

S

S

W

W

D

A

V

I

V

L

F

F

K

E

P

P

E

E

N

N

I

M

A

K

K

K

L

L

K

A

S

K

C

C

G

G

V

V

S

A

F

F

L

M

D

D

A

S

P

G

T

D

E
|
E

M

M

L

L

P

P

A

A

L

L

H

N

Y

Y

L

L

G

G

K

L

P

D

T

P

D

N

S

T

T

H

K

D

K

P

E

K

D

D

L

Y

K

K

A

K

A

A

E

E

D

E

L

V

F

L

L

T

K

K

I

V

R

R

P

P

S

Y

I

V

T

S

Y

Y

F

F

H

H

S

S

K

K

Y

Y

I

I

G

S

D

D

M

L

A

A

N

N

G

G

N

N

I

I

C

C

V

V

A

A

V

F

G

G

Y

Y

S

S

G

G

D
|
D

L

V

E

F

Q

Q

S

A

K

A

A

A

R

R

A

A

H

E

E

E

A

A

G

G

D

K

K

G

V

I

K

D

V

I

D

Q

Y

Y

V

V

I

I

P

P

K

K

E

E

G

G

A

A

G
x
N

T

L

F
x
W

Y

F

D

D

M

L

V

M

A

A

I

I

P

P

K

A

D

D

A

A

E

K

H

A

K

A

D

D

A

N

A

A

Y

Y

E

A

F

F

M

I

N

D

F

Y

L

L

M

L

Q

R

P

P

E

E

I

V

M

I

A

A

E

K

I

V

T

S

N

D

A

Y

V

V

R

G

F

Y

P

A

N

N

G

A

N

I

A

P

A

G

A

A

T

R

P

P

F

L

V

M

D

D

K

K

D

S

I

V

T

S

S

D

D

S

P

E

S

E

I

V

Y

Y

P

P

A

Q

E

A

V

V

K

L

K

D

Q

K

L

L

Y

Y

A

V

I

S

A

A

A

V

P

L

D

P

A

A

S

K

V

V

Q

L

R

R

V

L

I

Q

T

T

R

R

S

T

W

W

T

T

K

R

I

I

K

K

S

T

G

G

K

K

T35 (≠ S34) binding
E181 (= E181) binding
D242 (= D242) binding
N269 (≠ G269) binding
W271 (≠ F271) mutation to F: Increases affinity for putrescine (to KD=1.12 uM).

6ye7A E.Coli's putrescine receptor potf complexed with cadaverine (see paper)
58% identity, 93% coverage: 26:364/365 of query aligns to 2:341/341 of 6ye7A

query
sites
6ye7A

K

K

V

T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
|
S

D

D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E

E

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S

S

N

A

N

S

F

F

L

L

A

E

K

R

Q

Q

I

L

K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A

L

V

V

G

A

D

-

A

K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W

W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

A

P

P

T

E

E

E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
|
F

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H

N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

A

A

E

D

V

V

K

R

K

A

Q

K

L

L

Y

F

A

T

I

L

A

K

A

V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

binding pentane-1,5-diamine: W9 (= W33), S10 (= S34), Y12 (= Y36), W216 (≠ Y239), D219 (= D242), F248 (= F271), D250 (= D273), Y286 (≠ F309)

6ye6A E.Coli's putrescine receptor potf complexed with agmatine (see paper)
58% identity, 93% coverage: 26:364/365 of query aligns to 2:341/341 of 6ye6A

query
sites
6ye6A

K

K

V

T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
|
S

D

D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E
|
E

K

K

Q

E

T
|
T

G

G

I

I

K
|
K

V

V

K

V

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S

S

N

A

N

S

F

F

L

L

A

E

K

R

Q

Q

I

L

K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D
|
D

P

P

D

E

L

L

K

K

A
x
L

V

V

G

A

D

-

A

K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W
|
W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

A

P

P

T

E

E
|
E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K
|
K

K
x
A

E
x
D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y
x
F

V
x
S

I
|
I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
|
F

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H

N

K

K

D

D

A

E

A

A

Y

Y

E
x
Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q
x
R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N
|
N

G

A

N

N

A
x
K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y
|
Y

P

P

A

A

E

D

V

V

K

R

K

A

Q

K

L

L

Y

F

A

T

I

L

A

K

A

V

P

Q

D

D

A

P

S
x
K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

binding agmatine: W9 (= W33), S10 (= S34), Y12 (= Y36), E157 (= E181), W216 (≠ Y239), D219 (= D242), F248 (= F271), D250 (= D273), Y286 (≠ F309)
binding (2R)-1-methoxypropan-2-amine: T25 (= T49), D85 (= D109), W107 (= W132), K174 (= K198), A175 (≠ K199), D176 (≠ E200), F238 (≠ Y261), S239 (≠ V262), I240 (= I263), Q266 (≠ E289), R273 (≠ Q296), N288 (= N311), K291 (≠ A314), Y308 (= Y331), K326 (≠ S349)
binding (2~{S})-1-(2-methoxyethoxy)propan-2-amine: L91 (≠ A115), W107 (= W132)
binding (2~{R})-1-[(2~{R})-1-(2-methoxyethoxy)propan-2-yl]oxypropan-2-amine: E22 (= E46), K28 (= K52)

6ye0B E.Coli's putrescine receptor potf complexed with putrescine (see paper)
58% identity, 93% coverage: 26:364/365 of query aligns to 2:341/341 of 6ye0B

query
sites
6ye0B

K

K

V

T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
|
S

D

D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E

E

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F
|
F

D
|
D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S

S

N

A

N

S

F

F

L

L

A

E

K

R

Q

Q

I

L

K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A
x
L

V

V

G

A

D

-

A

K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W

W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

A

P

P

T

E

E

E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
|
F

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H

N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

A

A

E

D

V

V

K
x
R

K

A

Q

K

L

L

Y

F

A

T

I

L

A

K

A

V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

binding (2R)-1-methoxypropan-2-amine: F34 (= F58), D35 (= D59)
binding (2~{R})-1-[(2~{R})-1-(2-methoxyethoxy)propan-2-yl]oxypropan-2-amine: L91 (≠ A115), R314 (≠ K337)
binding 1,4-diaminobutane: W9 (= W33), S10 (= S34), Y12 (= Y36), W216 (≠ Y239), D219 (= D242), F248 (= F271), D250 (= D273), Y286 (≠ F309)

1a99A Putrescine receptor (potf) from e. Coli (see paper)
58% identity, 93% coverage: 26:364/365 of query aligns to 2:341/341 of 1a99A

query
sites
1a99A

K

K

V

T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
|
S

D

D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E

E

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S

S

N

A

N

S

F

F

L

L

A

E

K

R

Q

Q

I

L

K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A

L

V

V

G

A

D

-

A

K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W

W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

A

P

P

T

E

E

E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
|
F

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H

N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

A

A

E

D

V

V

K

R

K

A

Q

K

L

L

Y

F

A

T

I

L

A

K

A

V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

binding 1,4-diaminobutane: W9 (= W33), S10 (= S34), Y12 (= Y36), W216 (≠ Y239), D219 (= D242), F248 (= F271), D250 (= D273), Y286 (≠ F309)

7oyxB E.Coli's putrescine receptor variant potf/d (4jdf) with mutations e39d y87s f88y s247d in complex with spermidine (see paper)
57% identity, 93% coverage: 26:365/365 of query aligns to 2:342/347 of 7oyxB

query
sites
7oyxB

K
|
K

V
x
T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
x
T

D
|
D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E

E

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V
|
V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S
|
S

N

A

N

S

F

Y

L

L

A

E

K

R

Q

Q

I

L

K

T

A
|
A

G
|
G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A

L

V

V

G

A

D

-

A
x
K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W
|
W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

D

P

P

T

E

E
|
E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
x
W

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E
x
K

H
x
N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K
x
A

D
x
E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

A

A

E

D

V

V

K
x
R

K

A

Q

K

L

L

Y

F

A

T

I

Q

A

K

A
x
V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

K

K

binding (2~{S})-1-methoxypropan-2-amine: K2 (= K26), T3 (≠ V27), T10 (≠ S34), D11 (= D35), V33 (= V57), W107 (= W132), K259 (≠ E282), N260 (≠ H283), R314 (≠ K337)
binding (2~{R})-1-[(2~{R})-1-[(2~{S})-1-[(2~{S})-1-(2-methoxyethoxy)propan-2-yl]oxypropan-2-yl]oxypropan-2-yl]oxypropan-2-amine: K94 (≠ A119), V322 (≠ A345)
binding (2~{R})-1-(2-methoxyethoxy)propan-2-amine: A299 (≠ K322), E300 (≠ D323)
binding (2~{S})-1-(2-methoxyethoxy)propan-2-amine: A67 (= A91), G68 (= G92)
binding spermidine: W9 (= W33), T10 (≠ S34), Y12 (= Y36), S57 (= S81), E157 (= E181), W216 (≠ Y239), D219 (= D242), W248 (≠ F271), D250 (= D273), Y286 (≠ F309)

7oywA E.Coli's putrescine receptor variant potf/d (4jdf) with mutations e39d f88l s247d in complex with spermidine (see paper)
57% identity, 93% coverage: 26:365/365 of query aligns to 2:342/348 of 7oywA

query
sites
7oywA

K

K

V

T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
x
T

D

D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E

E

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

V

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S
|
S

N

A

N

Y

F

L

L

L

A

E

K

R

Q

Q

I

L

K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A

L

V

V

G

A

D

-

A

K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W

W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

D

P

P

T

E

E
|
E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
x
W

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H

N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

P
|
P

A
|
A

E

D

V

V

K
x
R

K

A

Q

K

L

L

Y

F

A

T

I

Q

A

K

A

V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

K

K

binding (2~{S})-1-(2-methoxyethoxy)propan-2-amine: P310 (= P333), A311 (= A334), R314 (≠ K337)
binding spermidine: W9 (= W33), T10 (≠ S34), Y12 (= Y36), S57 (= S81), E157 (= E181), W216 (≠ Y239), D219 (= D242), W248 (≠ F271), D250 (= D273), Y286 (≠ F309)

7oyvA E.Coli's putrescine receptor variant potf/d (4jdf) with mutations e39d f88a s247d in complex with spermidine (see paper)
57% identity, 93% coverage: 26:364/365 of query aligns to 2:341/341 of 7oyvA

query
sites
7oyvA

K
|
K

V
x
T

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
x
T

D

D

Y
|
Y

I

I

A

A

P

P

D

D

T

T

I

V

A

A

K

N

F

F

E
|
E

K
|
K

Q

E

T

T

G

G

I

I

K
|
K

V

V

K

V

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

V

L

L

E

E

A

G

K

K

L

L

L

M

A

A

G

G

K

S

S

T

G

G

Y

F

D

D

I

L

V

V

P

P

S
|
S

N

A

N

Y

F

A

L

L

A

E

K

R

Q

Q

I

L

K

T

A

A

G

G

V

V

Y

F

E

Q

E

P

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

E

W

W

K

K

N

N

L

L

D

D

P

P

D

E

L

L

K

K

A

L

V

V

G

A

D

-

A

K

S

H

D

D

K

P

D

D

N

N

K

K

H

F

A

A

F

M

P

P

Y

Y

M

M

W

W

G

A

S

T

I

T

G

G

I

I

G

G

Y

Y

N

N

P

V

E

D

K

K

V

V

K

K

A

A

A

V

L

L

G

G

V

E

D

N

K

A

-

P

I

V

D

D

S

S

W

W

D

D

V

L

V

I

F

L

K

K

P

P

E

E

N

N

I

L

A

E

K

K

L

L

K

K

S

S

C

C

G

G

V

V

S

S

F

F

L

L

D

D

A

D

P

P

T

E

E
|
E

M

V

L

F

P

A

A

T

A

V

L

L

H

N

Y

Y

L

L

G

G

K

K

P

D

T

P

D

N

S

S

T

T

K

K

K

A

E

D

D

D

L

Y

K

T

A

G

-

P

A

A

E

T

D

D

L

L

F

L

L

L

K

K

I

L

R

R

P

P

S

N

I

I

T

R

Y

Y

F

F

H

H

S

S

K

Q

Y

Y

I

I

G

N

D

D

M

L

A

A

N

N

G

G

N

D

I

I

C

C

V

V

A

A

V

I

G

G

Y
x
W

S

A

G

G

D
|
D

L

V

E

W

Q

Q

S

A

K

S

A

N

R

R

A

A

H

K

E

E

A

A

G

K

D

N

K

G

V

V

K

N

V

V

D

S

Y

F

V

S

I

I

P

P

K

K

E

E

G

G

A

A

G

M

T

A

F
x
W

Y

F

D
|
D

M

V

V

F

A

A

I

M

P

P

K

A

D

D

A

A

E

K

H
x
N

K

K

D

D

A

E

A

A

Y

Y

E

Q

F

F

M

L

N

N

F

Y

L

L

M

L

Q

R

P

P

E

D

I

V

M

V

A

A

E

H

I

I

T

S

N

D

A

H

V

V

R

F

F
x
Y

P

A

N

N

G

A

N

N

A

K

A

A

T

T

P

P

F

L

V

V

D

S

K

A

D

E

I

V

T

R

S

E

D

N

P

P

S

G

I

I

Y

Y

P

P

P
|
P

A
|
A

E

D

V

V

K
x
R

K

A

Q

K

L

L

Y

F

A

T

I

Q

A

K

A

V

P

Q

D

D

A

P

S

K

V

I

Q

D

R

R

V

V

I

R

T

T

R

R

S

A

W

W

T

T

K

K

I

V

K

K

S

S

G

G

binding (2~{S})-1-methoxypropan-2-amine: K2 (= K26), T3 (≠ V27), N260 (≠ H283)
binding (2~{R})-1-[(2~{R})-1-[(2~{R})-1-(2-methoxyethoxy)propan-2-yl]oxypropan-2-yl]oxypropan-2-amine: E22 (= E46), K23 (= K47), K28 (= K52)
binding (2R)-1-methoxypropan-2-amine: P310 (= P333), A311 (= A334), R314 (≠ K337)
binding spermidine: W9 (= W33), T10 (≠ S34), Y12 (= Y36), S57 (= S81), E157 (= E181), W216 (≠ Y239), D219 (= D242), W248 (≠ F271), D250 (= D273), Y286 (≠ F309)

Sites not aligning to the query:

binding (2~{R})-1-[(2~{R})-1-[(2~{R})-1-(2-methoxyethoxy)propan-2-yl]oxypropan-2-yl]oxypropan-2-amine: 1

3ttnA Crystal structures of polyamine receptors spud and spue from pseudomonas aeruginosa (see paper)
56% identity, 92% coverage: 28:362/365 of query aligns to 2:335/335 of 3ttnA

query
sites
3ttnA

L

L

N

H

V

I

Y

Y

N

N

W
|
W

S
x
T

D

D

Y
|
Y

I

I

A

A

P

P

D

T

T

T

I

L

A

K

K

D

F

F

E

T

K

K

Q

E

T

S

G

G

I

I

K

D

V

V

K

S

Y

Y

D

D

V

V

F

F

D

D

S

S

N

N

E

E

T

T

L

L

E

E

A

G

K

K

L

L

L

V

A

S

G

G

K

H

S

S

G

G

Y

Y

D

D

I

I

V

V

P

P

S
|
S

N

N

F

F

L

L

A

G

K

K

Q

Q

I

I

K

Q

A

A

G

G

V

A

Y

F

E

Q

E

K

L

L

D

D

R

K

S

S

K

K

L

L

P

P

N

N

W

W

K

K

N

N

L

L

D

D

P

P

D

A

L

L

K

K

A

Q

V

L

G

-

D

E

A

V

S

S

D

D

K

P

D

G

N

N

K

Q

H

Y

A

A

F

V

P

P

Y

Y

M

L

W

W

G

G

S

T

I

N

G

G

I

I

G

G

Y

Y

N

N

P

V

E

A

K

K

V

V

K

K

A

E

A

V

L

L

G

G

V

D

D

Q

K

P

I

I

D

D

S

S

W

W

D

A

V

I

V

L

F

F

K

E

P

P

E

E

N

N

I

M

A

K

K

K

L

L

K

A

S

K

C

C

G

G

V

V

S

A

F

F

L

M

D

D

A

S

P

G

T

D

E
|
E

M

M

L

L

P

P

A

A

L

L

H

N

Y

Y

L

L

G

G

K

L

P

D

T

P

D

N

S

T

T

H

K

D

K

P

E

K

D

D

L

Y

K

K

A

K

A

A

E

E

D

E

L

V

F

L

L

T

K

K

I

V

R

R

P

P

S

Y

I

V

T

S

Y

Y

F

F

H

H

S

S

K

K

Y

Y

I

I

G

S

D

D

M

L

A

A

N

N

G

G

N

N

I

I

C

C

V

V

A

A

V

F

G

G

Y
|
Y

S

S

G

G

D
|
D

L

V

E

F

Q

Q

S

A

K

A

A

A

R

R

A

A

H

E

E

E

A

A

G

G

D

K

K

G

V

I

K

D

V

I

D

Q

Y

Y

V

V

I

I

P

P

K

K

E

E

G

G

A

A

G

N

T

L

F
x
W

Y

F

D
|
D

M

L

V

M

A

A

I

I

P

P

K

A

D

D

A

A

E

K

H

A

K

A

D

D

A

N

A

A

Y

Y

E

A

F

F

M

I

N

D

F

Y

L

L

M

L

Q

R

P

P

E

E

I

V

M

I

A

A

E

K

I

V

T

S

N

D

A

Y

V

V

R

G

F

Y

P

A

N

N

G

A

N

I

A

P

A

G

A

A

T

R

P

P

F

L

V

M

D

D

K

K

D

S

I

V

T

S

S

D

D

S

P

E

S

E

I

V

Y

Y

P

P

A

Q

E

A

V

V

K

L

K

D

Q

K

L

L

Y

Y

A

V

I

S

A

A

A

V

P

L

D

P

A

A

S

K

V

V

Q

L

R

R

V

L

I

Q

T

T

R

R

S

T

W

W

T

T

K

R

I

I

K

K

binding spermidine: W7 (= W33), T8 (≠ S34), Y10 (= Y36), S55 (= S81), E154 (= E181), Y212 (= Y239), D215 (= D242), W244 (≠ F271), D246 (= D273)

P0AFK9 Spermidine/putrescine-binding periplasmic protein; SPBP from Escherichia coli (strain K12) (see 3 papers)
33% identity, 88% coverage: 17:339/365 of query aligns to 18:323/348 of P0AFK9

query
sites
P0AFK9

M
|
M

A
x
S

S
x
A

A
|
A

V
x
H

Q
x
A

A

D

E

D

D

N

K

N

V

T

L

L

N

Y

V

F

Y

Y

N

N

W

W

S

T

D
x
E

Y

Y

I

V

A

P

P

P

D

G

T

L

I

L

A

E

K

Q

F

F

E

T

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

I

Y

Y

D

S

V

T

F

Y

D

E

S

S

N

N

E

E

T

T

L

M

E

Y

A

A

K

K

L

L

L

K

A

T

G

Y

K

K

S

D

G

G

-

A

Y

Y

D

D

I

L

V

V

P

P

S

S

N

T

N
x
Y

F

Y

L

V

A

D

K

K

Q

M

I

R

K

K

A

E

G

G

V

M

Y

I

E

Q

E

K

L

I

D

D

R

K

S

S

K

K

L

L

P

T

N

N

W

F

K

S

N

N

L

L

D

D

P

P

D

D

L

M

L

L

K

N

A

K

V

-

G

-

D

-

A

P

S

F

D

D

K

P

D

N

N

N

K

D

H

Y

A

S

F

I

P

P

Y

Y

M

I

W

W

G

G

S

A

I

T

G

A

I

I

G

G

Y

V

N

N

P

G

E

D

K

-

V

-

K

-

A

-

A

A

L

V

G

D

V

P

D

K

K

S

I

V

D

T

S

S

W

W

D

A

V

D

V

L

F

W

K

K

P

P

E

E

N

Y

I

K

A

G

K

S

L

L

K

-

S

-

C

-

G

-

V

-

S

L

F

L

L

T

D

D

A
x
D

P
x
A

T
x
R

E
|
E

M

V

L

F

P

Q

A

M

A

A

L

L

H

R

Y

K

L

L

G

G

K

Y

P

S

T

G

D

N

S

T

T

T

K

D

K

P

E

K

D

E

L

I

K

E

A

A

E

Y

D

N

L

E

F

L

L

K

K

K

I

L

R

M

P

P

S

N

I

V

T

A

Y

A

F

F

H

N

S

S

S

D

K

N

Y

P

I

A

G

N

D

P

M

Y

A

M

N

E

G

G

N

E

I

V

C

N

V

L

A

G

V

M

G

I

Y

W

S

N

G

G

D

-

L

-

E

-

Q

-

S

S

K

A

A

F

R

V

A

A

H

R

E

Q

A

A

G

G

D

-

K

-

V

T

K

P

V

I

D

D

Y

V

V

V

I

W

P

P

K

K

E

E

G

G

A

G

G

I

T

F

F

W

Y

M

D

D

M

S

V

L

A

A

I

I

P

P

K

A

D

N

A

A

E

K

H

N

K

K

D

E

A

G

A

A

Y

L

E

K

F

L

M

I

N

N

F

F

L

L

M

L

Q

R

P

P

E

D

I

V

M

A

A

K

E

Q

I

V

T

A

N

E

A

T

V

I

R

G

F

Y

P

P

N

T

G

P

N

N

A

L

A

A

T

R

P

K

F

L

V

L

D

S

K

P

D

E

I

V

T

A

S

N

D

D

P

K

S

T

I

L

Y

Y

P

P

P

D

A

A

E

E

V

T

K

I

K

K

Q

N

E36 (≠ D35) binding
Y85 (≠ N83) binding
DARE 168:171 (≠ APTE 178:181) binding

Sites not aligning to the query:

1:23 signal peptide
327 binding

1poy1 Spermidine/putrescine-binding protein complexed with spermidine (dimer form) (see paper)
33% identity, 86% coverage: 25:339/365 of query aligns to 1:298/323 of 1poy1

query
sites
1poy1

D

N

K

N

V

T

L

L

N

Y

V

F

Y

Y

N

N

W
|
W

S

T

D
x
E

Y
|
Y

I

V

A

P

P

P

D

G

T

L

I

L

A

E

K

Q

F

F

E

T

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

I

Y

Y

D

S

V

T

F

Y

D

E

S

S

N

N

E

E

T

T

L

M

E

Y

A

A

K

K

L

L

L

K

A

T

G

Y

K

K

S

D

G

G

-

A

Y

Y

D

D

I

L

V

V

P

P

S

S

N

T

N
x
Y

F

Y

L

V

A

D

K

K

Q

M

I

R

K

K

A

E

G

G

V

M

Y

I

E

Q

E

K

L

I

D

D

R

K

S

S

K

K

L

L

P

T

N

N

W

F

K

S

N

N

L

L

D

D

P

P

D

D

L

M

L

L

K

N

A

K

V

-

G

-

D

-

A

P

S

F

D

D

K

P

D

N

N

N

K

D

H

Y

A

S

F

I

P

P

Y

Y

M

I

W

W

G

G

S

A

I

T

G

A

I

I

G

G

Y

V

N

N

P

G

E

D

K

A

V

V

K

D

A

P

A

K

L

-

G

-

V

-

D

-

K

S

I

V

D

T

S

S

W

W

D

A

V

D

V

L

F

W

K

K

P

P

E

E

N

Y

I

K

A

G

K

S

L

L

K

-

S

-

C

-

G

-

V

-

S

L

F

L

L

T

D

D

A

D

P

A

T

R

E
|
E

M

V

L

F

P

Q

A

M

A

A

L

L

H

R

Y

K

L

L

G

G

K

Y

P

S

T

G

D

N

S

T

T

T

K

D

K

P

E

K

D

E

L

I

K

E

A

A

E

Y

D

N

L

E

F

L

L

K

K

K

I

L

R

M

P

P

S

N

I

V

T

A

Y

A

F

F

H

N

S

S

S

D

K

N

Y

P

I

A

G

N

D

P

M

Y

A

M

N

E

G

G

N

E

I

V

C

N

V

L

A

G

V

M

G

I

Y

W

S

N

G

G

D

-

L

-

E

-

Q

-

S

S

K

A

A

F

R

V

A

A

H

R

E

Q

A

A

G

G

D

-

K

-

V

T

K

P

V

I

D

D

Y

V

V

V

I

W

P

P

K

K

E

E

G

G

A

G

G

I

T

F

F
x
W

Y

M

D
|
D

M

S

V

L

A

A

I

I

P

P

K

A

D

N

A

A

E

K

H

N

K

K

D

E

A

G

A

A

Y

L

E

K

F

L

M

I

N

N

F

F

L

L

M

L

Q

R

P

P

E

D

I

V

M

A

A

K

E

Q

I

V

T

A

N

E

A

T

V

I

R

G

F

Y

P

P

N

T

G

P

N

N

A

L

A

A

T

R

P

K

F

L

V

L

D

S

K

P

D

E

I

V

T

A

S

N

D

D

P

K

S

T

I

L

Y

Y

P

P

P

D

A

A

E

E

V

T

K

I

K

K

Q

N

binding spermidine: W9 (= W33), E11 (≠ D35), Y12 (= Y36), Y60 (≠ N83), E146 (= E181), W230 (≠ F271), D232 (= D273)

Sites not aligning to the query:

binding spermidine: 302

7xjnA Structure of vcpotd1 in complex with norspermidine
32% identity, 86% coverage: 24:336/365 of query aligns to 1:295/322 of 7xjnA

query
sites
7xjnA

E

K

D

D

K

Q

V

E

L

L

N

Y

V

F

Y

Y

N

N

W
|
W

S

S

D
x
E

Y
|
Y

I

I

A

P

P

S

D

E

T

V

I

L

A

E

K

D

F

F

E

T

K

K

Q

E

T

T

G

G

I

I

K

K

V

V

K

I

Y

Y

D

S

V

T

F

Y

D

E

S

S

N

N

E

E

T

S

L

M

E

Y

A

A

K

K

L

L

L

K

A

T

G

Q

K

G

S

A

G

G

Y

Y

D

D

I

L

V

V

P

P

S
|
S

N

T

N
x
Y

F

F

L

V

A

S

K

K

Q

M

I

R

K

K

A

E

G

G

V

M

Y

L

E

Q

E

E

L

I

D

D

R

H

S

S

K

K

L

L

P

S

N

H

W

F

K

K

N

D

L

L

D

D

P

P

D

N

L

Y

L

L

K

N

A

K

V

-

G

-

D

-

A

P

S

F

D

D

K

P

D

G

N

N

K

K

H

F

A

S

F

I

P

P

Y

Y

M

I

W

W

G

G

S

A

I

T

G

G

I

I

G

G

Y

I

N

N

P

T

E

D

K

M

V

L

K

D

A

K

L

S

G

L

V

K

D

N

K

W

I

G

D

D

S

L

W

W

D

D

V

A

V

K

F

W

K

-

P

-

E

-

N

-

I

-

A

-

K

-

L

-

K

-

S

A

C

G

G

Q

V

L

S

M

F

L

L

M

D

D

A
x
D

P

A

T

R

E
|
E

M

V

L

F

P

H

A

I

A

A

L

L

H

S

Y

K

L

L

G

G

K

Y

P

S

T

P

D

N

S

T

T

T

K

N

K

P

E

K

D

E

L

I

K

K

A

A

E

Y

D

R

L

E

F

L

L

K

K

K

I

L

R

M

P

P

S

N

I

V

T

L

Y

V

F

F

H

N

S

S

S

D

K

F

Y

P

I

A

G

N

D

P

M

Y

A

L

N

A

G

G

N

E

I

V

C

S

V

L

A

G

V

M

G

L

Y
x
W

S

N

G

G

D

-

L

-

E

-

Q

-

S

S

K

A

A

Y

R

M

A

A

H

R

E

Q

A

E

G

G

D

A

K

P

V

I

K

Q

V

I

D

-

Y

-

V

I

I

W

P

P

K

E

E

K

G

G

A

T

G

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F

F
x
W

Y

M

D
|
D

M

S

V

I

A

S

I

I

P

P

K

A

D

G

A

A

E

K

H

N

K

I

D

E

A

A

Y

H

E

K

F

M

M

I

N

D

F

F

L

L

M

L

Q

R

P

P

E

E

I

N

M

A

A

A

E

K

I

I

T

A

N

L

A

E

V

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F
x
Y

P

P

N

T

G

P

N

V

A

K

A

T

A

A

T

H

P

D

F

L

V

L

D

P

K

K

D

E

I

F

T

A

S

N

D

D

P

P

S

S

I

I

Y

Y

P

P

A

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E

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V

binding N-(3-aminopropyl)propane-1,3-diamine: W10 (= W33), E12 (≠ D35), Y13 (= Y36), S58 (= S81), Y60 (≠ N83), D143 (≠ A178), E146 (= E181), W204 (≠ Y239), W230 (≠ F271), D232 (= D273), Y268 (≠ F309)

Sites not aligning to the query:

binding N-(3-aminopropyl)propane-1,3-diamine: 302

4eqbA 1.5 angstrom crystal structure of spermidine/putrescine abc transporter substrate-binding protein potd from streptococcus pneumoniae strain canada mdr_19a in complex with calcium and hepes
30% identity, 86% coverage: 28:340/365 of query aligns to 4:297/323 of 4eqbA

query
sites
4eqbA

L

L

N

V

V

I

Y

Y

N

N

W

W

S

G

D

D

Y

Y

I

I

A

D

P

P

D

E

T

L

I

L

A

T

K
x
Q

F

F

E

T

K

E

Q

E

T

T

G

G

I

I

K

Q

V

V

K

Q

Y

Y

D

E

V

T

F

F

D

D

S

S

N

N

E

E

T

A

L

M

E

Y

A

T

K

K

L

I

L

K

A

Q

G

G

K

G

S

T

G

T

Y

Y

D

D

I

I

V

A

V

I

P

P

S

S

N

E

N

Y

F

M

L

I

A

N

K

K

Q

M

I

K

K

D

A

E

G

D

V

L

Y

L

E

V

E

P

L

L

D

D

R

Y

S

S

K

K

L

I

P

E

N

G

W

I

K

E

N

N

L

I

D

G

P

P

D

E

L

F

L

L

K

-

A

-

V

-

G

N

D

Q

A

S

S

F

D

D

K

P

D

G

N

N

K

K

H

F

A

S

F

I

P

P

Y

Y

M

F

W

W

G

G

S

T

I

L

G

G

I

I

G

V

Y

Y

N

N

P

E

E

T

K

M

V

V

K

D

A

E

A

A

L

-

G

-

V

-

D

-

K

-

I

P

D

E

S

H

W

W

D

D

V

D

V

L

F

W

K

K

P

L

E

E

N

-

I

-

A

-

K

-

L

-

K

Y

S

K

C

N

G

S

V

I

S

M

F

L

L

F

D

D

A

G

P

A

T

R

E

E

M

V

L

L

P

G

A

L

A

G

L

L

H

N

Y

S

L

L

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G

K

Y

P

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L

D

N

S

S

T

K

K

D

K

P

E

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D

Q

L

L

K

E

A

E

A

T

E

V

D

D

L

K

F

L

L

Y

K

K

I

L

R

T

P

P

S

N

I

I

T

K

Y

A

F

I

H

V

S

A

S

D

K

E

Y

M

I

K

G

G

D

Y

M

M

A

I

N

Q

G

N

N

N

I

V

C

A

V

I

A

G

V

V

G

T

Y

F

S

S

G

G

D

E

L

A

E

S

Q

Q

S

M

K

L

A

E

R

K

A

N

H

E

E

-

A

-

G

-

D

-

K

-

V

-

K

N

V

L

D

R

Y

Y

V

V

I

V

P

P

K

T

E

E

G

A

A

S

G

N

T

L

F

W

Y

F

D

D

M

N

V

M

A

V

I

I

P

P

K

K

D

T

A

V

E

K

H

N

K

Q

D

D

A

S

A

A

Y

Y

E

A

F

F

M

I

N

N

F

F

L

M

M

L

Q

K

P

P

E

E

I
x
N

M

A

A

L

E

Q

I

N

T

A

N

E

A

Y

V

V

R

G

F

Y

P

S

N

T

G

P

N

N

A

L

A

P

A

A

T

K

P

E

F

L

V

L

D

P

K

E

D

E

I

T

T

K

S

E

D

D

P

K

S

A

I

F

Y

Y

P

P

P

D

A

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E

V

T

K

M

K

K

Q

H

L

L

binding calcium ion: Q20 (≠ K44), N256 (≠ I299)

Sites not aligning to the query:

binding calcium ion: 321, 323

Query Sequence

>PP_5181 FitnessBrowser__Putida:PP_5181
MNKMGKTLLAAALMGAMASAVQAEDKVLNVYNWSDYIAPDTIAKFEKQTGIKVKYDVFDS
NETLEAKLLAGKSGYDIVVPSNNFLAKQIKAGVYEELDRSKLPNWKNLDPDLLKAVGDAS
DKDNKHAFPYMWGSIGIGYNPEKVKAALGVDKIDSWDVVFKPENIAKLKSCGVSFLDAPT
EMLPAALHYLGKPTDSTKKEDLKAAEDLFLKIRPSITYFHSSKYIGDMANGNICVAVGYS
GDLEQSKARAHEAGDKVKVDYVIPKEGAGTFYDMVAIPKDAEHKDAAYEFMNFLMQPEIM
AEITNAVRFPNGNAAATPFVDKDITSDPSIYPPAEVKKQLYAIAAPDASVQRVITRSWTK
IKSGK

Or try a new SitesBLAST search

SitesBLAST's Database

SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory