SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing GFF1835 FitnessBrowser__Marino:GFF1835 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)
63% identity, 99% coverage: 5:1229/1232 of query aligns to 2:1225/1227 of P13009

query
sites
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 (= E694) binding methylcob(III)alamin
GDVHD 756:760 (= GDVHD 757:761) binding methylcob(III)alamin
D757 (= D758) mutation to E: Decreases activity by about 70%.; mutation to N: Decreases activity by about 45%.
H759 (= H760) binding axial binding residue; mutation to G: Loss of catalytic activity.
S804 (= S805) binding methylcob(III)alamin
T808 (= T809) binding methylcob(III)alamin
S810 (= S811) mutation to A: Decreases activity by about 40%.
A860 (= A862) binding methylcob(III)alamin
D946 (= D949) binding S-adenosyl-L-methionine
R1134 (= R1138) binding S-adenosyl-L-methionine
YY 1189:1190 (≠ YF 1193:1194) 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, 100% coverage: 4:1229/1232 of query aligns to 15:1263/1265 of Q99707

query
sites
Q99707

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D

D

R61 (= R50) natural variant: R -> K
C255 (≠ S245) to Y: in dbSNP:rs1140598
GSR 382:384 (≠ GSK 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 (= D524) binding (6S)-5,6,7,8-tetrahydrofolate
N579 (= N566) binding (6S)-5,6,7,8-tetrahydrofolate
R585 (= R572) binding (6S)-5,6,7,8-tetrahydrofolate
R591 (= R578) binding (6S)-5,6,7,8-tetrahydrofolate
D919 (≠ R895) to G: in dbSNP:rs1805087
D963 (≠ E938) 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)
61% identity, 47% coverage: 654:1229/1232 of query aligns to 4:575/576 of 3ivaA

query
sites
3ivaA

W

W

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A

D

E

K

K

I

I

L

L

A

R

A

T

A

A

K

K

E

E

H

V

D

N

V

A

D

D

L

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

L

Q

D

G

F

F

N

T

I

I

P

P

L

L

M

L

I

I

G
|
G

A

A

T

T

S

S

K

K

A

A

H

H

T

T

A

A

V

V

K

K

I

I

E

E

P

Q

Q

N

Y

Y

K

S

N

G

D

P

I

-

A

T

L

V

Y

Y

V

V

S
x
Q

D
x
N

A

A

S

S

R

R

C

T

V

V

N

G

V

V

A

V

S

A

Q

A

L

L

S

S

K

D

N

T

A

Q

K

R

P

D

E

D

F

F

V

V

E

A

A

R

A

T

R

R

T

K

E

E

Y

Y

D

E

E

T

I

V

R

R

E

I

R

Q

R

H

K

G

N

R

R

K

G

K

D

P

R

R

T

T

K

P

L

P

V

V

S

T

L

L

K

E

E

A

A

A

R

R

D

D

R

N

A

D

P

F

D

A

I

F

S

D

F

W

E

Q

G

A

Y

Y

Q

T

P

P

K

V

P

A

A

H

F

R

T

L

G

G

I

V

R

Q

V

E

F

V

E

E

E

A

Y

-

D

S

L

I

N

E

E

T

L

L

V

R

D

N

Y

Y

I

I

D

D

W

W

T

T

P

P

F

F

M

M

S
x
T

W

W

D

S

I

L

S

A

G

G

K

K

Y

Y

P

P

A

R

I

I

F

L

D

E

D

D

P

E

K

V

R

V

G

G

E

V

A

E

A

A

R

Q

H

R

L

L

F

F

D

K

D

D

A

A

Q

N

K

D

I

M

L

L

H

D

R

K

M

L

I

S

D

A

E

E

K

K

R

T

V

L

S

N

A

P

R

R

G

G

V

V

I

V

G

G

F

L

W

F

P

P

A

A

N

N

R

R

R

V

G

G

D

D

V

I

V

E

L

I

Y

Y

T

R

D

D

E

E

S

T

C

R

T

T

E

H

E

V

L

I

T

N

T

V

L

S

H

H

L

L

R

R

Q

Q

D

T

E

E

K

K

A

T

P

-

G

G

K

F

P

A

M

N

M

Y

A

C

L

L

S

A

D

D

F

F

V

V

A

A

P

P

E

K

G

L

S

S

G

G

T

K

V

A

D

D

Y

Y

V

I

G

G

G

A

F

F

A

A

V

V

T

T

T

G

G

G

I

L

G

E

A

E

E

D

E

A

F

L

S

A

V

D

E

A

F

F

K

E

D

A

A

Q

N

H

D

D

Y

Y

N

N

A

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

F

F

A

A

E

E

R

Y

M

L

H

H

E

E

R

R

V

V

R

R

Q

K

E

V

F

Y

W

W

G

G

Y

Y

A

A

A

P

D

N

E

E

K

N

L

L

A

S

N

N

D

E

L

L

I

I

K

R

E

E

R

N

Y

Y

R

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

S

E

L

L

E

E

A

V

T

E

D

K

T

H

A

T

G

G

I

M

E

K

L

L

T

T

E

E

H

S

F

F

A
|
A

M
|
M

F

W

P

P

T
x
G

A

A

A

S

V
|
V

S
|
S

G

G

W

W

Y

Y

F

F

A

S

H

H

P

P

E

D

S

S

K

K

Y
|
Y

F

Y

A

A

V

V

G

A

K

Q

I

I

G

Q

A

R

D

D

Q

Q

V

V

E

E

D

D

Y

Y

A

A

E

R

R

R

K

K

G

G

I

M

S

S

K

V

A

T

E

E

A

V

E

E

R

R

W

W

L

L

A

A

P

P

S

N

L

L

A

G

Y

Y

D

D

active site: D107 (= D758), H109 (= H760), S160 (= S811)
binding cobalamin: H109 (= H760), G112 (= G763), V116 (= V767), G152 (= G803), L153 (= L804), S154 (= S805), L156 (= L807), I157 (= I808), T158 (= T809), G183 (= G834), G184 (= G835), Q208 (≠ S860), N209 (≠ D861), T303 (≠ S956), D443 (= D1097), A486 (= A1140), G488 (= G1142), Y489 (= Y1143), H495 (= H1149), A520 (= A1174), M521 (= M1175), G524 (≠ T1178), V527 (= V1181), S528 (= S1182)
binding s-adenosyl-l-homocysteine: E447 (= E1101), R484 (= R1138), P485 (= P1139), Y489 (= Y1143), A491 (= A1145), Y539 (= Y1193)

3bulA E. Coli i690c/g743c meth c-terminal fragment (649-1227) (see paper)
61% identity, 47% coverage: 654:1229/1232 of query aligns to 4:575/577 of 3bulA

query
sites
3bulA

W

W

R

R

E

S

W

W

P

E

V

V

E

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

Y

F

I

I

V

E

D

Q

D

D

T

T

E

E

A

E

C

A

R

R

Q

Q

R

Q

A

A

T

T

H

R

P

P

I

C

E

E

V

V

I

I

E

E

G

G

P

P

L

L

M

M

D

D

G

G

M

M

N

N

V

V

G

G

D

D

L

L

F

F

G

G

D

E

G

G

K

K

M

M

F

F

L

L

P

P

Q

Q

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

Y

F

I

I

E

E

A

A

E

S

K

K

T

-

E

E

D

Q

Q

C

K

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

L

L

Q

Q

C

C

N

N

Y

Y

E

E

V

I

I

V

D

D

L

L

G

G

V

V

M

M

V

V

P

P

C

A

D

E

K

K

I

I

L

L

A

R

A

T

A

A

K

K

E

E

H

V

D

N

V

A

D

D

L

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

L

Q

D

G

F

F

N

T

I

I

P

P

L

L

M

L

I

I

G
|
G

A

A

T

T

S

S

K

K

A

A

H

H

T

T

A

A

V

V

K

K

I

I

E

E

P

Q

Q

N

Y

Y

K

S

N

G

D

P

I

-

A

T

L

V

Y

Y

V

V

S
x
Q

D
x
N

A
|
A

S

S

R

R

C
x
T

V

V

N

G

V

V

A

V

S

A

Q

A

L

L

S

S

K

D

N

T

A

Q

K

R

P

D

E

D

F

F

V

V

E

A

A

R

A

T

R

R

T

K

E

E

Y

Y

D

E

E

T

I

V

R

R

E

I

R

Q

R

H

K

G

N

R

R

K

G

K

D

P

R

R

T

T

K

P

L

P

V

V

S

T

L

L

K

E

E

A

A

A

R

R

D

D

R

N

A

D

P

F

D

A

I

F

S

D

F

W

E

Q

G

A

Y

Y

Q

T

P

P

K

V

P

A

A

H

F

R

T

L

G

G

I

V

R

Q

V

E

F

V

E

E

E

A

Y

-

D

S

L

I

N

E

E

T

L

L

V

R

D

N

Y

Y

I

I

D

D

W

W

T

T

P

P

F

F

M
|
M

S

T

W

W

D

S

I

L

S

A

G

G

K

K

Y

Y

P

P

A

R

I

I

F

L

D

E

D

D

P

E

K

V

R

V

G

G

E

V

A

E

A

A

R

Q

H

R

L

L

F

F

D

K

D

D

A

A

Q

N

K

D

I

M

L

L

H

D

R

K

M

L

I

S

D

A

E

E

K

K

R

T

V

L

S

N

A

P

R

R

G

G

V

V

I

V

G

G

F

L

W

F

P

P

A

A

N

N

R

R

R

V

G

G

D

D

V

I

V

E

L

I

Y

Y

T

R

D

D

E

E

S

T

C

R

T

T

E

H

E

V

L

I

T

N

T

V

L

S

H

H

L

L

R

R

Q

Q

D

T

E

E

K

K

A

T

P

-

G

G

K

F

P

A

M

N

M

Y

A

C

L

L

S

A

D

D

F

F

V

V

A

A

P

P

E

K

G

L

S

S

G

G

T

K

V

A

D

D

Y

Y

V

I

G

G

G

A

F

F

A

A

V

V

T

T

T

G

G

G

I

L

G

E

A

E

E

D

E

A

F

L

S

A

V

D

E

A

F

F

K

E

D

A

A

Q

N

H

D

D

Y

Y

N

N

A

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

F

F

A

A

E

E

R

Y

M

L

H

H

E

E

R

R

V

V

R

R

Q

K

E

V

F

Y

W

W

G

G

Y

Y

A

A

A

P

D

N

E

E

K

N

L

L

A

S

N

N

D

E

L

L

I

I

K

R

E

E

R

N

Y

Y

R

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

S

E

L

L

E

E

A

V

T

E

D

K

T

H

A

T

G

G

I

M

E

K

L

L

T

T

E

E

H

S

F

F

A

A

M
|
M

F

W

P

P

T
x
G

A

A

A

S

V
|
V

S
|
S

G

G

W

W

Y

Y

F

F

A

S

H

H

P

P

E

D

S

S

K

K

Y

Y

F

Y

A

A

V

V

G

A

K

Q

I

I

G

Q

A

R

D

D

Q

Q

V

V

E

E

D

D

Y

Y

A

A

E

R

R

R

K

K

G

G

I

M

S

S

K

V

A

T

E

E

A

V

E

E

R

R

W

W

L

L

A

A

P

P

S

N

L

L

A

G

Y

Y

D

D

active site: D107 (= D758), H109 (= H760), S160 (= S811)
binding cobalamin: H109 (= H760), V116 (= V767), G152 (= G803), L153 (= L804), S154 (= S805), L156 (= L807), I157 (= I808), T158 (= T809), G183 (= G834), G184 (= G835), Q208 (≠ S860), N209 (≠ D861), A210 (= A862), T213 (≠ C865), M302 (= M955), D443 (= D1097), A486 (= A1140), P487 (= P1141), G488 (= G1142), Y489 (= Y1143), H495 (= H1149), K498 (= K1152), M521 (= M1175), G524 (≠ T1178), V527 (= V1181), S528 (= S1182)

4cczA Crystal structure of human 5-methyltetrahydrofolate-homocysteine methyltransferase, the homocysteine and folate binding domains
54% identity, 51% coverage: 6:638/1232 of query aligns to 1:611/611 of 4cczA

query
sites
4cczA

T

T

R

L

L

R

D

D

Q

E

L

I

H

N

K

A

A

I

L

L

Q

Q

E

K

R

R

I

I

V

M

I

V

L

L

D

D

G

G

M

M

G

G

T

T

M

M

I

I

Q

Q

N

R

L

E

K

K

L

L

D

E

E

E

K

H

A

-

F

F

R

R

G

G

D

Q

R

E

F

F

A

K

D

D

Y

H

E

A

R

R

E

P

V

L

Q

K

G

G

N

N

D

D

L

I

L

L

N

S

L

I

T

T

Q

Q

P

P

A

D

L

V

L

I

R

Y

N

Q

I

I

H

H

A

K

D

E

Y

Y

L

L

D

L

A

A

G

-

A

-

D

D

I

I

E

E

T

T

N

N

T

T

F

F

N

S

S

S

T

T

Q

S

L

I

S

A

Q

Q

A

A

D

D

Y

Y

G

G

L

L

E

E

A

H

I

L

A

A

R

Y

E

R

L

M

N

N

V

M

A

C

A

S

A

A

E

G

L

V

A

A

R

R

Q

K

I

A

A

A

D

E

E

E

Y

V

T

T

A

L

K

Q

N

T

P

G

E

I

K

K

P

-

R

R

F

F

V

V

A

A

G

G

A

A

V

L

G

G

P

P

T

T

S

N

R

K

T

T

A

L

S

S

I

V

S

S

P

P

D

S

V

V

N

E

N

R

P

P

G

D

Y

Y

R

R

N

N

V

I

D

T

F

F

Q

D

T

E

L

L

V

V

D

E

N

A

Y

Y

Y

Q

E

E

A

Q

V

A

G

K

G

G

L

L

V

L

E

D

G

G

C

V

D

D

L

I

I

L

L

L

I

I

E

E

T

T

I

I

F

F

D

D

T

T

L

A

N

N

A

A

K

K

A

A

I

L

Y

F

A

A

T

L

Q

Q

Q

N

Y

L

F

F

E

E

D

E

S

K

G

Y

I

A

T

P

L

R

P

P

I

I

M

F

I

I

S

S

G

G

T

T

I

I

T

V

D

D

A

K

S

S

G

G

R

R

T

T

L

L

S

S

G

G

Q

Q

T

T

T

G

E

E

A

G

F

F

W

V

N

I

S

S

V

V

A

S

H

H

A

G

K

E

P

P

I

L

S

C

V

I

G

G

L

L

N

N

C

C

A

A

L

L

G

G

A

A

D

A

A

E

L

M

R

R

P

P

Y

F

V

I

E

E

E

I

L

I

S

G

A

K

K

C

A

T

E

T

T

A

Y

Y

V

V

S

L

A

C

H

Y

P

P

N

N

A

A

G

G

L

-

P

-

N

-

E

-

F

-

G

-

E

-

Y

-

D

-

Q

-

T

-

P

-

E

-

M

-

A

-

E

-

I

-

E

-

G

-

F

F

A

A

R

M

D

D

G

G

F

L

L

V

N

N

I

I

I

V

G

G

C

C

G

G

S

S

R

T

P

P

D

D

H

H

I

I

E

R

A

E

I

I

A

A

Q

E

A

A

V

V

S

K

K

N

Y

C

P

K

P

P

R

R

K

V

I

P

P

P

E

A

R

T

P

A

-

F

-

E

K

G

A

H

L

M

R

L

L

L

S

S

G

G

L

L

E

E

P

P

F

F

T

R

G

I

D

G

D

P

N

Y

V

T

L

N

F

F

I

V

N

N

V

I

G

G

E
|
E

R

R

T

C

N

N

V

V

T

A

G
|
G

S

S

K
x
R

R

K

F

F

L

A

R

K

L

L

I

I

K

M

E

A

E

G

Q

N

Y

Y

E

E

A

A

L

L

S

C

V

V

A

A

R

K

D

V

Q

Q

V

V

E

E

N

M

G

G

A

A

Q

Q

I

V

I

L

D

D

I

V

N

N

M

M

D

D

E

D

G

G

M

M

L

L

E

D

S

G

K

P

E

S

V

A

M

M

V

T

T

R

F

F

L

C

N

N

L

L

V

I

A

A

S

S

E

E

P

P

D

D

I

I

S

A

R

K

V

V

P

P

I

L

M

C

I

I

D

D

S

S

K

N

W

F

D

A

V

V

I

I

E

E

A

A

G

G

L

L

R

K

C

C

I

C

Q

Q

G

G

K

K

A

C

V

I

V

V

N
|
N

S

S

I

I

S

S

L

L

K

K

E

E

G

G

E

E

E

D

F

F

V

L

K

E

R

K

A

A

R

R

D

K

C

I

M

K

R

K

Y

Y

G

G

A

A

V

M

V

V

M
|
M

A

A

F

F

D

D

E

E

Q

E

G

G

Q

Q

A

A

D

T

T

E

Y

T

E

D

R

T

K

K

T

I

E

R

I

V

C

C

K

T

R

R

S

A

Y

Y

D

H

V

L

L

L

T

V

-

K

G

K

I

L

G

G

F

F

N

N

P

P

A

N

D

D

I

I

F

F

D
|
D

P

P

N

N

I

I

F

L

A

T

I

I

A

G

T

T

G

G

I

M

E

E

H

H

N

N

N

L

Y

Y

A

A

V

I

D

N

F

F

I

I

N

H

A

A

T

T

R

K

W

V

I

I

R

K

E

E

N

T

L

L

P

P

H

G

A

A

S

R

I

I

S

S

G

G

G
|
G

V

L

S
|
S

N
|
N

V

L

S

S

F
|
F

S

S

F

F

R
|
R

G

G

N

M

D

E

V

A

V

I

R
|
R

E

E

A

A

I

M

H

H

S

G

V

V

F

F

L

L

Y

Y

H

H

A

A

I

I

K

K

A

S

G

G

M

M

N

D

M

M

G

G

I

I

V

V

N

N

P

A

G

G

Q

N

L

L

V

P

I

V

Y

Y

D

D

E

D

I

I

D

H

P

K

E

E

L

L

K

L

E

Q

L

L

V

C

E

E

D

D

V

L

V

I

L

W

N

N

R

K

R

D

D

P

D

E

S

A

T

T

D

E

R

K

L

L

E

R

I

Y

A

A

E

Q

binding (6s)-5,6,7,8-tetrahydrofolate: E336 (= E364), G342 (= G370), R344 (≠ K372), N430 (= N458), M458 (= M486), D497 (= D524), G536 (= G563), S538 (= S565), N539 (= N566), F542 (= F569), R545 (= R572), R551 (= R578)

8g3hA Structure of cobalamin-dependent methionine synthase (meth) in a resting state (see paper)
36% identity, 67% coverage: 13:843/1232 of query aligns to 7:806/841 of 8g3hA

query
sites
8g3hA

K

R

A

A

L

L

Q

S

E

Q

R

R

I

V

V

L

I

V

L

F

D

D

G

G

G

A

M

M

G

G

T

T

M

E

I

L

Q

Q

N

K

L

R

K

D

L

L

D

T

E

P

K

E

A

-

F

-

R

-

G

-

D

-

R

-

F

-

A

-

D

D

Y

Y

-

G

E

E

R

E

E

A

V

Y

Q

Y

G

G

N

C

N

P

D

E

L

V

L

L

N

N

L

R

T

T

Q

R

P

P

A

D

L

V

R

R

N

E

I

I

H

H

A

L

D

S

Y

Y

L

L

D

E

A

A

G

G

A

A

D

E

I

V

I

I

E

E

T

T

N

N

T

S

F

F

N

G

S

A

T

L

Q

R

L

H

S

V

Q

L

A

A

D

E

Y

Y

G

G

L

L

E

G

A

E

I

E

A

A

R

E

E

E

L

L

N

A

V

Y

A

R

A

A

E

R

L

I

A

A

R

K

Q

E

I

A

A

A

D

E

E

P

Y

Y

T

G

A

A

K

-

N

-

P

-

E

-

K

-

P

-

R

-

F

F

V

V

A

A

G

G

A

A

V

L

G

G

P

P

T

G

S

T

R

K

T

L

A

V

S

S

I

L

S

G

P

-

D

-

V

-

N

-

P

-

G

-

Y

-

R

-

N

Q

V

I

D

S

F

W

Q

E

T

E

L

L

V

F

D

S

N

A

Y

Y

Y

K

E

E

A

A

V

V

G

R

G

G

L

L

V

V

E

R

G

G

C

V

D

D

L

L

I

I

L

L

I

L

E

E

T

T

I

A

F

Q

D

D

T

I

L

L

N

Q

A

V

K

R

A

C

A

A

I

V

Y

L

A

A

T

A

Q

R

Q

E

Y

A

F

M

E

A

D

E

S

L

G

G

I

V

T

E

L

L

P

P

I

L

M

Q

I

V

S

Q

G

V

T

T

I

F

T

-

D

E

A

A

S

T

G

G

R

T

T

M

L

L

S

V

G

G

Q

T

T

D

T

E

E

Q

A

A

F

A

W

L

N

A

S

A

V

L

A

E

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

D

D

A

L

L

M

R

D

P

A

Y

K

V

I

E

R

E

Y

L

F

S

A

A

Q

K

E

A

S

E

T

T

R

Y

F

V

V

S

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

E

R

-

V

Y

Y

D

D

Q

L

T

T

P

P

E

E

M

L

A

A

E

R

I

W

I

H

E

L

G

K

F

F

A

V

R

T

D

E

G

Y

F

G

L

V

N

N

I

A

I

V

G

G

C

C

G

G

S

T

R

G

P

P

D

E

H

H

I

I

E

R

A

K

I

V

A

A

Q

E

A

A

V

V

S

G

K

G

Y

R

P

P

P

S

-

P

-

V

R

H

K

K

I

T

P

A

E

F

R

P

P

P

K

Q

A

V

L

A

R

S

L

L

S

Y

G

Q

L

A

E

V

P

P

F

L

T

R

G
x
Q

D

E

D
x
T

N
x
S

V

L

L

L

F

L

I

-

N

-

V

V

G

G

E

E

R

R

T

L

N

N

V

A

T

T

G

G

S

S

K

K

R

R

F

F

L

R

R

E

L

L

I

L

K

F

E

A

E

G

Q

D

Y

L

E

E

E

G

A

I

L

L

S

A

V

L

A

A

R

Q

D

E

Q

Q

V

V

E

A

N

E

G

G

A

A

Q

H

I

V

I

L

D

D

I

L

N

S

M

V

D

A

E

W

G

T

M

G

L

R

E

D

S

E

K

L

E

E

V

D

M

M

V

K

T

R

F

V

L

L

N

S

L

K

V

L

A

A

S

T

E

G

P

-

D

-

I

-

S

V

R

T

V

V

P

P

I

F

M

M

I

V

D

D

S

S

S

T

K

S

W

P

D

E

V

V

I

M

E

E

A

E

G

A

L

L

R

K

C

R

I

L

Q

P

G

G

K

R

A

A

V

I

V

L

N

N

S

S

I

A

S

N

L

L

K

E

E

D

G

G

E

L

E

E

E

K

F

F

V

D

K

R

R

V

A

A

R

S

D

L

C

A

M

K

R

A

Y

H

G

G

A

A

V

L

V

V

V

A

M

L

A

A

F

I

D

D

E

E

Q

E

G

G

Q

M

A

A

D

K

T

T

Y

R

E

V

R

K

K

K

T

V

E

E

I

V

C

A

K

L

R

R

S

M

Y

Y

D

E

V

R

L

L

T

T

-

E

G

H

I

H

G

G

F

L

N

R

P

P

A

E

D

D

I

L

F

F

D

D

P

L

N

L

I

T

F

F

A

P

I

I

A

T

T

Q

G

G

I

D

E

E

H

T

N

R

N

P

Y

L

A

A

V

R

D

E

F

T

I

L

N

L

A

A

T

L

R

E

W

E

I

L

R

R

E

E

N

R

L

L

P

P

H

G

A

V

S

G

I

F

S

V

G

L

G

G

V

V

S

S

N

N

V

V

S

S

F

F

S

G

F

L

R

K

G

P

N

K

D

-

V

-

V

A

R

R

E

R

A

V

I

L

H

N

S

S

V

V

F

F

L

L

Y

D

H

E

A

A

I

R

K

K

A

K

G

G

M

L

N

T

M

A

G

A

I

I

V

V

N

D

P

A

G

G

Q

K

L

I

V

L

I

P

Y

I

D

S

E

Q

I

I

D

P

P

E

E

E

L

A

K

Y

E

A

L

L

V

A

E

L

D

D

V

L

V

I

L

Y

N

D

R

R

D

E

D

-

S

G

T

Q

D

D

R

P

L

L

L

F

E

A

I

F

A

I

E

R

R

F

Y

F

K

E

G

E

K

H

G

K

G

E

K

V

T

L

Q

A

E

E

E

D

D

K

L

E

A

A

W

F

R

Q

E

A

W

L

P

P

V

V

E

E

K

E

R

R

L

L

E

R

H

R

A

R

L

V

V

L

K

E

G

G

I

K

T

R

T

V

Y

G

I

L

V

E

D

E

D

D

T

L

E

A

A

E

C

A

R

L

Q

G

R

R

A

-

T

M

H

R

P

P

I

L

E

E

V

I

I

I

E

N

G

G

P

P

L

L

M

L

D

E

G

A

M

M

N

K

V

E

V

V

G

G

D

E

L

L

F
|
F

G

G

D

A

G

G

K

K

M

M

F

Q

L

L

P

P

Q

F

V
|
V

V

L

K

Q

S

A

A

A

R

E

V

V

M

M

K
|
K

Q

Q

A

A

V

V

A

A

H

Y

L

L

I

E

P

P

Y

H

I

M

E

E

A

-

E

-

K

-

T

-

E

K

D

K

Q

G

K

E

A

G

K

K

G

G

K

K

I

L

L

V

M

L

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

L

V
|
V

G

D

V

I

L

L

Q

T

C

N

N

N

N

G

Y

Y

E

T

V

V

I

Y

D

N

L

L

G

G

V

I

M

K

V

V

P

P

C

I

D

E

K

E

I

M

L

L

A

K

A

A

A

V

K

D

E

E

H

V

D

K

V

P

D

H

L

A

I

L

G

G

L
x
M

S
|
S

G

G

L
|
L

I

L

T
x
V

P

K

S

S

L

T

D

Q

E

V

M

M

V

K

H

E

V

N

A

L

R

E

E

Y

M

M

Q

R

R

A

L

R

D

G

F

Y

N

T

I

L

P

P

L

V

M
x
I

I
x
L

G
|
G

A
|
A

T

A

T

L

S

T

K

R

A

A

H

Y

T

V

binding cobalamin: Q328 (≠ G353), T330 (≠ D355), S331 (≠ N356), F675 (= F708), V685 (= V718), K693 (= K726), G720 (= G757), V722 (= V759), H723 (= H760), D724 (= D761), I725 (= I762), G726 (= G763), V730 (= V767), M767 (≠ L804), S768 (= S805), L770 (= L807), V772 (≠ T809), I795 (≠ M832), L796 (≠ I833), G797 (= G834), G798 (= G835), A799 (= A836)

Sites not aligning to the query:

binding cobalamin: 818, 819, 820, 821

3k13C Structure of the pterin-binding domain metr of 5- methyltetrahydrofolate-homocysteine methyltransferase from bacteroides thetaiotaomicron
66% identity, 23% coverage: 359:641/1232 of query aligns to 4:286/287 of 3k13C

query
sites
3k13C

F

F

I

V

N

N

V

I

G

G

E
|
E

R

R

T

C

N

N

V

V

T

A

G
|
G

S

S

K
x
R

R

K

F

F

L

L

R

R

L

L

I

V

K

N

E

E

E

K

Q

K

Y

Y

E

D

E

E

A

A

L

L

S

S

V

I

A

A

R

R

D

Q

Q

Q

V

V

E

E

N

D

G

G

A

A

Q

L

I

V

I

I

D

D

I

V

N

N

M

M

D

D

E

D

G

G

M

L

L

L

E

D

S

A

K

R

E

T

V

E

M

M

V

T

T

T

F

F

L

L

N

N

L

L

V

I

A

M

S

S

E

E

P

P

D

E

I

I

S

A

R

R

V

V

P

P

I

V

M

M

I

I

D

D

S

S

K

K

W

W

D

E

V

V

I

I

E

E

A

A

G

G

L

L

R

K

C

C

I

L

Q

Q

G

G

K

K

A

S

V

I

V

V

N
|
N

S

S

I

I

S

S

L

L

K

K

E

E

G

G

E

E

E

V

F

F

V

L

K

E

R

H

A

A

R

R

D

I

C

I

M

K

R

Q

Y

Y

G

G

A

A

V

T

V

V

M

M

A

A

F

F

D

D

E

E

Q

K

G

G

Q

Q

A

A

D

D

T

T

Y

A

E

A

R

R

K

K

T

I

E

E

I

V

C

C

K

E

R

R

S

A

Y

Y

D

R

V

L

L

L

T

V

-

D

G

K

I

V

G

G

F

F

N

N

P

P

A

H

D

D

I

I

F

F

D
|
D

P

P

N

N

I

V

F

L

A

A

I

V

A

A

T

T

G

G

I

I

E

E

H

H

N

N

Y

Y

A

A

V

V

D

D

F

F

I

I

N

E

A

A

T

T

R

G

W

W

I

I

R

R

E

K

N

N

L

L

P

P

H

G

A

A

S

H

I

V

S

S

G

G

G
|
G

V

V

S
|
S

N
|
N

V

L

S

S

F

F

S

S

F

F

R
|
R

G

G

N

N

D

N

V

Y

V

I

R
|
R

E

E

A

A

I

M

H

H

S

A

V

V

F

F

L

L

Y

Y

H

H

A

A

I

I

K

Q

A

Q

G

G

M

M

N

D

M

M

G

G

I
|
I

V

V

N

N

P

P

G

G

Q

S

L

-

V

V

I

L

Y

Y

D

S

E

D

I

I

D

P

P

A

E

D

L

T

K

L

E

E

L

K

V

I

E

E

D

D

V

V

L

L

N

N

R

R

D

P

D

D

S

A

T

A

D

E

R

R

L

L

L

I

E

E

I

L

A

A

E

E

R

A

Y

L

K

K

binding n-[4-({[(6s)-2-amino-4-hydroxy-5-methyl-5,6,7,8-tetrahydropteridin-6-yl]methyl}amino)benzoyl]-l-glutamic acid: E9 (= E364), G15 (= G370), R17 (≠ K372), N103 (= N458), D170 (= D524), G209 (= G563), S211 (= S565), N212 (= N566), R218 (= R572), R224 (= R578), I244 (= I598)

6bdyA Crystal structure of the meth reactivation domain bound to sinefungin (see paper)
55% identity, 27% coverage: 903:1229/1232 of query aligns to 1:325/326 of 6bdyA

query
sites
6bdyA

T

T

K

P

L

P

V

V

S

T

L

L

K

E

E

A

A

A

R

R

D

D

R

N

A

D

P

F

D

A

I

F

S

D

F

W

E

Q

G

A

Y

Y

Q

T

P

P

K

V

P

A

A

H

F

R

T

L

G

G

I

V

R

Q

V

E

F

V

E

E

E

A

Y

-

D

S

L

I

N

E

E

T

L

L

V

R

D

N

Y

Y

I

I

D
|
D

W

W

T

T

P

P

F

F

M

M

S

T

W

W

D

S

I

L

S

A

G

G

K

K

Y

Y

P

P

A

R

I

I

F

L

D

E

D

D

P

E

K

V

R

V

G

G

E

V

A

E

A

A

R

Q

H

R

L

L

F

F

D

K

D

D

A

A

Q

N

K

D

I

M

L

L

H

D

R

K

M

L

I

S

D

A

E

E

K

K

R

T

V

L

S

N

A

P

R

R

G

G

V

V

I

V

G

G

F

L

W

F

P

P

A

A

N

N

R

R

R

V

G

G

D

D

V

I

V

E

L

I

Y

Y

T

R

D

D

E

E

S

T

C

R

T

T

E

H

E

V

L

I

T

N

T

V

L

S

H

H

L

L

R

R

Q

Q

D

T

E

E

K

K

A

T

P

-

G

G

K

F

P

A

M

N

M

Y

A

C

L

L

S

A

D

D

F

F

V

V

A

A

P

P

E

K

G

L

S

S

G

G

T

K

V

A

D

D

Y

Y

V

I

G

G

G

A

F

F

A

A

V

V

T

T

T

G

G

G

I

L

G

E

A

E

E

D

E

A

F

L

S

A

V

D

E

A

F

F

K

E

D

A

A

Q

N

H

D

D

Y

Y

N

N

A

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

F

F

A

A

E

E

R

Y

M

L

H

H

E

E

R

R

V

V

R

R

Q

K

E

V

F

Y

W

W

G

G

Y

Y

A

A

A

P

D

N

E

E

K

N

L

L

A

S

N

N

D

E

L

L

I

I

K

R

E

E

R

N

Y

Y

R

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

S

E

L

L

E

E

A

V

T

E

D

K

T

H

A

T

G

G

I

M

E

K

L

L

T

T

E

E

H

S

F

F

A

A

M

M

F

W

P

P

T

G

A

A

A

S

V

V

S

S

G

G

W

W

Y

Y

F

F

A

S

H

H

P

P

E

D

S

S

K

K

Y
|
Y

F

Y

A

A

V

V

G

A

K

Q

I

I

G

Q

A

R

D

D

Q

Q

V

V

E

E

D

D

Y

Y

A

A

E

R

R

R

K

K

G

G

I

M

S

S

K

V

A

T

E

E

A

V

E

E

R

R

W

W

L

L

A

A

P

P

S

N

L

L

A

G

Y

Y

D

D

binding sinefungin: D46 (= D949), R234 (= R1138), P235 (= P1139), A236 (= A1140), Y239 (= Y1143), P240 (= P1144), A241 (= A1145), Y289 (= Y1193)

1mskA Methionine synthase (activation domain) (see paper)
55% identity, 27% coverage: 903:1229/1232 of query aligns to 1:325/327 of 1mskA

query
sites
1mskA

T

T

K

P

L

P

V

V

S

T

L

L

K

E

E

A

A

A

R

R

D

D

R

N

A

D

P

F

D

A

I

F

S

D

F

W

E

Q

G

A

Y

Y

Q

T

P

P

K

V

P

A

A

H

F

R

T

L

G

G

I

V

R

Q

V

E

F

V

E

E

E

A

Y

-

D

S

L

I

N

E

E

T

L

L

V

R

D

N

Y

Y

I

I

D
|
D

W

W

T

T

P

P

F

F

M

M

S

T

W

W

D

S

I

L

S

A

G

G

K

K

Y

Y

P

P

A

R

I

I

F

L

D

E

D

D

P

E

K

V

R

V

G

G

E

V

A

E

A

A

R

Q

H

R

L

L

F

F

D

K

D

D

A

A

Q

N

K

D

I

M

L

L

H

D

R

K

M

L

I

S

D

A

E

E

K

K

R

T

V

L

S

N

A

P

R

R

G

G

V

V

I

V

G

G

F

L

W

F

P

P

A

A

N

N

R

R

R

V

G

G

D

D

V

I

V

E

L

I

Y

Y

T

R

D

D

E

E

S

T

C

R

T

T

E

H

E

V

L

I

T

N

T

V

L

S

H

H

L

L

R

R

Q

Q

D

T

E

E

K

K

A

T

P

-

G

G

K

F

P

A

M

N

M

Y

A

C

L

L

S

A

D

D

F

F

V

V

A

A

P

P

E

K

G

L

S

S

G

G

T

K

V

A

D

D

Y

Y

V

I

G

G

G

A

F

F

A

A

V

V

T

T

T

G

G

G

I

L

G

E

A

E

E

D

E

A

F

L

S

A

V

D

E

A

F

F

K

E

D

A

A

Q

N

H

D

D

Y

Y

N

N

A

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

F

F

A

A

E

E

R

Y

M

L

H

H

E

E

R

R

V

V

R

R

Q

K

E

V

F

Y

W

W

G

G

Y

Y

A

A

A

P

D

N

E

E

K

N

L

L

A

S

N

N

D

E

L

L

I

I

K

R

E

E

R

N

Y

Y

R

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

S

E

L

L

E

E

A

V

T

E

D

K

T

H

A

T

G

G

I

M

E

K

L

L

T

T

E

E

H

S

F

F

A

A

M

M

F

W

P

P

T

G

A

A

A

S

V

V

S

S

G

G

W

W

Y

Y

F

F

A

S

H

H

P

P

E

D

S

S

K

K

Y
|
Y

F

Y

A

A

V

V

G

A

K

Q

I

I

G

Q

A

R

D

D

Q

Q

V

V

E

E

D

D

Y

Y

A

A

E

R

R

R

K

K

G

G

I

M

S

S

K

V

A

T

E

E

A

V

E

E

R

R

W

W

L

L

A

A

P

P

S

N

L

L

A

G

Y

Y

D

D

binding s-adenosylmethionine: D46 (= D949), R234 (= R1138), P235 (= P1139), Y239 (= Y1143), A241 (= A1145), Y289 (= Y1193)

1bmtA How a protein binds b12: a 3.O angstrom x-ray structure of the b12- binding domains of methionine synthase (see paper)
71% identity, 19% coverage: 654:893/1232 of query aligns to 4:241/246 of 1bmtA

query
sites
1bmtA

W

W

R

R

E

S

W

W

P

E

V

V

E

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

Y

F

I

I

V

E

D

Q

D

D

T

T

E

E

A

E

C

A

R

R

Q

Q

R

Q

A

A

T

T

H

R

P

P

I

I

E

E

V

V

I

I

E
|
E

G

G

P

P

L

L

M
|
M

D

D

G

G

M
|
M

N

N

V

V

G
|
G

D

D

L

L

F

F

G

G

D

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

Y

F

I

I

E

E

A

A

E

S

K

K

T

-

E

E

D

Q

Q

G

K

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

L

L

Q

Q

C

C

N

N

Y

Y

E

E

V

I

I

V

D

D

L

L

G

G

V

V

M

M

V

V

P

P

C

A

D

E

K

K

I

I

L

L

A

R

A

T

A

A

K

K

E

E

H

V

D

N

V

A

D

D

L

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

L

Q

D

G

F

F

N

T

I

I

P

P

L

L

M

L

I

I

G
|
G

A
|
A

T

T

S

S

K

K

A

A

H

H

T

T

A

A

V

V

K

K

I

I

E

E

P

Q

Q

N

Y

Y

K

S

N

G

D

P

I

-

A

T

L

V

Y

Y

V
|
V

S

Q

D
x
N

A
|
A

S

S

R

R

C

T

V

V

N

G

V

V

A

V

S

A

Q

A

L

L

S

S

K

D

N

T

A

Q

K

R

P

D

E

D

F

F

V

V

E

A

A

R

A

T

R

R

T

K

E

E

Y

Y

D

E

E

T

I

V

R

R

active site: D107 (= D758), H109 (= H760), S160 (= S811)
binding co-methylcobalamin: E44 (= E694), M48 (= M698), M51 (= M701), G55 (= G705), L65 (= L715), V68 (= V718), D107 (= D758), V108 (= V759), H109 (= H760), D110 (= D761), I111 (= I762), I115 (= I766), G152 (= G803), L153 (= L804), S154 (= S805), L156 (= L807), I157 (= I808), T158 (= T809), G183 (= G834), G184 (= G835), A185 (= A836), V207 (= V859), N209 (≠ D861), A210 (= A862)

8sseA Methionine synthase, c-terminal fragment, cobalamin and reactivation domains from thermus thermophilus hb8 (see paper)
30% identity, 44% coverage: 658:1196/1232 of query aligns to 1:506/507 of 8sseA

query
sites
8sseA

P

P

V

L

E

L

K

E

R

R

L

L

E

K

H

R

A

R

L

V

V

V

K

E

G

G

I

R

T

K

T

Q

Y

G

I

L

V

E

D

A

D

D

T

L

E

E

A

E

C

A

R

L

Q

K

R

A

A

G

T

H

H

K

P

P

I

L

E

D

V

L

I

I

E

N

G

G

P

P

L

L

M

L

D

A

G

G

M

M

N

K

V

E

V

V

G

G

D

D

L

L

F

F

G

G

D

A

G

G

K

K

M

M

F

Q

L

L

P

P

Q

F

V

V

V

L

K

Q

S

A

A

A

R

E

V

V

M

M

K

K

Q

R

A

A

V

V

A

A

H

Y

L

L

I

E

P

P

Y

H

I

M

E

E

A

K

E

E

K

-

T

-

E

-

D

-

Q

-

K

-

A

G

K

K

G

G

K

T

I

L

L

V

M

L

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

L

V
|
V

G

D

V

I

L

L

Q

S

C

N

N

N

N

G

Y

Y

E

R

V

V

I

V

D

N

L

L

G

G

V

I

M

K

V

V

P

P

C

I

D

E

K

E

I

I

L

L

A

K

A

A

A

V

K

E

E

A

H

H

D

K

V

P

D

H

L

A

I

V

G

G

L

M

S
|
S

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binding cobalamin: H97 (= H760), G100 (= G763), V104 (= V767), S142 (= S805), L145 (≠ I808), V146 (≠ T809), I169 (≠ M832), G171 (= G834), G172 (= G835), A173 (= A836), H405 (≠ K1093), V409 (≠ D1097), S451 (≠ A1140), F452 (≠ P1141), G453 (= G1142), Y454 (= Y1143), Q463 (≠ K1152), L485 (≠ M1175), E488 (≠ T1178), A490 (= A1180), S492 (= S1182)

1q8jA Cobalamin-dependent methionine synthase (1-566) from thermotoga maritima (cd2+, hcy, methyltetrahydrofolate complex) (see paper)
27% identity, 48% coverage: 10:601/1232 of query aligns to 6:539/559 of 1q8jA

query
sites
1q8jA

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|
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binding 5-methyl-5,6,7,8-tetrahydrofolic acid: E320 (= E364), D390 (= D437), N411 (= N458), D473 (= D524), G505 (= G563), N508 (= N566), F511 (= F569), R516 (= R578), I536 (= I598)

3bofA Cobalamin-dependent methionine synthase (1-566) from thermotoga maritima complexed with zn2+ and homocysteine (see paper)
27% identity, 48% coverage: 10:601/1232 of query aligns to 6:539/560 of 3bofA

query
sites
3bofA

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E

H

E

D

M

F

A

A

E

V

I

H

I

I

E

D

G

S

F

Y

A

Y

R

E

D

L

G

G

F

-

L

V

N

N

I

I

I

F

G

G

C
|
C

C

C

G

G

S

T

R

T

P

P

D

E

H

H

I

V

E

K

A

L

I

F

A

R

Q

K

A

V

V

L

S

G

K

N

Y

R

P

K

P

P

R

L

K

Q

I

-

P

R

E

K

R

K

P

K

K

R

A

I

L

F

R

A

L

V

S

S

G

S

L

P

E

S

P

K

F

L

T

V

G

T

D

F

D

D

N

H

V

-

L

-

F

F

I

V

N

V

V

I

G

G

E

E

R

R

T

I

N

N

V

P

T

A

G

G

S

R

K

K

R

K

F

L

L

W

R

A

L

E

I

M

K

Q

E

K

E

G

Q

N

Y

E

E

E

E

I

A

V

L

I

S

K

V

E

A

A

R

K

D

T

Q

Q

V

V

E

E

N

K

G

G

A

A

Q

E

I

V

I

L

D

D

I

V

N

N

M

F

D

G

E

-

G

-

M

-

L

I

E

E

S

S

K

Q

E

I

V

D

M

V

V

R

T

Y

F

V

L

E

N

K

L

I

V

V

A

Q

S

T

E

L

P

P

D

Y

I

V

S

S

R

N

V

V

P

P

I

L

M

S

I

L

D

D

S

I

S

Q

K

N

W

V

D

D

V

L

I

T

E

E

A

R

G

A

L

L

R

R

C

A

I

Y

Q

P

G

G

K

R

A

S

V

L

V

F

N

N

S

S

I

A

S

-

L

-

K

K

E

V

G

D

E

E

F

L

V

E

K

M

R

K

A

I

R

N

D

L

C

L

M

K

R

K

Y

Y

G

G

A

G

A

T

V

L

V

I

V

V

M

L

A

L

F

M

D

G

E

K

Q

D

G

-

Q

V

A

P

D

K

T

S

Y

F

E

E

R

E

K

R

T

K

E

E

I

Y

C

F

K

E

R

K

S

A

Y

L

D

K

V

I

L

L

T

E

G

R

I

H

G

D

F

F

N

S

P

D

A

R

D

-

I

V

I

I

F

F

D

D

P

P

N

G

I

V

F

L

A

P

I

L

-

G

A

A

T

E

G

G

I

K

E

P

E

V

H

E

N

V

N

L

Y

K

A

T

V

I

D

E

F

F

I

I

N

S

A

S

T

K

R

G

W

F

I

-

R

-

E

-

N

-

L

-

P

-

H

-

A

-

S

N

I

T

S

T

G

V

G

G

V

L

S

S

N

N

V

L

S

S

F

F

S

G

F

L

R

P

G

D

N

-

D

-

V

-

R

R

E

S

A

Y

I

Y

H

N

S

T

V

A

F

F

L

L

Y

V

H

L

A

G

I

I

K

S

A

K

G

G

M

L

N

S

M

S

G

A

I

I

V

M

N

N

P

P

binding zinc ion: C207 (= C250), C272 (= C313)

5vooA Methionine synthase folate-binding domain with methyltetrahydrofolate from thermus thermophilus hb8 (see paper)
36% identity, 22% coverage: 358:634/1232 of query aligns to 2:273/282 of 5vooA

query
sites
5vooA

L

L

F

F

I

L

N

-

V

V

G

G

E
|
E

R
|
R

T

L

N

N

V

A

T

T

G
|
G

S
|
S

K
|
K

R

R

F

F

L

R

R

E

L

M

I

L

K

F

E

A

E

R

Q

D

Y

L

E

E

E

G

A

I

L

L

S

A

V

L

A

A

R

R

D

E

Q

Q

V

V

E

E

N

E

G

G

A

A

Q

H

I

A

I

L

D

D

I

L

N

S

M

V

D

A

E

W

G

T

M

G

L

R

E

D

S

E

K

L

E

E

V

D

M

L

V

R

T

W

F

L

L

L

N

P

L

H

V

L

A

A

S

T

E

A

P

L

D

T

I

-

S

-

R

-

V

V

P

P

I

V

M

M

I

V

D
|
D

S

S

S

T

K

S

W

P

D

E

V

A

I

M

E

E

A

L

G

A

L

L

R

K

C

Y

I

L

Q

P

G

G

K

R

A

V

V

L

N
|
N

S

S

I

A

S

N

L

L

K

E

E

D

G

G

E

L

E

E

E

R

F

F

V

D

K

R

R

V

A

A

R

S

D

L

C

A

M

K

R

A

Y

H

G

G

A

A

V

L

V

V

M

L

A

A

F

I

D

D

E

E

Q

K

G

G

Q

M

A

A

D

K

T

T

Y

R

E

E

R

E

K

K

T

V

E

R

I

V

C

A

K

L

R

R

S

M

Y

Y

D

E

V

R

L

L

T

T

-

E

G

H

I

H

G

G

F

L

N

R

P

P

A

E

D

D

I

L

F

F

D
|
D

P

L

N

L

I

T

F

F

A

P

I

I

A

T

T

Q

G

G

I

D

E

E

H

S

N

R

N

P

Y

L

A

A

V

K

D

E

F

T

I

L

N

L

A

A

T

M

R

E

W

E

I

L

R

R

E

E

N

R

L

L

P

P

H

G

A

V

S

G

I

F

S

V

G

L

G
|
G

V

V

S

S

N
|
N

V

V

S

S

F
|
F

S

G

F

L

R

K

G

P

N

R

D

-

V

-

V

A

R
|
R

E

R

A

V

I

L

H

N

S

S

V

V

F

F

L

L

Y

D

H

E

A

A

I

R

K

K

A

R

G

G

M

L

N

T

M

A

G

A

I
|
I

V

V

N

D

P

A

G

G

Q

K

L

I

V

L

I

P

Y

I

D

S

E

Q

I

I

D

P

P

E

E

E

L

A

K

Y

E

A

L

L

V

A

E

L

D

D

V

L

V

I

L

Y

N

D

R

R

D

K

D

E

S

G

T

F

D

D

R

P

L

L

binding 5-methyl-5,6,7,8-tetrahydrofolic acid: E7 (= E364), R8 (= R365), G13 (= G370), S14 (= S371), K15 (= K372), D77 (= D437), N98 (= N458), D165 (= D524), G204 (= G563), N207 (= N566), F210 (= F569), R217 (= R578), I237 (= I598)

2i2xB Crystal structure of methanol:cobalamin methyltransferase complex mtabc from methanosarcina barkeri (see paper)
32% identity, 15% coverage: 657:840/1232 of query aligns to 41:216/258 of 2i2xB

query
sites
2i2xB

W

Y

P

P

V

I

E

A

K

K

R

-

L

-

E

-

H

-

A

A

L

I

V

F

K

E

G

G

I

E

T

E

T

D

Y

D

I

V

V

V

D

E

D

G

T

L

E

Q

A

A

C

A

R

I

Q

E

R

A

A

G

T

K

H

D

P

P

I

I

E

D

V

L

I

I

E

D

G

D

P

A

L

L

M

M

D

V

G

G

M

M

N

G

V

V

G

I

D

R

L

L

F

Y

G

D

D

E

G

G

K

V

M

I

F

F

L

L

P

P

Q

N

V

V

V

M

K

M

S

S

A

A

R

D

V

A

M

M

K

L

Q

E

A

G

V

-

A

-

H

-

L

-

I

I

P

E

Y

Y

I

C

E

K

A

E

E

N

K

S

T

G

E

A

D

T

Q

P

K

K

A

T

K

K

G

G

K

T

I

V

L

V

M

C

A

H

T

V

V

A

K

E

G
|
G

D
|
D

V
|
V

H
|
H

D
|
D

I
|
I

G
|
G

K

K

N

N

I

I

V
|
V

G

T

V

A

V

L

L

L

Q

R

C

A

N

N

N

G

Y

Y

E

N

V

V

I

V

D

D

L

L

G

G

V

R

M

D

V

V

P

P

C

A

D

E

K

E

I

V

L

L

A

A

A

V

K

Q

E

K

H

E

D

K

V

P

D

I

L

M

I

L

G
x
T

L

G

S
x
T

G

A

L
|
L

I
x
M

T
|
T

P

T

S
x
T

L

M

D

Y

E

A

M

F

V

K

H

E

V

V

A

N

R

D

E

M

M

L

Q

L

R

E

L

N

D

G

F

I

N

K

I

I

P

P

L

F

M
x
A

I

C

G
|
G

A
x
G

T

A

T

V

S

N

K

Q

active site: D134 (= D758), H136 (= H760), T187 (≠ S811)
binding 5-hydroxybenzimidazolylcob(iii)amide: G133 (= G757), D134 (= D758), V135 (= V759), H136 (= H760), D137 (= D761), I138 (= I762), G139 (= G763), V143 (= V767), T179 (≠ G803), T181 (≠ S805), L183 (= L807), M184 (≠ I808), T185 (= T809), A208 (≠ M832), G210 (= G834), G211 (= G835), G212 (≠ A836)

Sites not aligning to the query:

binding 5-hydroxybenzimidazolylcob(iii)amide: 228, 229, 230, 231

Q46EH4 Methanol--corrinoid protein; Methanol:corrinoid methyltransferase 1 subunit of 27 kDa; MT1 subunit 27 kDa from Methanosarcina barkeri (strain Fusaro / DSM 804) (see paper)
32% identity, 15% coverage: 657:840/1232 of query aligns to 41:216/258 of Q46EH4

query
sites
Q46EH4

W

Y

P

P

V

I

E

A

K

K

R

-

L

-

E

-

H

-

A

A

L

I

V

F

K

E

G

G

I

E

T

E

T

D

Y

D

I

V

V

V

D

E

D

G

T

L

E

Q

A

A

C

A

R

I

Q

E

R

A

A

G

T

K

H

D

P

P

I

I

E

D

V

L

I

I

E

D

G

D

P

A

L

L

M

M

D

V

G

G

M

M

N

G

V

V

G

I

D

R

L

L

F

Y

G

D

D

E

G

G

K

V

M

I

F

F

L

L

P

P

Q

N

V

V

V

M

K

M

S

S

A

A

R

D

V

A

M

M

K

L

Q

E

A

G

V

-

A

-

H

-

L

-

I

I

P

E

Y

Y

I

C

E

K

A

E

E

N

K

S

T

G

E

A

D

T

Q

P

K

K

A

T

K

K

G

G

K

T

I

V

L

V

M

C

A
x
H

T

V

V

A

K

E

G

G

D

D

V

V

H
|
H

D

D

I

I

G

G

K

K

N

N

I

I

V

V

G

T

V

A

V

L

L

L

Q

R

C

A

N

N

N

G

Y

Y

E

N

V

V

I

V

D

D

L

L

G

G

V

R

M

D

V

V

P

P

C

A

D

E

K

E

I

V

L

L

A

A

A

V

K

Q

E

K

H

E

D

K

V

P

D

I

L

M

I

L

G

T

L

G

S

T

G

A

L

L

I

M

T

T

P

T

S

T

L

M

D

Y

E

A

M

F

V

K

H

E

V

V

A

N

R

D

E

M

M

L

Q

L

R

E

L

N

D

G

F

I

N

K

I

I

P

P

L

F

M

A

I

C

G

G

A

G

T

A

T

V

S

N

K

Q

H129 (≠ A753) mutation to K: Does not affect cobalamin-binding.
H136 (= H760) mutation H->G,K: Abolishes cobalamin-binding.

Sites not aligning to the query:

256:258 HKH→KKK: Does not affect cobalamin-binding.

7xcnP Crystal structure of the mttb-mttc complex at 2.7 a resolution (see paper)
31% identity, 12% coverage: 689:840/1232 of query aligns to 36:188/215 of 7xcnP

query
sites
7xcnP

P

P

I

V

E

E

V

L

I

I

E

E

G

K

P

G

L

F

M

T

D

A

G

G

M

M

N

E

V

E

V

V

G

G

D

E

L

K

F

F

G

G

D

Q

G

G

K

E

M

L

F

F

L

L

P

P

Q

H

V

V

V

L

K

A

S

A

A

A

R

E

V

A

M

M

K

N

Q

S

A

G

V

I

A

K

H

V

L

I

I

T

P

P

Y

E

I

M

E

E

A

K

E

R

K

K

T

S

E

Q

D

-

Q

T

K

K

A

S

K

L

G

G

K

T

I

V

L

A

M

I

A

G

T

T

V

I

K

E

G

G

D
|
D

V
x
I

H
|
H

D

S

I
|
I

G
|
G

K

K

N

D

I

I

V
|
V

G

A

V

S

V

M

L

L

Q

N

C

I

N

A

N

G

Y

F

E

K

V

V

I

V

D

D

L

L

G

G

V

R

M

D

V

V

P

P

C

I

D

N

K

T

I

F

L

V

A

E

A

K

A

V

K

K

E

E

H

L

D

K

V

P

D

Q

L

V

I

V

G

A

L
x
S

S
|
S

G

A

L
|
L

I
x
M

T
|
T

P

T

S

T

L

M

D

V

E

N

M

Q

V

I

H

Q

V

I

A

E

R

E

E

Q

M

L

Q

K

R

E

L

A

D

G

F

V

-

R

-

D

N

Q

I

V

P

K

L

T

M
|
M

I

V

G
|
G

A

A

T

P

T

V

S

T

K

Q

binding 5-hydroxybenzimidazolylcobamide: D104 (= D758), I105 (≠ V759), H106 (= H760), I108 (= I762), G109 (= G763), V113 (= V767), S150 (≠ L804), S151 (= S805), L153 (= L807), M154 (≠ I808), T155 (= T809), M180 (= M832), G182 (= G834), G183 (= G835)

Sites not aligning to the query:

binding 5-hydroxybenzimidazolylcobamide: 200, 202, 203

4jgiB 1.5 angstrom crystal structure of a novel cobalamin-binding protein from desulfitobacterium hafniense dcb-2 (see paper)
35% identity, 11% coverage: 700:835/1232 of query aligns to 45:174/206 of 4jgiB

query
sites
4jgiB

G

G

M

M

N

T

V

K

V

V

G

G

D

E

L

R

F

F

G

D

D

S

G

G

K

E

M

Y

F

F

L

I

P

G

Q

D

V
x
L

V

I

K

F

S

A

A

G

R

E

V

I

M

L

K

Q

Q

A

A

A

V

M

A

D

H

K

L

L

I

K

P

P

Y

A

I

L

E

E

A

K

E

-

K

-

T

-

E

-

D

-

Q

-

K

-

A

-

K

R

G

A

K

K

I

I

L

V

M

L

A

A

T

T

V

V

K

E

G

G

D
|
D

V
x
L

H
|
H

D
|
D

I
|
I

G
|
G

K

K

N

N

I

I

V
x
F

G

R

V

T

V

M

L

A

Q

E

C

A

N

S

N

G

Y

F

E

E

V

V

I

F

D

D

L

L

G

G

V

I

M

D

V

V

P

P

C

V

D

K

K

I

I

I

L

V

A

D

A

K

A

V

K

K

E

E

H

V

D

N

V

P

D

E

L

I

I

V

G
|
G

L

L

S
|
S

G

G

L

V

I
x
L

T

T

P

L

S
x
A

L

L

D

D

E

S

M

M

V

R

H

E

V

T

-

V

-

D

A

A

R

L

E

K

M

A

Q

E

R

G

L

L

D

R

F

N

N

D

I

L

P

K

L

V

M

I

I

I

G
|
G

active site: D95 (= D758), H97 (= H760), A148 (≠ S811)
binding co-methylcobalamin: L63 (≠ V718), D95 (= D758), L96 (≠ V759), H97 (= H760), D98 (= D761), I99 (= I762), G100 (= G763), F104 (≠ V767), G140 (= G803), S142 (= S805), L145 (≠ I808), G173 (= G834), G174 (= G835)

Sites not aligning to the query:

binding co-methylcobalamin: 175, 191, 192, 193, 194

3ezxA Structure of methanosarcina barkeri monomethylamine corrinoid protein
32% identity, 13% coverage: 680:839/1232 of query aligns to 23:185/212 of 3ezxA

query
sites
3ezxA

E

E

A

L

C

C

R

K

Q

E

R

A

-

L

-

A

A

G

T

V

H

P

P

A

I

L

E

D

V

I

I

I

E

T

G

K

P

G

L

L

M

S

D

V

G

G

M
|
M

N

K

V

I

V

V

G

G

D

D

L

K

F
|
F

G

E

D

A

G

A

K

E

M

I

F

F

L

L

P

P

Q

Q

V

I

V

M

K

M

S

S

A

G

R

K

V

A

M

M

K

S

Q

N

A

A

V

M

A

E

H

V

L

L

I

T

P

P

Y

E

I

L

E

E

A

K

E

N

K

K

T

K

E

E

D

-

Q

-

K

-

A

-

K

A

G

G

K

L

I

A

L

I

M

T

A

F

T

V

V

A

K

E

G

G

D
|
D

V
x
I

H
|
H

D
|
D

I
|
I

G

G

K

H

N

R

I

L

V
|
V

G

T

V

T

V

M

L

L

Q

G

C

A

N

N

N

G

Y

F

E

Q

V

I

I

V

D

D

L

L

G

G

V

V

M

D

V

V

P

L

C

N

D

E

K

N

I

V

L

V

A

E

A

A

K

A

E

K

H

H

-

K

-

G

-

E

D

K

V

V

D

L

L

L

I
x
V

G

G

L

-

S
|
S

G

A

L
|
L

I
x
M

T
|
T

P

T

S
|
S

L

M

-

L

-

G

-

Q

-

K

D

D

E

L

M

M

V

D

H

R

V

L

A

N

R

E

E

E

M

-

Q

-

R

K

L

L

D

R

F

D

N

S

I

V

P

K

L

C

M
|
M

I

F

G
|
G

A

A

T

P

T

V

S

S

active site: D100 (= D758), H102 (= H760), S155 (= S811)
binding 5-hydroxybenzimidazolylcobamide: M47 (= M701), F54 (= F708), D100 (= D758), I101 (≠ V759), H102 (= H760), D103 (= D761), I104 (= I762), V109 (= V767), V147 (≠ I802), S149 (= S805), L151 (= L807), M152 (≠ I808), T153 (= T809), M178 (= M832), G180 (= G834), G181 (= G835)

Sites not aligning to the query:

binding 5-hydroxybenzimidazolylcobamide: 198, 200

1y80A Structure of a corrinoid (factor iiim)-binding protein from moorella thermoacetica
32% identity, 10% coverage: 748:873/1232 of query aligns to 5:125/125 of 1y80A

query
sites
1y80A

G

G

K

K

I

I

L

V

M

L

A

G

T

T

V

V

K

K

G

G

D
|
D

V
x
L

H
|
H

D
|
D

I
|
I

G
|
G

K

K

N

N

I

L

V
|
V

G

A

V

M

L

L

Q

E

C

S

N

G

Y

F

E

T

V

V

I

Y

D

N

L

L

G

G

V

V

M

D

V

I

P

E

C

P

D

G

K

K

I

F

L

V

A

E

A

A

A

V

K

K

E

K

H

Y

D

Q

V

P

D

D

L

I

I

V

G
|
G

L
x
M

S
|
S

G

A

L
|
L

I
x
L

T
|
T

P

T

S
x
T

L

M

D

M

E

N

M

M

V

K

H

S

V

T

A

I

R

D

E

A

M

L

-

I

-

A

Q

A

R

G

L

L

D

R

F

D

N

R

I

V

P

K

L

V

M
x
I

I

V

G
|
G

A
|
A

T

P

T

L

S

S

K

Q

A

-

H

-

T

-

A

-

V

-

K

-

I

-

E

-

P

-

Q

D

Y

F

K

A

N

D

D

E

I

I

A

G

L

A

-

D

-

G

Y

Y

V

A

S
x
P

D
|
D

A
|
A

S

A

R

S

C

A

V

T

N

E

V

L

A

C

S

R

Q

Q

L

L

active site: D15 (= D758), H17 (= H760), T68 (≠ S811)
binding co-5-methoxybenzimidazolylcobamide: D15 (= D758), L16 (≠ V759), H17 (= H760), D18 (= D761), I19 (= I762), G20 (= G763), V24 (= V767), G60 (= G803), M61 (≠ L804), S62 (= S805), L64 (= L807), L65 (≠ I808), T66 (= T809), I91 (≠ M832), G93 (= G834), G94 (= G835), A95 (= A836), P112 (≠ S860), D113 (= D861), A114 (= A862)

Query Sequence

>GFF1835 FitnessBrowser__Marino:GFF1835
MTDRTTRLDQLHKALQERIVILDGGMGTMIQNLKLDEKAFRGDRFADYEREVQGNNDLLN
LTQPALLRNIHADYLDAGADIIETNTFNSTQLSQADYGLEAIARELNVAAAELARQIADE
YTAKNPEKPRFVAGAVGPTSRTASISPDVNNPGYRNVDFQTLVDNYYEAVGGLVEGGCDL
ILIETIFDTLNAKAAIYATQQYFEDSGITLPIMISGTITDASGRTLSGQTTEAFWNSVAH
AKPISVGLNCALGADALRPYVEELSAKAETYVSAHPNAGLPNEFGEYDQTPEEMAEIIEG
FARDGFLNIIGGCCGSRPDHIEAIAQAVSKYPPRKIPERPKALRLSGLEPFTGDDNVLFI
NVGERTNVTGSKRFLRLIKEEQYEEALSVARDQVENGAQIIDINMDEGMLESKEVMVTFL
NLVASEPDISRVPIMIDSSKWDVIEAGLRCIQGKAVVNSISLKEGEEEFVKRARDCMRYG
AAVVVMAFDEQGQADTYERKTEICKRSYDVLTGIGFNPADIIFDPNIFAIATGIEEHNNY
AVDFINATRWIRENLPHASISGGVSNVSFSFRGNDVVREAIHSVFLYHAIKAGMNMGIVN
PGQLVIYDEIDPELKELVEDVVLNRRDDSTDRLLEIAERYKGKGGKTQEEDLAWREWPVE
KRLEHALVKGITTYIVDDTEACRQRATHPIEVIEGPLMDGMNVVGDLFGDGKMFLPQVVK
SARVMKQAVAHLIPYIEAEKTEDQKAKGKILMATVKGDVHDIGKNIVGVVLQCNNYEVID
LGVMVPCDKILAAAKEHDVDLIGLSGLITPSLDEMVHVAREMQRLDFNIPLMIGGATTSK
AHTAVKIEPQYKNDIALYVSDASRCVNVASQLLSKNAKPEFVEAARTEYDEIRERRKNRG
DRTKLVSLKEARDRAPDISFEGYQPPKPAFTGIRVFEEYDLNELVDYIDWTPFFMSWDIS
GKYPAIFDDPKRGEAARHLFDDAQKILHRMIDEKRVSARGVIGFWPANRRGDDVVLYTDE
SCTEELTTLHHLRQQDEKAPGKPMMALSDFVAPEGSGTVDYVGGFAVTTGIGAEEFSVEF
KDANDDYNAIMVKALADRLAEAFAERMHERVRQEFWGYAADEKLANDDLIKERYRGIRPA
PGYPACPDHTEKATLFSLLEATDTAGIELTEHFAMFPTAAVSGWYFAHPESKYFAVGKIG
ADQVEDYAERKGISKAEAERWLAPSLAYDPAE

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