SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_013537969.1 NCBI__GCF_000185805.1:WP_013537969.1 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)

1kl2A Crystal structure of serine hydroxymethyltransferase complexed with glycine and 5-formyl tetrahydrofolate (see paper)
66% identity, 96% coverage: 1:400/418 of query aligns to 1:400/405 of 1kl2A

query
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1kl2A

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active site: Y51 (= Y51), E53 (= E53), D197 (= D197), T223 (= T223), K226 (= K226), R232 (= R232)
binding N-{[4-({[(6R)-2-amino-5-formyl-4-oxo-1,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)phenyl]carbonyl}-L-glutamic acid: E53 (= E53), Y60 (= Y60), G121 (= G121), H122 (= H122), S172 (= S172), F251 (= F251), N341 (= N341)
binding glycine: S31 (= S31), Y51 (= Y51), Y61 (= Y61), H200 (= H200), R357 (= R357)
binding pyridoxal-5'-phosphate: S93 (= S93), G94 (= G94), A95 (≠ S95), H122 (= H122), S172 (= S172), D197 (= D197), A199 (= A199), H200 (= H200), T223 (= T223), H225 (= H225), K226 (= K226)

1kl1A Crystal structure of serine hydroxymethyltransferase complexed with glycine (see paper)
66% identity, 96% coverage: 1:400/418 of query aligns to 1:400/405 of 1kl1A

query
sites
1kl1A

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active site: Y51 (= Y51), E53 (= E53), D197 (= D197), T223 (= T223), K226 (= K226), R232 (= R232)
binding glycine: S31 (= S31), H122 (= H122), R357 (= R357)
binding pyridoxal-5'-phosphate: S93 (= S93), G94 (= G94), A95 (≠ S95), H122 (= H122), A171 (= A171), S172 (= S172), D197 (= D197), A199 (= A199), H200 (= H200), T223 (= T223), H225 (= H225), K226 (= K226)

1kkpA Crystal structure of serine hydroxymethyltransferase complexed with serine (see paper)
66% identity, 96% coverage: 1:400/418 of query aligns to 1:400/405 of 1kkpA

query
sites
1kkpA

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V

active site: Y51 (= Y51), E53 (= E53), D197 (= D197), T223 (= T223), K226 (= K226), R232 (= R232)
binding pyridoxal-5'-phosphate: S93 (= S93), G94 (= G94), A95 (≠ S95), H122 (= H122), S172 (= S172), D197 (= D197), A199 (= A199), H200 (= H200), K226 (= K226)
binding serine: S31 (= S31), H122 (= H122), R357 (= R357)

1kkjA Crystal structure of serine hydroxymethyltransferase from b.Stearothermophilus (see paper)
66% identity, 96% coverage: 1:400/418 of query aligns to 1:400/405 of 1kkjA

query
sites
1kkjA

M

M

K

K

H

Y

L

L

K

P

A

Q

V

Q

D

D

P

P

E

Q

I

V

F

F

D

A

A

A

L

I

K

E

C

Q

E

E

F

R

K

K

R

R

Q

Q

N

H

E

A

H

K

L

I

E

E

L

L

I

I

A

A

S

S

E

E

N

N

F

F

T

V

S

S

P

R

A

A

V

V

M

M

E

E

A

A

Q

Q

G

G

S

S

V

V

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

R

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

I

A

V

E

E

E

E

L

L

A

A

I

R

K

E

R

R

C

A

K

K

E

Q

L

L

F

F

G

G

A

A

E

E

H

H

V

A

N

N

V

V

Q

Q

P

P

H

H

S
|
S

G
|
G

S
x
A

Q

Q

A

A

N

N

Q

M

A

A

V

V

Y

Y

L

F

A

T

T

V

L

L

K

E

P

H

G

G

D

D

T

T

I

V

L

L

S

G

M

M

N

N

L

L

S

S

H

H

G

G

G

G

H
|
H

L

L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

F

T

S

G

G

K

V

Y

Q

F

Y

N

N

V

F

V

V

Q

A

Y

Y

G

G

V

V

R

D

K

P

D

E

T

T

E

H

T

V

I

I

D

D

F

Y

D

D

Q

D

V

V

Y

R

R

E

L

K

A

A

K

R

E

L

H

H

K

R

P

P

K

K

M

L

I

I

I

V

C

A

G

A

A

A

S
|
S

A

A

Y

Y

P

P

R

R

V

I

I

I

D

D

F

F

D

A

K

K

F

F

R

R

E

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

Y

Y

L

L

L

M

A

V

D
|
D

I

M

A
|
A

H
|
H

I

I

A

A

G

G

L

L

V

V

V

A

A

A

G

G

L

L

H

H

P

P

S

N

P

P

I

V

E

P

A

Y

C

A

H

H

F

F

V

V

T

T

T

T

T
|
T

T

T

H
|
H

K
|
K

T

T

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

M

V

I

M

L

C

C

K

Q

A

E

E

Q

F

F

A

A

K

K

E

Q

I

I

D

D

K

K

A

A

V

I

F

F

P

P

G

G

L

I

Q

Q

G

G

G

G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

G

E

E

A

A

Q

L

S

Q

E

D

E

D

F

F

K

K

K

A

Y

Y

Q

A

E

K

Q

R

I

V

V

V

K

D

N

N

A

A

K

K

A

R

M

L

A

A

E

S

E

A

L

L

Q

Q

R

N

Q

E

G

G

F

F

R

T

L

L

V

V

S

S

G

G

G

G

T

T

D

D

N

N

H

H

L

L

M

L

L

L

V

V

D

D

L

L

T

R

D

P

K

Q

G

Q

I

L

T

T

G

G

K

K

E

T

A

A

E

E

A

K

A

V

L

L

G

D

R

E

A

V

N

G

I

I

T

T

V

V

N

N

K

K

N

N

T

T

I

I

P

P

F

Y

D

D

T

P

R

E

S

S

P

P

F

F

V

V

T

T

S

S

G

G

I

I

R

R

I

I

G

G

T

T

P

A

A

A

I

V

T

T

S

T

R

R

G

G

I

F

R

G

E

L

D

E

E

E

A

M

R

D

R

E

I

I

A

A

Q

A

L

I

I

I

A

G

E

L

V

V

L

L

K

K

N

N

I

V

N

G

D

S

E

E

G

Q

V

A

I

L

E

E

R

E

V

A

K

R

A

Q

E

R

V

V

active site: Y51 (= Y51), E53 (= E53), D197 (= D197), T223 (= T223), K226 (= K226), R232 (= R232)
binding pyridoxal-5'-phosphate: S93 (= S93), G94 (= G94), A95 (≠ S95), H122 (= H122), S172 (= S172), D197 (= D197), A199 (= A199), H200 (= H200), T223 (= T223), H225 (= H225), K226 (= K226)

2vmyA Crystal structure of f351gbsshmt in complex with gly and fthf (see paper)
65% identity, 96% coverage: 1:400/418 of query aligns to 1:400/405 of 2vmyA

query
sites
2vmyA

M

M

K

K

H

Y

L

L

K

P

A

Q

V

Q

D

D

P

P

E

Q

I

V

F

F

D

A

A

A

L

I

K

E

C

Q

E

E

F

R

K

K

R

R

Q

Q

N

H

E

A

H

K

L

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

F

F

T

V

S

S

P

R

A

A

V

V

M

M

E

E

A

A

Q

Q

G

G

S

S

V

V

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

R

R

R

Y
|
Y

Y
|
Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

I

A

V

E

E

E

E

L

L

A

A

I

R

K

E

R

R

C

A

K

K

E

Q

L

L

F

F

G

G

A

A

E

E

H

H

V

A

N

N

V

V

Q

Q

P

P

H

H

S
|
S

G
|
G

S
x
A

Q

Q

A

A

N

N

Q

M

A

A

V

V

Y

Y

L

F

A

T

T

V

L

L

K

E

P

H

G

G

D

D

T

T

I

V

L

L

S

G

M

M

N

N

L
|
L

S

S

H

H

G

G

G
|
G

H
|
H

L
|
L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

F

T

S

G

G

K

V

Y

Q

F

Y

N

N

V

F

V

V

Q

A

Y

Y

G

G

V

V

R

D

K

P

D

E

T

T

E

H

T

V

I

I

D

D

F

Y

D

D

Q

D

V

V

Y

R

R

E

L

K

A

A

K

R

E

L

H

H

K

R

P

P

K

K

M

L

I

I

I

V

C

A

G

A

A

A

S
|
S

A

A

Y

Y

P

P

R

R

V

I

I

I

D

D

F

F

D

A

K

K

F

F

R

R

E

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

Y

Y

L

L

L

M

A

V

D
|
D

I

M

A
|
A

H
|
H

I

I

A

A

G

G

L

L

V

V

V

A

A

A

G

G

L

L

H

H

P

P

S

N

P

P

I

V

E

P

A

Y

C

A

H

H

F

F

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

T

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

M

V

I

M

L

C

C

K

Q

A

E

E

Q

F

F

A

A

K

K

E

Q

I

I

D

D

K
|
K

A

A

V

I

F
|
F

P

P

G

G

L

I

Q

Q

G

G

G
|
G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

G

E

E

A

A

Q

L

S

Q

E

D

E

D

F

F

K

K

K

A

Y

Y

Q

A

E

K

Q

R

I

V

V

V

K

D

N

N

A

A

K

K

A

R

M

L

A

A

E

S

E

A

L

L

Q

Q

R

N

Q

E

G

G

F

F

R

T

L

L

V

V

S

S

G

G

G

G

T

T

D

D

N

N

H

H

L

L

M

L

L

L

V

V

D

D

L

L

T

R

D

P

K

Q

G

Q

I

L

T

T

G

G

K

K

E

T

A

A

E

E

A

K

A

V

L

L

G

D

R

E

A

V

N

G

I

I

T

T

V

V

N

N

K

K

N
|
N

T

T

I

I

P

P

F

Y

D

D

T

P

R

E

S
|
S

P
|
P

F
x
G

V

V

T

T

S

S

G

G

I

I

R
|
R

I

I

G

G

T

T

P

A

A

A

I

V

T

T

S

T

R

R

G

G

I

F

R

G

E

L

D

E

E

E

A

M

R

D

R

E

I

I

A

A

Q

A

L

I

I

I

A

G

E

L

V

V

L

L

K

K

N

N

I

V

N

G

D

S

E

E

G

Q

V

A

I

L

E

E

R

E

V

A

K

R

A

Q

E

R

V

V

active site: Y51 (= Y51), E53 (= E53), D197 (= D197), T223 (= T223), K226 (= K226), R232 (= R232)
binding N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid: E53 (= E53), Y60 (= Y60), Y61 (= Y61), L117 (= L117), G121 (= G121), H122 (= H122), L123 (= L123), S172 (= S172), K248 (= K248), F251 (= F251), N341 (= N341), S349 (= S349), P350 (= P350), G351 (≠ F351), R357 (= R357)
binding glycine: S31 (= S31), Y51 (= Y51), Y61 (= Y61), H200 (= H200), K226 (= K226), R357 (= R357)
binding pyridoxal-5'-phosphate: Y51 (= Y51), S93 (= S93), G94 (= G94), A95 (≠ S95), H122 (= H122), S172 (= S172), D197 (= D197), A199 (= A199), H200 (= H200), T223 (= T223), K226 (= K226), G257 (= G257)

2vmxA Crystal structure of f351gbsshmt in complex with l-allo-thr (see paper)
65% identity, 96% coverage: 1:400/418 of query aligns to 1:400/405 of 2vmxA

query
sites
2vmxA

M

M

K

K

H

Y

L

L

K

P

A

Q

V

Q

D

D

P

P

E

Q

I

V

F

F

D

A

A

A

L

I

K

E

C

Q

E

E

F

R

K

K

R

R

Q

Q

N

H

E

A

H

K

L

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

F

F

T

V

S

S

P

R

A

A

V

V

M

M

E

E

A

A

Q

Q

G

G

S

S

V

V

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

R

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

I

A

V

E

E

E

E

L

L

A

A

I

R

K

E

R

R

C

A

K

K

E

Q

L

L

F

F

G

G

A

A

E

E

H

H

V

A

N

N

V

V

Q

Q

P

P

H

H

S
|
S

G
|
G

S
x
A

Q

Q

A

A

N

N

Q

M

A

A

V

V

Y

Y

L

F

A

T

T

V

L

L

K

E

P

H

G

G

D

D

T

T

I

V

L

L

S

G

M

M

N

N

L

L

S

S

H

H

G

G

G

G

H
|
H

L

L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

F

T

S

G

G

K

V

Y

Q

F

Y

N

N

V

F

V

V

Q

A

Y

Y

G

G

V

V

R

D

K

P

D

E

T

T

E

H

T

V

I

I

D

D

F

Y

D

D

Q

D

V

V

Y

R

R

E

L

K

A

A

K

R

E

L

H

H

K

R

P

P

K

K

M

L

I

I

I

V

C

A

G

A

A

A

S
|
S

A

A

Y

Y

P

P

R

R

V

I

I

I

D

D

F

F

D

A

K

K

F

F

R

R

E

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

Y

Y

L

L

L

M

A

V

D
|
D

I

M

A
|
A

H
|
H

I

I

A

A

G

G

L

L

V

V

V

A

A

A

G

G

L

L

H

H

P

P

S

N

P

P

I

V

E

P

A

Y

C

A

H

H

F

F

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

T

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

M

V

I

M

L

C

C

K

Q

A

E

E

Q

F

F

A

A

K

K

E

Q

I

I

D

D

K

K

A

A

V

I

F

F

P

P

G

G

L

I

Q

Q

G

G

G

G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

G

E

E

A

A

Q

L

S

Q

E

D

E

D

F

F

K

K

K

A

Y

Y

Q

A

E

K

Q

R

I

V

V

V

K

D

N

N

A

A

K

K

A

R

M

L

A

A

E

S

E

A

L

L

Q

Q

R

N

Q

E

G

G

F

F

R

T

L

L

V

V

S

S

G

G

G

G

T

T

D

D

N

N

H

H

L

L

M

L

L

L

V

V

D

D

L

L

T

R

D

P

K

Q

G

Q

I

L

T

T

G

G

K

K

E

T

A

A

E

E

A

K

A

V

L

L

G

D

R

E

A

V

N

G

I

I

T

T

V

V

N

N

K

K

N

N

T

T

I

I

P

P

F

Y

D

D

T

P

R

E

S

S

P

P

F

G

V

V

T

T

S

S

G

G

I

I

R
|
R

I

I

G

G

T

T

P

A

A

A

I

V

T

T

S

T

R

R

G

G

I

F

R

G

E

L

D

E

E

E

A

M

R

D

R

E

I

I

A

A

Q

A

L

I

I

I

A

G

E

L

V

V

L

L

K

K

N

N

I

V

N

G

D

S

E

E

G

Q

V

A

I

L

E

E

R

E

V

A

K

R

A

Q

E

R

V

V

active site: Y51 (= Y51), E53 (= E53), D197 (= D197), T223 (= T223), K226 (= K226), R232 (= R232)
binding allo-threonine: S31 (= S31), H122 (= H122), H200 (= H200), R357 (= R357)
binding pyridoxal-5'-phosphate: S93 (= S93), G94 (= G94), A95 (≠ S95), H122 (= H122), S172 (= S172), D197 (= D197), A199 (= A199), H200 (= H200), T223 (= T223), K226 (= K226)

4ot8A X-ray crystal structure of serine hydroxymethyl transferase from burkholderia cenocepacia bound to plp and serine
64% identity, 97% coverage: 7:410/418 of query aligns to 11:413/414 of 4ot8A

query
sites
4ot8A

V

V

D

D

P

P

E

E

I

I

F

F

D

A

A

A

L

I

K

E

C

Q

E

E

F

N

K

R

R

R

Q

Q

N

E

E

D

H

H

L

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

F

Y

T

T

S

S

P

P

A

A

V

V

M

M

E

A

A

A

Q

Q

G

G

S

S

V

Q

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

K

R

R

Y

Y

Y
|
Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

V

A

V

E

E

E

Q

L

L

A

A

I

I

K

D

R

R

C

V

K

K

E

Q

L

L

F

F

G

G

A

A

E

E

H

A

V

A

N

N

V

V

Q

Q

P

P

H

N

S
|
S

G
|
G

S
|
S

Q

Q

A

A

N

N

Q

Q

A

G

V

V

Y

F

L

F

A

A

T

M

L

L

K

K

P

P

G

G

D

D

T

T

I

I

L

M

S

G

M

M

N

S

L

L

S

A

H

H

G

G

G

G

H
|
H

L

L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

M

T

S

G

G

K

K

Y

W

F

F

N

N

V

V

V

V

Q

S

Y

Y

G

G

V

L

R

N

K

E

D

N

T

-

E

E

T

D

I

I

D

D

F

Y

D

D

Q

A

V

A

Y

E

R

K

L

L

A

A

K

N

E

E

H

H

K

K

P

P

K

K

M

L

I

I

I

V

C

A

G

G

A

A

S

S

A

A

Y

F

P

A

R

L

V

K

I

I

D

D

F

F

D

E

K

R

F

L

R

A

E

K

I

I

A

A

D

K

E

S

V

V

G

G

A

A

Y

Y

L

L

L

M

A

V

D
|
D

I

M

A
|
A

H
|
H

I

Y

A

A

G

G

L

L

V

I

V

A

A

A

G

G

L

V

H

Y

P

P

S

N

P

P

I

V

E

P

A

H

C

A

H

D

F

F

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

S

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

V

V

I

M

L

C

M

K

K

A

A

E

E

F

Y

A

E

K

K

E

P

I

I

D

N

K

S

A

A

V

I

F

F

P

P

G

G

L

I

Q

Q

G

G

G

G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

K

E

E

A

A

Q

L

S

S

E

P

E

E

F

F

K

K

K

E

Y

Y

Q

Q

E

Q

Q

K

I

V

V

V

K

E

N

N

A

A

K

R

A

V

M

L

A

A

E

E

E

T

L

L

Q

V

R

K

Q

R

G

G

F

L

R

R

L

I

V

V

S

S

G

G

G

R

T

T

D

E

N

S

H

H

L

V

M

M

L

L

V

V

D

D

L

L

T

R

D

A

K

K

G

H

I

I

T

T

G

G

K

K

E

A

A

A

E

E

A

A

A

A

L

L

G

G

R

A

A

A

N

H

I

I

T

T

V

V

N

N

K

K

N

N

T

A

I

I

P

P

F

N

D

D

T

P

R

E

S

K

P

P

F

F

V

V

T

T

S

S

G

G

I

I

R
|
R

I

L

G

G

T

S

P

P

A

A

I

M

T

T

S

T

R

R

G

G

I

F

R

G

E

P

D

A

E

E

A

A

R

E

R

Q

I

V

A

G

Q

N

L

L

I

I

A

A

E

D

V

V

L

L

K

E

N

N

I

P

N

E

D

D

E

A

G

A

V

T

I

I

E

E

R

R

V

V

K

R

A

A

E

Q

V

V

L

A

E

E

I

L

C

T

G

K

K

R

H

F

P

P

L

V

Y

Y

active site: Y55 (= Y51), E57 (= E53), D200 (= D197), T226 (= T223), K229 (= K226), R235 (= R232)
binding pyridoxal-5'-phosphate: S97 (= S93), G98 (= G94), S99 (= S95), H126 (= H122), D200 (= D197), A202 (= A199), H203 (= H200), K229 (= K226)
binding serine: S35 (= S31), E57 (= E53), Y65 (= Y61), H126 (= H122), H203 (= H200), R360 (= R357)

4otlA X-ray crystal structure of serine hydroxymethyl transferase from burkholderia cenocepacia bound to plp and glycine
64% identity, 97% coverage: 7:410/418 of query aligns to 6:408/409 of 4otlA

query
sites
4otlA

V

V

D

D

P

P

E

E

I

I

F

F

D

A

A

A

L

I

K

E

C

Q

E

E

F

N

K

R

R

R

Q

Q

N

E

E

D

H

H

L

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

F

Y

T

T

S

S

P

P

A

A

V

V

M

M

E

A

A

A

Q

Q

G

G

S

S

V

Q

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

K

R

R

Y

Y

Y
|
Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

V

A

V

E

E

E

Q

L

L

A

A

I

I

K

D

R

R

C

V

K

K

E

Q

L

L

F

F

G

G

A

A

E

E

H

A

V

A

N

N

V

V

Q

Q

P

P

H

N

S
|
S

G
|
G

S
|
S

Q

Q

A

A

N

N

Q

Q

A

G

V

V

Y

F

L

F

A

A

T

M

L

L

K

K

P

P

G

G

D

D

T

T

I

I

L

M

S

G

M

M

N

S

L

L

S

A

H

H

G

G

G

G

H
|
H

L

L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

M

T

S

G

G

K

K

Y

W

F

F

N

N

V

V

V

V

Q

S

Y

Y

G

G

V

L

R

N

K

E

D

N

T

-

E

E

T

D

I

I

D

D

F

Y

D

D

Q

A

V

A

Y

E

R

K

L

L

A

A

K

N

E

E

H

H

K

K

P

P

K

K

M

L

I

I

I

V

C

A

G

G

A

A

S
|
S

A

A

Y

F

P

A

R

L

V

K

I

I

D

D

F

F

D

E

K

R

F

L

R

A

E

K

I

I

A

A

D

K

E

S

V

V

G

G

A

A

Y

Y

L

L

L

M

A

V

D
|
D

I

M

A
|
A

H
|
H

I

Y

A

A

G

G

L

L

V

I

V

A

A

A

G

G

L

V

H

Y

P

P

S

N

P

P

I

V

E

P

A

H

C

A

H

D

F

F

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

S

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

V

V

I

M

L

C

M

K

K

A

A

E

E

F

Y

A

E

K

K

E

P

I

I

D

N

K

S

A

A

V

I

F

F

P

P

G

G

L

I

Q

Q

G

G

G

G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

K

E

E

A

A

Q

L

S

S

E

P

E

E

F

F

K

K

K

E

Y

Y

Q

Q

E

Q

Q

K

I

V

V

V

K

E

N

N

A

A

K

R

A

V

M

L

A

A

E

E

E

T

L

L

Q

V

R

K

Q

R

G

G

F

L

R

R

L

I

V

V

S

S

G

G

G

R

T

T

D

E

N

S

H

H

L

V

M

M

L

L

V

V

D

D

L

L

T

R

D

A

K

K

G

H

I

I

T

T

G

G

K

K

E

A

A

A

E

E

A

A

A

A

L

L

G

G

R

A

A

A

N

H

I

I

T

T

V

V

N

N

K

K

N

N

T

A

I

I

P

P

F

N

D

D

T

P

R

E

S

K

P

P

F

F

V

V

T

T

S

S

G

G

I

I

R
|
R

I

L

G

G

T

S

P

P

A

A

I

M

T

T

S

T

R

R

G

G

I

F

R

G

E

P

D

A

E

E

A

A

R

E

R

Q

I

V

A

G

Q

N

L

L

I

I

A

A

E

D

V

V

L

L

K

E

N

N

I

P

N

E

D

D

E

A

G

A

V

T

I

I

E

E

R

R

V

V

K

R

A

A

E

Q

V

V

L

A

E

E

I

L

C

T

G

K

K

R

H

F

P

P

L

V

Y

Y

active site: Y50 (= Y51), E52 (= E53), D195 (= D197), T221 (= T223), K224 (= K226), R230 (= R232)
binding glycine: S30 (= S31), Y50 (= Y51), Y60 (= Y61), H121 (= H122), K224 (= K226), R355 (= R357)
binding pyridoxal-5'-phosphate: S92 (= S93), G93 (= G94), S94 (= S95), H121 (= H122), S170 (= S172), D195 (= D197), A197 (= A199), H198 (= H200), K224 (= K226)

4n0wA X-ray crystal structure of a serine hydroxymethyltransferase from burkholderia cenocepacia with covalently attached pyridoxal phosphate
64% identity, 97% coverage: 7:410/418 of query aligns to 13:415/416 of 4n0wA

query
sites
4n0wA

V

V

D

D

P

P

E

E

I

I

F

F

D

A

A

A

L

I

K

E

C

Q

E

E

F

N

K

R

R

R

Q

Q

N

E

E

D

H

H

L

I

E

E

L

L

I

I

A

A

S

S

E

E

N

N

F

Y

T

T

S

S

P

P

A

A

V

V

M

M

E

A

A

A

Q

Q

G

G

S

S

V

Q

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

K

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

V

A

V

E

E

E

Q

L

L

A

A

I

I

K

D

R

R

C

V

K

K

E

Q

L

L

F

F

G

G

A

A

E

E

H

A

V

A

N

N

V

V

Q

Q

P

P

H

N

S
|
S

G
|
G

S
|
S

Q

Q

A

A

N

N

Q

Q

A

G

V

V

Y

F

L

F

A

A

T

M

L

L

K

K

P

P

G

G

D

D

T

T

I

I

L

M

S

G

M

M

N

S

L

L

S

A

H

H

G

G

G

G

H
|
H

L

L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

M

T

S

G

G

K

K

Y

W

F

F

N

N

V

V

V

V

Q

S

Y

Y

G

G

V

L

R

N

K

E

D

N

T

-

E

E

T

D

I

I

D

D

F

Y

D

D

Q

A

V

A

Y

E

R

K

L

L

A

A

K

N

E

E

H

H

K

K

P

P

K

K

M

L

I

I

I

V

C

A

G

G

A

A

S

S

A

A

Y

F

P

A

R

L

V

K

I

I

D

D

F

F

D

E

K

R

F

L

R

A

E

K

I

I

A

A

D

K

E

S

V

V

G

G

A

A

Y

Y

L

L

L

M

A

V

D
|
D

I

M

A
|
A

H
|
H

I

Y

A

A

G

G

L

L

V

I

V

A

A

A

G

G

L

V

H

Y

P

P

S

N

P

P

I

V

E

P

A

H

C

A

H

D

F

F

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

S

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

V

V

I

M

L

C

M

K

K

A

A

E

E

F

Y

A

E

K

K

E

P

I

I

D

N

K

S

A

A

V

I

F

F

P

P

G

G

L

I

Q

Q

G

G

G

G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

K

E

E

A

A

Q

L

S

S

E

P

E

E

F

F

K

K

K

E

Y

Y

Q

Q

E

Q

Q

K

I

V

V

V

K

E

N

N

A

A

K

R

A

V

M

L

A

A

E

E

E

T

L

L

Q

V

R

K

Q

R

G

G

F

L

R

R

L

I

V

V

S

S

G

G

G

R

T

T

D

E

N

S

H

H

L

V

M

M

L

L

V

V

D

D

L

L

T

R

D

A

K

K

G

H

I

I

T

T

G

G

K

K

E

A

A

A

E

E

A

A

A

A

L

L

G

G

R

A

A

A

N

H

I

I

T

T

V

V

N

N

K

K

N

N

T

A

I

I

P

P

F

N

D

D

T

P

R

E

S

K

P

P

F

F

V

V

T

T

S

S

G

G

I

I

R

R

I

L

G

G

T

S

P

P

A

A

I

M

T

T

S

T

R

R

G

G

I

F

R

G

E

P

D

A

E

E

A

A

R

E

R

Q

I

V

A

G

Q

N

L

L

I

I

A

A

E

D

V

V

L

L

K

E

N

N

I

P

N

E

D

D

E

A

G

A

V

T

I

I

E

E

R

R

V

V

K

R

A

A

E

Q

V

V

L

A

E

E

I

L

C

T

G

K

K

R

H

F

P

P

L

V

Y

Y

active site: Y57 (= Y51), E59 (= E53), D202 (= D197), T228 (= T223), K231 (= K226), R237 (= R232)
binding pyridoxal-5'-phosphate: S99 (= S93), G100 (= G94), S101 (= S95), H128 (= H122), D202 (= D197), A204 (= A199), H205 (= H200), K231 (= K226)

3pgyB Serine hydroxymethyltransferase from staphylococcus aureus, s95p mutant.
63% identity, 98% coverage: 1:410/418 of query aligns to 1:404/404 of 3pgyB

query
sites
3pgyB

M

M

K

S

H

Y

L

I

K

T

A

K

V

Q

D

D

P

K

E

V

I

I

F

A

D

E

A

A

L

I

K

E

C

R

E

E

F

F

K

Q

R

R

Q

Q

N

N

E

S

H

N

L

I

E

E

L

L

I

I

A

A

S

S

E

E

N

N

F

F

T

V

S

S

P

E

A

A

V

V

M

M

E

E

A

A

Q

Q

G

G

S

S

V

V

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

R

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

C

F

V

V

D

D

I

V

A

T

E

E

E

S

L

I

A

A

I

I

K

D

R

R

C

A

K

K

E

A

L

L

F

F

G

G

A

A

E

E

H

H

V

V

N

N

V

V

Q

Q

P

P

H

H

S

S

G

G

S

P

Q

Q

A

A

N

N

Q

M

A

A

V

V

Y

Y

L

L

A

V

T

A

L

L

K

E

P

M

G

G

D

D

T

T

I

V

L

L

S

G

M

M

N

N

L

L

S

S

H

H

G

-

G

-

H

-

L

-

S

-

H

-

G

-

S

A

P

P

V

V

N

N

M

F

T

S

G

G

K

K

Y

F

F

Y

N

N

V

F

V

V

Q

E

Y

Y

G

G

V

V

R

D

K

K

D

D

T

T

E

E

T

R

I

I

D

N

F

Y

D

D

Q

E

V

V

Y

R

R

K

L

L

A

A

K

L

E

E

H

H

K

K

P

P

K

K

M

L

I

I

I

V

C

A

G

G

A

A

S

S

A

A

Y

Y

P

S

R

R

V

T

I

I

D

D

F

F

D

K

K

K

F

F

R

K

E

E

I

I

A

A

D

D

E

E

V

V

G

N

A

A

Y

K

L

L

L

M

A

V

D
|
D

I

M

A

A

H

H

I

I

A

A

G

G

L

L

V

V

V

A

A

A

G

G

L

L

H

H

P

P

S

N

P

P

I

V

E

E

A

Y

C

A

H

D

F

F

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

T

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

V

M

V

I

M

L

C

C

K

K

A

E

E

E

F

Y

A

K

K

K

E

D

I

I

D

D

K

K

A

T

V

I

F

F

P

P

G

G

L

I

Q

Q

G

G

G

G

P

P

L

L

M

E

H

H

V

V

I

I

A

A

A

A

K

K

A

A

V

V

A

A

F

F

K

G

E

E

A

A

Q

L

S

E

E

N

E

N

F

F

K

K

K

T

Y

Y

Q

Q

E

Q

Q

Q

I

V

V

V

K

K

N

N

A

A

K

K

A

V

M

L

A

A

E

E

E

A

L

L

Q

I

R

N

Q

E

G

G

F

F

R

R

L

I

V

V

S

S

G

G

G

G

T

T

D

D

N

N

H

H

L

L

M

V

L

A

V

V

D

D

L

V

T

K

D

G

K

S

-

I

G

G

I

L

T

T

G

G

K

K

E

E

A

A

E

E

A

E

A

T

L

L

G

D

R
x
S

A

V

N

G

I

I

T

T

V

C

N

N

K

K

N

N

T

T

I

I

P

P

F

F

D

D

T

Q

R

E

S

K

P

P

F

F

V

V

T

T

S

S

G

G

I

I

R

R

I

L

G

G

T

T

P

P

A

A

I

A

T

T

S

T

R

R

G

G

I

F

R

D

E

E

D

K

E

A

A

F

R

E

R

E

I

V

A

A

Q

K

L

I

I

I

A

S

E

L

V

A

L

L

K

K

N

N

I

S

N

K

D

D

E
|
E

G

E

V

K

I
x
L

E

Q

R

Q

V

A

K

K

A

E

E

R

V

V

L

A

E

K

I

L

C

T

G

A

K

E

H

Y

P

P

L
|
L

Y
|
Y

active site: Y51 (= Y51), E53 (= E53), D190 (= D197), T216 (= T223), K219 (= K226), R225 (= R232)
binding glycine: S327 (≠ R333), E384 (= E390), L387 (≠ I393), L403 (= L409), Y404 (= Y410)

1dfoB Crystal structure at 2.4 angstrom resolution of e. Coli serine hydroxymethyltransferase in complex with glycine and 5-formyl tetrahydrofolate (see paper)
65% identity, 96% coverage: 8:410/418 of query aligns to 12:416/417 of 1dfoB

query
sites
1dfoB

D

D

P

A

E

E

I

L

F

W

D

Q

A

A

L

M

K

E

C

Q

E

E

F

K

K

V

R

R

Q

Q

N

E

E

E

H

H

L

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

F

Y

T

T

S

S

P

P

A

R

V

V

M

M

E

Q

A

A

Q

Q

G

G

S

S

V

Q

L

L

T

T

N

N

K

K

Y
|
Y

A

A

E
|
E

G

G

Y

Y

P

P

G

G

K

K

R

R

Y
|
Y

Y
|
Y

G

G

G

G

C

C

E

E

C

Y

V

V

D

D

I

I

A

V

E

E

E

Q

L

L

A

A

I

I

K

D

R

R

C

A

K

K

E

E

L

L

F

F

G

G

A

A

E

D

H

Y

V

A

N

N

V

V

Q

Q

P

P

H

H

S
|
S

G
|
G

S
|
S

Q

Q

A

A

N

N

Q

F

A

A

V

V

Y

Y

L

T

A

A

T

L

L

L

K

E

P

P

G

G

D

D

T

T

I

V

L

L

S

G

M

M

N

N

L
|
L

S

A

H

H

G

G

G
|
G

H
|
H

L
|
L

S

T

H

H

G

G

S

S

P

P

V

V

N

N

M

F

T

S

G

G

K

K

Y

L

F

Y

N

N

V

I

V

V

Q

P

Y

Y

G

G

V

I

R

D

K

A

D

-

T

T

E

G

T

H

I

I

D

D

F

Y

D

A

Q

D

V

L

Y

E

R

K

L

Q

A

A

K

K

E

E

H

H

K

K

P

P

K

K

M

M

I

I

I

I

C

G

G

G

A
x
F

S
|
S

A

A

Y

Y

P

S

R

G

V

V

I

V

D

D

F

W

D

A

K

K

F

M

R

R

E

E

I

I

A

A

D

D

E

S

V

I

G

G

A

A

Y

Y

L

L

L

F

A

V

D
|
D

I

M

A
|
A

H
|
H

I

V

A

A

G

G

L

L

V

V

V

A

A

A

G

G

L

V

H

Y

P

P

S

N

P

P

I

V

E

P

A

H

C

A

H

H

F

V

V

V

T

T

T

T

T
|
T

T

T

H

H

K
|
K

T

T

L

L

R

A

G

G

P

P

R
|
R

G

G

G

G

V

L

V

I

M

L

C

A

K

K

A

G

-

G

-
x
S

-

E

E
|
E

F

L

A

Y

K

K

E

K

I

L

D

N

K

S

A

A

V

V

F

F

P

P

G

G

L

G

Q

Q

G
|
G

G

G

P

P

L

L

M

M

H

H

V

V

I

I

A

A

A

G

K

K

A

A

V

V

A

A

F

L

K

K

E

E

A

A

Q

M

S

E

E

P

E

E

F

F

K

K

K

T

Y

Y

Q

Q

E

Q

Q

Q

I

V

V

A

K

K

N

N

A

A

K

K

A

A

M

M

A

V

E

E

E

V

L

F

Q

L

R

E