SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_012673732.1 NCBI__GCF_000021545.1:WP_012673732.1 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)

1twiA Crystal structure of diaminopimelate decarboxylase from m. Jannaschii in co-complex with l-lysine (see paper)
48% identity, 96% coverage: 6:410/420 of query aligns to 4:421/434 of 1twiA

query
sites
1twiA

N

N

D

D

Y

T

F

V

V

E

Y

I

K

K

D

D

G

G

K

R

L

F

Y

F

C

I

E

D

D

G

V

Y

N

D

I

A

Q

I

N

E

L

L

A

A

S

E

K

K

I

F

G

G

T

T

P

P

F

L

Y

Y

I

V

Y

M

S

S

K

E

K

E

A

Q

I

I

I

K

D

I

K

N

I

Y

N

N

E

R

Y

Y

K

I

E

E

A

A

F

F

K

K

D

R

Y

W

P

E

T

E

-

E

-

T

-

G

-

K

-

E

-

F

L

I

I

V

C

A

Y

Y

A
|
A

L

Y

K
|
K

A

A

N

N

S

A

N

N

L

L

S

A

I

I

L

T

K

R

I

L

F

L

E

A

E

K

H

L

G

G

L

C

G

G

A

A

D
|
D

I

V

V

V

S

S

G

G

G

G

E

E

L

L

Y

Y

K

I

A

A

R

K

K

L

V

S

G

N

I

V

P

P

S

S

N

K

K

K

I

I

V

V

Y

F

A
x
N

G

G

V

N

G

C

K

K

T

T

D

K

V

E

E

E

I

I

I

I

Y

M

A

G

I

I

N

E

E

A

N

N

I

I

L

R

S

A

F

F

N

N

V

V

E

D

S

S

Q

I

M

S

E

E

L

L

E

I

V

L

I

I

N

N

E

E

I

T

A

A

K

K

R

E

Q

L

N

G

K

E

K

T

A

A

N

N

I

V

S

A

I

F

R

R

I

I

N

N

P

P

D

N

V

V

D

N

P

P

K

K

T

T

H

H

P

P

Y

K

I

I

S

S

T

T

G

G

L

L

K

K

K

K

S

N

K

K

F

F

G

G

I

L

D

D

I

V

-

E

-

S

G

G

Q

I

A

A

L

M

D

K

V

A

Y

I

K

K

Q

M

A

A

V

L

K

E

M

M

E

E

N

Y

L

V

N

N

V

V

V

V

G

G

I

V

H

H

C

C

H
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H

I

I

G

G

S
|
S

Q

Q

I

L

M

T

D

D

V

I

S

S

V

P

Y

F

K

I

E

E

A

E

V

T

E

R

K

K

T

V

V

M

D

D

L

F

V

V

F

V

K

E

L

L

K

K

K

E

E

E

G

G

I

I

E

E

L

I

Q

E

F

D

I

V

D

N

I

L

G

G

G

G

G
|
G

L

L

G

G

V

I

K

P

Y

Y

Y

Y

P

K

E

D

D

K

N

Q

P

I

P

P

T

T

A

Q

F

K

D

D

L

L

A

A

-

D

-

A

-

I

-

I

N

N

T

T

V

M

L

L

P

K

I

Y

V

K

K

D

Q

K

T

V

G

E

L

M

-

P

K

N

L

L

I

I

I

L

E
|
E

P

P

G
|
G

R
|
R

S

S

L

L

I

V

A

A

Q

T

A

A

G

G

A

Y

L

L

I

L

T

G

K

K

V

V

I

H

F

H

T

I

K

K

D

E

K

T

K

P

D

V

K

T

H

K

F

W

V

V

I

M

V

I

D

D

S

A

G

G

M

M

N

N

D

D

L

M

I

M

R
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R

P

P

S

A

I

M

Y
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Y

N

E

A

A

Y

Y

H

H

H

H

I

I

I

I

T

N

V

C

E

K

E

V

K

K

Q

N

E

E

K

K

M

E

V

V

A

V

D

S

I

I

V

A

G

G

P

G

I

L

C

C

E

E

T

S

G

S

D

D

F

V

F

F

G

G

L

R

D

D

R

R

E

E

I

L

G

D

K

K

V

V

N

E

R

V

G

G

D

D

L

V

L

L

A

A

I

I

L

F

T

D

A

V

G

G

A

A

Y
|
Y

G

G

S

I

S

S

M

M

A

A

S

N

N

N

Y

Y

N

N

V

A

R

R

P

G

K

R

A

P

I

R

E

M

I

V

L

L

V

T

D

S

G

K

D

K

K

G

F

V

K

F

I

L

I

I

K

R

E

E

R

R

E

E

D

T

Y

Y

S

A

active site: K69 (= K65), H210 (= H204), E290 (= E279)
binding lysine: S213 (= S207), R293 (= R282), R329 (= R318), Y333 (= Y322), Y387 (= Y376)
binding pyridoxal-5'-phosphate: A67 (= A63), K69 (= K65), D88 (= D84), N111 (≠ A107), H210 (= H204), S213 (= S207), G250 (= G244), E290 (= E279), G292 (= G281), R293 (= R282), Y387 (= Y376)

1tufA Crystal structure of diaminopimelate decarboxylase from m. Jannaschi (see paper)
48% identity, 96% coverage: 6:410/420 of query aligns to 4:421/434 of 1tufA

query
sites
1tufA

N

N

D

D

Y

T

F

V

V

E

Y

I

K

K

D

D

G

G

K

R

L

F

Y

F

C

I

E

D

D

G

V

Y

N

D

I

A

Q

I

N

E

L

L

A

A

S

E

K

K

I

F

G

G

T

T

P

P

F

L

Y

Y

I

V

Y

M

S

S

K

E

K

E

A

Q

I

I

I

K

D

I

K

N

I

Y

N

N

E

R

Y

Y

K

I

E

E

A

A

F

F

K

K

D

R

Y

W

P

E

T

E

-

E

-

T

-

G

-

K

-

E

-

F

L

I

I

V

C

A

Y

Y

A

A

L

Y

K
|
K

A

A

N

N

S

A

N

N

L

L

S

A

I

I

L

T

K

R

I

L

F

L

E

A

E

K

H

L

G

G

L

C

G

G

A

A

D

D

I

V

V

V

S

S

G

G

G

G

E

E

L

L

Y

Y

K

I

A

A

R

K

K

L

V

S

G

N

I

V

P

P

S

S

N

K

K

K

I

I

V

V

Y

F

A

N

G

G

V

N

G

C

K

K

T

T

D

K

V

E

E

E

I

I

I

I

Y

M

A

G

I

I

N

E

E

A

N

N

I

I

L

R

S

A

F

F

N

N

V

V

E

D

S

S

Q

I

M

S

E

E

L

L

E

I

V

L

I

I

N

N

E

E

I

T

A

A

K

K

R

E

Q

L

N

G

K

E

K

T

A

A

N

N

I

V

S

A

I

F

R

R

I

I

N

N

P

P

D

N

V

V

D

N

P

P

K

K

T

T

H

H

P

P

Y

K

I

I

S

S

T

T

G

G

L

L

K

K

K

K

S

N

K

K

F

F

G

G

I

L

D

D

I

V

-

E

-

S

G

G

Q

I

A

A

L

M

D

K

V

A

Y

I

K

K

Q

M

A

A

V

L

K

E

M

M

E

E

N

Y

L

V

N

N

V

V

V

V

G

G

I

V

H

H

C

C

H
|
H

I

I

G

G

S
|
S

Q

Q

I

L

M

T

D

D

V

I

S

S

V

P

Y

F

K

I

E

E

A

E

V

T

E

R

K

K

T

V

V

M

D

D

L

F

V

V

F

V

K

E

L

L

K

K

K

E

E

E

G

G

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I

E

E

L

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E

F

D

I

V

D

N

I

L

G

G

G

G

G

G

L

L

G

G

V

I

K

P

Y

Y

Y

Y

P

K

E

D

D

K

N

Q

P

I

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P

T

T

A

Q

F

K

D

D

L

L

A

A

-

D

-

A

-

I

-

I

N

N

T

T

V

M

L

L

P

K

I

Y

V

K

K

D

Q

K

T

V

G

E

L

M

-

P

K

N

L

L

I

I

I

L

E
|
E

P

P

G

G

R
|
R

S

S

L

L

I

V

A

A

Q

T

A

A

G

G

A

Y

L

L

I

L

T

G

K

K

V

V

I

H

F

H

T

I

K

K

D

E

K

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K

P

D

V

K

T

H

K

F

W

V

V

I

M

V

I

D

D

S

A

G

G

M

M

N

N

D

D

L

M

I

M

R
|
R

P

P

S

A

I

M

Y
|
Y

N

E

A

A

Y

Y

H

H

H

H

I

I

I

I

T

N

V

C

E

K

E

V

K

K

Q

N

E

E

K

K

M

E

V

V

A

V

D

S

I

I

V

A

G

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P

G

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C

C

E

E

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S

G

S

D

D

F

V

F

F

G

G

L

R

D

D

R

R

E

E

I

L

G

D

K

K

V

V

N

E

R

V

G

G

D

D

L

V

L

L

A

A

I

I

L

F

T

D

A

V

G

G

A

A

Y

Y

G

G

S

I

S

S

M

M

A

A

S

N

N

N

Y

Y

N

N

V

A

R

R

P

G

K

R

A

P

I

R

E

M

I

V

L

L

V

T

D

S

G

K

D

K

K

G

F

V

K

F

I

L

I

I

K

R

E

E

R

R

E

E

D

T

Y

Y

S

A

active site: K69 (= K65), H210 (= H204), E290 (= E279)
binding azelaic acid: S213 (= S207), R293 (= R282), R329 (= R318), Y333 (= Y322)

Q58497 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) (see paper)
48% identity, 96% coverage: 6:410/420 of query aligns to 8:425/438 of Q58497

query
sites
Q58497

N

N

D

D

Y

T

F

V

V

E

Y

I

K

K

D

D

G

G

K

R

L

F

Y

F

C

I

E

D

D

G

V

Y

N

D

I

A

Q

I

N

E

L

L

A

A

S

E

K

K

I

F

G

G

T

T

P

P

F

L

Y

Y

I

V

Y

M

S

S

K

E

K

E

A

Q

I

I

I

K

D

I

K

N

I

Y

N

N

E

R

Y

Y

K

I

E

E

A

A

F

F

K

K

D

R

Y

W

P

E

T

E

-

E

-

T

-

G

-

K

-

E

-

F

L

I

I

V

C

A

Y

Y

A

A

L

Y

K
|
K

A

A

N

N

S

A

N

N

L

L

S

A

I

I

L

T

K

R

I

L

F

L

E

A

E

K

H

L

G

G

L

C

G

G

A

A

D

D

I

V

V

V

S

S

G

G

G

G

E

E

L

L

Y

Y

K

I

A

A

R

K

K

L

V

S

G

N

I

V

P

P

S

S

N

K

K

K

I

I

V

V

Y

F

A

N

G

G

V

N

G

C

K

K

T

T

D

K

V

E

E

E

I

I

I

I

Y

M

A

G

I

I

N

E

E

A

N

N

I

I

L

R

S

A

F

F

N

N

V

V

E

D

S

S

Q

I

M

S

E

E

L

L

E

I

V

L

I

I

N

N

E

E

I

T

A

A

K

K

R

E

Q

L

N

G

K

E

K

T

A

A

N

N

I

V

S

A

I

F

R

R

I

I

N

N

P

P

D

N

V

V

D

N

P

P

K

K

T

T

H

H

P

P

Y

K

I

I

S

S

T

T

G

G

L

L

K

K

K

K

S

N

K

K

F

F

G

G

I

L

D

D

I

V

-

E

-

S

G

G

Q

I

A

A

L

M

D

K

V

A

Y

I

K

K

Q

M

A

A

V

L

K

E

M

M

E

E

N

Y

L

V

N

N

V

V

V

V

G

G

I

V

H

H

C

C

H

H

I

I

G

G

S
|
S

Q

Q

I

L

M

T

D

D

V

I

S

S

V

P

Y

F

K

I

E

E

A

E

V

T

E

R

K

K

T

V

V

M

D

D

L

F

V

V

F

V

K

E

L

L

K

K

K

E

E

E

G

G

I

I

E

E

L

I

Q

E

F

D

I

V

D

N

I

L

G

G

G

G

G
|
G

L

L

G

G

V

I

K

P

Y

Y

Y

Y

P

K

E

D

D

K

N

Q

P

I

P

P

T

T

A

Q

F

K

D

D

L

L

A

A

-

D

-

A

-

I

-

I

N

N

T

T

V

M

L

L

P

K

I

Y

V

K

K

D

Q

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T

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G

E

L

M

-

P

K

N

L

L

I

I

I

L

E
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E

P
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P

G
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G

R
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R

S

S

L

L

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A

A

Q

T

A

A

G

G

A

Y

L

L

I

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T

G

K

K

V

V

I

H

F

H

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K

D

E

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P

D

V

K

T

H

K

F

W

V

V

I

M

V

I

D

D

S

A

G

G

M

M

N

N

D

D

L

M

I

M

R

R

P

P

S

A

I

M

Y

Y

N

E

A

A

Y

Y

H

H

H

H

I

I

I

I

T

N

V

C

E

K

E

V

K

K

Q

N

E

E

K

K

M

E

V

V

A

V

D

S

I

I

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A

G

G

P

G

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F

V

F

F

G

G

L

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D

D

R

R

E

E

I

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D

K

K

V

V

N

E

R

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G

G

D

D

L

V

L

L

A

A

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I

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F

T

D

A

V

G

G

A

A

Y
|
Y

G

G

S

I

S

S

M

M

A

A

S

N

N

N

Y

Y

N

N

V

A

R

R

P

G

K

R

A

P

I

R

E

M

I

V

L

L

V

T

D

S

G

K

D

K

K

G

F

V

K

F

I

L

I

I

K

R

E

E

R

R

E

E

D

T

Y

Y

S

A

K73 (= K65) modified: N6-(pyridoxal phosphate)lysine
S217 (= S207) binding pyridoxal 5'-phosphate
G254 (= G244) binding pyridoxal 5'-phosphate
EPGR 294:297 (= EPGR 279:282) binding pyridoxal 5'-phosphate
Y391 (= Y376) binding pyridoxal 5'-phosphate

4xg1B Psychromonas ingrahamii diaminopimelate decarboxylase with llp
49% identity, 96% coverage: 7:408/420 of query aligns to 1:405/418 of 4xg1B

query
sites
4xg1B

D

D

Y

H

F

F

V

N

Y

Y

K

Q

-

N

D

D

G

G

K

R

L

L

Y

F

C

V

E

E

D

G

V

L

N

P

I

V

Q

E

N

Q

L

V

A

V

S

K

K

K

I

T

G

G

T

T

P

P

F

A

Y

Y

I

I

Y

Y

S

S

K

R

K
x
A

A

T

I

I

I
x
E

D

R

K

H

I

W

N

Q

E

A

Y

F

K

D

E

S

A

A

F

A

K

G

D

K

Y

H

P

P

T

H

L

L

I

I

C

C

Y

Y

A

A

L

V

K
|
K

A

A

N

N

S

S

N

N

L

L

S

A

I

V

L

L

K

N

I

L

F

M

E

A

E

R

H

M

G

G

L

S

G

G

A

F

D
|
D

I

I

V

V

S

S

G

V

G

G

E

E

L

L

Y

M

K

R

A

V

R

I

K

Q

V

A

G

G

I

G

P

D

S

P

N

K

K

K

I

I

V

V

Y

F

A

S

G

G

V

V

G

G

K

K

T

T

D

E

V

I

E

E

I

I

I

S

Y

A

A

A

I

L

N

Q

E

A

N

N

I

I

L

M

S

C

F

F

N

N

V

V

E

E

S

S

Q

I

M

S

E

E

L

L

E

Y

V

R

I

I

N

N

E

S

I

V

A

A

K

K

R

A

Q

L

N

N

K

V

K

K

A

A

N

P

I

I

S

S

I

I

R

R

I

I

N

N

P

P

D

N

V

I

D

D

P

A

K

G

T

T

H

H

P

P

Y

Y

I

I

S

S

T

T

G

G

L

L

K

K

K

E

S

N

K

K

F

F

G

G

I

I

D

E

I

I

G

E

Q

Q

A

A

L

L

D

D

V

V

Y

Y

K

K

Q

I

A

A

V

S

K

D

M

L

E

E

N

F

L

L

N

E

V

I

V

K

G

G

I

V

H

D

C

C

H
|
H

I

I

G

G

S
|
S

Q

Q

I

L

M

T

D
x
E

V
x
I

S
x
A

V

P

Y

F

K

I

E

E

A

A

V

L

E

D

K

K

T

L

V

L

D

I

L

L

V

I

F

D

K

L

L

L

K

A

K

E

E

K

G

G

I

I

E

T

L

I

Q

S

F

H

I

L

D

D

I

L

G

G

G

G

G
|
G

L

L

G

G

V

V

K

P

Y

-

Y

Y

P

D

E

D

D

E

N

T

P

P

P

P

T

E

A

P

F

A

D

E

L

Y

A

M

N

T

T

A

V

I

L

I

P

N

I

R

V

M

K

A

Q

G

T

R

G

S

L

L

K

K

L

L

I

I

I

F

E
|
E

P

P

G
|
G

R
|
R

S

A

L

I

I

M

A

A

Q

N

A

A

G

G

A

V

L

L

I

V

T

T

K

K

V

V

I

E

F

F

T

L

K

-

D

-

K

K

K

L

D

N

K

K

H

N

F

F

V

A

I

I

V

V

D

D

S

A

G

A

M

M

N

N

D

D

L

L

I

I

R
|
R

P

P

S

A

I

L

Y
|
Y

N

S

A

A

Y

W

H

Q

H

N

I

I

I

I

T

P

V

L

-

N

-

T

-

D

-

Y

E

Q

E

D

K

G

Q

Q

E

D

K

R

M

P

V

V

A

R

-

S

-

Y

D

D

I

I

V

V

G

G

P

P

I

I

C
|
C

E
|
E

T

T

G

G

D

D

F

F

F

L

G

G

L

K

D

E

R

R

E

Q

I

L

G

A

K

-

V

L

N

A

R

E

G

G

D

D

L

Y

L

L

A

V

I

I

L

R

T

S

A

T

G

G

A

A

Y
|
Y

G

G

S

S

S

T

M

M

A

S

S

S

N

N

Y

Y

N

N

V

S

R

R

P

C

K

R

A

A

I

A

E

E

I

I

L

L

V

V

D

D

G

G

D

E

K

K

F

A

K

F

I

I

I

V

K

R

E

E

R

R

E

E

D

E

active site: K60 (= K65), H199 (= H204), E273 (= E279)
binding (2S)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid: K60 (= K65), D79 (= D84), H199 (= H204), S202 (= S207), G239 (= G244), E273 (= E279), G275 (= G281), R276 (= R282), R310 (= R318), Y314 (= Y322), C345 (= C347), E346 (= E348), Y373 (= Y376)
binding propane: A35 (≠ K40), E38 (≠ I43), E206 (≠ D211), I207 (≠ V212), A208 (≠ S213)

B4XMC6 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Helicobacter pylori (Campylobacter pylori) (see paper)
47% identity, 95% coverage: 22:420/420 of query aligns to 3:402/405 of B4XMC6

query
sites
B4XMC6

N

N

I

Y

Q

E

N

E

L

L

A

F

S

Q

K

T

I

H

G

K

T

T

P

P

F

F

Y

Y

I

L

Y

Y

S

D

K

F

K

D

A

K

I

I

I

K

D

Q

K

A

I

F

N

L

E

N

Y

Y

K

K

E

E

A

A

F

F

K

K

D

G

Y

R

P

K

T

S

L

L

I

I

C

C

Y

Y

A

A

L

L

K
|
K

A

A

N

N

S

S

N

N

L

L

S

S

I

I

L

L

K

S

I

L

F

L

E

A

E

H

H

L

G

E

L

S

G

G

A

A

D

D

I

C

V

V

S

S

G

I

G

G

E

E

L

I

Y

Q

K

R

A

A

R

L

K

K

V

A

G

G

I

I

P

K

S

P

N

Y

K

R

I

I

V

V

Y

F

A

S

G

G

V

V

G

G

K

K

T

S

D

A

V

F

E

E

I

I

I

E

Y

Q

A

A

I

L

N

K

E

L

N

N

I

I

L

L

S

F

F

L

N

N

V

V

E

E

S

S

Q

F

M

M

E

E

L

L

E

K

V

T

I

I

N

E

E

T

I

I

A

A

K

Q

R

S

Q

L

N

G

K

I

K

K

A

A

N

R

I

I

S

S

I

I

R

R

I

I

N

N

P

P

D

N

V

I

D

D

P

A

K

K

T

T

H

H

P

P

Y

Y

I
|
I

S

S

T

T

G

G

L

L

K

K

K

E

S

N

K

K

F

F

G

G

I

V

D

G

I

E

G

K

Q

E

A

A

L

L

D

E

V

M

Y

F

K

L

Q

W

A

A

V

K

K

K

M

S

E

A

N

F

L

L

N

E

V

P

V

V

G

S

I

V

H

H

C

F

H

H

I

I

G

G

S

S

Q

Q

I

L

M

L

D

D

V

L

S

E

V

P

Y

I

K

I

E

E

A

A

V

S

E

Q

K

K

T

V

V

A

D

K

L

I

V

A

F

K

K

S

L

L

K

I

K

A

E

L

G

G

I

I

E

D

L

L

Q

R

F

F

I

F

D

D

I

V

G

G

G

G

G
|
G

L

I

G

G

V

V

K

S

Y

Y

Y

E

P

N

E

E

D

E

N

T

P

I

P

K

T

L

A

-

F

Y

D

D

L

Y

A

A

N

Q

T

G

V

I

L

L

P

N

I

A

V

L

K

Q

Q

G

T

L

G

D

L

L

K

T

L

I

I

I

I

C

E
|
E

P
|
P

G
|
G

R
|
R

S

S

L

I

I

V

A

A

Q

E

A

S

G

G

A

E

L

L

I

I

T

T

K

Q

V

V

I

L

F

Y

T

E

K

K

D

K

K

A

K

Q

D

N

K

K

H

R

F

F

V

V

I

I

V

V

D

D

S

A

G

G

M

M

N

N

D

D

L

F

I

L

R

R

P

P

S

S

I

L

Y

Y

N

H

A

A

Y

K

H

H

-

A

-

I

H

R

I

V

I

I

T

T

V

P

E

S

E

K

K

G

Q

R

E

E

K

I

M

S

V

P

A

C

D

D

I

V

V

V

G

G

P

P

I

V

C

C

E

E

T

S

G

S

D

D

F

T

F

F

G

L

L

K

D

D

R

A

E

H

I

L

G

P

K

E

V

L

N

E

R

P

G

G

D

D

L

K

L

I

A

A

I

I

L

E

T

K

A

V

G

G

A

A

Y
|
Y

G

G

S

S

S

S

M

M

A

A

S

S

N

Q

Y

Y

N

N

V

S

R

R

P

P

K

K

A

L

I

L

E

E

I

L

L

A

V

L

D

E

G

D

D

H

K

K

F

I

K

R

I

V

I

I

K

R

E

K

R

R

E

E

D

A

Y

L

S

E

F

D

I

L

T

W

K

R

L

L

E

E

E

E

E

E

V

G

L

L

K46 (= K65) modified: N6-(pyridoxal phosphate)lysine
I148 (= I167) mutation to A: Nearly no change in substrate affinity and 47-fold decrease in catalytic activity.; mutation to D: 2-fold decrease in substrate affinity and 235-fold decrease in catalytic activity.; mutation to F: 4-fold increase in substrate affinity and 23-fold decrease in catalytic activity.; mutation to G: Nearly no change in substrate affinity and 235-fold decrease in catalytic activity.; mutation to K: Nearly no change in substrate affinity and 55-fold decrease in catalytic activity.; mutation to L: 13-fold increase in substrate affinity and 40-fold decrease in catalytic activity.
G225 (= G244) binding pyridoxal 5'-phosphate
EPGR 259:262 (= EPGR 279:282) binding pyridoxal 5'-phosphate
Y358 (= Y376) binding pyridoxal 5'-phosphate

3c5qA Crystal structure of diaminopimelate decarboxylase (i148l mutant) from helicobacter pylori complexed with l-lysine
47% identity, 95% coverage: 22:420/420 of query aligns to 1:394/394 of 3c5qA

query
sites
3c5qA

N

N

I

Y

Q

E

N

E

L

L

A

F

S

Q

K

T

I

H

G

K

T

T

P

P

F

F

Y

Y

I

L

Y

Y

S

D

K

F

K

D

A

K

I

I

I

K

D

Q

K

A

I

F

N

L

E

N

Y

Y

K

K

E

E

A

A

F

F

K

K

D

G

Y

R

P

K

T

S

L

L

I

I

C

C

Y

Y

A

A

L

L

K
|
K

A

A

N

N

S

S

N

N

L

L

S

S

I

I

L

L

K

S

I

L

F

L

E

A

E

H

H

L

G

E

L

S

G

G

A

A

D
|
D

I

C

V

V

S

S

G

I

G

G

E

E

L

I

Y

Q

K

R

A

A

R

L

K

K

V

A

G

G

I

I

P

K

S

P

N

Y

K

R

I

I

V

V

Y

F

A

S

G

G

V

V

G

G

K

K

T

S

D

A

V

F

E

E

I

I

I

E

Y

Q

A

A

I

L

N

K

E

L

N

N

I

I

L

L

S

F

F

L

N

N

V

V

E

E

S

S

Q

F

M

M

E

E

L

L

E

K

V

T

I

I

N

E

E

T

I

I

A

A

K

Q

R

S

Q

L

N

G

K

I

K

K

A

A

N

R

I

I

S

S

I

I

R

R

I

I

N

N

P

P

D

N

V

I

D

D

P

A

K

K

T

T

H

H

P

P

Y

Y

I
x
L

S

S

T

T

G

G

L

L

K

K

K

E

S

N

K

K

F

F

G

G

I

V

D

G

I

E

G

K

Q

E

A

A

L

L

D

E

V

M

Y

F

K

L

Q

W

A

A

V

K

K

K

M

S

E

A

N

F

L

L

N

E

V

P

V

V

G

S

I

V

H

H

C

F

H
|
H

I

I

G

G

S
|
S

Q

Q

I

L

M

L

D

D

V

L

S

E

V

P

Y

I

K

I

E

E

A

A

V

S

E

Q

K

K

T

V

V

A

D

K

L

I

V

A

F

K

K

S

L

L

K

I

K

A

E

L

G

G

I

I

E

D

L

L

Q

R

F

F

I

F

D

D

I

V

G

G

G

G

G
|
G

L

I

G

G

V

V

K

S

Y

Y

Y

E

P

N

E

E

D

E

N

T

P

I

P

K

T

L

A

-

F

Y

D

D

L

Y

A

A

N

Q

T

G

V

I

L

L

P

N

I

A

V

L

K

Q

Q

G

T

L

G

D

L

L

K

T

L

I

I

I

I

C

E
|
E

P
|
P

G
|
G

R
|
R

S

S

L

I

I

V

A

A

Q

E

A

S

G

G

A

E

L

L

I

I

T

T

K

Q

V

V

I

L

F

Y

T

-

K

-

D

E

K

K

K

K

D

N

K

K

H

R

F

F

V

V

I

I

V

V

D

D

S

A

G

G

M

M

N

N

D

D

L

F

I

L

R
|
R

P

P

S

S

I

L

Y
|
Y

N

H

A

A

Y

-

H

K

H

H

I

A

I

I

T

R

V

V

E

I

E

T

K

P

Q

S

E

E

K

I

M

S

V

P

A

C

D

D

I

V

V

V

G

G

P

P

I

V

C

C

E

E

T

S

G

S

D

D

F

T

F

F

G

L

L

K

D

D

R

A

E

H

I

L

G

P

K

E

V

L

N

E

R

P

G

G

D

D

L

K

L

I

A

A

I

I

L

E

T

K

A

V

G

G

A

A

Y
|
Y

G

G

S

S

S

S

M

M

A

A

S

S

N

Q

Y

Y

N

N

V

S

R

R

P

P

K

K

A

L

I

L

E

E

I

L

L

A

V

L

D

E

G

-

D

D

K

K

F

I

K

R

I

V

I

I

K

R

E

K

R

R

E

E

D

A

Y

L

S

E

F

D

I

L

T

W

K

R

L

L

E

E

E

E

E

E

V

G

L

L

active site: K44 (= K65), H183 (= H204), E257 (= E279)
binding lysine: L146 (≠ I167), R260 (= R282), R294 (= R318), Y298 (= Y322), Y351 (= Y376)
binding pyridoxal-5'-phosphate: K44 (= K65), D63 (= D84), H183 (= H204), S186 (= S207), G223 (= G244), E257 (= E279), P258 (= P280), G259 (= G281), R260 (= R282), Y351 (= Y376)

4xg1A Psychromonas ingrahamii diaminopimelate decarboxylase with llp
46% identity, 96% coverage: 7:408/420 of query aligns to 1:380/393 of 4xg1A

query
sites
4xg1A

D

D

Y

H

F

F

V

N

Y

Y

K

Q

D

N

G

-

K

R

L

L

Y

F

C

V

E

E

D

G

V

L

N

P

I

V

Q

E

N

Q

L

V

A

V

S

K

K

K

I

T

G

G

T

T

P

P

F

A

Y

Y

I

I

Y

Y

S

S

K

R

K

A

A

T

I

I

I

-

D

-

K

-

I

-

N

E

E

R

Y

H

K

W

E

Q

A

A

F

F

K

D

D

S

-

K

Y

H

P

P

T

H

L

L

I

I

C

C

Y

Y

A

A

L

V

K
|
K

A

A

N

N

S

S

N

N

L

L

S

A

I

V

L

L

K

N

I

L

F

M

E

A

E

R

H

M

G

G

L

S

G

G

A

F

D
|
D

I

I

V

V

S

S

G

V

G

G

E

E

L

L

Y

M

K

R

A

V

R

I

K

Q

V

A

G

G

I

G

P

D

S

P

N

K

K

K

I

I

V

V

Y

F

A
x
S

G

G

V

V

G

G

K

K

T

T

D

E

V

I

E

E

I

I

I

S

Y

A

A

A

I

L

N

Q

E

A

N

N

I

I

L

M

S

C

F

F

N

N

V

V

E

E

S
|
S

Q
x
I

M

S

E

E

L

L

E

Y

V

R

I

I

N

N

E

S

I

V

A

A

K

K

R

A

Q

L

N

N

K

V

K

K

A

A

N

P

I

I

S

S

I

I

R

R

I

I

N

N

P

P

D

N

V

-

D

-

P

-

K

-

T

-

H

-

P

-

Y

-

I

-

S

-

T

-

G

-

L

-

K

-

K

-

S

-

K

K

F

F

G

G

I

I

D

E

I

I

G

E

Q

Q

A

A

L

L

D

D

V

V

Y

Y

K

K

Q

I

A

A

V

S

K

D

M

L

E

E

N

F

L

L

N

E

V

I

V

K

G

G

I

V

H

D

C

C

H
|
H

I

I

G

G

S
|
S

Q

Q

I

-

M

L

D

T

V

I

S

A

V

P

Y

F

K

I

E

E

A

L

V

D

E

K

K

L

T

L

V

I

D

L

L

I

V

D

F

L

K

L

L

A

K

E

K

K

E

-

G

G

I

I

E

T

L

I

Q

S

F

H

I

L

D

D

I

L

G

G

G

G

G
|
G

L

L

G

G

V

V

K

P

Y

Y

Y

-

P

-

E

D

D

D

N

E

P

P

P

P

T

-

A

-

F

-

D

E

L

P

A

A

N

E

T

Y

V

M

L

T

P

A

I

I

V

I

K

N

Q

R

T

M

G

R

L

L

K

K

L

L

I

I

I

F

E
|
E

P

P

G
|
G

R
|
R

S

A

L

I

I

M

A

A

Q

N

A

A

G

G

A

V

L

L

I

V

T

T

K

K

V

V

I

E

F

F

T

L

K

K

D

L

K

N

K

D

D

Y

K

K

H

N

F

F

V

A

I

I

V

V

D

D

S

A

G

A

M

M

N

N

D

D

L

L

I

I

R
|
R

P

P

S

A

I

L

Y
|
Y

N

S

A

A

Y

W

H

Q

H

N

I

I

I

I

T

P

V

L

-

N

-

T

-

D

-

Y

E

Q

E

D

K

G

Q

Q

E

D

K

R

M

P

V

V

A

R

-

S

-

Y

D

D

I

I

V

V

G

G

P

P

I

I

C
|
C

E
|
E

T

T

G

G

D

D

F

F

F

L

G

G

L

K

D

E

R

R

E

Q

I

L

G

A

K

-

V

L

N

A

R

E

G

G

D

D

L

Y

L

L

A

V

I

I

L

R

T

S

A

T

G

G

A

A

Y
|
Y

G

G

S

S

S

T

M

M

A

S

S

S

N

N

Y

Y

N

N

V

S

R

R

P

C

K

R

A

A

I

A

E

E

I

I

L

L

V

V

D

D

G

G

D

E

K

K

F

A

K

F

I

I

I

V

K

R

E

E

R

R

E

E

D

E

active site: K55 (= K65), H178 (= H204), E246 (= E279)
binding (2S)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid: K55 (= K65), D74 (= D84), S97 (≠ A107), H178 (= H204), S181 (= S207), G216 (= G244), E246 (= E279), G248 (= G281), R249 (= R282), R285 (= R318), Y289 (= Y322), C320 (= C347), E321 (= E348), Y348 (= Y376)
binding propane: S121 (= S131), I122 (≠ Q132)

6n2aA Meso-diaminopimelate decarboxylase from arabidopsis thaliana (isoform 1)
40% identity, 95% coverage: 12:411/420 of query aligns to 9:412/422 of 6n2aA

query
sites
6n2aA

K

S

D

D

G

G

K

F

L

L

Y

Y

C

C

E

E

D

G

V

T

N

K

I

V

Q

E

N

D

L

I

A

M

S

E

K

S

I

V

-

E

G

R

T

R

P

P

F

F

Y

Y

I

L

Y

Y

S

S

K

K

K

P

A

Q

I

I

I

T

D

R

K

N

I

L

N

E

E

A

Y

Y

K

K

E

E

A

A

F

L

K

E

D

G

Y

V

P

S

T

S

L

V

I

I

C

G

Y

Y

A

A

L

I

K
|
K

A

A

N

N

S

N

N

N

L

L

S

K

I

I

L

L

K

E

I

H

F

L

E

R

E

S

H

L

G

G

L

C

G

G

A

A

D

V

I

L

V

V

S

S

G

G

G

N

E

E

L

L

Y

R

K

L

A

A

R

L

K

R

V

A

G

G

I

F

P

D

S

P

N

T

K

K

I

C

V

I

Y

F

A

N

G

G

V

N

G

G

K

K

T

S

D

L

V

E

E

D

I

L

I

V

Y

L

A

A

I

A

N

Q

E

E

N

G

I

V

L

F

S

-

F

V

N

N

V

V

E

D

S

S

Q

E

M

F

E

D

L

L

E

N

V

N

I

I

N

V

E

E

I

A

A

S

K

R

R

I

Q

S

N

G

K

K

K

Q

A

V

N

N

I

V

S

L

I

L

R

R

I

I

N

N

P

P

D

D

V

V

D

D

P

P

K

Q

T

V

H

H

P

P

Y

Y

I

V

S

A

T

T

G

G

L

N

K

K

K

N

S

S

K

K

F

F

G

G

I

I

D

R

I

-

G

N

Q

E

A

K

L

L

D

Q

V

W

Y

F

K

L

Q

D

A

Q

V

V

K

K

M

A

-

H

-

P

E

K

N

E

L

L

N

K

V

L

V

V

G

G

I

A

H

H

C

C

H
|
H

I

L

G

G

S
|
S

Q

T

I

I

M

T

D

K

V

V

S

D

V

I

Y

F

K

R

E

D

A

A

V

A

E

V

K

L

T

M

V

I

D

E

L

Y

V

I

F

D

K

E

L

I

K

R

K

R

E

Q

G

G

I

F

E

E

L

V

Q

S

F

Y

I

L

D

N

I

I

G

G

G

G

G
|
G

L

L

G

G

V

I

K

D

Y

Y

Y

Y

P

H

E

A

D

G

N

A

P

V

-

L

P

P

T

T

A

P

F

M

D

D

L

L

A

I

N

N

T

T

V

V

L

R

P

E

I

L

V

V

K

L

Q

S

T

R

G

D

L

L

K

N

L

L

I

I

I

I

E
|
E

P

P

G
|
G

R
|
R

S

S

L

L

I

I

A

A

Q

N

A

T

G

C

A

C

L

F

I

V

T

N

K

H

V

V

I

T

F

G

T

V

K

K

D

T

K

N

K

G

D

T

K

K

H

N

F

F

V

I

I

V

V

I

D

D

S

G

G

S

M

M

N

A

D

E

L

L

I

I

R
|
R

P

P

S

S

I

L

Y
|
Y

N

D

A

A

Y

Y

H

Q

H

H

I

I

I

E

T

L

V

V

E

S

-

P

-

P

-

P

E

A

K

E

Q

A

E

E

K

V

M

T

V

K

A

F

D

D

I

V

V

V

G

G

P

P

I

V

C
|
C

E
|
E

T

S

G

A

D

D

F

F

F

L

G

G

L

K

D

D

R

R

E

E

I

L

G

P

K

T

V

P

N

P

R

Q

G

G

D

A

L

G

L

L

A

V

I

V

L

H

T

D

A

A

G

G

A

A

Y
|
Y

G

C

S

M

S

S

M

M

A

A

S

S

N

T

Y

Y

N

N

V

L

R

K

P

M

K

R

A

P

I

P

E

E

I

Y

L

W

V

V

D

E

G

E

D

D

K

G

F

-

K

S

I

I

I

T

K

K

E

I

R

R

E

H

D

A

Y

E

S

T

F

F

binding lysine: K63 (= K65), R281 (= R282), R317 (= R318), Y321 (= Y322), C349 (= C347), E350 (= E348), Y378 (= Y376)
binding pyridoxal-5'-phosphate: K63 (= K65), H202 (= H204), S205 (= S207), G242 (= G244), E278 (= E279), G280 (= G281), R281 (= R282), Y378 (= Y376)

Q9X1K5 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)
39% identity, 92% coverage: 23:407/420 of query aligns to 4:375/386 of Q9X1K5

query
sites
Q9X1K5

I

L

Q

R

N

K

L

V

A

A

S

E

K

I

I

H

G

G

T

T

P

P

F

T

Y

Y

I

V

Y

Y

S

F

K

E

K

E

A

T

I

L

I

R

D

K

K

R

I

S

N

R

E

L

Y

V

K

K

E

E

A

V

F

F

K

E

D

G

Y

V

P

N

T

L

L

L

I

P

C

T

Y

F

A

A

L

V

K

K

A

A

N

N

S

N

N

N

L

P

S

V

I

L

L

L

K

K

I

I

F

L

E

R

E

E

H

E

G

G

L

F

G

G

A

M

D

D

I

V

V

V

S

T

G

K

G

G

E

E

L

L

Y

L

K

A

A

A

R

K

K

L

V

A

G

G

I

V

P

P

S

S

N

H

K

T

I

V

V

V

Y

W

A

N

G

G

V

N

G

G

K

K

T

S

D

R

V

D

E

Q

I

M

I

E

Y

H

A

F

I

L

N

R

E

E

N

D

I

V

L

R

S

I

F

V

N

N

V

V

E

D

S

S

Q

F

M

E

E

E

L

M

E

E

V

I

I

W

N

R

E

E

I

L

A

-

K

-

R

-

Q

N

N

P

K

E

K

G

A

V

N

E

I

Y

S

F

I

I

R

R

I

V

N

N

P

P

D

E

V

V

D

D

P

A

K

K

T

T

H

H

P

P

Y

H

I

I

S

S

T

T

G

G

L

L

K

K

K

K

S

H

K

K

F

F

G

G

I

I

D

P

I

L

G

-

Q

E

A

D

L

L

D

D

V

S

Y

F

K

M

Q

E

A

-

V

-

K

R

M

F

E

R

N

S

L

M

N

N

V

I

V

R

G

G

I

L

H

H

C

V

H

H

I

I

G

G

S

S

Q

Q

I

I

M

T

D

R

V

V

S

E

V

P

Y

F

K

V

E

E

A

A

V

F

E

S

K

K

T

V

V

V

D

R

L

-

V

-

F

-

K

-

L

-

K

A

K

S

E

E

G

R

I

Y

E

G

L

F

Q

E

F

E

I

I

D

N

I

I

G

G

G

G

G
|
G

L

W

G

G

V

I

K

N

Y

Y

Y

S

P

G

E

E

D

E

N

-

P

-

P

-

T

-

A

-

F

L

D

D

L

L

A

S

N

S

-

Y

-

R

-

E

T

K

V

V

L

V

P

P

I

D

V

L

K

K

Q

R

T

F

G

K

L

-

K

R

L

V

I

I

I

V

E
|
E

P
x
I

G
|
G

R
|
R

S

Y

L

I

I

V

A

A

Q

P

A

S

G

G

A

Y

L

L

I

L

T

L

K

R

V

V

I

V

F

L

T

V

K

K

D

R

K

R

K

H

D

N

K

K

H

A

F

F

V

V

I

V

V

V

D

D

S

G

G

G

M

M

N

N

D

V

L

L

I

I

R

R

P

P

S

A

I

L

Y

Y

N

S

A

A

Y

Y

H

H

H

R

I

I

I

F

T

V

V

L

E

G

E

K

K

Q

Q

G

E

K

K

E

M

M

V

R

A

A

D

D

I

V

V

V

G

G

P

P

I

L

C

C

E

E

T

S

G

G

D

D

F

V

F

I

G

A

L

Y

D

D

R

R

E

E

I

L

G

P

K

E

V

V

N

E

R

P

G

G

D

D

L

I

L

I

A

A

I

V

L

E

T

N

A

A

G

G

A

A

Y
|
Y

G

G

S

Y

S

T

M

M

A

S

S

N

N

N

Y

Y

N

N

V

S

R

T

P

T

K

R

A

P

I

A

E

E

I

V

L

L

V

V

-

R

D

E

G

N

D

G

K

R

F

I

K

S

I

L

I

I

K

R

E

R

R

R

E

E

G214 (= G244) binding pyridoxal 5'-phosphate
EIGR 246:249 (≠ EPGR 279:282) binding pyridoxal 5'-phosphate
Y343 (= Y376) binding pyridoxal 5'-phosphate

2yxxA Crystal structure analysis of diaminopimelate decarboxylate (lysa)
39% identity, 92% coverage: 23:407/420 of query aligns to 3:374/385 of 2yxxA

query
sites
2yxxA

I

L

Q

R

N

K

L

V

A

A

S

E

K

I

I

H

G

G

T

T

P

P

F

T

Y

Y

I

V

Y

Y

S

F

K

E

K

E

A

T

I

L

I

R

D

K

K

R

I

S

N

R

E

L

Y

V

K

K

E

E

A

V

F

F

K

E

D

G

Y

V

P

N

T

L

L

L

I

P

C

T

Y

F

A

A

L

V

K
|
K

A

A

N

N

S

N

N

N

L

P

S

V

I

L

L

L

K

K

I

I

F

L

E

R

E

E

H

E

G

G

L

F

G

G

A

M

D
|
D

I

V

V

V

S

T

G

K

G

G

E

E

L

L

Y

L

K

A

A

A

R

K

K

L

V

A

G

G

I

V

P

P

S

S

N

H

K

T

I

V

V

V

Y

W

A

N

G

G

V

N

G

G

K

K

T

S

D

R

V

D

E

Q

I

M

I

E

Y

H

A

F

I

L

N

R

E

E

N

D

I

V

L

R

S

I

F

V

N

N

V

V

E

D

S

S

Q

F

M

E

E

E

L

M

E

E

V

I

I

W

N

R

E

E

I

L

A

-

K

-

R

-

Q

N

N

P

K

E

K

G

A

V

N

E

I

Y

S

F

I

I

R

R

I

V

N

N

P

P

D

E

V

V

D

D

P

A

K

K

T

T

H

H

P

P

Y

H

I

I

S

S

T

T

G

G

L

L

K

K

K

K

S

H

K

K

F

F

G

G

I

I

D

P

I

L

G

-

Q

E

A

D

L

L

D

D

V

S

Y

F

K

M

Q

E

A

-

V

-

K

R

M

F

E

R

N

S

L

M

N

N

V

I

V

R

G

G

I

L

H

H

C

V

H
|
H

I

I

G

G

S
|
S

Q

Q

I

I

M

T

D

R

V

V

S

E

V

P

Y

F

K

V

E

E

A

A

V

F

E

S

K

K

T

V

V

V

D

R

L

-

V

-

F

-

K

-

L

-

K

A

K

S

E

E

G

R

I

Y

E

G

L

F

Q

E

F

E

I

I

D

N

I

I

G

G

G

G

G
|
G

L

W

G

G

V

I

K

N

Y

Y

Y

S

P

G

E

E

D

E

N

-

P

-

P

-

T

-

A

-

F

L

D

D

L

L

A

S

N

S

-

Y

-

R

-

E

T

K

V

V

L

V

P

P

I

D

V

L

K

K

Q

R

T

F

G

K

L

-

K

R

L

V

I

I

I

V

E
|
E

P

I

G
|
G

R
|
R

S

Y

L

I

I

V

A

A

Q

P

A

S

G

G

A

Y

L

L

I

L

T

L

K

R

V

V

I

V

F

L

T

V

K

K

D

R

K

R

K

H

D

N

K

K

H

A

F

F

V

V

I

V

V

V

D

D

S

G

G

G

M

M

N

N

D

V

L

L

I

I

R

R

P

P

S

A

I

L

Y

Y

N

S

A

A

Y

Y

H

H

H

R

I

I

I

F

T

V

V

L

E

G

E

K

K

Q

Q

G

E

K

K

E

M

M

V

R

A

A

D

D

I

V

V

V

G

G

P

P

I

L

C

C

E

E

T

S

G

G

D

D

F

V

F

I

G

A

L

Y

D

D

R

R

E

E

I

L

G

P

K

E

V

V

N

E

R

P

G

G

D

D

L

I

L

I

A

A

I

V

L

E

T

N

A

A

G

G

A

A

Y
|
Y

G

G

S

Y

S

T

M

M

A

S

S

N

N

N

Y

Y

N

N

V

S

R

T

P

T

K

R

A

P

I

A

E

E

I

V

L

L

V

V

-

R

D

E

G

N

D

G

K

R

F

I

K

S

I

L

I

I

K

R

E

R

R

R

E

E

active site: K45 (= K65), H178 (= H204), E245 (= E279)
binding pyridoxal-5'-phosphate: K45 (= K65), D64 (= D84), H178 (= H204), S181 (= S207), G213 (= G244), E245 (= E279), G247 (= G281), R248 (= R282), Y342 (= Y376)

P00861 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Escherichia coli (strain K12)
33% identity, 92% coverage: 22:407/420 of query aligns to 16:409/420 of P00861

query
sites
P00861

N

N

I

L

Q

L

N

R

L

L

A

P

S

A

K

E

I

F

G

G

T

C

P

P

F

V

Y

W

I

V

Y

Y

S

D

K

A

K

Q

A

I

I

I

I

R

D

R

K

Q

I

I

N

-

E

-

Y

-

K

-

E

A

A

A

F

L

K

K

D

Q

Y

F

P

-

T

D

L

V

I

V

C

R

Y

F

A

A

L

Q

K
|
K

A

A

N

C

S

S

N

N

L

I

S

H

I

I

L

L

K

R

I

L

F

M

E

R

E

E

H

Q

G

G

L

V

G

K

A

V

D

D

I

S

V

V

S

S

G

L

G

G

E

E

L

I

Y

E

K

R

A

A

R

L

K

A

V

A

G

G

I

Y

-

N

-

P

-

Q

-

T

-

H

P

P

S

D

N

D

K

I

I

V

V

F

Y

T

A

A

G

D

V

V

G

-

K

-

T

I

D

D

V

Q

E

A

I

T

I

L

Y

E

A

R

I

V

N

S

E

E

N

L

I

Q

L

I

S

P

F

V

N

N

V

A

E

G

S

S

Q

V

M

D

E

M

L

L

E

D

V

Q

I

L

N

G

E

Q

I

V

A

S

K

P

R

G

Q

H

N

R

K

-

K

-

A

-

N

-

I

V

S

W

I

L

R

R

I

V

N

N

P

P

D

G

V

F

D

G

P

H

K

G

T

H

H

S

P

Q

Y

K

I

T

S

N

T

T

G

G

L

G

K

E

K

N

S

S

K

K

F

H

G

G

I

I

-

W

-

Y

-

T

D

D

I

L

G

P

Q

A

A

A

L

L

D

D

V

V

Y

-

K

-

Q

-

A

-

V

I

K

Q

M

R

E

H

N

H

L

L

N

Q

V

L

V

V

G

G

I

I

H

H

C

M

H

H

I

I

G

G

S

S

Q

G

I

V

M

-

D

D

V

Y

S

A

V

H

Y

L

K

E

E

Q

A

V

V

C

E

G

K

A

T

M

V

V

D

R

L

Q

V

V

F

I

K

E

L

F

K

-

K

-

E

-

G

G

I

Q

E

D

L

L

Q

Q

F

A

I

I

D

S

I

A

G

G

G

G

G
|
G

L

L

G

S

V

V

K

P

Y

Y

Y

Q

P

Q

E

G

D

E

-

E

-

A

-

V

N

D

P

T

P

E

T

H

A

Y

F

Y

D

G

L

L

A

W

N

N

T

A

V

A

L

R

-

E

P

Q

I

I

V

A

K

R

Q

H

T

L

G

G

-

H

-

P

L

V

K

K

L

L

I

E

I

I

E
|
E

P
|
P

G
|
G

R
|
R

S

F

L

L

I

V

A

A

Q

Q

A

S

G

G

A

V

L

L

I

I

T

T

K

Q

V

V

I

R

F

S

T

V

K

K

D

Q

K

M

K

G

D

S

K

R

H

H

F

F

V

V

I

L

V

V

D

D

S

A

G

G

M

F

N

N

D

D

L

L

I

M

R

R

P

P

S

A

I

M

Y

Y

N

G

A

S

Y

Y

H

H

H

H

I

I

I

S

T

A

V

L

E

A

-

A

-

D

-

G

-

R

-

S

-

L

E

E

K

H

Q

A

E

P

K

T

M

V

V

E

A

T

D

V

I

V

V

A

G

G

P

P

I

L

C

C

E

E

T

S

G

G

D

D

F

V

F

F

G

T

L

Q

D

Q

-

E

-

G

-

G

-

N

-

V

-

E

-

T

R

R

E

A

I

L

G

P

K

E

V

V

N

K

R

A

G

G

D

D

L

Y

L

L

A

V

I

L

L

H

T

D

A

T

G

G

A

A

Y
|
Y

G

G

S

A

S

S

M

M

A

S

S

S

N

N

Y

Y

N

N

V

S

R

R

P

P

K

L

A

L

I

P

E

E

I

V

L

L

V

F

D

D

G

N

D

G

K

Q

F

A

K

R

I

L

I

I

K

R

E

R

R

R

E

Q

K54 (= K65) modified: N6-(pyridoxal phosphate)lysine
G227 (= G244) binding pyridoxal 5'-phosphate
EPGR 268:271 (= EPGR 279:282) binding pyridoxal 5'-phosphate
Y378 (= Y376) binding pyridoxal 5'-phosphate

1knwA Crystal structure of diaminopimelate decarboxylase
33% identity, 92% coverage: 22:407/420 of query aligns to 15:408/421 of 1knwA

query
sites
1knwA

N

N

I

L

Q

L

N

R

L

L

A

P

S

A

K

E

I

F

G

G

T

C

P

P

F

V

Y

W

I

V

Y

Y

S

D

K

A

K

Q

A

I

I

I

I

R

D

R

K

Q

I

I

N

-

E

-

Y

-

K

-

E

A

A

A

F

L

K

K

D

Q

Y

F

P

-

T

D

L

V

I

V

C

R

Y

F

A
|
A

L

Q

K
|
K

A

A

N

C

S

S

N

N

L

I

S

H

I

I

L

L

K

R

I

L

F

M

E

R

E

E

H

Q

G

G

L

V

G

K

A

V

D

D

I

S

V

V

S

S

G

L

G

G

E

E

L

I

Y

E

K

R

A

A

R

L

K

A

V

A

G

G

I

Y

-

N

-

P

-

Q

-

T

-

H

P

P

S

D

N

D

K

I

I

V

V

F

Y

T

A

A

G

D

V

V

G

-

K

-

T

I

D

D

V

Q

E

A

I

T

I

L

Y

E

A

R

I

V

N

S

E

E

N

L

I

Q

L

I

S

P

F

V

N

N

V

A

E

G

S

S

Q

V

M

D

E

M

L

L

E

D

V

Q

I

L

N

G

E

Q

I

V

A

S

K

P

R

G

Q

H

N

R

K

-

K

-

A

-

N

-

I

V

S

W

I

L

R

R

I

V

N

N

P

P

D

G

V

F

D

G

P

H

K

G

T

H

H

S

P

Q

Y

K

I

T

S

N

T

T

G

G

L

G

K

E

K

N

S

S

K

K

F

H

G

G

I

I

-

W

-

Y

-

T

D

D

I

L

G

P

Q

A

A

A

L

L

D

D

V

V

Y

-

K

-

Q

-

A

-

V

I

K

Q

M

R

E

H

N

H

L

L

N

Q

V

L

V

V

G

G

I

I

H

H

C

M

H
|
H

I

I

G

G

S

S

Q

G

I

V

M

-

D

D

V

Y

S

A

V

H

Y

L

K

E

E

Q

A

V

V

C

E

G

K

A

T

M

V

V

D

R

L

Q

V

V

F

I

K

E

L

F

K

-

K

-

E

-

G

G

I

Q

E

D

L

L

Q

Q

F

A

I

I

D

S

I

A

G

G

G

G

G
|
G

L

L

G

S

V

V

K

P

Y

Y

Y

Q

P

Q

E

G

D

E

-

E

-

A

-

V

N

D

P

T

P

E

T

H

A

Y

F

Y

D

G

L

L

A

W

N

N

T

A

V

A

L

R

-

E

P

Q

I

I

V

A

K

R

Q

H

T

L

G

G

-

H

-

P

L

V

K

K

L

L

I

E

I

I

E
|
E

P

P

G
|
G

R
|
R

S

F

L

L

I

V

A

A

Q

Q

A

S

G

G

A

V

L

L

I

I

T

T

K

Q

V

V

I

R

F

S

T

V

K

K

D

Q

K

M

K

G

D

S

K

R

H

H

F

F

V

V

I

L

V

V

D

D

S

A

G

G

M

F

N

N

D

D

L

L

I

M

R

R

P

P

S

A

I

M

Y

Y

N

G

A

S

Y

Y

H

H

H

H

I

I

I

S

T

A

V

L

E

A

-

A

-

D

-

G

-

R

-

S

-

L

E

E

K

H

Q

A

E

P

K

T

M

V

V

E

A

T

D

V

I

V

V

A

G

G

P

P

I

L

C

C

E

E

T

S

G

G

D

D

F

V

F

F

G

T

L

Q

D

Q

-

E

-

G

-

G

-

N

-

V

-

E

-

T

R

R

E

A

I

L

G

P

K

E

V

V

N

K

R

A

G

G

D

D

L

Y

L

L

A

V

I

L

L

H

T

D

A

T

G

G

A

A

Y
|
Y

G

G

S

A

S

S

M

M

A

S

S

S

N

N

Y

Y

N

N

V

S

R

R

P

P

K

L

A

L

I

P

E

E

I

V

L

L

V

F

D

D

G

N

D

G

K

Q

F

A

K

R

I

L

I

I

K

R

E

R

R

R

E

Q

binding pyridoxal-5'-phosphate: A51 (= A63), K53 (= K65), H190 (= H204), G226 (= G244), E267 (= E279), G269 (= G281), R270 (= R282), Y377 (= Y376)

1ko0A Crystal structure of a d,l-lysine complex of diaminopimelate decarboxylase
33% identity, 92% coverage: 22:407/420 of query aligns to 15:408/419 of 1ko0A

query
sites
1ko0A

N

N

I

L

Q

L

N

R

L

L

A

P

S

A

K

E

I

F

G

G

T

C

P

P

F

V

Y

W

I

V

Y

Y

S

D

K

A

K

Q

A

I

I

I

I

R

D

R

K

Q

I

I

N

-

E

-

Y

-

K

-

E

A

A

A

F

L

K

K

D

Q

Y

F

P

-

T

D

L

V

I

V

C

R

Y

F

A
|
A

L

Q

K
|
K

A

A

N

C

S

S

N

N

L

I

S

H

I

I

L

L

K

R

I

L

F

M

E

R

E

E

H

Q

G

G

L

V

G

K

A

V

D

D

I

S

V

V

S

S

G

L

G

G

E

E

L

I

Y

E

K

R

A

A

R

L

K

A

V

A

G

G

I

Y

-

N

-

P

-

Q

-

T

-

H

P

P

S

D

N

D

K

I

I

V

V

F

Y

T

A

A

G

D

V

V

G

-

K

-

T

I

D

D

V

Q

E

A

I

T

I

L

Y

E

A

R

I

V

N

S

E

E

N

L

I

Q

L

I

S

P

F

V

N

N

V

A

E

G

S

S

Q

V

M

D

E

M

L

L

E

D

V

Q

I

L

N

G

E

Q

I

V

A

S

K

P

R

G

Q

H

N

R

K

-

K

-

A

-

N

-

I

V

S

W

I

L

R

R

I

V

N

N

P

P

D

G

V

F

D

G

P

H

K

G

T

H

H

S

P

Q

Y

K

I

T

S

N

T
|
T

G

G

L

G

K

E

K

N

S

S

K

K

F

H

G

G

I

I

-

W

-

Y

-

T

D

D

I

L

G

P

Q

A

A

A

L

L

D

D

V

V

Y

-

K

-

Q

-

A

-

V

I

K

Q

M

R

E

H

N

H

L

L

N

Q

V

L

V

V

G

G

I

I

H

H

C

M

H
|
H

I

I

G

G

S

S

Q

G

I

V

M

-

D

D

V

Y

S

A

V

H

Y

L

K

E

E

Q

A

V

V

C

E

G

K

A

T

M

V

V

D

R

L

Q

V

V

F

I

K

E

L

F

K

-

K

-

E

-

G

G

I

Q

E

D

L

L

Q

Q

F

A

I

I

D

S

I

A

G

G

G

G

G
|
G

L

L

G

S

V

V

K

P

Y

Y

Y

Q

P

Q

E

G

D

E

-

E

-

A

-

V

N

D

P

T

P

E

T

H

A

Y

F

Y

D

G

L

L

A

W

N

N

T

A

V

A

L

R

-

E

P

Q

I

I

V

A

K

R

Q

H

T

L

G

G

-

H

-

P

L

V

K

K

L

L

I

E

I

I

E
|
E

P
|
P

G
|
G

R
|
R

S

F

L

L

I

V

A

A

Q

Q

A

S

G

G

A

V

L

L

I

I

T

T

K

Q

V

V

I

R

F

S

T

V

K

K

D

Q

K

M

K

G

D

S

K

R

H

H

F

F

V

V

I

L

V

V

D

D

S

A

G

G

M

F

N

N

D

D

L

L

I

M

R
|
R

P

P

S

A

I

M

Y
|
Y

N

G

A

S

Y

Y

H

H

H

H

I

I

I

S

T

A

V

L

E

A

-

A

-

D

-

G

-

R

-

S

-

L

E

E

K

H

Q

A

E

P

K

T

M

V

V

E

A

T

D

V

I

V

V

A

G

G

P

P

I

L

C

C

E

E

T

S

G

G

D

D

F

V

F

F

G

T

L

Q

D

Q

-

E

-

G

-

G

-

N

-

V

-

E

-

T

R

R

E

A

I

L

G

P

K

E

V

V

N

K

R

A

G

G

D

D

L

Y

L

L

A

V

I

L

L

H

T

D

A

T

G

G

A

A

Y
|
Y

G

G

S

A

S

S

M

M

A

S

S

S

N

N

Y

Y

N

N

V

S

R

R

P

P

K

L

A

L

I

P

E

E

I

V

L

L

V

F

D

D

G

N

D

G

K

Q

F

A

K

R

I

L

I

I

K

R

E

R

R

R

E

Q

binding d-lysine: K53 (= K65), T156 (= T169), H190 (= H204), Y310 (= Y322), Y377 (= Y376)
binding lysine: K53 (= K65), R270 (= R282), R306 (= R318), Y310 (= Y322), Y377 (= Y376)
binding pyridoxal-5'-phosphate: A51 (= A63), K53 (= K65), H190 (= H204), G226 (= G244), E267 (= E279), P268 (= P280), G269 (= G281), R270 (= R282), Y377 (= Y376)

7ru7A Crystal structure of btrk, a decarboxylase involved in butirosin biosynthesis
32% identity, 92% coverage: 19:406/420 of query aligns to 4:400/412 of 7ru7A

query
sites
7ru7A

E

D

D

Q

V

A

N

E

I

I

Q

T

N

A

L

L

A

T

S

K

K

R

I

F

G

E

T

T

P

P

F

F

Y

Y

I

L

Y

Y

S

D

K

G

K

D

A

F

I

I

I

E

D

A

K

H

I

Y

N

R

E

Q

Y

L

K

R

E

S

A

-

F

-

K

R

D

T

Y

N

P

P

T

A

L

I

I

Q

C

F

Y

Y

-

L

A
x
S

L

L

K
|
K

A

A

N

N

S

N

N

N

L

I

S

H

I

L

L

A

K

K

I

L

F

F

E

R

E

Q

H

W

G

G

L

L

G

G

A

V

D

E

I

V

V

A

S

S

G

A

G

G

E

E

L

L

Y

A

K

L

A

A

R

R

K

H

V

A

G

G

I

F

P

S

S

A

N

E

K

N

I

I

V

I

Y

F

A

S

G

G

V

P

G

G

K

K

T

K

D

R

V

S

E

E

I

L

I

E

Y

I

A

A

I

V

N

Q

E

S

N

G

I

I

L

Y

S

C

F

I

N

I

V

A

E

E

S

S

Q

V

M

E

E

E

L

L

E

F

V

Y

I

I

N

E

E

E

I

L

A

A

K

E

R

K

Q

E

N

N

K

K

K

T

A

A

N

R

I

V

S

A

I

I

R

R

I

I

N

N

P

P

D

D

V

-

D

-

P

-

K

-

T

-

H

K

P

S

Y

F

I

G

S

S

T

T

G

A

L

I

K

K

-

M

-

G

-

G

-

V

K

P

S

R

K

Q

F

F

G

G

I

M

D

D

I

-

G

E

Q

S

A

M

L

L

D

D

V

A

Y

V

K

M

Q

D

A

A

V

V

K

R

-

S

M

L

E

Q

N

F

L

T

N

K

V

F

V

I

G

G

I

I

H

H

C

V

H
x
Y

I

T

G

G

S
x
T

Q

Q

I

N

M

L

D

N

V

T

S

D

V

S

Y

I

K

I

E

E

A

S

V

M

E

K

K

Y

T

T

V

V

D

D

L

L

V

G

F

R

K

N

L

I

-

Y

K

E

K

R

E

Y

G

G

I

I

E

V

L

C

Q

E

F

C

I

I

D

N

I

L

G

G

G

G

G

G

L

F

G

G

V

V

K

P

Y

Y

Y

F

P

S

E

H

D

E

N

K

P

A

P

L

T

D

A

I

F

G

D

K

L

I

A

T

N

R

T

T

V

V

L

S

P

D

I

Y

V

V

K

Q

Q

E

T

A

-

R

-

D

-

T

-

R

-

F

-

P

G

Q

L

T

K

T

L

F

I

I

I

I

E
|
E

P
x
S

G
|
G

R
|
R

S

Y

L

L

I

L

A

A

Q

Q

A

A

G

A

A

V

L

Y

I

V

T

T

K

E

V

V

I

L

F

Y

T

R

K

K

D

A

K

S

K

K

D

G

K

E

H

V

F

F

V

V

I

I

V

V

D

D

S

G

G

G

M

M

N

H

D

H

L

H

I

A

R

A

P

S

S

T

I

F

Y

S

N

N

A

Y

Y

P

H

M

H

E

I

Y

I

I

T

P

V

V

E

R

E

E

-

D

-

S

-

G

K

R

Q

R

E

E

K

L

M

E

V

K

A

V

D

T

I

I

V

A

G

G

P

P

I

L

C

C

E

T

T

P

G

E

D

D

F

C

F

L

G

G

L

K

D

D

R

V

E

H

I

V

G

P

K

A

V

L

N

Y

R

P

G

G

D

D

L

L

L

V

A

C

I

V

L

L

T

N

A

S

G

G

A

A

Y
|
Y

G

G

S

L

S

S

M

F

A

S

S

P

-

V

N

H

Y

F

N

L

V

G

R

H

P

P

K

T

A

P

I

I

E

E

I

I

L

L

V

K

D

R

G

N

D

G

K

S

F

Y

K

E

I

L

I

I

K

R

E

R

R

K

binding pyridoxal-5'-phosphate: S47 (≠ A63), K49 (= K65), Y187 (≠ H204), T190 (≠ S207), E269 (= E279), S270 (≠ P280), G271 (= G281), R272 (= R282), Y369 (= Y376)

P9WIU7 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
29% identity, 94% coverage: 21:416/420 of query aligns to 29:445/447 of P9WIU7

query
sites
P9WIU7

V

I

N

P

I

L

Q

T

N

Q

L

L

A

A

S

Q

K

E

I

Y

G

G

T

T

P

P

F

L

Y

F

I

V

Y

I

S

D

K

E

K

D

A

D

I

F

I

R

D

S

K

R

I

C

N

R

E

E

Y

T

K

A

E

A

A

A

F

F

K

G

D

S

Y

G

P

A

T

N

L

-

I

V

C

H

Y

Y

A

A

L

A

K
|
K

A

A

N

F

S

L

N

C

L

S

S

E

I

V

L

A

K

R

I

W

F

I

E

S

E

E

H

E

G

G

L

L

G

C

A

L

D

D

I

V

V
x
C

S

T

G

G

G

G

E

E

L

L

Y

A

K

V

A

A

R

L

K

H

V

A

G

S

I

F

P

P

S

P

N

E

K

R

I

I

V

T

Y

L

A

H

G

G

V

N

G

N

K

K

T

S

D

V

V

S

E

E

I

L

I

T

Y

A

A

A

I

V

N

K

E

A

N

G

I

V

L

G

S

H

F

I

N

V

V

V

E

D

S

S

Q

M

M

T

E

E

L

I

E

E

V

R

I

L

N

D

E

A

I

I

A

A

K

G

R

E

Q

A

N

G

K

I

K

V

A

Q

N

D

I

V

S

L

I

V

R

R

I

L

N

T

P

V

D

G

V

V

D

E

P

A

K

H

T

T

H

H

P

E

Y

F

I

I

S

S

T

T

G

A

L

H

K

E

K

D

S

Q

K

K

F

F

G

G

I

L

D

S

I

V

-

A

-

S

G

G

Q

A

A

A

L

M

D

A

V

A

Y

V

K

R

Q

R

A

V

V

F

K

A

M

T

E

D

N

H

L

L

N

R

V

L

V

V

G

G

I

L

H

H

C

S

H

H

I

I

G

G

S

S

Q

Q

I

I

M

F

D

D

V

V

S

D

V

G

Y

F

K

E

E

L

A

A

V

A

E

H

K

R

T

V

V

I

D

G

L

L

V

L

F

R

K

D

L

V

K

V

K

G

E

E

-

F

-

G

-

P

-

E

-

K

G

T

I

A

E

Q

L

I

Q

A

F

T

I

V

D

D

I

L

G

G

G

G

G
|
G

L

L

G

G

V

I

K

S

Y

Y

Y

L

P

P

E

S

D

D

N

D

P

P

P

P

T

P

A

I

F

A

D

E

L

L

A

A

N

A

T

K

V

L

L

G

P

T

I

I

V

V

K

S

-

D

-

E

-

S

-

T

Q

A

T

V

G

G

L

L

-

P

-

T

-

P

K

K

L

L

I

V

I

V

E
|
E

P
|
P

G
|
G

R
|
R

S

A

L

I

I

A

A

G

Q

P

A

G

G

T

A

I

L

T

I

L

T

Y

K

E

V

V

I

G

F

T

T

V

K

K

D

D

-

V

-

D

-

V

-

S

-

A

K

T

K

A

D

H

K

R

H

R

F

Y

V

V

I

S

V

V

D

D

S

G

G

G

M

M

N

S

D

D

L

N

I

I

R

R

P

T

S

A

I

L

Y

Y

N

G

A

A

Y

Q

H

Y

H

D

I

V

I

R

T

L

V

V

E

S

E

R

K

V

Q

S

E

D

K

A

-

P

-

P

M

V

V

P

A

A

D

R

I

L

V

V

G

G

P

K

I

H

C
|
C

E

E

T

S

G

G

D

D

F

I

F

I

G

V

L

R

D

D

R

T

E

W

I

V

-

P

G

D

K

D

V

I

N

R

R

P

G

G

D

D

L

L

L

V

A

A

I

V

L

A

T

A

A

T

G

G

A

A

Y
|
Y

G

C

S

Y

S

S

M

L

A

S

S

S

N

R

Y

Y

N

N

V

M

R

V

P

G

K

R

A

P

I

A

E

V

I

V

L

A

V

V

D

H

G

A

D

G

K

N

F

A

K

R

I

L

I

V

K

L

E

R

R

R

E

E

D

T

Y

V

S

D

F

D

I

L

T

L

K

S

L

L

E

E

K72 (= K65) modified: N6-(pyridoxal phosphate)lysine
C93 (≠ V86) modified: Interchain (with C-375)
G258 (= G244) binding pyridoxal 5'-phosphate
EPGR 300:303 (= EPGR 279:282) binding pyridoxal 5'-phosphate
C375 (= C347) modified: Interchain (with C-72)
Y405 (= Y376) binding pyridoxal 5'-phosphate

1hkvA Mycobacterium diaminopimelate dicarboxylase (lysa) (see paper)
29% identity, 94% coverage: 21:416/420 of query aligns to 28:444/446 of 1hkvA

query
sites
1hkvA

V

I

N

P

I

L

Q

T

N

Q

L

L

A

A

S

Q

K

E

I

Y

G

G

T

T

P

P

F

L

Y

F

I

V

Y

I

S

D

K

E

K

D

A

D

I

F

I

R

D

S

K

R

I

C

N

R

E

E

Y

T

K

A

E

A

A

A

F

F

K

G

D

S

Y

G

P

A

T

N

L

-

I

V

C

H

Y

Y

A
|
A

L

A

K
|
K

A

A

N

F

S

L

N

C

L

S

S

E

I

V

L

A

K

R

I

W

F

I

E

S

E

E

H

E

G

G

L

L

G

C

A

L

D

D

I

V

V

C

S

T

G

G

G

G

E

E

L

L

Y

A

K

V

A

A

R

L

K

H

V

A

G

S

I

F

P

P

S

P

N

E

K

R

I

I

V

T

Y

L

A

H

G

G

V

N

G

N

K

K

T

S

D

V

V

S

E

E

I

L

I

T

Y

A

A

A

I

V

N

K

E

A

N

G

I

V

L

G

S

H

F

I

N

V

V

V

E

D

S

S

Q

M

M

T

E

E

L

I

E

E

V

R

I

L

N

D

E

A

I

I

A

A

K

G

R

E

Q

A

N

G

K

I

K

V

A

Q

N

D

I

V

S

L

I

V

R
|
R

I

L

N

T

P

V

D

G

V

V

D

E

P

A

K

H

T

T

H

H

P

E

Y

F

I

I

S

S

T

T

G

A

L

H

K

E

K

D

S

Q

K

K

F

F

G

G

I

L

D

S

I

V

-

A

-

S

G

G

Q

A

A

A

L

M

D

A

V

A

Y

V

K

R

Q

R

A

V

V

F

K

A

M

T

E

D

N

H

L

L

N

R

V

L

V

V

G

G

I

L

H
|
H

C

S

H
|
H

I

I

G

G

S

S

Q

Q

I

I

M

F

D

D

V

V

S

D

V

G

Y

F

K

E

E

L

A

A

V

A

E

H

K

R

T

V

V

I

D

G

L

L

V

L

F

R

K

D

L

V

K

V

K

G

E

E

-

F

-

G

-

P

-

E

-

K

G

T

I

A

E

Q

L

I

Q

A

F

T

I

V

D

D

I

L

G

G

G
|
G

G
|
G

L

L

G

G

V

I

K

S

Y

Y

Y

L

P

P

E

S

D

D

N

D

P

P

P

P

T

P

A

I

F

A

D

E

L

L

A

A

N

A

T

K

V

L

L

G

P

T

I

I

V

V

K

S

-

D

-

E

-

S

-

T

Q

A

T

V

G

G

L

L

-

P

-

T

-

P

K

K

L

L

I

V

I

V

E
|
E

P

P

G
|
G

R
|
R

S

A

L

I

I

A

A

G

Q

P

A

G

G

T

A

I

L

T

I

L

T

Y

K

E

V

V

I

G

F

T

T

V

K

K

D

D

-

V

-

D

-

V

-

S

-

A

K

T

K

A

D

H

K

R

H

R

F

Y

V

V

I

S

V

V

D

D

S

G

G

G

M

M

N

S

D

D

L

N

I

I

R

R

P

T

S

A

I

L

Y

Y

N

G

A

A

Y

Q

H

Y

H

D

I

V

I

R

T

L

V

V

E

S

E

R

K

V

Q

S

E

D

K

A

-

P

-

P

M

V

V

P

A

A

D

R

I

L

V

V

G

G

P

K

I

H

C

C

E
|
E

T
x
S

G

G

D

D

F

I

F

I

G

V

L

R

D

D

R

T

E

W

I

V

-

P

G

D

K

D

V

I

N

R

R

P

G

G

D

D

L

L

L

V

A

A

I

V

L

A

T

A

A

T

G

G

A

A

Y
|
Y

G

C

S

Y

S

S

M

L

A

S

S

S

N

R

Y

Y

N

N

V

M

R

V

P

G

K

R

A

P

I

A

E

V

I

V

L

A

V

V

D

H

G

A

D

G

K

N

F

A

K

R

I

L

I

V

K

L

E

R

R

R

E

E

D

T

Y

V

S

D

F

D

I

L

T

L

K

S

L

L

E

E

binding lysine: E375 (= E348), S376 (≠ T349)
binding pyridoxal-5'-phosphate: A69 (= A63), K71 (= K65), R160 (= R154), H210 (= H202), H212 (= H204), G256 (= G243), G257 (= G244), E299 (= E279), G301 (= G281), R302 (= R282), Y404 (= Y376)

5x7mA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
31% identity, 96% coverage: 12:416/420 of query aligns to 21:442/443 of 5x7mA

query
sites
5x7mA

K

E

D

D

G

G

K

V

L

V

Y

T

C

V

E

A

D

G

V

V

N

P

I

L

Q

P

N

D

L

L

A

A

S

E

K

E

I

Y

G

G

T

T

P

P

F

L

Y

F

I

V

Y

V

S

D

K

E

K

D

A

D

I

F

I

R

D

S

K

R

I

C

N

R

E

D

Y

M

K

A

E

T

A

A

F

F

K

G

D

G

Y

-

P

P

T

G

L

N

I

V

C

H

Y

Y

A

A

L

S

K
|
K

A

A

N

F

S

L

N

T

L

K

S

T

I

I

L

A

K

R

I

W

F

V

E

D

E

E

H

E

G

G

L

L

G

A

A

L

D

D

I

I

V

A

S

S

G

I

G

N

E

E

L

L

Y

G

K

I

A

A

R

L

K

A

V

A

G

G

I

F

P

P

S

A

N

S

K

R

I

I

V

T

Y

A

A
x
H

G

G

V

N

G

N

K

K

T

-

D

G

V

V

E

E

I

F

I

L

Y

R

A

A

I

L

N

V

E

Q

N

N

I

G

L

V

S

G

F

H

N

V

V

V

-

L

E

D

S

S

Q

A

M

Q

E

E

L

L

E

E

V

L

I

L

N

D

E

Y

I

V

A

A

K

A

R

G

Q

E

N

G

K

K

K

I

A

Q

N

D

I

V

S

L

I

I

R

R

I

V

N

K

P

P

D

G

V

I

D

E

P

A

K

H

T

T

H

H

P

E

Y

F

I

I

S

A

T

T

G

S

L

H

K

E

K

D

S

Q

K

K

F

F

G

G

I

F

D

S

I

L

-

A

-

S

G

G

Q

S

A

A

L

F

D

E

V

A

Y

A

K

K

Q

A

A

A

V

N

K

N

M

A

E

E

N

N

L

L

N

N

V

L

V

V

G

G

I

L

H

H

C

C

H
|
H

I

V

G

G

S

S

Q

Q

I

V

M

F

D

D

V

A

S

E

V

G

Y

F

K

K

E

L

A

A

V

A

E

E

K

R

T

V

V

L

D

G

L

L

V

Y

F

S

K

Q

L

I

K

H

K

S

E

E

-

L

G

G

I

V

E

A

L

L

Q

P

F

E

I

L

D

D

I

L

G

G

G
|
G

G
|
G

L

Y

G

G

V

I

K

A

Y

Y

Y

T

P

A

E

A

D

E

N

E

P

P

P

L

T

N

A

V

F

A

D

E

L

V

A

A

N

S

T

D

V

L

L

L

P

T

I

A

V

V

K

G

Q

K

T

M

G

A

L

A

K

E

L

L

-

G

-

I

-

D

-

A

-

P

-

T

-

V

I

L

I

V

E
|
E

P

P

G
|
G

R
|
R

S

A

L

I

I

A

A

G

Q

P

A

S

G

T

A

V

L

T

I

I

-

Y

-

E

-

V

-

G

-

T

T

T

K

K

V

D

I

V

F

H

T

V

K

D

D

D

K

D

K

K

D

T

K

R

H

R

F

Y

V

I

I

A

V

V

D

D

S

G

G

G

M

M

N

S

D

D

L

N

I

I

R

R

P

P

S

A

I

L

Y

Y

N

G

A

S

Y

E

H

Y

-

D

-

A

H

R

I

V

I

V

T

S

V

R

E

F

E

A

K

E

Q

G

E

D

K

P

M

V

V

S

A

T

D

R

I

I

V

V

G

G

P

S

I

H

C

C

E

E

T

S

G

G

D

D

F

I

F

L

G

-

L

I

D

N

R

D

E

E

I

I

-

Y

-

P

G

S

K

D

V

I

N

T

R

S

G

G

D

D

L

F

L

L

A

A

I

L

L

A

T

A

A

T

G

G

A

A

Y
|
Y

G

C

S

Y

S

A

M

M

A

S

S

S

N

R

Y

Y

N

N

V

A

R

F

P

T

K

R

A

P

I

A

E

V

I

V

L

S

V

V

D

R

G

A

D

G

K

S

F

S

K

R

I

L

I

M

K

L

E

R

R

R

E

E

D

T

Y

L

S

D

F

D

I

I

T

L

K

S

L

L

E

E

binding pyridoxal-5'-phosphate: K73 (= K65), H115 (≠ A107), H214 (= H204), G254 (= G243), G255 (= G244), E297 (= E279), G299 (= G281), R300 (= R282), Y402 (= Y376)

5x7nA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
31% identity, 96% coverage: 12:416/420 of query aligns to 21:442/442 of 5x7nA

query
sites
5x7nA

K

E

D

D

G

G

K

V

L

V

Y

T

C

V

E

A

D

G

V

V

N

P

I

L

Q

P

N

D

L

L

A

A

S

E

K

E

I

Y

G

G

T

T

P

P

F

L

Y

F

I

V

Y

V

S

D

K

E

K

D

A

D

I

F

I

R

D

S

K

R

I

C

N

R

E

D

Y

M

K

A

E

T

A

A

F

F

K

G

D

G

Y

-

P

P

T

G

L

N

I

V

C

H

Y

Y

A

A

L

S

K
|
K

A

A

N

F

S

L

N

T

L

K

S

T

I

I

L

A

K

R

I

W

F

V

E

D

E

E

H

E

G

G

L

L

G

A

A

L

D

D

I

I

V

A

S

S

G

I

G

N

E

E

L

L

Y

G

K

I

A

A

R

L

K

A

V

A

G

G

I

F

P

P

S

A

N

S

K

R

I

I

V

T

Y

A

A
x
H

G

G

V

N

G

N

K

K

T

-

D

G

V

V

E

E

I

F

I

L

Y

R

A

A

I

L

N

V

E

Q

N

N

I

G

L

V

S

G

F

H

N

V

V

V

-

L

E

D

S

S

Q

A

M

Q

E

E

L

L

E

E

V

L

I

L

N

D

E

Y

I

V

A

A

K

A

R

G

Q

E

N

G

K

K

K

I

A

Q

N

D

I

V

S

L

I

I

R

R

I

V

N

K

P

P

D

G

V

I

D

E

P

A

K

H

T

T

H

H

P

E

Y

F

I

I

S

A

T

T

G

S

L

H

K

E

K

D

S

Q

K

K

F

F

G

G

I

F

D

S

I

L

-

A

-

S

G

G

Q

S

A

A

L

F

D

E

V

A

Y

A

K

K

Q

A

A

A

V

N

K

N

M

A

E

E

N

N

L

L

N

N

V

L

V

V

G

G

I

L

H

H

C

C

H
|
H

I

V

G

G

S

S

Q

Q

I

V

M

F

D

D

V

A

S

E

V

G

Y

F

K

K

E

L

A

A

V

A

E

E

K

R

T

V

V

L

D

G

L

L

V

Y

F

S

K

Q

L

I

K

H

K

S

E

E

-

L

G

G

I

V

E

A

L

L

Q

P

F

E

I

L

D

D

I

L

G

G

G
|
G

G
|
G

L

Y

G

G

V

I

K

A

Y

Y

Y

T

P

A

E

A

D

E

N

E

P

P

P

L

T

N

A

V

F

A

D

E

L

V

A

A

N

S

T

D

V

L

L

L

P

T

I

A

V

V

K

G

Q

K

T

M

G

A

L

A

K

E

L

L

-

G

-

I

-

D

-

A

-

P

-

T

-

V

I

L

I

V

E
|
E

P

P

G
|
G

R
|
R

S

A

L

I

I

A

A

G

Q

P

A

S

G

T

A

V

L

T

I

I

-

Y

-

E

-

V

-

G

-

T

T

T

K

K

V

D

I

V

F

H

T

V

K

D

D

D

K

D

K

K

D

T

K

R

H

R

F

Y

V

I

I

A

V

V

D

D

S

G

G

G

M

M

N

S

D

D

L

N

I

I

R
|
R

P

P

S

A

I

L

Y
|
Y

N

G

A

S

Y

E

H

Y

-

D

-

A

H

R

I

V

I

V

T

S

V

R

E

F

E

A

K

E

Q

G

E

D

K

P

M

V

V

S

A

T

D

R

I

I

V

V

G

G

P

S

I

H

C

C

E

E

T

S

G

G

D

D

F

I

F

L

G

-

L

I

D

N

R

D

E

E

I

I

-

Y

-

P

G

S

K

D

V

I

N

T

R

S

G

G

D

D

L

F

L

L

A

A

I

L

L

A

T

A

A

T

G

G

A

A

Y
|
Y

G

C

S

Y

S

A

M
|
M

A

S

S

S

N

R

Y

Y

N

N

V

A

R

F

P

T

K

R

A

P

I

A

E

V

I

V

L

S

V

V

D

R

G

A

D

G

K

S

F

S

K

R

I

L

I

M

K

L

E

R

R

R

E

E

D

T

Y

L

S

D

F

D

I

I

T

L

K

S

L

L

E

E

binding lysine: K73 (= K65), R341 (= R318), Y345 (= Y322), Y402 (= Y376), M406 (= M380)
binding pyridoxal-5'-phosphate: K73 (= K65), H115 (≠ A107), H214 (= H204), G254 (= G243), G255 (= G244), E297 (= E279), G299 (= G281), R300 (= R282), Y402 (= Y376)

8d4iA Structure of y430f d-ornithine/d-lysine decarboxylase complex with putrescine (see paper)
29% identity, 98% coverage: 4:416/420 of query aligns to 18:457/462 of 8d4iA

query
sites
8d4iA

N

N

F

G

N

D

D

R

Y

R

F

F

V

Q

Y

H

K

K

D

D

G

G

K

H

L

L

Y

C

C

F

E

E

D

G

V

V

N

D

I

L

Q

D

N

A

L

L

A

A

S

R

K

Q

I

Y

G

P

T

T

P

P

F

F

Y

Y

I

V

Y

F

S

S

K

E

K

P

A

E

I

I

I

I

D

R

K

N

I

I

N

H

E

E

Y

I

K

Q

E

Q

A

A

F

F

K

A

D

A

Y

H

P

K

-

N

T

T

L

K

I

T

C

F

Y

F

A

A

L

S

K

K

A

T

N

C

S

S

N

V

L

M

S

G

I

V

L

L

K

K

I

A

F

I

E

R

E

D

H

A

G

G

L

I

G

C

A

A

D

E

I

A

V

N

S

S

G

Q

G

Y

E

E

L

V

Y

R

K

K

A

C

R

L

K

E

V

I

G

G

I

F

P

R

S

G

N

D

K

Q

I

I

V

V

Y

F

A

N

G

G

V

V

G

V

K

K

T

K

D

P

V

A

E

D

I

L

I

E

Y

Y

A

A

I

I

N

A

E

N

N

D

I

L

L

Y

S

L

F

I

N

N

V

V

E

D

S

S

Q

L

M

Y

E

E

L

L

E

E

V

H

I

I

N

D

E

A

I

I

A

S

K

R

R

K

Q

L

N

K

K

K

K

V

A

A

N

N

I

V

S

C

I

V

R

R

I

V

N

E

P

P

D

N

V

V

D

-

P

-

K

-

T

-

H

-

P

P

Y

L

I

V

S

T

T

A

G

F

L

H

K

A

K

K

S

S

K

-

F

-

G

G

I

L

D

D

I

L

G

E

Q

Q

A

A

L

E

D

E

V

T

Y

C

K

R

Q

R

A

I

V

L

K

A

M

M

E

P

N

Y

L

V

N

H

V

L

V

R

G

G

I

L

H

H

C

M

H
|
H

I

V

G

G

S
x
D

Q

Q

I

V

M

P

D

E

V

S

S

E

V

P

Y

F

K

A

E

K

A

A

V

T

E

K

K

V

T

L

V

V

D

D

L

E

V

S

F

R

K

R

L

L

K

E

K

E

E

V

-

L

G

G

I

I

E

K

L

F

Q

D

F

L

I

I

D

N

I

V

G

G

G

G

G

G

L

I

G

P

V

V

-

P

-

Y

K

K

Y

Y

Y

D

P

D

E

E

D

N

N

G

P

D

P

P

-

L

-

K

-

D

-

N

-

M

-

Y

-

A

-

G

-

I

T

T

A

A

F

Q

D

D

L

F

A

A

N

D

T

A

V

V

L

I

P

R

I

E

V

V

K

H

-

K

-

W

Q

R

T

T

G

D

L

V

K

E

L

I

I

C

I

I

E

E

P

P

G

G

R

R

S

K

L

V

I

T

A

G

Q

S

A

A

G

A

A

V

L

L

I

L

T

T

K

E

V

V

I

S

F

C

T

E

K

K

D

R

K

K

K

T

D

N

K

Y

-

D

-

L

-

N

-

G

-

N

-

V

-

E

-

C

-

H

-

V

H

E

F

W

V

K

I

F

V

V

D

D

S

A

G

G

M

Y

N

S

D

V

L

L

I

S

R
x
D

P

S

S
x
Q

I
x
H

Y
x
F

N
x
D

A

W

Y

F

H

F

H

Y

I

V

I

Y

T

N

V

A

E

S

E

R

K

M

Q

T

E

A

K

A

M

H

V

D

A

A

D

W

I

I

-

K

-

L

V

A

G

G

P

P

I

L

C

C

E

D

T

G

G

G

D

D

F

Y

F

F

-

H

-

M

G

G

L

V

D

K

R

G

E

E

-

E

-

F

-

L

-

L

I

P

G

K

K

E

V

T

N

H

R

V

G

G

D

D

L

I

L

V

A

A

I

F

L

L

T

D

A

A

G

G

A

A

Y
|
Y

G

T

S

I

S

E

M

S

A

Q

S

T

N

V

Y

F

N

N

V

N

R

R

P

P

K

R

A

T

I

G

E

V

I

V

L

M

V

I

D

D

-

K

-

N

G

G

D

D

K

T

F

-

K

R

I

L

I

I

K

R

E

R

R

E

E

D

D

S

Y

Y

S

E

F

D

I

M

T

V

K

K

L

Y

E

D

binding 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid: H212 (= H204), D215 (≠ S207), D350 (≠ R318), F354 (≠ Y322), Y416 (= Y376)
binding 1,4-diaminobutane: Q352 (≠ S320), H353 (≠ I321), D355 (≠ N323)

8d88A Structure of y430f d-ornithine/d-lysine decarboxylase complex with d- lysine (see paper)
29% identity, 98% coverage: 4:416/420 of query aligns to 18:457/461 of 8d88A

query
sites
8d88A

N

N

F

G

N

D

D

R

Y

R

F

F

V

Q

Y

H

K

K

D

D

G

G

K

H

L

L

Y

C

C

F

E

E

D

G

V

V

N

D

I

L

Q

D

N

A

L

L

A

A

S

R

K

Q

I

Y

G

P

T

T

P

P

F

F

Y

Y

I

V

Y

F

S

S

K

E

K

P

A

E

I

I

I

I

D

R

K

N

I

I

N

H

E

E

Y

I

K

Q

E

Q

A

A

F

F

K

A

D

A

Y

H

P

K

-

N

T

T

L

K

I

T

C

F

Y

F

A
|
A

L

S

K
|
K

A

T

N

C

S

S

N

V

L

M

S

G

I

V

L

L

K

K

I

A

F

I

E

R

E

D

H

A

G

G

L

I

G

C

A

A

D

E

I

A

V

N

S

S

G

Q

G

Y

E

E

L

V

Y

R

K

K

A

C

R

L

K

E

V

I

G

G

I

F

P

R

S

G

N

D

K

Q

I

I

V

V

Y

F

A

N

G

G

V

V

G

V

K

K

T

K

D

P

V

A

E

D

I

L

I

E

Y

Y

A

A

I

I

N

A

E

N

N

D

I

L

L

Y

S

L

F

I

N

N

V

V

E

D

S

S

Q

L

M

Y

E

E

L

L

E

E

V

H

I

I

N

D

E

A

I

I

A

S

K

R

R

K

Q

L

N

K

K

K

K

V

A

A

N

N

I

V

S

C

I

V

R

R

I

V

N

E

P

P

D

N

V

V

D

-

P

-

K

-

T

-

H

-

P

P

Y

L

I

V

S

T

T

A

G

F

L

H

K

A

K

K

S

S

K

-

F

-

G

G

I

L

D

D

I

L

G

E

Q

Q

A

A

L

E

D

E

V

T

Y

C

K

R

Q

R

A

I

V

L

K

A

M

M

E

P

N

Y

L

V

N

H

V

L

V

R

G

G

I

L

H

H

C

M

H
|
H

I

V

G

G

S
x
D

Q

Q

I

V

M

P

D

E

V

S

S

E

V

P

Y

F

K

A

E

K

A

A

V

T

E

K

K

V

T

L

V

V

D

D

L

E

V

S

F

R

K

R

L

L

K

E

K

E

E

V

-

L

G

G

I

I

E

K

L

F

Q

D

F

L

I

I

D

N

I

V

G

G

G

G

G
|
G

L

I

G

P

V

V

-

P

-

Y

K

K

Y

Y

Y

D

P

D

E

E

D

N

N

G

P

D

P

P

-

L

-

K

-

D

-

N

-

M

-

Y

-

A

-

G

-

I

T

T

A

A

F

Q

D

D

L

F

A

A

N

D

T

A

V

V

L

I

P

R

I

E

V

V

K

H

-

K

-

W

Q

R

T

T

G

D

L

V

K

E

L

I

I

C

I

I

E
|
E

P

P

G
|
G

R
|
R

S

K

L

V

I

T

A

G

Q

S

A

A

G

A

A

V

L

L

I

L

T

T

K

E

V

V

I

S

F

C

T

E

K

K

D

R

K

K

K

T

D

N

K

Y

-

D

-

L

-

N

-

G

-

N

-

V

-

E

-

C

-

H

-

V

H

E

F

W

V

K

I

F

V

V

D

D

S

A

G

G

M

Y

N

S

D

V

L

L

I

S

R

D

P

S

S
x
Q

I
x
H

Y

F

N
x
D

A

W

Y

F

H

F

H

Y

I

V

I

Y

T

N

V

A

E

S

E

R

K

M

Q

T

E

A

K

A

M

H

V

D

A

A

D

W

I

I

-

K

-

L

V

A

G

G

P

P

I

L

C

C

E

D

T

G

G

G

D

D

F

Y

F

F

-

H

-

M

G

G

L

V

D

K

R

G

E

E

-

E

-

F

-

L

-

L

I

P

G

K

K

E

V

T

N

H

R

V

G

G

D

D

L

I

L

V

A

A

I

F

L

L

T

D

A

A

G

G

A

A

Y
|
Y

G

T

S

I

S

E

M

S

A

Q

S

T

N

V

Y

F

N

N

V

N

R

R

P

P

K

R

A

T

I

G

E

V

I

V

L

M

V

I

D

D

-

K

-

N

G

G

D

D

K

T

F

-

K

R

I

L

I

I

K

R

E

R

R

E

E

D

D

S

Y

Y

S

E

F

D

I

M

T

V

K

K

L

Y

E

D

binding pentane-1,5-diamine: Q352 (≠ S320), H353 (≠ I321), D355 (≠ N323)
binding N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-D-lysine: A78 (= A63), K80 (= K65), H212 (= H204), D215 (≠ S207), G253 (= G244), E301 (= E279), G303 (= G281), R304 (= R282), Y416 (= Y376)

Query Sequence

>WP_012673732.1 NCBI__GCF_000021545.1:WP_012673732.1
MGDNFNDYFVYKDGKLYCEDVNIQNLASKIGTPFYIYSKKAIIDKINEYKEAFKDYPTLI
CYALKANSNLSILKIFEEHGLGADIVSGGELYKARKVGIPSNKIVYAGVGKTDVEIIYAI
NENILSFNVESQMELEVINEIAKRQNKKANISIRINPDVDPKTHPYISTGLKKSKFGIDI
GQALDVYKQAVKMENLNVVGIHCHIGSQIMDVSVYKEAVEKTVDLVFKLKKEGIELQFID
IGGGLGVKYYPEDNPPTAFDLANTVLPIVKQTGLKLIIEPGRSLIAQAGALITKVIFTKD
KKDKHFVIVDSGMNDLIRPSIYNAYHHIITVEEKQEKMVADIVGPICETGDFFGLDREIG
KVNRGDLLAILTAGAYGSSMASNYNVRPKAIEILVDGDKFKIIKEREDYSFITKLEEEVL

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