SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_004265816.1 NCBI__GCF_000310185.1:WP_004265816.1 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 8 hits to proteins with known functional sites (download)

1um0A Crystal structure of chorismate synthase complexed with fmn (see paper)
47% identity, 91% coverage: 4:345/376 of query aligns to 2:348/365 of 1um0A

query
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1um0A

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binding flavin mononucleotide: H104 (= H106), R123 (= R125), S125 (= S127), N241 (= N238), G242 (≠ A239), L280 (= L277), G281 (= G278), K296 (= K293), T298 (= T295), P299 (≠ S296), S300 (= S297), I327 (≠ V324), R330 (= R327)

P56122 Chorismate synthase; CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; EC 4.2.3.5 from Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori) (see paper)
47% identity, 91% coverage: 4:345/376 of query aligns to 2:348/365 of P56122

query
sites
P56122

N

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RSS 123:125 (= RSS 125:127) binding FMN
KPTPS 296:300 (≠ KPTSS 293:297) binding FMN

Q12640 Chorismate synthase aro-2; 5-enolpyruvylshikimate-3-phosphate phospholyase; EC 1.5.1.38; EC 4.2.3.5 from Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (see 3 papers)
40% identity, 92% coverage: 4:350/376 of query aligns to 2:396/432 of Q12640

query
sites
Q12640

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S16 (= S18) mutation to A: Does not affect the flavin reductase activity but reduces the chorismate synthase activity 70-fold.
H17 (= H19) active site; mutation to A: Reduces the chorismate synthase activity 20-fold.
H106 (= H106) active site; mutation to A: Reduces the chorismate synthase activity 10-fold.
S127 (= S127) mutation to A: Does not affect the flavin reductase activity but reduces the chorismate synthase activity 6-fold.
D367 (= D321) active site; mutation D->A,N: Does not affect substrate binding but stringly reduces the chorismate synthase activity.

2qhfA Mycobacterium tuberculosis chorismate synthase in complex with nca
38% identity, 88% coverage: 16:345/376 of query aligns to 8:367/392 of 2qhfA

query
sites
2qhfA

G

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T

A

A

V

A

R

R

V

V

A

A

A

A

G

G

A

T

I

V

A

A

K

R

K

A

W

F

L

L

K

R

E

Q

R

A

H

L

G

G

I

V

V

E

I

V

R

L

A

S

-

H

-

V

-

I

C

S

M

I

G

G

A

A

L

S

G

A

P

P

I

Y

E

E

I

G

P

P

F

P

V

P

S

R

W

A

D

E

E

D

-

L

-

P

-

A

V

I

D

D

G

A

N

S

P

P

F

V

F

R

A

A

P

Y

N

D

A

K

A

A

I

A

V

E

P

A

E

D

L

M

E

I

A

A

F

Q

M

I

D

E

A

A

L

A

R

K

K

K

S

D

G

G

D

D

S

T

I

L

G

G

A

G

R

V

I

V

D

E

V

A

V

V

A

A

S

L

G

G

V

L

P

P

V

V

G

G

W

L

G

G

E

S

P

F

V

T

Y

S

G

G

-

D

-

H

R

R

L

L

D

D

A

S

D

Q

I

L

A

A

Y

A

A

A

M

V

M

M

G

G

I
|
I

N
x
Q

A

A

V

I

K

K

G

G

V

V

E

E

I

I

G

G

A

D

G

G

F

F

K

Q

S

T

V

A

A

R

Q

R

R

R

G

G

T

S

E

R

H

A

G

H

D

D

E

E

M

M

T

Y

P

P

A

G

-

P

-

D

G

G

F

V

L

V

-

R

-

S

S

T

N

N

H

R

A

A

G

G

G

G

V

L

L

E

G

G

G

G

I

M

S

T

T

N

G

G

Q

Q

D

P

I

L

L

R

A

V

S

R

I

A

A

A

I
x
M

K

K

P

P

T
x
I

S

S

S

T

I

V

R

P

L

R

E

A

R

L

R

A

S

T

I

V

D

D

R

L

A

A

G

T

N

G

P

D

V

E

M

A

V

V

A

A

T

I

E

H

G

Q

R
|
R

H

S

D

D

P

V

C

C

V

A

G

V

I

P

R

A

A

A

T

G

P

V

I

V

A

V

E

E

S

T

M

M

L

V

A

A

L

L

V

V

L

L

I

A

D

R

H

A

A

A

L

L

binding nicotinamide: R46 (= R54), A138 (= A128), I255 (= I237), Q256 (≠ N238), M314 (≠ I292), I317 (≠ T295), R341 (= R319)

P9WPY1 Chorismate synthase; CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; EC 4.2.3.5 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
38% identity, 88% coverage: 16:345/376 of query aligns to 8:367/401 of P9WPY1

query
sites
P9WPY1

G

G

E

E

S

S

H

H

G

G

P

R

A

A

I

L

G

V

C

A

I

V

V

V

D

E

G

G

C

M

P

V

P

A

G

G

L

V

A

H

I

V

C

T

E

S

A

A

D

D

I

I

Q

A

A

D

E

Q

L

L

D

A

R

R

R
|
R

K

R

P

L

G

G

T

Y

S

G

R
|
R

H

G

V

A

T

R

Q

M

R

T

R

F

E

E

P

R

D

D

T

A

V

V

E

T

I

V

L

L

S

S

G

G

V

I

F

R

E

H

G

G

V

S

T

T

T

L

G

G

T

G

P

P

I

I

S

A

L

I

L

E

I

I

R

G

N

N

Q

T

D

E

-

W

-

P

-

K

-

W

-

E

-

T

-

V

-

M

-

A

Q

A

R

D

S

P

K

V

D

D

Y

P

G

A

N

E

I

L

A

A

D

D

T

V

F

A

-

R

-

N

-

A

-

P

-

L

-

T

-

R

-

P

R

R

P

P

G

G

H

H

A

A

D

D

Y

Y

A

A

Y

G

L

M

Q

L

K

K

Y

Y

G

G

L

F

R

D

D

D

H

A

R

R

G

P

G

V

-

L

G

E

R

R

S

A

S

S

A

A

R

R

E

E

T

T

A

A

V

A

R

R

V

V

A

A

A

A

G

G

A

T

I

V

A

A

K

R

K

A

W

F

L

L

K

R

E

Q

R

A

H

L

G

G

I

V

V

E

I

V

R

L

A

S

-

H

-

V

-

I

C

S

M

I

G

G

A

A

L

S

G

A

P

P

I

Y

E

E

I

G

P

P

F

P

V

P

S

R

W

A

D

E

E

D

-

L

-

P

-

A

V

I

D

D

G

A

N

S

P

P

F

V

F

R

A

A

P

Y

N

D

A

K

A

A

I

A

V

E

P

A

E

D

L

M

E

I

A

A

F

Q

M

I

D

E

A

A

L

A

R

K

K

K

S

D

G

G

D

D

S

T

I

L

G

G

A

G

R

V

I

V

D

E

V

A

V

V

A

A

S

L

G

G

V

L

P

P

V

V

G

G

W

L

G

G

E

S

P

F

V

T

Y

S

G

G

-

D

-

H

R

R

L

L

D

D

A

S

D

Q

I

L

A

A

Y

A

A

A

M

V

M

M

G

G

I

I

N
x
Q

A
|
A

V

I

K

K

G

G

V

V

E

E

I

I

G

G

A

D

G

G

F

F

K

Q

S

T

V

A

A

R

Q

R

R

R

G

G

T

S

E

R

H

A

G

H

D

D

E

E

M

M

T

Y

P

P

A

G

-

P

-

D

G

G

F

V

L

V

-

R

-

S

S

T

N

N

H

R

A

A

G

G

G

G

V

L

L

E

G

G

G

G

I

M

S

T

T

N

G

G

Q

Q

D

P

I

L

L

R

A

V

S

R

I

A

A

A

I

M

K
|
K

P
|
P

T
x
I

S
|
S

S
x
T

I

V

R

P

L

R

E

A

R

L

R

A

S

T

I

V

D

D

R

L

A

A

G

T

N

G

P

D

V

E

M

A

V

V

A

A

T

I

E

H

G

Q

R
|
R

H

S

D

D

P

V

C

C

V

A

G

V

I

P

R

A

A

A

T

G

P

V

I

V

A

V

E

E

S

T

M

M

L

V

A

A

L

L

V

V

L

L

I

A

D

R

H

A

A

A

L

L

R40 (= R48) binding NADP(+)
R46 (= R54) binding NADP(+)
QA 256:257 (≠ NA 238:239) binding FMN
KPIST 315:319 (≠ KPTSS 293:297) binding FMN
R341 (= R319) binding FMN

2o12A Mycobacterium tuberculosis chorismate synthase in complex with fmn
38% identity, 88% coverage: 16:345/376 of query aligns to 8:361/386 of 2o12A

query
sites
2o12A

G

G

E

E

S

S

H

H

G

G

P

R

A

A

I

L

G

V

C

A

I

V

V

V

D

E

G

G

C

M

P

V

P

A

G

G

L

V

A

H

I

V

C

T

E

S

A

A

D

D

I

I

Q

A

A

D

E

Q

L

L

D

A

R

R

R

R

K

R

P

L

G

G

T

Y

S

G

R

R

H

-

V

-

T

-

Q

-

R

-

R

-

E

E

P

R

D

D

T

A

V

V

E

T

I

V

L

L

S

S

G

G

V

I

F

R

E

H

G

G

V

S

T

T

T

L

G

G

T

G

P

P

I

I

S

A

L

I

L

E

I

I

R

G

N

N

Q

T

D

E

-

W

-

P

-

K

-

W

-

E

-

T

-

V

-

M

-

A

Q

A

R

D

S

P

K

V

D

D

Y

P

G

A

N

E

I

L

A

A

D

D

T

V

F

A

R

R

-

N

-

A

-

P

-

L

-

T

-

R

-

P

-

R

P

P

G

G

H
|
H

A

A

D

D

Y

Y

A

A

Y

G

L

M

Q

L

K

K

Y

Y

G

G

L

F

R

D

D

D

H

A

R

R

G

P

G

V

-

L

G

E

R

R

S

A

S

S

A
|
A

R

R

E

E

T

T

A

A

V

A

R

R

V

V

A

A

A

A

G

G

A

T

I

V

A

A

K

R

K

A

W

F

L

L

K

R

E

Q

R

A

H

L

G

G

I

V

V

E

I

V

R

L

A

S

-

H

-

V

-

I

C

S

M

I

G

G

A

A

L

S

G

A

P

P

I

Y

E

E

I

G

P

P

F

P

V

P

S

R

W

A

D

E

E

D

-

L

-

P

-

A

V

I

D

D

G

A

N

S

P

P

F

V

F

R

A

A

P

Y

N

D

A

K

A

A

I

A

V

E

P

A

E

D

L

M

E

I

A

A

F

Q

M

I

D

E

A

A

L

A

R

K

K

K

S

D

G

G

D

D

S

T

I

L

G

G

A

G

R

V

I

V

D

E

V

A

V

V

A

A

S

L

G

G

V

L

P

P

V

V

G

G

W

L

G

G

E

S

P

F

V

T

Y

S

G

G

-

D

-

H

R

R

L

L

D

D

A

S

D

Q

I

L

A

A

Y

A

A

A

M

V

M

M

G

G

I

I

N
x
Q

A
|
A

V

I

K

K

G

G

V

V

E

E

I

I

G

G

A

D

G

G

F

F

K

Q

S

T

V

A

A

R

Q

R

R

R

G

G

T

S

E

R

H

A

G

H

D

D

E

E

M

M

T

Y

P

P

A

G

-

P

-

D

G

G

F

V

L

V

-

R

-

S

S

T

N

N

H

R

A

A

G

G

G

G

V

L

L

E

G

G

G

G

I

M

S

T

T

N

G

G

Q

Q

D

P

I

L

L

R

A

V

S

R

I

A

A

A

I
x
M

K
|
K

P

P

T
x
I

S

S

S
x
T

I

V

R

P

L

R

E

A

R

L

R

A

S

T

I

V

D

D

R

L

A

A

G

T

N

G

P

D

V

E

M

A

V

V

A

A

T

I

E

H

G

Q

R
|
R

H

S

D

D

P

V

C

C

V

A

G

V

I

P

R

A

A

A

T

G

P

V

I

V

A

V

E

E

S

T

M

M

L

V

A

A

L

L

V

V

L

L

I

A

D

R

H

A

A

A

L

L

binding flavin mononucleotide: H109 (= H106), A132 (= A128), Q250 (≠ N238), A251 (= A239), M308 (≠ I292), K309 (= K293), I311 (≠ T295), T313 (≠ S297), R335 (= R319)

1qxoA Crystal structure of chorismate synthase complexed with oxidized fmn and epsp (see paper)
34% identity, 88% coverage: 16:345/376 of query aligns to 7:363/388 of 1qxoA

query
sites
1qxoA

G

G

E

E

S

S

H

H

G

G

P

P

A

R

I

L

G

T

C

A

I

I

V

I

D

E

G

G

C

I

P

P

P

A

G

G

L

L

A

P

I

L

C

T

E

A

A

E

D

D

I

I

Q

N

A

E

E

D

L

L

D

R

R

R

R
|
R

K

Q

P

G

G

G

T

Y

S

G

R
|
R

H

G

V

G

T
x
R

Q
x
M

R

K

R

I

E

E

P

N

D

D

T

Q

V

V

E

V

I

F

L

T

S

S

G

G

V

V

F

R

E

H

G

G

V

K

T

T

T

T

G

G

T

A

P

P

I

I

S

T

L

M

L

D

I

V

R

I

N

N

Q

K

D

D

-

H

Q

Q

R

K

S

W

K

L

D

D

Y

I

-

M

-

S

-

A

G

E

N

D

I

I

A

E

D

D

T

R

F

L

-

K

-

S

-

K

-

R

-

K

-

I

-

T

-

H

-

P

R

R

P

P

G

G

H
|
H

A

A

D

D

Y

L

A

V

Y

G

L

G

Q

I

K

K

Y

Y

G

R

L

F

R

D

D

D

H

L

R

R

G

N

G

S

-

L

G

E

R

R

S

S

S

S

A
|
A

R
|
R

E

E

T

T

A

T

V

M

R

R

V

V

A

A

A

V

G

G

A

A

I

V

A

A

K

K

K

R

W

L

L

L

K

A

E

E

R

L

H

D

G

M

I

E

V

I

I

A

R

N

A

H

C

V

M

V

G

V

A

F

L

G

G

G

P

K

-

E

I

I

E

D

I

V

P

P

-

E

F

N

V

L

S

T

W

V

D

A

E

E

V

I

D

K

-

Q

-

R

-

A

-

A

G

Q

N

S

P

E

F

V

F

S

A

I

P

V

N

N

A

Q

A

E

I

R

V

E

P

Q

E

E

L

I

E

K

A

D

F

Y

M

I

D

D

A

Q

L

I

R

K

K

R

S

D

G

G

D

D

S

T

I

I

G

G

A

G

R

V

I

V

D

E

V

T

V

V

A

V

S

G

G

G

V

V

P

P

-

V

-

G

-

L

-

G

-

S

-

Y

V

V

G

Q

W

W

G

D

E

R

P

-

V

-

Y

-

G

-

R

K

L

L

D

D

A

A

D

R

I

L

A

A

Y

Q

A

A

M

V

M

V

G

S

I

I

N
|
N

A
|
A

V

F

K

K

G

G

V

V

E

E

I

F

G

G

A

L

G

G

F

F

K

E

S

A

V

G

A

Y

Q

R

R

K

G

G

T

S

E

Q

H

V

G

M

D

D

E

E

M

I

-

L

-

W

-

S

T

K

P

E

A

D

G

G

F

Y

L

T

-

R

-

R

S

T

N

N

H

N

A

L

G

G

G

G

V

F

L

E

G

G

G

G

I

M

S

T

T

N

G

G

Q

Q

D

P

I

I

L

V

A

V

S

R

I

G

A

V

I
x
M

K
|
K

P

P

T
x
I

S
x
P

S
x
T

I

L

R

Y

L

K

E

P

R

L

R

M

S

S

I

V

D

D

R

I

A

E

G

T

N

H

P

E

V

P

M

Y

V

K

A

A

T

T

E

V

G

E

R

R

H

S

D

D

P

P

C

T

V

A

G

L

I

P

R

A

A

A

T

G

P

M

I

V

A

M

E

E

S

A

M

V

L

V

A

A

L

T

V

V

L

L

I

A

D

Q

H

E

A

I

L

L

binding 5-[(1-carboxyvinyl)oxy]-4-hydroxy-3-(phosphonooxy)cyclohex-1-ene-1-carboxylic acid: R39 (= R48), R45 (= R54), R48 (≠ T57), M49 (≠ Q58), A133 (= A128), R134 (= R129)
binding flavin mononucleotide: H110 (= H106), A133 (= A128), N251 (= N238), A252 (= A239), M310 (≠ I292), K311 (= K293), I313 (≠ T295), P314 (≠ S296), T315 (≠ S297)

P0A2Y6 Chorismate synthase; CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; EC 4.2.3.5 from Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) (see paper)
34% identity, 88% coverage: 16:345/376 of query aligns to 7:363/388 of P0A2Y6

query
sites
P0A2Y6

G

G

E

E

S

S

H

H

G

G

P

P

A

R

I

L

G

T

C

A

I

I

V

I

D

E

G

G

C

I

P

P

P

A

G

G

L

L

A

P

I

L

C

T

E

A

A

E

D

D

I

I

Q

N

A

E

E

D

L

L

D

R

R

R

R

R

K

Q

P

G

G

G

T

Y

S

G

R

R

H

G

V

G

T

R

Q

M

R

K

R

I

E

E

P

N

D

D

T

Q

V

V

E

V

I

F

L

T

S

S

G

G

V

V

F

R

E

H

G

G

V

K

T

T

T

T

G

G

T

A

P

P

I

I

S

T

L

M

L

D

I

V

R

I

N

N

Q

K

D

D

-

H

Q

Q

R

K

S

W

K

L

D

D

Y

I

-

M

-

S

-

A

G

E

N

D

I

I

A

E

D

D

T

R

F

L

-

K

-

S

-

K

-

R

-

K

-

I

-

T

-

H

-

P

R

R

P

P

G

G

H

H

A

A

D

D

Y

L

A

V

Y

G

L

G

Q

I

K

K

Y

Y

G

R

L

F

R

D

D

D

H

L

R

R

G

N

G

S

-

L

G

E

R

R

S

S

S

S

A

A

R

R

E

E

T

T

A

T

V

M

R

R

V

V

A

A

A

V

G

G

A

A

I

V

A

A

K

K

K

R

W

L

L

L

K

A

E

E

R

L

H

D

G

M

I

E

V

I

I

A

R

N

A

H

C

V

M

V

G

V

A

F

L

G

G

G

P

K

-

E

I

I

E

D

I

V

P

P

-

E

F

N

V

L

S

T

W

V

D

A

E

E

V

I

D

K

-

Q

-

R

-

A

-

A

G

Q

N

S

P

E

F

V

F

S

A

I

P

V

N

N

A

Q

A

E

I

R

V

E

P

Q

E

E

L

I

E

K

A

D

F

Y

M

I

D

D

A

Q

L

I

R

K

K

R

S

D

G

G

D

D

S

T

I

I

G

G

A

G

R

V

I

V

D

E

V

T

V

V

A

V

S

G

G

G

V

V

P

P

-

V

-

G

-

L

-

G

-

S

-

Y

V

V

G

Q

W

W

G

D

E

R

P

-

V

-

Y

-

G

-

R

K

L

L

D

D

A

A

D

R

I

L

A

A

Y

Q

A

A

M

V

M

V

G

S

I

I

N
|
N

A
|
A

V

F

K

K

G

G

V

V

E

E

I

F

G

G

A

L

G

G

F

F

K

E

S

A

V

G

A

Y

Q

R

R

K

G

G

T

S

E

Q

H

V

G

M

D

D

E

E

M

I

-

L

-

W

-

S

T

K

P

E

A

D

G

G

F

Y

L

T

-

R

-

R

S

T

N

N

H

N

A

L

G

G

G

G

V

F

L

E

G
|
G

G

G

I

M

S

T

T

N

G

G

Q

Q

D

P

I

I

L

V

A

V

S

R

I

G

A

V

I

M

K
|
K

P
|
P

T
x
I

S
x
P

S
x
T

I

L

R

Y

L

K

E

P

R

L

R

M

S

S

I

V

D

D

R

I

A

E

G

T

N

H

P

E

V

P

M

Y

V

K

A

A

T

T

E

V

G

E

R

R

H

S

D

D

P

P

C

T

V

A

G

L

I

P

R

A

A

A

T

G

P

M

I

V

A

M

E

E

S

A

M

V

L

V

A

A

L

T

V

V

L

L

I

A

D

Q

H

E

A

I

L

L

NA 251:252 (= NA 238:239) binding FMN
G296 (= G278) binding FMN
KPIPT 311:315 (≠ KPTSS 293:297) binding FMN

Query Sequence

>WP_004265816.1 NCBI__GCF_000310185.1:WP_004265816.1
MSGNTLGTLFTVTSFGESHGPAIGCIVDGCPPGLAICEADIQAELDRRKPGTSRHVTQRR
EPDTVEILSGVFEGVTTGTPISLLIRNQDQRSKDYGNIADTFRPGHADYAYLQKYGLRDH
RGGGRSSARETAVRVAAGAIAKKWLKERHGIVIRACMGALGPIEIPFVSWDEVDGNPFFA
PNAAIVPELEAFMDALRKSGDSIGARIDVVASGVPVGWGEPVYGRLDADIAYAMMGINAV
KGVEIGAGFKSVAQRGTEHGDEMTPAGFLSNHAGGVLGGISTGQDILASIAIKPTSSIRL
ERRSIDRAGNPVMVATEGRHDPCVGIRATPIAESMLALVLIDHALRHRAQCGDVRTDTPR
IPALAPAGSQRLPSPR

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