SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing 3608721 FitnessBrowser__Dino:3608721 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)

6ymfA Crystal structure of serine hydroxymethyltransferase from aphanothece halophytica in the plp-serine external aldimine state (see paper)
59% identity, 97% coverage: 11:420/424 of query aligns to 10:414/418 of 6ymfA

query
sites
6ymfA

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active site: Y54 (= Y55), E56 (= E57), D200 (= D201), T226 (= T227), K229 (= K230), R235 (= R236)
binding [3-hydroxy-2-methyl-5-phosphonooxymethyl-pyridin-4-ylmethyl]-serine: S34 (= S35), S96 (= S97), G97 (= G98), A98 (= A99), H125 (= H126), S175 (= S176), D200 (= D201), A202 (= A203), H203 (= H204), T226 (= T227), K229 (= K230), R361 (= R362)

6ymdA Crystal structure of serine hydroxymethyltransferase from aphanothece halophytica in the covalent complex with malonate (see paper)
59% identity, 97% coverage: 11:420/424 of query aligns to 10:414/420 of 6ymdA

query
sites
6ymdA

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active site: Y54 (= Y55), E56 (= E57), D200 (= D201), T226 (= T227), K229 (= K230), R235 (= R236)
binding malonate ion: S34 (= S35), Y54 (= Y55), E56 (= E57), Y64 (= Y65), H125 (= H126), H203 (= H204), K229 (= K230), R361 (= R362)
binding 4'-deoxy-4'-aminopyridoxal-5'-phosphate: Y54 (= Y55), S96 (= S97), G97 (= G98), A98 (= A99), H125 (= H126), Y174 (≠ A175), S175 (= S176), D200 (= D201), A202 (= A203), T226 (= T227), K229 (= K230), G261 (= G262)

8suiB Joint x-ray/neutron structure of thermus thermophilus serine hydroxymethyltransferase (tthshmt) in internal aldimine state with l- ser bound in a pre-michalis complex (see paper)
61% identity, 96% coverage: 12:419/424 of query aligns to 3:401/402 of 8suiB

query
sites
8suiB

D

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G

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C

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E

A

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F

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A

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A

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T

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D

-

A

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L

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N

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L

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G

G

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P

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S

A

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A

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M

binding serine: Y55 (= Y64), Y56 (= Y65)

8ssyA Room-temperature x-ray structure of thermus thermophilus serine hydroxymethyltransferase (shmt) bound with d-ser in a pseudo- michaelis complex (see paper)
61% identity, 96% coverage: 12:419/424 of query aligns to 3:401/402 of 8ssyA

query
sites
8ssyA

D

D

T

E

A

A

I

L

A

F

E

E

A

L

I

I

G

A

H

L

E

E

L

E

D

K

R

R

Q

Q

Q

R

T

E

Q

G

I

L

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

I

F

V

V

S

S

V

K

D

Q

V

V

L

R

R

E

A

A

Q

V

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

R

A

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

H

V

V

I

D

D

T

R

V

V

E

E

Q

S

I

L

A

A

I

I

D

E

R

R

V

A

C

K

E

A

L

L

F

F

G

G

S

A

R

A

F

W

A

A

N

N

V

V

Q

Q

A

P

H

H

S

S

G

G

A

S

Q

Q

A

A

N

N

Q

M

A

A

V

V

F

Y

L

M

A

A

L

L

L

M

K

E

P

P

G

G

D

D

R

T

I

L

M

M

G

G

L

M

D

D

L

L

A

A

H

A

G

G

G

G

H

H

L

L

T

T

H

H

G

G

S

S

P

R

V

V

T

N

M

F

S

S

G

G

K

K

W

L

F

Y

D

K

V

V

V

V

S

S

Y

Y

E

G

V

V

S

R

R

P

D

D

D

T

H

E

L

L

I

I

D

D

M

L

D

E

N

E

V

V

R

R

K

R

V

L

A

A

L

L

D

E

T

H

K

R

P

P

K

K

L

V

I

I

V

V

A

A

G

G

A

A

S

S

A

A

Y

Y

P

P

R

R

H

F

M

W

D

D

F

F

A

K

A

A

F

F

R

R

A

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

W

Y

L

L

M

V

V

V

D

D

M

M

A

A

H
|
H

Y

F

A

A

G

G

L

L

I

V

A

A

A

A

G

G

E

L

Y

H

P

P

D

N

P

P

V

L

P

P

H

Y

A

A

H

H

V

V

V

V

T

T

S

S

T

T

T

T

H

H

K
|
K

T

T

L

L

R

R

G

G

P

P

R

R

G

G

G

G

I

L

I

I

L

L

T

S

N

N

D

D

E

P

A

E

L

L

A

G

K

K

K

R

F

I

N

D

S

K

A

L

V

I

F

F

P

P

G

G

N

I

Q

Q

G

G

G

G

P

P

L

L

M

E

H

H

V

V

I

I

A

A

A

G

K

K

A

A

V

V

A

A

F

F

G

F

E

E

A

A

L

L

E

Q

P

P

S

E

F

F

K

K

Q

E

Y

Y

A

S

K

R

D

L

V

V

I

V

A

E

N

N

A

A

R

K

A

R

L

L

S

A

E

E

V

E

L

L

V

A

A

R

G

R

G

G

L

Y

G

R

V

I

V

V

S

T

G

G

G

G

T

T

D

D

C

N

H

H

M

L

V

F

L

L

V

V

D

D

L

L

R

R

P

P

K

K

G

G

V

L

T

T

G

G

K

K

A

E

A

A

E

E

N

E

A

R

L

L

E

D

R

A

A

V

G

G

L

I

T

T

C

V

N

N

K

K

N

N

A

A

I

I

P

P

F

F

D

D

P

P

E

K

K

P

P

P

F

R

V

V

T

T

S

S

G

G

V

I

R
|
R

L

I

G

G

T

T

S

P

A

A

G

I

T

T

T

T

R

R

G

G

F

F

G

T

E

P

A

E

E

E

F

M

R

P

K

L

V

V

G

A

A

E

L

L

V

I

L

D

R

R

V

A

I

L

D

-

A

-

L

-

A

-

E

-

N

-

A

L

E

E

G

G

D

P

A

S

A

-

V

-

E

-

A

E

A

A

V

L

L

R

E

E

E

E

V

V

R

R

A

R

L

L

C

A

A

L

A

A

H

H

P

P

I

M

binding d-serine: S26 (= S35), H195 (= H204), K221 (= K230), R353 (= R362)

2dkjA Crystal structure of t.Th.Hb8 serine hydroxymethyltransferase
61% identity, 96% coverage: 12:419/424 of query aligns to 3:401/402 of 2dkjA

query
sites
2dkjA

D

D

T

E

A

A

I

L

A

F

E

E

A

L

I

I

G

A

H

L

E

E

L

E

D

K

R

R

Q

Q

Q

R

T

E

Q

G

I

L

E

E

L

L

I

I

A

A

S

S

E

E

N

N

I

F

V

V

S

S

V

K

D

Q

V

V

L

R

R

E

A

A

Q

V

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

R

A

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

H

V

V

I

D

D

T

R

V

V

E

E

Q

S

I

L

A

A

I

I

D

E

R

R

V

A

C

K

E

A

L

L

F

F

G

G

S

A

R

A

F

W

A

A

N

N

V

V

Q

Q

A

P

H

H

S
|
S

G
|
G

A
x
S

Q

Q

A

A

N

N

Q

M

A

A

V

V

F

Y

L

M

A

A

L

L

L

M

K

E

P

P

G

G

D

D

R

T

I

L

M

M

G

G

L

M

D

D

L

L

A

A

H

A

G

G

G

G

H
|
H

L

L

T

T

H

H

G

G

S

S

P

R

V

V

T

N

M

F

S

S

G

G

K

K

W

L

F

Y

D

K

V

V

V

V

S

S

Y

Y

E

G

V

V

S

R

R

P

D

D

D

T

H

E

L

L

I

I

D

D

M

L

D

E

N

E

V

V

R

R

K

R

V

L

A

A

L

L

D

E

T

H

K

R

P

P

K

K

L

V

I

I

V

V

A

A

G

G

A

A

S
|
S

A

A

Y

Y

P

P

R

R

H

F

M

W

D

D

F

F

A

K

A

A

F

F

R

R

A

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

W

Y

L

L

M

V

V

V

D
|
D

M

M

A
|
A

H

H

Y

F

A

A

G

G

L

L

I

V

A

A

A

A

G

G

E

L

Y

H

P

P

D

N

P

P

V

L

P

P

H

Y

A

A

H

H

V

V

V

V

T

T

S

S

T
|
T

T

T

H
|
H

K
|
K

T

T

L

L

R

R

G

G

P

P

R
|
R

G

G

G

G

I

L

I

I

L

L

T

S

N

N

D

D

E

P

A

E

L

L

A

G

K

K

K

R

F

I

N

D

S

K

A

L

V

I

F

F

P

P

G

G

N

I

Q

Q

G

G

G

G

P

P

L

L

M

E

H

H

V

V

I

I

A

A

A

G

K

K

A

A

V

V

A

A

F

F

G

F

E

E

A

A

L

L

E

Q

P

P

S

E

F

F

K

K

Q

E

Y

Y

A

S

K

R

D

L

V

V

I

V

A

E

N

N

A

A

R

K

A

R

L

L

S

A

E

E

V

E

L

L

V

A

A

R

G

R

G

G

L

Y

G

R

V

I

V

V

S

T

G

G

G

G

T

T

D

D

C

N

H

H

M

L

V

F

L

L

V

V

D

D

L

L

R

R

P

P

K

K

G

G

V

L

T

T

G

G

K

K

A

E

A

A

E

E

N

E

A

R

L

L

E

D

R

A

A

V

G

G

L

I

T

T

C

V

N

N

K

K

N

N

A

A

I

I

P

P

F

F

D

D

P

P

E

K

K

P

P

P

F

R

V

V

T

T

S

S

G

G

V

I

R

R

L

I

G

G

T

T

S

P

A

A

G

I

T

T

T

T

R

R

G

G

F

F

G

T

E

P

A

E

E

E

F

M

R

P

K

L

V

V

G

A

A

E

L

L

V

I

L

D

R

R

V

A

I

L

D

-

A

-

L

-

A

-

E

-

N

-

A

L

E

E

G

G

D

P

A

S

A

-

V

-

E

-

A

E

A

A

V

L

L

R

E

E

E

E

V

V

R

R

A

R

L

L

C

A

A

L

A

A

H

H

P

P

I

M

active site: Y46 (= Y55), E48 (= E57), D192 (= D201), T218 (= T227), K221 (= K230), R227 (= R236)
binding pyridoxal-5'-phosphate: S88 (= S97), G89 (= G98), S90 (≠ A99), H117 (= H126), S167 (= S176), D192 (= D201), A194 (= A203), H220 (= H229), K221 (= K230)

Q5SI56 Serine hydroxymethyltransferase; SHMT; Serine methylase; EC 2.1.2.1 from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)
60% identity, 99% coverage: 1:419/424 of query aligns to 1:406/407 of Q5SI56

query
sites
Q5SI56

M

M

L

V

K

S

T

T

L

L

N

K

T

-

A

-

G

-

I

-

S

R

D

D

T

E

A

A

I

L

A

F

E

E

A

L

I

I

G

A

H

L

E

E

L

E

D

K

R

R

Q

Q

Q

R

T

E

Q

G

I

L

E

E

L

L

I

I

A

A

S

S

E

E

N

N

I

F

V

V

S

S

V

K

D

Q

V

V

L

R

R

E

A

A

Q

V

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

R

A

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

H

V

V

I

D

D

T

R

V

V

E

E

Q

S

I

L

A

A

I

I

D

E

R

R

V

A

C

K

E

A

L

L

F

F

G

G

S

A

R

A

F

W

A

A

N

N

V

V

Q

Q

A

P

H

H

S

S

G
|
G

A
x
S

Q

Q

A

A

N

N

Q

M

A

A

V

V

F

Y

L

M

A

A

L

L

L

M

K

E

P

P

G

G

D

D

R

T

I

L

M

M

G

G

L

M

D

D

L

L

A

A

H

A

G

G

G

G

H

H

L

L

T

T

H

H

G

G

S

S

P

R

V

V

T

N

M

F

S

S

G

G

K

K

W

L

F

Y

D

K

V

V

V

V

S

S

Y

Y

E

G

V

V

S

R

R

P

D

D

D

T

H

E

L

L

I

I

D

D

M

L

D

E

N

E

V

V

R

R

K

R

V

L

A

A

L

L

D

E

T

H

K

R

P

P

K

K

L

V

I

I

V

V

A

A

G

G

A

A

S
|
S

A

A

Y

Y

P

P

R

R

H

F

M

W

D

D

F

F

A

K

A

A

F

F

R

R

A

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

W

Y

L

L

M

V

V

V

D

D

M

M

A

A

H
|
H

Y

F

A

A

G

G

L

L

I

V

A

A

A

A

G

G

E

L

Y

H

P

P

D

N

P

P

V

L

P

P

H

Y

A

A

H

H

V

V

V

V

T

T

S

S

T

T

T

T

H
|
H

K
|
K

T

T

L

L

R

R

G

G

P

P

R

R

G

G

G

G

I

L

I

I

L

L

T

S

N

N

D

D

E

P

A

E

L

L

A

G

K

K

K

R

F

I

N

D

S

K

A

L

V

I

F

F

P

P

G

G

N

I

Q

Q

G

G

G
|
G

P

P

L

L

M

E

H

H

V

V

I

I

A

A

A

G

K

K

A

A

V

V

A

A

F

F

G

F

E

E

A

A

L

L

E

Q

P

P

S

E

F

F

K

K

Q

E

Y

Y

A

S

K

R

D

L

V

V

I

V

A

E

N

N

A

A

R

K

A

R

L

L

S

A

E

E

V

E

L

L

V

A

A

R

G

R

G

G

L

Y

G

R

V

I

V

V

S

T

G

G

G

G

T

T

D

D

C

N

H

H

M

L

V

F

L

L

V

V

D

D

L

L

R

R

P

P

K

K

G

G

V

L

T

T

G

G

K

K

A

E

A

A

E

E

N

E

A

R

L

L

E

D

R

A

A

V

G

G

L

I

T

T

C

V

N

N

K

K

N

N

A

A

I

I

P

P

F

F

D

D

P

P

E

K

K

P

P

P

F

R

V

V

T

T

S

S

G

G

V

I

R

R

L

I

G

G

T

T

S

P

A

A

G

I

T

T

T

T

R

R

G

G

F

F

G

T

E

P

A

E

E

E

F

M

R

P

K

L

V

V

G

A

A

E

L

L

V

I

L

D

R

R

V

A

I

L

D

-

A

-

L

-

A

-

E

-

N

-

A

L

E

E

G

G

D

P

A

S

A

-

V

-

E

-

A

E

A

A

V

L

L

R

E

E

E

E

V

V

R

R

A

R

L

L

C

A

A

L

A

A

H

H

P

P

I

M

Y51 (= Y55) binding
GS 94:95 (≠ GA 98:99) binding
S172 (= S176) binding
H200 (= H204) binding
H225 (= H229) binding
K226 (= K230) modified: N6-(pyridoxal phosphate)lysine
G258 (= G262) binding

4n0wA X-ray crystal structure of a serine hydroxymethyltransferase from burkholderia cenocepacia with covalently attached pyridoxal phosphate
64% identity, 96% coverage: 12:420/424 of query aligns to 14:415/416 of 4n0wA

query
sites
4n0wA

D

D

T

P

A

E

I

I

A

F

E

A

A

A

I

I

G

E

H

Q

E

E

L

N

D

R

R

R

Q

Q

Q

E

T

D

Q

H

I

I

E

E

L

L

I

I

A

A

S

S

E

E

N

N

I

Y

V

T

S

S

V

P

D

A

V

V

L

M

R

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

R

K

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

H

Y

V

V

D

D

T

V

V

V

E

E

Q

Q

I

L

A

A

I

I

D

D

R

R

V

V

C

K

E

Q

L

L

F

F

G

G

S

A

R

E

F

A

A

A

N

N

V

V

Q

Q

A

P

H

N

S
|
S

G
|
G

A
x
S

Q

Q

A

A

N

N

Q

Q

A

G

V

V

F

F

L

F

A

A

L

M

L

L

K

K

P

P

G

G

D

D

R

T

I

I

M

M

G

G

L

M

D

S

L

L

A

A

H

H

G

G

G

G

H
|
H

L

L

T

T

H

H

G

G

S

S

P

P

V

V

T

N

M

M

S

S

G

G

K

K

W

W

F

F

D

N

V

V

V

V

S

S

Y

Y

E

G

V

L

S

N

R

E

D

N

D

E

H

D

L

-

I

I

D

D

M

Y

D

D

N

A

V

A

R

E

K

K

V

L

A

A

L

N

D

E

T

H

K

K

P

P

K

K

L

L

I

I

V

V

A

A

G

G

A

A

S

S

A

A

Y

F

P

A

R

L

H

K

M

I

D

D

F

F

A

E

A

R

F

L

R

A

A

K

I

I

A

A

D

K

E

S

V

V

G

G

A

A

W

Y

L

L

M

M

V

V

D
|
D

M

M

A
|
A

H
|
H

Y

Y

A

A

G

G

L

L

I

I

A

A

A

A

G

G

E

V

Y

Y

P

P

D

N

P

P

V

V

P

P

H

H

A

A

H

D

V

F

V

V

T

T

S

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

I

V

I

I

L

L

T

M

N

K

D

A

E

E

A

-

L

Y

A

E

K

K

K

P

F

I

N

N

S

S

A

A

V

I

F

F

P

P

G

G

N

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

G

K

E

E

A

A

L

L

E

S

P

P

S

E

F

F

K

K

Q

E

Y

Y

A

Q

K

Q

D

K

V

V

I

V

A

E

N

N

A

A

R

R

A

V

L

L

S

A

E

E

V

T

L

L

V

V

A

K

G

R

G

G

L

L

G

R

V

I

V

V

S

S

G

G

G

R

T

T

D

E

C

S

H

H

M

V

V

M

L

L

V

V

D

D

L

L

R

R

P

A

K

K

G

H

V

I

T

T

G

G

K

K

A

A

A

A

E

E

N

A

A

A

L

L

E

G

R

A

A

A

G

H

L

I

T

T

C

V

N

N

K

K

N

N

A

A

I

I

P

P

F

N

D

D

P

P

E

E

K

K

P

P

F

F

V

V

T

T

S

S

G

G

V

I

R

R

L

L

G

G

T

S

S

P

A

A

G

M

T

T

T

T

R

R

G

G

F

F

G

G

E

P

A

A

E

E

F

A

R

E

K

Q

V

V

G

G

A

N

L

L

V

I

L

A

R

D

V

V

I

L

D

-

A

-

L

-

A

-

E

E

N

N

A

P

E

E

G

-

D

D

A

A

A

A

V

T

E

I

A

E

A

R

V

V

L

R

E

A

E

Q

V

V

R

A

A

E

L

L

C

T

A

K

A

R

H

F

P

P

I

V

Y

Y

active site: Y57 (= Y55), E59 (= E57), D202 (= D201), T228 (= T227), K231 (= K230), R237 (= R236)
binding pyridoxal-5'-phosphate: S99 (= S97), G100 (= G98), S101 (≠ A99), H128 (= H126), D202 (= D201), A204 (= A203), H205 (= H204), K231 (= K230)

4otlA X-ray crystal structure of serine hydroxymethyl transferase from burkholderia cenocepacia bound to plp and glycine
64% identity, 96% coverage: 12:420/424 of query aligns to 7:408/409 of 4otlA

query
sites
4otlA

D

D

T

P

A

E

I

I

A

F

E

A

A

A

I

I

G

E

H

Q

E

E

L

N

D

R

R

R

Q

Q

Q

E

T

D

Q

H

I

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

I

Y

V

T

S

S

V

P

D

A

V

V

L

M

R

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

R

K

R

R

Y

Y

Y
|
Y

G

G

G

G

C

C

E

E

H

Y

V

V

D

D

T

V

V

V

E

E

Q

Q

I

L

A

A

I

I

D

D

R

R

V

V

C

K

E

Q

L

L

F

F

G

G

S

A

R

E

F

A

A

A

N

N

V

V

Q

Q

A

P

H

N

S
|
S

G
|
G

A
x
S

Q

Q

A

A

N

N

Q

Q

A

G

V

V

F

F

L

F

A

A

L

M

L

L

K

K

P

P

G

G

D

D

R

T

I

I

M

M

G

G

L

M

D

S

L

L

A

A

H

H

G

G

G

G

H
|
H

L

L

T

T

H

H

G

G

S

S

P

P

V

V

T

N

M

M

S

S

G

G

K

K

W

W

F

F

D

N

V

V

V

V

S

S

Y

Y

E

G

V

L

S

N

R

E

D

N

D

E

H

D

L

-

I

I

D

D

M

Y

D

D

N

A

V

A

R

E

K

K

V

L

A

A

L

N

D

E

T

H

K

K

P

P

K

K

L

L

I

I

V

V

A

A

G

G

A

A

S
|
S

A

A

Y

F

P

A

R

L

H

K

M

I

D

D

F

F

A

E

A

R

F

L

R

A

A

K

I

I

A

A

D

K

E

S

V

V

G

G

A

A

W

Y

L

L

M

M

V

V

D
|
D

M

M

A
|
A

H
|
H

Y

Y

A

A

G

G

L

L

I

I

A

A

A

A

G

G

E

V

Y

Y

P

P

D

N

P

P

V

V

P

P

H

H

A

A

H

D

V

F

V

V

T

T

S

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

I

V

I

I

L

L

T

M

N

K

D

A

E

E

A

-

L

Y

A

E

K

K

K

P

F

I

N

N

S

S

A

A

V

I

F

F

P

P

G

G

N

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

G

K

E

E

A

A

L

L

E

S

P

P

S

E

F

F

K

K

Q

E

Y

Y

A

Q

K

Q

D

K

V

V

I

V

A

E

N

N

A

A

R

R

A

V

L

L

S

A

E

E

V

T

L

L

V

V

A

K

G

R

G

G

L

L

G

R

V

I

V

V

S

S

G

G

G

R

T

T

D

E

C

S

H

H

M

V

V

M

L

L

V

V

D

D

L

L

R

R

P

A

K

K

G

H

V

I

T

T

G

G

K

K

A

A

A

A

E

E

N

A

A

A

L

L

E

G

R

A

A

A

G

H

L

I

T

T

C

V

N

N

K

K

N

N

A

A

I

I

P

P

F

N

D

D

P

P

E

E

K

K

P

P

F

F

V

V

T

T

S

S

G

G

V

I

R
|
R

L

L

G

G

T

S

S

P

A

A

G

M

T

T

T

T

R

R

G

G

F

F

G

G

E

P

A

A

E

E

F

A

R

E

K

Q

V

V

G

G

A

N

L

L

V

I

L

A

R

D

V

V

I

L

D

-

A

-

L

-

A

-

E

E

N

N

A

P

E

E

G

-

D

D

A

A

A

A

V

T

E

I

A

E

A

R

V

V

L

R

E

A

E

Q

V

V

R

A

A

E

L

L

C

T

A

K

A

R

H

F

P

P

I

V

Y

Y

active site: Y50 (= Y55), E52 (= E57), D195 (= D201), T221 (= T227), K224 (= K230), R230 (= R236)
binding glycine: S30 (= S35), Y50 (= Y55), Y60 (= Y65), H121 (= H126), K224 (= K230), R355 (= R362)
binding pyridoxal-5'-phosphate: S92 (= S97), G93 (= G98), S94 (≠ A99), H121 (= H126), S170 (= S176), D195 (= D201), A197 (= A203), H198 (= H204), K224 (= K230)

4ot8A X-ray crystal structure of serine hydroxymethyl transferase from burkholderia cenocepacia bound to plp and serine
64% identity, 96% coverage: 12:420/424 of query aligns to 12:413/414 of 4ot8A

query
sites
4ot8A

D

D

T

P

A

E

I

I

A

F

E

A

A

A

I

I

G

E

H

Q

E

E

L

N

D

R

R

R

Q

Q

Q

E

T

D

Q

H

I

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

I

Y

V

T

S

S

V

P

D

A

V

V

L

M

R

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

R

K

R

R

Y

Y

Y
|
Y

G

G

G

G

C

C

E

E

H

Y

V

V

D

D

T

V

V

V

E

E

Q

Q

I

L

A

A

I

I

D

D

R

R

V

V

C

K

E

Q

L

L

F

F

G

G

S

A

R

E

F

A

A

A

N

N

V

V

Q

Q

A

P

H

N

S
|
S

G
|
G

A
x
S

Q

Q

A

A

N

N

Q

Q

A

G

V

V

F

F

L

F

A

A

L

M

L

L

K

K

P

P

G

G

D

D

R

T

I

I

M

M

G

G

L

M

D

S

L

L

A

A

H

H

G

G

G

G

H
|
H

L

L

T

T

H

H

G

G

S

S

P

P

V

V

T

N

M

M

S

S

G

G

K

K

W

W

F

F

D

N

V

V

V

V

S

S

Y

Y

E

G

V

L

S

N

R

E

D

N

D

E

H

D

L

-

I

I

D

D

M

Y

D

D

N

A

V

A

R

E

K

K

V

L

A

A

L

N

D

E

T

H

K

K

P

P

K

K

L

L

I

I

V

V

A

A

G

G

A

A

S

S

A

A

Y

F

P

A

R

L

H

K

M

I

D

D

F

F

A

E

A

R

F

L

R

A

A

K

I

I

A

A

D

K

E

S

V

V

G

G

A

A

W

Y

L

L

M

M

V

V

D
|
D

M

M

A
|
A

H
|
H

Y

Y

A

A

G

G

L

L

I

I

A

A

A

A

G

G

E

V

Y

Y

P

P

D

N

P

P

V

V

P

P

H

H

A

A

H

D

V

F

V

V

T

T

S

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

I

V

I

I

L

L

T

M

N

K

D

A

E

E

A

-

L

Y

A

E

K

K

K

P

F

I

N

N

S

S

A

A

V

I

F

F

P

P

G

G

N

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

G

K

E

E

A

A

L

L

E

S

P

P

S

E

F

F

K

K

Q

E

Y

Y

A

Q

K

Q

D

K

V

V

I

V

A

E

N

N

A

A

R

R

A

V

L

L

S

A

E

E

V

T

L

L

V

V

A

K

G

R

G

G

L

L

G

R

V

I

V

V

S

S

G

G

G

R

T

T

D

E

C

S

H

H

M

V

V

M

L

L

V

V

D

D

L

L

R

R

P

A

K

K

G

H

V

I

T

T

G

G

K

K

A

A

A

A

E

E

N

A

A

A

L

L

E

G

R

A

A

A

G

H

L

I

T

T

C

V

N

N

K

K

N

N

A

A

I

I

P

P

F

N

D

D

P

P

E

E

K

K

P

P

F

F

V

V

T

T

S

S

G

G

V

I

R
|
R

L

L

G

G

T

S

S

P

A

A

G

M

T

T

T

T

R

R

G

G

F

F

G

G

E

P

A

A

E

E

F

A

R

E

K

Q

V

V

G

G

A

N

L

L

V

I

L

A

R

D

V

V

I

L

D

-

A

-

L

-

A

-

E

E

N

N

A

P

E

E

G

-

D

D

A

A

A

A

V

T

E

I

A

E

A

R

V

V

L

R

E

A

E

Q

V

V

R

A

A

E

L

L

C

T

A

K

A

R

H

F

P

P

I

V

Y

Y

active site: Y55 (= Y55), E57 (= E57), D200 (= D201), T226 (= T227), K229 (= K230), R235 (= R236)
binding pyridoxal-5'-phosphate: S97 (= S97), G98 (= G98), S99 (≠ A99), H126 (= H126), D200 (= D201), A202 (= A203), H203 (= H204), K229 (= K230)
binding serine: S35 (= S35), E57 (= E57), Y65 (= Y65), H126 (= H126), H203 (= H204), R360 (= R362)

1kl2A Crystal structure of serine hydroxymethyltransferase complexed with glycine and 5-formyl tetrahydrofolate (see paper)
60% identity, 96% coverage: 11:416/424 of query aligns to 7:402/405 of 1kl2A

query
sites
1kl2A

S

Q

D

D

T

P

A

Q

I

V

A

F

E

A

A

A

I

I

G

E

H

Q

E

E

L

R

D

K

R

R

Q

Q

Q

H

T

A

Q

K

I

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

I

F

V

V

S

S

V

R

D

A

V

V

L

M

R

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

R

R

R

R

Y
|
Y

Y
|
Y

G

G

G

G

C

C

E

E

H

Y

V

V

D

D

T

I

V

V

E

E

Q

E

I

L

A

A

I

R

D

E

R

R

V

A

C

K

E

Q

L

L

F

F

G

G

S

A

R

E

F

H

A

A

N

N

V

V

Q

Q

A

P

H

H

S
|
S

G
|
G

A
|
A

Q

Q

A

A

N

N

Q

M

A

A

V

V

F

Y

L

F

A

T

L

V

L

L

K

E

P

H

G

G

D

D

R

T

I

V

M

L

G

G

L

M

D

N

L

L

A

S

H

H

G

G

G
|
G

H
|
H

L

L

T

T

H

H

G

G

S

S

P

P

V

V

T

N

M

F

S

S

G

G

K

V

W

Q

F

Y

D

N

V

F

V

V

S

A

Y

Y

E

G

V

V

S

D

R

P

D

E

D

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H

H

L

V

I

I

D

D

M

Y

D

D

N

D

V

V

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K

A

A

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D

L

T

H

K

R

P

P

K

K

L

L

I

I

V

V

A

A

G

A

A

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S
|
S

A

A

Y

Y

P

P

R

R

H

I

M

I

D

D

F

F

A

A

A

K

F

F

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A

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I

I

A

A

D

D

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E

V

V

G

G

A

A

W

Y

L

L

M

M

V

V

D
|
D

M

M

A
|
A

H
|
H

Y

I

A

A

G

G

L

L

I

V

A

A

A

A

G

G

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L

Y

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P

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N

P

P

V

V

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P

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Y

A

A

H

H

V

F

V

V

T

T

S

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

I

M

I

I

L

L

T

C

N

Q

D

-

E

E

A

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L

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A

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K

K

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|
F

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G

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I

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G

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P

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L

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M

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K

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F

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K

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Y

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V

I

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N

A

A

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K

A

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L

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A

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S

V

A

L

L

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A

N

G

E

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L

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V

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L

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V

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D

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L

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R

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P

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G

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K

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A

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K

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L

L

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D

R

E

A

V

G

G

L

I

T

T

C

V

N

N

K

K

N
|
N

A

T

I

I

P

P

F

Y

D

D

P

P

E

E

K

S

P

P

F

F

V

V

T

T

S

S

G

G

V

I

R
|
R

L

I

G

G

T

T

S

A

A

A

G

V

T

T

T

T

R

R

G

G

F

F

G

G

E

L

A

E

E

E

F

M

R

D

K

E

V

I

G

A

A

A

L

I

V

I

L

G

R

L

V

V

I

L

D

-

A

-

L

-

A

-

E

K

N

N

A

V

E

G

G

S

D

E

A

Q

A

A

V

-

E

-

A

-

A

-

V

-

L

L

E

E

E

E

V

A

R

R

A

Q

L

R

C

V

A

A

A

A

active site: Y51 (= Y55), E53 (= E57), D197 (= D201), T223 (= T227), K226 (= K230), R232 (= R236)
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 (= E57), Y60 (= Y64), G121 (= G125), H122 (= H126), S172 (= S176), F251 (= F256), N341 (= N346)
binding glycine: S31 (= S35), Y51 (= Y55), Y61 (= Y65), H200 (= H204), R357 (= R362)
binding pyridoxal-5'-phosphate: S93 (= S97), G94 (= G98), A95 (= A99), H122 (= H126), S172 (= S176), D197 (= D201), A199 (= A203), H200 (= H204), T223 (= T227), H225 (= H229), K226 (= K230)

1kl1A Crystal structure of serine hydroxymethyltransferase complexed with glycine (see paper)
60% identity, 96% coverage: 11:416/424 of query aligns to 7:402/405 of 1kl1A

query
sites
1kl1A

S

Q

D

D

T

P

A

Q

I

V

A

F

E

A

A

A

I

I

G

E

H

Q

E

E

L

R

D

K

R

R

Q

Q

Q

H

T

A

Q

K

I

I

E

E

L

L

I

I

A

A

S
|
S

E

E

N

N

I

F

V

V

S

S

V

R

D

A

V

V

L

M

R

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

R

R

R

R

Y

Y

Y

Y

G

G

G

G

C

C

E

E

H

Y

V

V

D

D

T

I

V

V

E

E

Q

E

I

L

A

A

I

R

D

E

R

R

V

A

C

K

E

Q

L

L

F

F

G

G

S

A

R

E

F

H

A

A

N

N

V

V

Q

Q

A

P

H

H

S
|
S

G
|
G

A
|
A

Q

Q

A

A

N

N

Q

M

A

A

V

V

F

Y

L

F

A

T

L

V

L

L

K

E

P

H

G

G

D

D

R

T

I

V

M

L

G

G

L

M

D

N

L

L

A

S

H

H

G

G

G

G

H
|
H

L

L

T

T

H

H

G

G

S

S

P

P

V

V

T

N

M

F

S

S

G

G

K

V

W

Q

F

Y

D

N

V

F

V

V

S

A

Y

Y

E

G

V

V

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D

R

P

D

E

D

T

H

H

L

V

I

I

D

D

M

Y

D

D

N

D

V

V

R

R

K

E

V

K

A

A

L

R

D

L

T

H

K

R

P

P

K

K

L

L

I

I

V

V

A

A

G

A

A
|
A

S
|
S

A

A

Y

Y

P

P

R

R

H

I

M

I

D

D

F

F

A

A

A

K

F

F

R

R

A

E

I

I

A

A

D

D

E

E

V

V

G

G

A

A

W

Y

L

L

M

M

V

V

D
|
D

M

M

A
|
A

H
|
H

Y

I

A

A

G

G

L

L

I

V

A

A

A

A

G

G

E

L

Y

H

P

P

D

N

P

P

V

V

P

P

H

Y

A

A

H

H

V

F

V

V

T

T

S

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

I

M

I

I

L

L

T

C

N

Q

D

-

E

E

A

Q

L

F

A

A

K

K

K

Q

F

I

N

D

S

K

A

A

V

I

F

F

P

P

G

G

N

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

G

G

E

E

A

A

L

L

E

Q

P

D

S

D

F

F

K

K

Q

A

Y

Y

A

A

K

K

D

R

V

V

I

V

A

D

N

N

A

A

R

K

A

R

L

L

S

A

E

S

V

A

L

L

V

Q

A

N

G

E

G

G

L

F

G

T

V

L

V

V

S

S

G

G

G

G

T

T

D

D

C

N

H

H

M

L

V

L

L

L

V

V

D

D

L

L

R

R

P

P

K

Q

G

Q

V

L

T

T

G

G

K

K

A

T

A

A

E

E

N

K

A

V

L

L

E

D

R

E

A

V

G

G

L

I

T

T

C

V

N

N

K

K

N

N

A

T

I

I

P

P

F

Y

D

D

P

P

E

E

K

S

P

P

F

F

V

V

T

T

S

S

G

G

V

I

R
|
R

L

I

G

G

T

T

S

A

A

A

G

V

T

T

T

T

R

R

G

G

F

F

G

G

E

L

A

E

E

E

F

M

R

D

K

E

V

I

G

A

A