SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing Pf1N1B4_5661 FitnessBrowser__pseudo1_N1B4:Pf1N1B4_5661 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)

P13009 Methionine synthase; 5-methyltetrahydrofolate--homocysteine methyltransferase; Methionine synthase, vitamin-B12-dependent; MS; EC 2.1.1.13 from Escherichia coli (strain K12) (see 5 papers)
67% identity, 100% coverage: 5:1235/1236 of query aligns to 2:1225/1227 of P13009

query
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P13009

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C247 (= C250) binding Zn(2+)
C310 (= C313) binding Zn(2+); mutation C->A,S: Loss of zinc binding. Loss of catalytic activity.
C311 (= C314) binding Zn(2+); mutation C->A,S: Loss of zinc binding. Loss of catalytic activity.
E694 (= E695) binding methylcob(III)alamin
GDVHD 756:760 (= GDVHD 758:762) binding methylcob(III)alamin
D757 (= D759) mutation to E: Decreases activity by about 70%.; mutation to N: Decreases activity by about 45%.
H759 (= H761) binding axial binding residue; mutation to G: Loss of catalytic activity.
S804 (= S806) binding methylcob(III)alamin
T808 (= T810) binding methylcob(III)alamin
S810 (= S812) mutation to A: Decreases activity by about 40%.
A860 (= A863) binding methylcob(III)alamin
D946 (= D950) binding S-adenosyl-L-methionine
R1134 (= R1138) binding S-adenosyl-L-methionine
YY 1189:1190 (≠ YF 1199:1200) binding S-adenosyl-L-methionine

Sites not aligning to the query:

1 modified: Initiator methionine, Removed

Q99707 Methionine synthase; MS; 5-methyltetrahydrofolate--homocysteine methyltransferase; Cobalamin-dependent methionine synthase; Vitamin-B12 dependent methionine synthase; EC 2.1.1.13 from Homo sapiens (Human) (see 6 papers)
55% identity, 99% coverage: 15:1236/1236 of query aligns to 26:1264/1265 of Q99707

query
sites
Q99707

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R61 (≠ S50) natural variant: R -> K
C255 (≠ S245) to Y: in dbSNP:rs1140598
GSR 382:384 (≠ GSA 370:372) binding (6S)-5,6,7,8-tetrahydrofolate
D449 (= D437) binding (6S)-5,6,7,8-tetrahydrofolate
N470 (= N458) binding (6S)-5,6,7,8-tetrahydrofolate
D537 (= D525) binding (6S)-5,6,7,8-tetrahydrofolate
N579 (= N567) binding (6S)-5,6,7,8-tetrahydrofolate
R585 (= R573) binding (6S)-5,6,7,8-tetrahydrofolate
R591 (= R579) binding (6S)-5,6,7,8-tetrahydrofolate
D919 (≠ R896) to G: in dbSNP:rs1805087
D963 (≠ N939) mutation to E: Decreases binding to MTRR; when associated with N-1071.
K1071 (= K1038) mutation to N: Decreases binding to MTRR; when associated with E-963.

3ivaA Structure of the b12-dependent methionine synthase (meth) c-teminal half with adohcy bound (see paper)
60% identity, 47% coverage: 654:1235/1236 of query aligns to 3:575/576 of 3ivaA

query
sites
3ivaA

E

E

W

W

R

R

N

S

W

W

D

E

V

V

N

N

K

K

R

R

L

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D

D

L

L

F

F

G

G

A

E

G

G

K

K

M

M

F

F

L

L

P

P

Q

Q

V

V

V

V

K

K

S

S

A

A

R

R

V

V

M

M

K

K

Q

Q

A

A

V

V

A

A

H

Y

L

L

I

E

P

P

F

F

I

I

E

E

L

A

E

S

K

K

G

-

D

E

K

Q

P

C

E

K

A

T

K

N

G

G

K

K

I

M

L

V

M

I

A

A

T

T

V

V

K

K

G

G

D
|
D

V

V

H
|
H

D

D

I

I

G
|
G

K

K

N

N

I

I

V
|
V

G

G

V

V

V

V

L

L

G

Q

C

C

N

N

G

N

Y

Y

D

E

I

I

V

V

D

D

L

L

G

G

V

V

M

M

V

V

P

P

A

A

E

E

K

K

I

I

L

L

Q

R

V

T

A

A

K

K

E

E

Q

V

K

N

C

A

D

D

I

L

I

I

G
|
G

L
|
L

S
|
S

G

G

L
|
L

I
|
I

T
|
T

P

P

S
|
S

L

L

D

D

E

E

M

M

V

V

H

N

V

V

A

A

R

K

E

E

M

M

Q

E

R

R

Q

Q

D

G

F

F

H

T

L

I

P

P

L

L

M

L

I

I

G
|
G

G
|
G

A

A

T

T

T

T

S

S

K

K

A

A

H

H

T

T

A

A

V

V

K

K

I

I

E

E

P

Q

K

N

Y

Y

S

S

N

G

D

P

A

T

V

V

I

-

Y

Y

V

V

T
x
Q

D
x
N

A

A

S

S

R

R

A

T

V

V

G

G

V

V

A

V

T

A

Q

A

L

L

L

L

S

S

K

D

E

T

L

Q

K

R

A

D

G

D

F

F

V

V

E

A

K

R

T

T

R

R

L

K

E

E

Y

Y

I

E

D

T

V

V

R

R

E

I

R

Q

T

H

A

G

N

R

R

K

S

K

A

P

R

R

T

T

E

P

R

P

L

V

S

T

Y

L

P

E

V

A

A

A

I

R

A

D

K

N

K

D

P

F

Q

A

F

F

D

D

W

W

G

Q

S

A

Y

Y

E

T

P

P

V

P

K

V

P

A

T

H

F

R

T

L

G

G

A

V

K

Q

V

E

L

V

D

E

N

-

I

A

D

S

L

I

K

E

V

T

L

L

A

R

E

N

Y

Y

I

I

D

D

W

W

T

T

P

P

F

F

F

F

I

M

S
x
T

W

W

D

S

L

L

A

A

G

G

K

K

F

Y

P

P

R

R

I

I

L

L

K

E

D

D

E

E

V

V

V

V

G

G

E

V

A

E

A

A

T

Q

A

R

L

L

Y

F

A

K

D

D

A

A

Q

N

E

D

M

M

L

L

A

D

K

K

L

L

I

S

D

A

E

E

K

K

L

T

I

L

S

N

A

P

R

R

A

G

V

V

F

V

G

G

F

L

W

F

P

P

A

A

N

N

Q

R

V

V

R

-

D

G

D

D

D

D

I

I

E

E

V

I

Y

Y

D

R

D

D

D

E

G

T

K

R

P

T

-

H

-

V

L

I

A

N

K

V

L

S

H

H

H

H

L

L

R

R

Q

Q

Q

Q

I

T

I

E

K

K

T

T

D

-

G

G

K

F

P

A

N

N

F

Y

S

C

L

L

A

A

D

D

F

F

V

V

A

A

P

P

K

K

D

L

S

S

G

G

V

K

T

A

D

D

Y

Y

V

I

G

G

G

A

F

F

I

A

T

V

T

T

A

G

G

G

I

L

G

E

A

E

E

D

E

A

V

L

A

A

K

D

A

A

Y

F

Q

E

D

A

A

Q

G

H

D

D

D

D

Y

Y

N

N

S

K

I

I

M

M

V

V

K

K

A

A

L

L

A

A

D
|
D

R

R

L

L

A

A

E
|
E

A

A

C

F

A

A

E

E

W

Y

L

L

H

H

Q

E

Q

R

V

V

R

R

K

K

D

V

Y

Y

W

W

G

G

Y

Y

A

A

K

P

D

N

E

E

T

N

L

L

D

S

N

N

E

E

A

E

L

L

I

I

K

R

E

E

Q

N

Y

Y

T

Q

G

G

I

I

R
|
R

P
|
P

A
|
A

P

P

G
|
G

Y
|
Y

P

P

A
|
A

C

C

P

P

D

E

H
|
H

T

T

E

E

K

K

A

A

T

T

L

I

F

W

K

E

L

L

L

L

D

E

P

V

E

E

A

K

E

-

E

-

L

-

K

-

A

-

G

-

R

H

S

T

G

G

V

M

F

K

L

L

T

T

E

E

H

S

Y

F

A
|
A

M
|
M

F

W

P

P

A
x
G

A

A

A

S

V
|
V

S
|
S

G

G

W

W

Y

Y

F

F

A

S

H

H

P

P

Q

D

A

S

Q

K

Y
|
Y

F

Y

A

A

V

V

G

A

K

Q

I

I

D

Q

K

R

D

D

Q

Q

V

V

Q

E

S

D

Y

Y

T

A

S

R

R

R

K

K

G

G

Q

M

E

S

L

V

S

T

V

E

T

V

E

E

R

R

W

W

L

L

A

A

P

P

N

N

L

L

G

G

Y

Y

D

D

active site: D107 (= D759), H109 (= H761), S160 (= S812)
binding cobalamin: H109 (= H761), G112 (= G764), V116 (= V768), G152 (= G804), L153 (= L805), S154 (= S806), L156 (= L808), I157 (= I809), T158 (= T810), G183 (= G835), G184 (= G836), Q208 (≠ T861), N209 (≠ D862), T303 (≠ S957), D443 (= D1097), A486 (= A1140), G488 (= G1142), Y489 (= Y1143), H495 (= H1149), A520 (= A1180), M521 (= M1181), G524 (≠ A1184), V527 (= V1187), S528 (= S1188)
binding s-adenosyl-l-homocysteine: E447 (= E1101), R484 (= R1138), P485 (= P1139), Y489 (= Y1143), A491 (= A1145), Y539 (= Y1199)

3bulA E. Coli i690c/g743c meth c-terminal fragment (649-1227) (see paper)
60% identity, 47% coverage: 654:1235/1236 of query aligns to 3:575/577 of 3bulA

query
sites
3bulA

E

E

W

W

R

R

N

S

W

W

D

E

V

V

N

N

K

K

R

R

L

L

E

E

H

Y

A

S

L

L

V

V

K

K

G

G

I

I

T

T

T

E

H

F

I

I

V

E

E

Q

D

D

T

T

E

E

E

E

S

A

R

R

Q

Q

S

Q

F

A

A

T

R

R

P

P

I

C

E

E

V

V

I

I

E

E

G

G

P

P

L

L

M

M

S

D

G

G

M

M

N

N

I

V

V

V

G

G

D

D

L

L

F

F

G

G

A

E

G

G

K

K

M

M

F

F

L

L

P

P

Q

Q

V

V

V

V

K

K

S

S

A

A

R

R

V

V

M

M

K

K

Q

Q

A

A

V

V

A

A

H

Y

L

L

I

E

P

P

F

F

I

I

E

E

L

A

E

S

K

K

G

-

D

E

K

Q

P

C

E

K

A

T

K

N

G

G

K

K

I

M

L

V

M

I

A

A

T

T

V

V

K

K

G

G

D
|
D

V

V

H
|
H

D

D

I

I

G

G

K

K

N

N

I

I

V
|
V

G

G

V

V

V

V

L

L

G

Q

C

C

N

N

G

N

Y

Y

D

E

I

I

V

V

D

D

L

L

G

G

V

V

M

M

V

V

P

P

A

A

E

E

K

K

I

I

L

L

Q

R

V

T

A

A

K

K

E

E

Q

V

K

N

C

A

D

D

I

L

I

I

G
|
G

L
|
L

S
|
S

G

G

L
|
L

I
|
I

T
|
T

P

P

S
|
S

L

L

D

D

E

E

M

M

V

V

H

N

V

V

A

A

R

K

E

E

M

M

Q

E

R

R

Q

Q

D

G

F

F

H

T

L

I

P

P

L

L

M

L

I

I

G
|
G

G
|
G

A

A

T

T

T

T

S

S

K

K

A

A

H

H

T

T

A

A

V

V

K

K

I

I

E

E

P

Q

K

N

Y

Y

S

S

N

G

D

P

A

T

V

V

I

-

Y

Y

V

V

T
x
Q

D
x
N

A
|
A

S

S

R

R

A
x
T

V

V

G

G

V

V

A

V

T

A

Q

A

L

L

L

L

S

S

K

D

E

T

L

Q

K

R

A

D

G

D

F

F

V

V

E

A

K

R

T

T

R

R

L

K

E

E

Y

Y

I

E

D

T

V

V

R

R

E

I

R

Q

T

H

A

G

N

R

R

K

S

K

A

P

R

R

T

T

E

P

R

P

L

V

S

T

Y

L

P

E

V

A

A

A

I

R

A

D

K

N

K

D

P

F

Q

A

F

F

D

D

W

W

G

Q

S

A

Y

Y

E

T

P

P

V

P

K

V

P

A

T

H

F

R

T

L

G

G

A

V

K

Q

V

E

L

V

D

E

N

-

I

A

D

S

L

I

K

E

V

T

L

L

A

R

E

N

Y

Y

I

I

D

D

W

W

T

T

P

P

F

F

F

F

I
x
M

S

T

W

W

D

S

L

L

A

A

G

G

K

K

F

Y

P

P

R

R

I

I

L

L

K

E

D

D

E

E

V

V

V

V

G

G

E

V

A

E

A

A

T

Q

A

R

L

L

Y

F

A

K

D

D

A

A

Q

N

E

D

M

M

L

L

A

D

K

K

L

L

I

S

D

A

E

E

K

K

L

T

I

L

S

N

A

P

R

R

A

G

V

V

F

V

G

G

F

L

W

F

P

P

A

A

N

N

Q

R

V

V

R

-

D

G

D

D

D

D

I

I

E

E

V

I

Y

Y

D

R

D

D

D

E

G

T

K

R

P

T

-

H

-

V

L

I

A

N

K

V

L

S

H

H

H

H

L

L

R

R

Q

Q

Q

Q

I

T

I

E

K

K

T

T

D

-

G

G

K

F

P

A

N

N

F

Y

S

C

L

L

A

A

D

D

F

F

V

V

A

A

P

P

K

K

D

L

S

S

G

G

V

K

T

A

D

D

Y

Y

V

I

G

G

G

A

F

F

I

A

T

V

T

T

A

G

G

G

I

L

G

E

A

E

E

D

E

A

V

L

A

A

K

D

A

A

Y

F

Q

E

D

A

A

Q

G

H

D

D

D

D

Y

Y

N

N

S

K

I

I

M

M

V

V

K

K

A

A

L

L

A

A

D
|
D

R

R

L

L

A

A

E

E

A

A

C

F

A

A

E

E

W

Y

L

L

H

H

Q

E

Q

R

V

V

R

R

K

K

D

V

Y

Y

W

W

G

G

Y

Y

A

A

K

P

D

N

E

E

T

N

L

L

D

S

N

N

E

E

A

E

L

L

I

I

K

R

E

E

Q

N

Y

Y

T

Q

G

G

I

I

R

R

P

P

A
|
A

P
|
P

G
|
G

Y
|
Y

P

P

A

A

C

C

P

P

D

E

H
|
H

T

T

E

E

K
|
K

A

A

T

T

L

I

F

W

K

E

L

L

L

L

D

E

P

V

E

E

A

K

E

-

E

-

L

-

K

-

A

-

G

-

R

H

S

T

G

G

V

M

F

K

L

L

T

T

E

E

H

S

Y

F

A

A

M
|
M

F

W

P

P

A
x
G

A

A

A

S

V
|
V

S
|
S

G

G

W

W

Y

Y

F

F

A

S

H

H

P

P

Q

D

A

S

Q

K

Y

Y

F

Y

A

A

V

V

G

A

K

Q

I

I

D

Q

K

R

D

D

Q

Q

V

V

Q

E

S

D

Y

Y

T

A

S

R

R

R

K

K

G

G

Q

M

E

S

L

V

S

T

V

E

T

V

E

E

R

R

W

W

L

L

A

A

P

P

N

N

L

L

G

G

Y

Y

D

D

active site: D107 (= D759), H109 (= H761), S160 (= S812)
binding cobalamin: H109 (= H761), V116 (= V768), G152 (= G804), L153 (= L805), S154 (= S806), L156 (= L808), I157 (= I809), T158 (= T810), G183 (= G835), G184 (= G836), Q208 (≠ T861), N209 (≠ D862), A210 (= A863), T213 (≠ A866), M302 (≠ I956), D443 (= D1097), A486 (= A1140), P487 (= P1141), G488 (= G1142), Y489 (= Y1143), H495 (= H1149), K498 (= K1152), M521 (= M1181), G524 (≠ A1184), V527 (= V1187), S528 (= S1188)

4cczA Crystal structure of human 5-methyltetrahydrofolate-homocysteine methyltransferase, the homocysteine and folate binding domains
56% identity, 50% coverage: 15:638/1236 of query aligns to 10:610/611 of 4cczA

query
sites
4cczA

L

L

K

Q

E

K

R

R

I

I

L

M

I

V

L

L

D

D

G

G

G

G

M

M

G

G

T

T

M

M

I

I

Q

Q

S

R

Y

E

K

K

L

L

E

E

E

E

Q

H

D

-

Y

F

R

R

G

G

K

Q

R

E

F

F

A

K

D

D

W

H

P

A

S

R

D

P

V

L

K

K

G

G

N

N

N

N

D

D

L

I

L

L

V

S

L

I

T

T

R

Q

P

P

D

D

V

V

I

I

G

Y

G

Q

I

I

E

H

K

K

A

E

Y

Y

L

L

D

L

A

A

G

-

A

-

D

D

I

I

L

I

E

E

T

T

N

N

T

T

F

F

N

S

A

S

T

T

R

S

I

I

S

A

M

Q

A

A

D

D

Y

Y

G

G

M

L

E

E

E

H

L

L

A

A

Y

Y

E

R

L

M

N

N

V

M

E

C

G

S

A

A

R

G

L

V

A

A

R

R

K

K

I

A

A

A

D

E

A

E

K

V

T

T

L

L

E

Q

N

T

P

G

D

I

K

K

P

-

R

R

F

F

V

V

A

A

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|
E

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N

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A

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|
G

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x
R

K

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|
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D

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N

N

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P

E

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G

A

T

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D

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A

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L

L

L

L

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A

A

binding (6s)-5,6,7,8-tetrahydrofolate: E336 (= E364), G342 (= G370), R344 (≠ A372), N430 (= N458), M458 (= M486), D497 (= D525), G536 (= G564), S538 (= S566), N539 (= N567), F542 (= F570), R545 (= R573), R551 (= R579)

8g3hA Structure of cobalamin-dependent methionine synthase (meth) in a resting state (see paper)
37% identity, 68% coverage: 13:856/1236 of query aligns to 7:822/841 of 8g3hA

query
sites
8g3hA

H

R

A

A

L

L

K

S

E

Q

R

R

I

V

L

L

I

V

L

F

D

D

G

G

G

A

M

M

G

G

T

T

M

E

I

L

Q

Q

S

K

Y

R

K

D

L

L

E

T

E

P

Q

E

D

D

Y

Y

R

G

G

E

K

E

R

A

F

Y

A

Y

D

G

W

C

P

P

S

-

D

-

V

-

K

-

G

-

N

-

N

-

D

E

L

V

L

L

V

N

L

R

T

T

R

R

P

P

D

D

V

V

I

V

G

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G

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I

I

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K

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Y

Y

L

L

D

E

A

A

G

G

A

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I

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L

I

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T

T

N

N

T

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F

F

N

G

A

A

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R

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L

A

A

D

E

Y

Y

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G

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L

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G

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A

A

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K

K

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I

A

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Y

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-

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N

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K

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F

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A

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G

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C

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L

L

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D

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N

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N

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Y

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N

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F

W

D

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Y

Y

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D

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I

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I

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-

D

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A

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G

G

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L

L

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G

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A

A

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A

W

L

N

A

S

A

V

L

A

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H

S

A

L

K

P

P

I

I

D

S

V

V

V

G

G

L

M

N

N

C

C

A

A

L

T

G

G

A

P

S

D

E

L

L

M

R

D

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A

Y

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A

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V

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A

A

C

H

L

P

P

N

N

A

A

G

G

L

L

P

P

-

R

N

N

E

E

F

G

G

G

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R

-

V

-

V

Y

Y

D

D

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L

L

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P

P

A

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Q

E

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L

A

A

K

R

V