SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing CA265_RS15860 CA265_RS15860 threonine dehydratase 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)

1tdjA Threonine deaminase (biosynthetic) from e. Coli (see paper)
35% identity, 93% coverage: 25:409/416 of query aligns to 28:409/494 of 1tdjA

query
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1tdjA

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active site: K58 (= K55), A83 (= A80), E209 (= E209), S213 (≠ A213), C215 (≠ S215), G237 (= G237), L310 (≠ V308), S311 (= S309)
binding pyridoxal-5'-phosphate: F57 (≠ Y54), K58 (= K55), N85 (= N82), F153 (= F153), P182 (= P182), V183 (= V183), G184 (= G184), G185 (= G185), G186 (= G186), G187 (= G187), L188 (= L188), G237 (= G237), V238 (≠ A238), E282 (= E282), S284 (≠ A284), S311 (= S309), G312 (= G310)

P04968 L-threonine dehydratase biosynthetic IlvA; Threonine deaminase; EC 4.3.1.19 from Escherichia coli (strain K12) (see paper)
35% identity, 93% coverage: 25:409/416 of query aligns to 32:413/514 of P04968

query
sites
P04968

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K62 (= K55) modified: N6-(pyridoxal phosphate)lysine
N89 (= N82) binding
GGGGL 188:192 (= GGGGL 184:188) binding
S315 (= S309) binding

2gn2A Crystal structure of tetrameric biodegradative threonine deaminase (tdcb) from salmonella typhimurium in complex with cmp at 2.5a resolution (hexagonal form) (see paper)
38% identity, 75% coverage: 10:321/416 of query aligns to 11:321/326 of 2gn2A

query
sites
2gn2A

D

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active site: K56 (= K55), A81 (= A80), Q207 (≠ E209), V211 (≠ A213), G213 (≠ S215), G235 (= G237), I308 (≠ V308), S309 (= S309)
binding cytidine-5'-monophosphate: R51 (≠ I50), T52 (≠ V51), G53 (≠ R52), Q86 (= Q85), A114 (≠ Q113), D117 (≠ M116), Y118 (≠ F117), N312 (= N312)

O59791 Serine racemase; D-serine ammonia-lyase; D-serine dehydratase; L-serine ammonia-lyase; L-serine dehydratase; EC 4.3.1.17; EC 4.3.1.18; EC 5.1.1.18 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
34% identity, 76% coverage: 2:317/416 of query aligns to 4:316/323 of O59791

query
sites
O59791

N

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P

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S

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V

V

K

A

Q

A

T

T

Y

K

M

G

F

Y

G

G

G

G

D

-

N

-

V

-

E

Q

V

V

V

I

L

M

V

Y

G

D

D

R

T

Y

F

K

D

D

D

D

C

R

L

E

K

K

E

M

A

A

L

K

A

E

Y

I

S

S

A

E

E

R

K

E

S

G

A

L

T

T

F

I

I

I

P

P

P

P

F

Y

D

D

D

H

E

P

K

H

V

V

I

L

E

A

G

G

Q

Q

A

G

T

T

V

A

G

A

V

K

E

E

I

L

Y

F

E

E

D

E

L

V

P

G

D

P

L

L

D

D

M

A

I

L

V

F

M

V

P

C

V

L

G

G

G

G

G

G

G

G

L

L

A

L

S

S

G

G

V

S

S

A

A

L

Y

A

M

A

K

R

T

H

V

F

K

A

P

P

E

N

V

C

K

E

L

V

V

Y

G

G

V

V

E

E

P

P

L

E

G

A

A

G

P

N

S

D

M

G

V

Q

T

Q

A

S

M

F

E

R

Y

K

G

G

G

S

P

I

F

V

T

H

L

I

E

D

E

T

I

P

D

K

R

T

F

I

V

A

D

D

G

G

A

A

A

Q

V

T

K

Q

R

H

I

L

G

G

H

N

I

Y

T

T

Y

F

E

S

Y

I

C

I

K

K

E

E

L

K

L

V

D

D

Q

D

M

I

H

L

L

T

I

V

P

S

E

D

G

E

K

E

I

L

C

I

T

D

T

C

I

-

L

L

K

K

L

F

Y

Y

N

A

E

A

D

R

-

M

A

K

I

I

V

V

V

V

E

E

P

P

A

T

G

G

A

C

L

L

S

S

V

F

A

A

A

A

L

A

D

R

Q

A

L

M

K

K

D

E

Q

K

I

L

T

K

G

N

K

K

T

R

V

I

V

G

C

I

I

I

V

I

S

S

G

G

G

G

N

N

N

V

D

D

I

I

E

E

R

R

S82 (≠ A80) mutation to A: Loss of racemase activity. Reduces D-serine dehydratase activity by 99%. Slightly reduced L-serine dehydratase activity.

2zr8A Crystal structure of modified serine racemase complexed with serine (see paper)
34% identity, 75% coverage: 6:317/416 of query aligns to 4:312/319 of 2zr8A

query
sites
2zr8A

P

P

N

T

T

Y

L

D

D

D

F

V

Q

A

S

S

A

A

S

S

Q

E

R

R

L

I

K

K

G

K

V

F

V

A

K

N

R

K

T

T

P

P

L

V

E

L

F

T

N

S

A

S

G

T

L

V

S

N

A

K

H

E

Y

F

N

V

A

A

N

E

I

V

Y

F

L

F

K

K

R

C

E

E

D

N

L

F

Q

Q

I

K

V

M

R

G

S

A

Y
x
F

K
|
K

L

F

R

R

G

G

A

A

Y

L

N

N

K

A

I

L

S

S

S

Q

L

L

P

N

Q

E

D

A

A

Q

L

R

I

K

N

A

G

G

V

V

V

L

C

T

A

F

S
|
S

A
x
S

G
|
G

N
|
N

H
|
H

A

A

Q

Q

G

A

V

I

A

A

Y

L

S

S

C

A

K

K

K

I

L

L

G

G

I

I

K

P

G

A

V

K

I

I

F

I

M

M

P

P

E

L

I

D

T

A

P

P

K

E

Q

A

K

K

V

V

K

A

Q

A

T

T

Y

K

M

G

F

Y

G

G

G

G

D

-

N

-

V

-

E

Q

V

V

V

I

L

M

V

Y

G

D

D

R

T

Y

F

K

D

D

D

D

C
x
R

L

E

K

K

E

M

A

A

L

K

A

E

Y

I

S

S

A

E

E

R

K

E

S

G

A

L

T

T

F

I

I

I

P

P

P
|
P

F
x
Y

D

D

D

H

E

P

K

H

V

V

I

L

E

A

G

G

Q

Q

A

G

T

T

V

A

G

A

V

K

E

E

I

L

Y

F

E

E

D

E

L

V

P

G

D

P

L

L

D

D

M

A

I

L

V

F

M

V

P

C

V
x
L

G
|
G

G
|
G

G
|
G

G
|
G

L
|
L

A

L

S

S

G

G

V

S

S

A

A

L

Y

A

M

A

K

R

T

H

V

F

K

A

P

P

E

N

V

C

K

E

L

V

V

Y

G

G

V

V

E
|
E

P

P

L

E

G

A

A
x
G

P

N

S
x
D

M

G

V

Q

T

Q

A

S

M

F

E

R

Y

K

G

G

G

S

P

I

F

V

T

H

L

I

E

D

E

T

I

P

D

K

R

T

F

I

V

A

D
|
D

G
|
G

A
|
A

A
x
Q

V
x
T

K

Q

R

H

I

L

G

G

H

N

I

Y

T

T

Y

F

E

S

Y

I

C

I

K

K

E

E

L

K

L

V

D

D

Q

D

M

I

H

L

L

T

I

V

P

S

E

D

G

E

K

E

I

L

C

I

T

D

T

C

I

-

L

L

K

K

L

F

Y

Y

N

A

E

A

D

R

-

M

A

K

I

I

V

V

V

V

E
|
E

P

P

A
x
T

G

G

A

C

L

L

S

S

V

F

A

A

A

A

L

A

D

R

Q

A

L

M

K

K

D

E

Q

K

I

L

T

K

G

N

K

K

T

R

V

I

V

G

C

I

I

I

V
x
I

S
|
S

G
|
G

G

G

N

N

N

V

D

D

I

I

E

E

R

R

active site: K53 (= K55), S78 (≠ A80), E204 (= E209), G208 (≠ A213), D210 (≠ S215), G232 (= G237), I303 (≠ V308), S304 (= S309)
binding magnesium ion: E204 (= E209), G208 (≠ A213), D210 (≠ S215)
binding n-(5'-phosphopyridoxyl)-d-alanine: F52 (≠ Y54), K53 (= K55), S77 (= S79), S78 (≠ A80), G79 (= G81), N80 (= N82), H81 (= H83), P147 (= P152), Y148 (≠ F153), L178 (≠ V183), G179 (= G184), G180 (= G185), G181 (= G186), G182 (= G187), L183 (= L188), G232 (= G237), E277 (= E282), T279 (≠ A284), S304 (= S309), G305 (= G310)
binding serine: S77 (= S79), S78 (≠ A80), R129 (≠ C134), P147 (= P152), Y148 (≠ F153), D231 (= D236), G232 (= G237), A233 (= A238), Q234 (≠ A239), T235 (≠ V240)

2zpuA Crystal structure of modified serine racemase from s.Pombe. (see paper)
34% identity, 75% coverage: 6:317/416 of query aligns to 4:312/319 of 2zpuA

query
sites
2zpuA

P

P

N

T

T

Y

L

D

D

D

F

V

Q

A

S

S

A

A

S

S

Q

E

R

R

L

I

K

K

G

K

V

F

V

A

K

N

R

K

T

T

P

P

L

V

E

L

F

T

N

S

A

S

G

T

L

V

S

N

A

K

H

E

Y

F

N

V

A

A

N

E

I

V

Y

F

L

F

K

K

R

C

E

E

D

N

L

F

Q

Q

I

K

V

M

R

G

S

A

Y
x
F

K
|
K

L

F

R

R

G

G

A

A

Y

L

N

N

K

A

I

L

S

S

S

Q

L

L

P

N

Q

E

D

A

A

Q

L

R

I

K

N

A

G

G

V

V

V

L

C

T

A

F

S
|
S

A
x
S

G
|
G

N
|
N

H
|
H

A

A

Q

Q

G

A

V

I

A

A

Y

L

S

S

C

A

K

K

K

I

L

L

G

G

I

I

K

P

G

A

V

K

I

I

F

I

M

M

P

P

E

L

I

D

T

A

P

P

K

E

Q

A

K

K

V

V

K

A

Q

A

T

T

Y

K

M

G

F

Y

G

G

G

G

D

-

N

-

V

-

E

Q

V

V

V

I

L

M

V

Y

G

D

D

R

T

Y

F

K

D

D

D

D

C

R

L

E

K

K

E

M

A

A

L

K

A

E

Y

I

S

S

A

E

E

R

K

E

S

G

A

L

T

T

F

I

I

I

P

P

P
|
P

F
x
Y

D

D

D

H

E

P

K

H

V

V

I

L

E

A

G

G

Q

Q

A

G

T

T

V

A

G

A

V

K

E

E

I

L

Y

F

E

E

D

E

L

V

P

G

D

P

L

L

D

D

M

A

I

L

V

F

M

V

P
x
C

V
x
L

G
|
G

G
|
G

G
|
G

G
|
G

L
|
L

A

L

S

S

G

G

V

S

S

A

A

L

Y

A

M

A

K

R

T

H

V

F

K

A

P

P

E

N

V

C

K

E

L

V

V

Y

G

G

V

V

E
|
E

P

P

L

E

G

A

A
x
G

P

N

S
x
D

M

G

V

Q

T

Q

A

S

M

F

E

R

Y

K

G

G

G

S

P

I

F

V

T

H

L

I

E

D

E

T

I

P

D

K

R

T

F

I

V

A

D

D

G
|
G

A

A

A

Q

V

T

K

Q

R

H

I

L

G

G

H

N

I

Y

T

T

Y

F

E

S

Y

I

C

I

K

K

E

E

L

K

L

V

D

D

Q

D

M

I

H

L

L

T

I

V

P

S

E

D

G

E

K

E

I

L

C

I

T

D

T

C

I

-

L

L

K

K

L

F

Y

Y

N

A

E

A

D

R

-

M

A

K

I

I

V

V

V

V

E
|
E

P

P

A
x
T

G

G

A

C

L

L

S

S

V

F

A

A

A

A

L

A

D

R

Q

A

L

M

K

K

D

E

Q

K

I

L

T

K

G

N

K

K

T

R

V

I

V

G

C

I

I

I

V
x
I

S
|
S

G
|
G

G

G

N

N

N

V

D

D

I

I

E

E

R

R

active site: K53 (= K55), S78 (≠ A80), E204 (= E209), G208 (≠ A213), D210 (≠ S215), G232 (= G237), I303 (≠ V308), S304 (= S309)
binding magnesium ion: E204 (= E209), G208 (≠ A213), D210 (≠ S215)
binding n-(5'-phosphopyridoxyl)-d-alanine: F52 (≠ Y54), K53 (= K55), S77 (= S79), S78 (≠ A80), G79 (= G81), N80 (= N82), H81 (= H83), P147 (= P152), Y148 (≠ F153), C177 (≠ P182), L178 (≠ V183), G179 (= G184), G180 (= G185), G181 (= G186), G182 (= G187), L183 (= L188), G232 (= G237), E277 (= E282), T279 (≠ A284), S304 (= S309), G305 (= G310)

1wtcA Crystal structure of s.Pombe serine racemase complex with amppcp (see paper)
34% identity, 75% coverage: 6:317/416 of query aligns to 3:311/318 of 1wtcA

query
sites
1wtcA

P

P

N

T

T

Y

L

D

D

D

F

V

Q

A

S

S

A

A

S

S

Q

E

R

R

L

I

K

K

G

K

V

F

V

A

K
x
N

R

K

T

T

P

P

L

V

E

L

F

T

N

S

A

S

G

T

L

V

S

N

A

K

H

E

Y

F

N

V

A

A

N

E

I

V

Y

F

L

F

K

K

R

C

E

E

D

N

L

F

Q

Q

I
x
K

V
x
M

R
x
G

S

A

Y
x
F

K
|
K

L

F

R

R

G

G

A

A

Y

L

N

N

K

A

I

L

S

S

S

Q

L

L

P

N

Q

E

D

A

A

Q

L

R

I

K

N

A

G

G

V

V

V

L

C

T

A

F

S

S

A
x
S

G

G

N
|
N

H

H

A

A

Q

Q

G

A

V

I

A

A

Y

L

S

S

C

A

K

K

K

I

L

L

G

G

I

I

K

P

G

A

V

K

I

I

F

I

M

M

P

P

E

L

I

D

T

A

P

P

K

E

Q
x
A

K

K

V

V

K
x
A

Q
x
A

T

T

Y

K

M

G

F
x
Y

G

G

G

G

D

-

N

-

V

-

E

Q

V

V

V

I

L

M

V

Y

G

D

D

R

T

Y

F

K

D

D

D

D

C

R

L

E

K

K

E

M

A

A

L

K

A

E

Y

I

S

S

A

E

E

R

K

E

S

G

A

L

T

T

F

I

I

I

P

P

P

P

F
x
Y

D

D

D

H

E

P

K

H

V

V

I

L

E

A

G

G

Q

Q

A

G

T

T

V

A

G

A

V

K

E

E

I

L

Y

F

E

E

D

E

L

V

P

G

D

P

L

L

D

D

M

A

I

L

V

F

M

V

P

C

V
x
L

G
|
G

G
|
G

G
|
G

G
|
G

L
|
L

A

L

S

S

G

G

V

S

S

A

A

L

Y

A

M

A

K

R

T

H

V

F

K

A

P

P

E

N

V

C

K

E

L

V

V

Y

G

G

V

V

E
|
E

P

P

L

E

G

A

A
x
G

P

N

S
x
D

M

G

V

Q

T

Q

A

S

M

F

E

R

Y

K

G

G

G

S

P

I

F

V

T

H

L

I

E

D

E

T

I

P

D

K

R

T

F

I

V

A

D

D

G
|
G

A

A

A

Q

V

T

K

Q

R

H

I

L

G

G

H

N

I

Y

T

T

Y

F

E

S

Y

I

C

I

K

K

E

E

L

K

L

V

D

D

Q

D

M

I

H

L

L

T

I

V

P

S

E

D

G

E

K

E

I

L

C

-

T

I

T

D

I

C

L

L

K

K

L

F

Y

Y

N

A

E

A

D

R

-

M

A

K

I

I

V

V

V

V

E
|
E

P

P

A
x
T

G

G

A

C

L

L

S

S

V

F

A

A

A

A

L

A

D

R

Q

A

L

M

K

K

D

E

Q

K

I

L

T

K

G

N

K

K

T

R

V

I

V

G

C

I

I

I

V
x
I

S
|
S

G
|
G

G

G

N
|
N

N

V

D

D

I

I

E

E

R

R

active site: K52 (= K55), S77 (≠ A80), E203 (= E209), G207 (≠ A213), D209 (≠ S215), G231 (= G237), I302 (≠ V308), S303 (= S309)
binding phosphomethylphosphonic acid adenylate ester: N20 (≠ K23), K47 (≠ I50), M48 (≠ V51), G49 (≠ R52), A106 (≠ Q109), A109 (≠ K112), A110 (≠ Q113), Y114 (≠ F117), N306 (= N312)
binding magnesium ion: E203 (= E209), G207 (≠ A213), D209 (≠ S215)
binding pyridoxal-5'-phosphate: F51 (≠ Y54), K52 (= K55), N79 (= N82), Y147 (≠ F153), L177 (≠ V183), G178 (= G184), G179 (= G185), G180 (= G186), G181 (= G187), L182 (= L188), G231 (= G237), E276 (= E282), T278 (≠ A284), S303 (= S309), G304 (= G310)

1v71A Crystal structure of s.Pombe serine racemase
34% identity, 75% coverage: 6:317/416 of query aligns to 3:311/318 of 1v71A

query
sites
1v71A

P

P

N

T

T

Y

L

D

D

D

F

V

Q

A

S

S

A

A

S

S

Q

E

R

R

L

I

K

K

G

K

V

F

V

A

K

N

R

K

T

T

P

P

L

V

E

L

F

T

N

S

A

S

G

T

L

V

S

N

A

K

H

E

Y

F

N

V

A

A

N

E

I

V

Y

F

L

F

K

K

R

C

E

E

D

N

L

F

Q

Q

I

K

V

M

R

G

S

A

Y
x
F

K
|
K

L

F

R

R

G

G

A

A

Y

L

N

N

K

A

I

L

S

S

S

Q

L

L

P

N

Q

E

D

A

A

Q

L

R

I

K

N

A

G

G

V

V

V

L

C

T

A

F

S

S

A
x
S

G

G

N
|
N

H

H

A

A

Q

Q

G

A

V

I

A

A

Y

L

S

S

C

A

K

K

K

I

L

L

G

G

I

I

K

P

G

A

V

K

I

I

F

I

M

M

P

P

E

L

I

D

T

A

P

P

K

E

Q

A

K

K

V

V

K

A

Q

A

T

T

Y

K

M

G

F

Y

G

G

G

G

D

-

N

-

V

-

E

Q

V

V

V

I

L

M

V

Y

G

D

D

R

T

Y

F

K

D

D

D

D

C

R

L

E

K

K

E

M

A

A

L

K

A

E

Y

I

S

S

A

E

E

R

K

E

S

G

A

L

T

T

F

I

I

I

P

P

P

P

F
x
Y

D

D

D

H

E

P

K

H

V

V

I

L

E

A

G

G

Q

Q

A

G

T

T

V

A

G

A

V

K

E

E

I

L

Y

F

E

E

D

E

L

V

P

G

D

P

L

L

D

D

M

A

I

L

V

F

M

V

P

C

V
x
L

G
|
G

G
|
G

G
|
G

G
|
G

L
|
L

A

L

S

S

G

G

V

S

S

A

A

L

Y

A

M

A

K

R

T

H

V

F

K

A

P

P

E

N

V

C

K

E

L

V

V

Y

G

G

V

V

E
|
E

P

P

L

E

G

A

A
x
G

P

N

S
x
D

M

G

V

Q

T

Q

A

S

M

F

E

R

Y

K

G

G

G

S

P

I

F

V

T

H

L

I

E

D

E

T

I

P

D

K

R

T

F

I

V

A

D

D

G
|
G

A

A

A

Q

V

T

K

Q

R

H

I

L

G

G

H

N

I

Y

T

T

Y

F

E

S

Y

I

C

I

K

K

E

E

L

K

L

V

D

D

Q

D

M

I

H

L

L

T

I

V

P

S

E

D

G

E

K

E

I

L

C

-

T

I

T

D

I

C

L

L

K

K

L

F

Y

Y

N

A

E

A

D

R

-

M

A

K

I

I

V

V

V

V

E
|
E

P

P

A
x
T

G

G

A

C

L

L

S

S

V

F

A

A

A

A

L

A

D

R

Q

A

L

M

K

K

D

E

Q

K

I

L

T

K

G

N

K

K

T

R

V

I

V

G

C

I

I

I

V
x
I

S
|
S

G
|
G

G

G

N

N

N

V

D

D

I

I

E

E

R

R

active site: K52 (= K55), S77 (≠ A80), E203 (= E209), G207 (≠ A213), D209 (≠ S215), G231 (= G237), I302 (≠ V308), S303 (= S309)
binding magnesium ion: E203 (= E209), G207 (≠ A213), D209 (≠ S215)
binding pyridoxal-5'-phosphate: F51 (≠ Y54), K52 (= K55), N79 (= N82), Y147 (≠ F153), L177 (≠ V183), G178 (= G184), G179 (= G185), G180 (= G186), G181 (= G187), L182 (= L188), G231 (= G237), E276 (= E282), T278 (≠ A284), S303 (= S309), G304 (= G310)

A4F2N8 L-threo-3-hydroxyaspartate ammonia-lyase; L-threo-3-hydroxyaspartate dehydratase; L-THA DH; EC 4.3.1.16 from Pseudomonas sp. (see paper)
32% identity, 74% coverage: 10:317/416 of query aligns to 8:312/319 of A4F2N8

query
sites
A4F2N8

D

D

F

V

Q

I

S

K

A

A

S

A

Q

E

R

R

L

L

K

E

G

G

V

F

V

A

K

N

R

R

T

T

P

P

L

V

E

F

F

T

N

S

A

R

G

T

L

L

S

D

A

A

H

E

Y

T

N

G

A

A

N

Q

I

V

Y

F

L

I

K

K

R

C

E

E

D

N

L

L

Q

Q

I

R

V

T

R

G

S

S

Y

F

K
|
K

L

F

R

R

G

G

A

A

Y

F

N

N

K

A

I

L

S

S

S

R

L

F

P

D

Q

E

D

A

A

Q

L

R

I

K

N

A

G

G

V

V

V

V

C

A

A

F

S

S

A

S

G

G

N

N

H

H

A

A

Q

Q

G

G

V

I

A

A

Y

L

S

A

C

A

K

R

K

L

L

L

G

Q

I

M

K

P

G

A

V

T

I

I

F

V

M

M

P

P

E

T

I

D

T

A

P

P

K

A

Q

A

K

K

V

V

K

A

Q

A

T

T

Y

R

M

E

F

Y

G

G

G

-

D

-

N

-

V

A

E

T

V

V

V

V

L

F

V

Y

G

D

D

R

T

I

F

T

D

E

D

D

C

R

L

E

K

Q

E

I

A

G

L

R

A

T

Y

L

S

A

A

E

E

Q

K

H

S

G

A

M

T

T

F

L

I

I

P

P

P

S

F

Y

D

D

D

H

E

P

K

D

V

V

I

L

E

A

G

G

Q

Q

A

G

T

T

V

A

G

A

V

K

E

E

I

L

Y

L

E

E

D

F

L

T

P

G

D

P

L

L

D

D

M

A

I

L

V

F

M

V

P

G

V

L

G

G

G

G

G

G

G

G

L

M

A

L

S

S

G

G

V

T

S

A

A

L

Y

A

M

T

K

R

T

A

V

L

K

S

P

P

E

D

V

C

K

L

L

L

V

Y

G

G

V

V

E

E

P

P

L

E

G

A

A

G

P

N

S

D

M

G

V

Q

T

R

A

S

M

F

E

Q

Y

T

G

G

G

S

P

I

F

V

T

H

L

I

E

D

E

T

I

P

D

A

R

T

F

I

V

A

D

D

G

G

A

A

A

Q

V

T

K

Q

R

H

I

L

G

G

H

N

I

H

T

T

Y

F

E

P

Y

I

C

I

K

R

E

E

L

N

L

V

D

N

Q

D

M

I

H

L

L

T

I

V

P

S

E

D

G

A

K

E

I

L

C

V

T

E

T

S

I

M

L

R

K

F

L

F

Y

M

N

Q

E

R

D

M

A

K

I

M

V

V

V

V

E

E

P

P

A

T

G

G

A

C

L

L

S

G

V

L

A

A

A

A

L

L

D

R

Q

N

L

L

K

K

D

Q

Q

Q

I

F

T

R

G

G

K

Q

T

R

V

V

V

G

C

I

I

I

V

V

S

T

G

G

G

G

N

N

N

V

D

D

I

I

E

E

R

K

K53 (= K55) mutation to A: Loss of enzymatic activity.

Q7XSN8 Serine racemase; D-serine dehydratase; D-serine ammonia-lyase; L-serine dehydratase; L-serine ammonia-lyase; EC 5.1.1.18; EC 4.3.1.18; EC 4.3.1.17 from Oryza sativa subsp. japonica (Rice) (see paper)
30% identity, 75% coverage: 11:320/416 of query aligns to 24:334/339 of Q7XSN8

query
sites
Q7XSN8

F

I

Q

R

S

E

A

A

S

Q

Q

A

R

R

L

I

K

A

G

P

V

Y

V

V

K

H

R

K

T

T

P

P

L

V

E

L

F

S

N

S

A

T

G

S

L

I

S

D

A

A

H

I

Y

V

N

G

A

K

N

Q

I

L

Y

F

L

F

K

K

R

C

E

E

D

C

L

F

Q

Q

I

K

V

A

R

G

S

A

Y

F

K

K

L

I

R

R

G

G

A

A

Y

S

N

N

K

S

I

I

S

F

S

A

L

L

P

D

Q

D

D

D

A

E

L

A

I

S

N

K

G

G

V

V

V

V

C

T

A

H

S

S

A

S

G

G

N

N

H

H

A

A

Q

A

G

A

V

V

A

A

Y

L

S

A

C

A

K

K

K

L

L

R

G

G

I

I

K

P

G

A

V

Y

I

I

F

V

M

I

P

P

E

R

I

N

T

A

P

P

K

A

Q

C

K

K

V

V

K

D

Q

N

T

V

Y

K

M

R

F

Y

G

G

G

G

D

-

N

-

V

-

E

H

V

I

V

I

L

W

V

S

G

D

D

V

T

S

F

I

D

E

D

S

C

R

L

E

K

S

E

V

A

A

L

K

A

R

Y

V

S

Q

A

E

E

E

K

T

S

G

A

A

T

I

F

L

I

V

P

H

P

P

F

F

D

N

D

N

E

K

K

N

V

T

I

I

E

S

G

G

Q

Q

A

G

T

T

V

V

G

S

V

L

E

E

I

L

Y

L

E

E

D

E

L

V

P

P

D

E

L

I

D

D

M

T

I

I

V

I

M

V

P

P

V

I

G

S

G

G

G

G

G

G

L

L

A

I

S

S

G

G

V

V

S

A

A

L

Y

A

M

A

K

K

T

A

V

I

K

N

P

P

E

S

V

I

K

R

L

I

V

L

G

A

V

A

E
|
E

P

P

L

K

G

G

A

A

P

D

S
x
D

M

S

V

A

T

Q

A

S

M

K

E

A

Y

A

G

G

G

K

P

I

F

I

T

T

L

L

E

P

E

S

I

T

D

N

R

T

F

I

V

A

D

D

G

G

A

L

A

R

V

A

K

-

R

F

I

L

G

G

H

D

I

L

T

T

Y

W

E

P

Y

V

C

V

K

R

E

D

L

L

L

V

D

D

Q

D

M

I

H

I

L

V

I

V

P

D

E

D

G

N

K

A

I

I

C

V

T

D

T

A

I

M

L

K

K

M

L

C

Y

Y

N

E

E

M

D

L

A

K

I

V

V

A

V

V

E

E

P

P

A

S

G

G

A

A

L

I

S

G

V

L

A

A

A

A

L

A

-

L

-

S

D

D

Q

E

L

F

K

K

D

Q

Q

S

I

S

T

A

-

W

-

H

-

E

G

S

K

S

T

K

V

I

V

G

C

I

I

I

V

V

S

S

G

G

G

G

N

N

N

V

D

D

I

L

E

G

R

V

M

L

Q

W

E

E

E219 (= E209) mutation to A: Reduces catalytic activity and abolishes the regulatory effect of Mg(2+) addition; when associated with A-225.
D225 (≠ S215) mutation to A: Reduces catalytic activity and abolishes the regulatory effect of Mg(2+) addition; when associated with A-219.

5cvcA Structure of maize serine racemase (see paper)
29% identity, 78% coverage: 10:334/416 of query aligns to 7:327/329 of 5cvcA

query
sites
5cvcA

D

S

F

I

Q

R

S

E

A

A

S

Q

Q

A

R

R

L

I

K

A

G

P

V

Y

V

V

K

H

R

R

T

T

P

P

L

V

E

M

F

S

N

S

A

T

G

S

L

I

S

D

A

A

H

M

Y

V

N

G

A

K

N

K

I

L

Y

F

L

F

K

K

R

C

E

E

D

C

L

F

Q

Q

I

K

V

A

R

G

S

A

Y
x
F

K
|
K

L

I

R

R

G

G

A

A

Y

S

N

N

K

S

I

I

S

F

S

A

L

L

P

D

Q

D

D

E

A

Q

L

V

I

S

N

K

G

G

V

V

V

V

C

T

A

H

S

S

A
x
S

G

G

N
|
N

H

H

A

A

Q

A

G

A

V

V

A

A

Y

L

S

A

C

A

K

K

K

L

L

R

G

G

I

I

K

P

G

A

V

H

I

I

F

V

M

I

P

P

E

R

I

N

T

A

P

P

K

A

Q

S

K

K

V

V

K

E

Q

N

T

V

Y

K

M

C

F

Y

G

G

G

G

D

H

N

I

V

I

E

-

V

-

V

-

L

-

V

-

G

-

D

-

T

-

F

W

D

S

D

D

C

A

L

S

K

I

E

E

A

S

L

R

A

E

Y

Y

S

V

A

S

-

K

-

R

-

V

-

Q

-

E

E

E

K

T

S

G

A

A

T

V

F

L

I

I

P

H

P

P

F

I

D

N

D

S

E

K

K

Y

V

T

I

I

E

S

G

G

Q

Q

A

G

T

T

V

V

G

S

V

L

E

E

I

L

Y

L

E

E

D

Q

L

V

P

P

D

E

L

I

D

D

M

T

I

I

V

I

M

V

P

P

V
x
I

G
x
S

G
|
G

G
|
G

G
|
G

L
|
L

A

I

S

S

G

G

V

V

S

A

A

L

Y

A

M

A

K

K

T

A

V

I

K

N

P

P

E

S

V

I

K

R

L

I

V

L

G

A

V

A

E
|
E

P

P

L

K

G

G

A
|
A

P

D

S
x
D

M

S

V

A

T

Q

A

S

M

K

E

A

Y

A

G

G

G

K

P

I

F

I

T

T

L

L

E

P

E

S

I

T

D

N

R

T

F

I

V

A

D

D

G
|
G

A
x
L

A

R

V

A

K

-

R

F

I

L

G

G

H

D

I

L

T

T

Y

W

-

P

-

V

-

V

-

R

-

D

-

L

-

V

-

D

-

D

-

V

-

I

-

V

E

V

Y

D

C

D

K

T

E

A

L

I

L

V

D

D

Q

A

M

M

H

-

L

-

I

-

P

-

E

-

G

-

K

K

I

M

C

C

T

Y

T

E

I

I

L

L

K

K

L

-

Y

-

N

-

E

-

D

-

A

-

I

V

V

A

V

V

E
|
E

P

P

A
x
S

G

G

A

A

L

I

S

G

V

L

A

A

A

A

L

A

-

L

-

S

D

D

Q

E

L

F

K

K

D

Q

Q

S

I

S

T

A

-

W

-

H

-

E

G

S

K

S

T

K

V

I

V

G

C

I

I

I

V
|
V

S
|
S

G
|
G

G

G

N

N

N

V

D

D

I

L

E

G

R

T

M

L

Q

W

E

Q

I

-

K

-

E

-

K

-

S

-

L

S

L

M

F

Y

E

K

G

H

L

L

K

E

H

H

Y

H

active site: K52 (= K55), S77 (≠ A80), E203 (= E209), A207 (= A213), D209 (≠ S215), G231 (= G237), V306 (= V308), S307 (= S309)
binding magnesium ion: E203 (= E209), A207 (= A213), D209 (≠ S215)
binding pyridoxal-5'-phosphate: F51 (≠ Y54), K52 (= K55), N79 (= N82), I177 (≠ V183), S178 (≠ G184), G179 (= G185), G180 (= G186), G181 (= G187), L182 (= L188), G231 (= G237), L232 (≠ A238), E275 (= E282), S277 (≠ A284), S307 (= S309), G308 (= G310)

7nbfAAA structure of human serine racemase in complex with DSiP fragment Z126932614, XChem fragment screen (see paper)
30% identity, 74% coverage: 10:315/416 of query aligns to 8:316/323 of 7nbfAAA

query
sites
7nbfAAA

D

D

F

V

Q

E

S

K

A

A

S

H

Q

I

R

N

L

I

K

R

G

D

V

S

V

I

K
x
H

R
x
L

T
|
T

P
|
P

L
x
V

E
x
L

F
x
T

N

S

A

S

G

I

L

L

S

N

A

Q

H

L

Y

T

N

G

A

R

N

N

I

L

Y

F

L

F

K

K

R

C

E

E

D

L

L
x
F

Q

Q

I

K

V

T

R

G

S

S

Y
x
F

K
|
K

L

I

R

R

G

G

A

A

Y

L

N

N

K

A

I

V

S

R

S

S

L

L

P

V

Q

P

D

D

A

A

L

L

-

E

-

R

-

K

I

P

N

K

G

A

V

V

V

V

C

T

A

H

S

S

A
x
S

G

G

N
|
N

H

H

A

G

Q

Q

G

A

V

L

A

T

Y

Y

S

A

C

A

K

K

K

L

L

E

G

G

I

I

K

P

G

A

V

Y

I

I

F

V

M

V

P

P

E

Q

I

T

T

A

P

P

K

D

Q

C

K

K

V

K

K

L

Q

A

T

I

Y

Q

M

A

F

Y

G

G

G

A

D

S

N

I

V

V

E

Y

V

C

V

E

L

P

V

S

G

D

D

E

T

S

F

R

D

E

D

N

C

V

L

A

K

K

E

R

A

V

L

-

A

-

Y

-

S

T

A

E

E

E

K

T

S

E

A

G

T

I

F

M

I

V

P

H

P

P

F
x
N

D

Q

D

E

E

P

K

A

V

V

I

I

E

A

G

G

Q

Q

A

G

T

T

V

I

G

A

V

L

E

E

I

V

Y

L

E

N

D

Q

L

V

P

P

D

L

L

V

D

D

M

A

I

L

V

V

M

V

P

P

V
|
V

G
|
G

G
|
G

G
|
G

G
|
G

L
x
M

A

L

S

A

G

G

V

I

S

A

A

I

Y

T

M

V

K

K

T

A

V

L

K

K

P

P

E

S

V

V

K

K

L

V

V

Y

G

A

V

A

E
|
E

P

P

L

S

G

N

A
|
A

P

D

S
x
D

M

C

V

Y

T

Q

A

S

M

K

E

L

Y

K

G

G

G

K

P

L

F

M

-

P

T

N

L

L

E

Y

E

P

I

P

D

E

R

T

F

I

V

A

D

D

G
|
G

A
x
V

A

K

V

-

K

S

R

S

I

I

G

G

H

L

I
x
N

T

T

Y

W

E

P

Y

I

C

I

K

R

E

D

L

L

L

V

D

D

Q

D

M

I

H

F

L

T

I

V

P

T

E

E

G

D

K

E

I

I

-

K

C

C

T

A

T

T

I

Q

L

L

K

-

L

V

Y

W

N

E

E

R

D

M

A

K

I

L

V

L

V

I

E
|
E

P

P

A
x
T

G

A

A

G

L

V

S

G

V

V

A

A

A

A

L

V

D

L

Q

S

L

Q

K

H

D

F

Q

Q

I

T

T

V

G

S

K

P

T

E

V

V

-

K

-

N

V

I

C

C

I

I

V

V

-
x
L

S
|
S

G
|
G

G

G

N

N

N

V

D

D

I

L

active site: K53 (= K55), S81 (≠ A80), E207 (= E209), A211 (= A213), D213 (≠ S215), G236 (= G237), L309 (vs. gap), S310 (= S309)
binding calcium ion: E207 (= E209), A211 (= A213), D213 (≠ S215)
binding magnesium ion: N244 (≠ I246)
binding pyridoxal-5'-phosphate: F52 (≠ Y54), K53 (= K55), N83 (= N82), N151 (≠ F153), V181 (= V183), G182 (= G184), G183 (= G185), G184 (= G186), G185 (= G187), M186 (≠ L188), G236 (= G237), V237 (≠ A238), E280 (= E282), T282 (≠ A284), S310 (= S309), G311 (= G310)
binding 2-[(methylsulfonyl)methyl]-1H-benzimidazole: H21 (≠ K23), L22 (≠ R24), T23 (= T25), P24 (= P26), V25 (≠ L27), L26 (≠ E28), T27 (≠ F29), F46 (≠ L48)

Sites not aligning to the query:

binding magnesium ion: 3

7nbdAAA structure of human serine racemase in complex with DSiP fragment Z235449082, XChem fragment screen (see paper)
30% identity, 74% coverage: 10:315/416 of query aligns to 8:316/323 of 7nbdAAA

query
sites
7nbdAAA

D

D

F

V

Q

E

S

K

A

A

S

H

Q

I

R

N

L

I

K

R

G

D

V

S

V

I

K

H

R

L

T

T

P

P

L

V

E

L

F

T

N

S

A

S

G

I

L

L

S

N

A

Q

H

L

Y

T

N

G

A

R

N

N

I

L

Y

F

L

F

K

K

R

C

E

E

D

L

L

F

Q

Q

I

K

V

T

R

G

S

S

Y
x
F

K
|
K

L

I

R

R

G

G

A

A

Y

L

N

N

K

A

I

V

S

R

S

S

L

L

P

V

Q

P

D

D

A

A

L

L

-

E

-

R

-

K

I

P

N

K

G

A

V

V

V

V

C

T

A

H

S

S

A
x
S

G

G

N
|
N

H

H

A

G

Q

Q

G

A

V

L

A

T

Y

Y

S

A

C

A

K

K

K

L

L

E

G

G

I

I

K

P

G

A

V

Y

I

I

F

V

M

V

P

P

E

Q

I

T

T

A

P

P

K

D

Q

C

K

K

V

K

K

L

Q

A

T

I

Y

Q

M

A

F

Y

G

G

G

A

D

S

N

I

V

V

E

Y

V

C

V

E

L

P

V

S

G

D

D

E

T

S

F

R

D

E

D

N

C

V

L

A

K

K

E

R

A

V

L

-

A

-

Y

-

S

T

A

E

E

E

K

T

S

E

A

G

T

I

F

M

I

V

P

H

P

P

F
x
N

D

Q

D

E

E

P

K

A

V

V

I

I

E

A

G

G

Q

Q

A

G

T

T

V

I

G

A

V

L

E

E

I

V

Y

L

E

N

D

Q

L

V

P

P

D

L

L

V

D

D

M

A

I

L

V

V

M

V

P

P

V
|
V

G
|
G

G
|
G

G
|
G

G
|
G

L
x
M

A

L

S

A

G

G

V

I

S

A

A

I

Y

T

M

V

K

K

T

A

V

L

K

K

P

P

E

S

V

V

K

K

L

V

V

Y

G

A

V

A

E
|
E

P

P

L

S

G

N

A
|
A

P

D

S
x
D

M

C

V

Y

T

Q

A

S

M

K

E

L

Y

K

G

G

G

K

P

L

F

M

-

P

T

N

L

L

E

Y

E

P

I

P

D

E

R

T

F

I

V

A

D

D

G
|
G

A
x
V

A

K

V

-

K

S

R

S

I

I

G

G

H

L

I
x
N

T

T

Y

W

E

P

Y

I

C

I

K

R

E

D

L

L

L

V

D

D

Q

D

M

I

H

F

L

T

I

V

P

T

E

E

G

D

K

E

I

I

-

K

C

C

T

A

T

T

I

Q

L

L

K

-

L

V

Y
x
W

N

E

E

R

D

M

A

K

I

L

V
x
L

V

I

E
|
E

P

P

A
x
T

G

A

A

G

L

V

S

G

V

V

A

A

A