SitesBLAST

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)
33% identity, 88% coverage: 14:218/232 of query aligns to 37:238/258 of Q46EH4

query
sites
Q46EH4

E

D

E

E

L

L

V

I

Q

Y

Q

P

M

I

H

A

D

K

D

A

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Y

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V

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I

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D

A

A

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L

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M

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G

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Y

R

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I

F

F

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P

E

N

V

V

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S

A

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D

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N

L

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A

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A

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A

K

P

T

K

K

L

-

G

G

K

T

M

V

V

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C

G
x
H

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A

K

E

G

G

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H
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H

D

D

I

I

G

G

K

K

N

N

L

I

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V

G

T

M

A

M

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G

A

A

N

G

G

F

Y

D

N

V

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D

D

L

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G

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N

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N

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A

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E

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Y

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A

A

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T

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A

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K

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N

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M

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E

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K

N

G

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I

D

P

Y

F

V

A

V

-

L

-

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C

G

G

A

G

P

A

L

V

N

N

E

Q

E

D

F

F

G

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A

L

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A

A

H129 (≠ G107) mutation to K: Does not affect cobalamin-binding.
H136 (= H114) mutation H->G,K: Abolishes cobalamin-binding.

Sites not aligning to the query:

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

3ivaA Structure of the b12-dependent methionine synthase (meth) c-teminal half with adohcy bound (see paper)
34% identity, 77% coverage: 15:192/232 of query aligns to 8:185/576 of 3ivaA

query
sites
3ivaA

E

E

L

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V

N

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G

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N

E

I

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I

-

E

-

A

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N

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G

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K

G

G

D
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D

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H
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H

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G

K

K

N

N

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V

G

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E

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N

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Y

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G

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x
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x
S

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K

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G
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G

A

A

active site: D107 (= D112), H109 (= H114), S160 (≠ T165)
binding cobalamin: H109 (= H114), G112 (= G117), V116 (= V121), G152 (= G157), L153 (≠ M158), S154 (= S159), L156 (= L161), I157 (≠ L162), T158 (= T163), G183 (= G190), G184 (= G191)

Sites not aligning to the query:

binding cobalamin: 208, 209, 303, 443, 486, 488, 489, 495, 520, 521, 524, 527, 528
binding s-adenosyl-l-homocysteine: 447, 484, 485, 489, 491, 539

3bulA E. Coli i690c/g743c meth c-terminal fragment (649-1227) (see paper)
34% identity, 77% coverage: 15:192/232 of query aligns to 8:185/577 of 3bulA

query
sites
3bulA

E

E

L

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G

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D

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H

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G

K

K

N

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V

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G

M
x
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S

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L

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x
I

T
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T

T

P

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x
S

M

L

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Y

E

M

M

K

V

V

N

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A

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G

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G

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A

active site: D107 (= D112), H109 (= H114), S160 (≠ T165)
binding cobalamin: H109 (= H114), V116 (= V121), G152 (= G157), L153 (≠ M158), S154 (= S159), L156 (= L161), I157 (≠ L162), T158 (= T163), G183 (= G190), G184 (= G191)

Sites not aligning to the query:

binding cobalamin: 208, 209, 210, 213, 302, 443, 486, 487, 488, 489, 495, 498, 521, 524, 527, 528

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)
34% identity, 77% coverage: 15:192/232 of query aligns to 658:835/1227 of P13009

query
sites
P13009

E

E

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E

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N

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K

G
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G

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D

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x
V

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H

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D

I

I

G

G

K

K

N

N

L

I

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V

G

G

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G

C

A

N

G

N

F

Y

D

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G

G

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M

N

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A

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D

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G

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M

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S

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G

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T

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x
S

M

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Y

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M

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N

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A

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M

M

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G

G

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L

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G

G

A

A

E694 (≠ T51) binding methylcob(III)alamin
GDVHD 756:760 (≠ GDIHD 111:115) binding methylcob(III)alamin
D757 (= D112) mutation to E: Decreases activity by about 70%.; mutation to N: Decreases activity by about 45%.
H759 (= H114) binding axial binding residue; mutation to G: Loss of catalytic activity.
S804 (= S159) binding methylcob(III)alamin
T808 (= T163) binding methylcob(III)alamin
S810 (≠ T165) mutation to A: Decreases activity by about 40%.

Sites not aligning to the query:

1 modified: Initiator methionine, Removed
247 binding Zn(2+)
310 binding Zn(2+); mutation C->A,S: Loss of zinc binding. Loss of catalytic activity.
311 binding Zn(2+); mutation C->A,S: Loss of zinc binding. Loss of catalytic activity.
860 binding methylcob(III)alamin
946 binding S-adenosyl-L-methionine
1134 binding S-adenosyl-L-methionine
1189:1190 binding S-adenosyl-L-methionine

1bmtA How a protein binds b12: a 3.O angstrom x-ray structure of the b12- binding domains of methionine synthase (see paper)
35% identity, 77% coverage: 15:192/232 of query aligns to 8:185/246 of 1bmtA

query
sites
1bmtA

E

E

L

V

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N

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E

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G

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L

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V

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A

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M

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G

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P

P

L

F

L

I

-

E

-

A

-

S

A

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E

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G

G

A

K

P

T

K

N

L

-

G

G

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M

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G

A

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T

V

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K

G

G

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D

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x
V

H
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H

D
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D

I
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I

G

G

K

K

N

N

L
x
I

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V

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G

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M

L

E

Q

G

C

A

N

G

N

F

Y

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D

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L

G

G

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D

I

L

L

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G
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G

M
x
L

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S

A

G

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L

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x
I

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T

T

P

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x
S

M

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E

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V

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N

V

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G

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G

A
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A

active site: D107 (= D112), H109 (= H114), S160 (≠ T165)
binding co-methylcobalamin: E44 (≠ T51), M48 (≠ V55), M51 (= M58), G55 (= G62), L65 (≠ V72), V68 (= V75), D107 (= D112), V108 (≠ I113), H109 (= H114), D110 (= D115), I111 (= I116), I115 (≠ L120), G152 (= G157), L153 (≠ M158), S154 (= S159), L156 (= L161), I157 (≠ L162), T158 (= T163), G183 (= G190), G184 (= G191), A185 (= A192)

Sites not aligning to the query:

binding co-methylcobalamin: 207, 209, 210

8sseA Methionine synthase, c-terminal fragment, cobalamin and reactivation domains from thermus thermophilus hb8 (see paper)
36% identity, 79% coverage: 16:198/232 of query aligns to 2:179/507 of 8sseA

query
sites
8sseA

L

L

V

L

Q

E

Q

R

M

L

H

K

D

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V

D

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G

G

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K

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N

E

I

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L

A

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G

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A

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A

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E

G

G

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K

P

-

K

-

L

-

G

G

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L

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V

I

L

G

A

T

T

V

V

K

K

G

G

D

D

I

V

H
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H

D

D

I

I

G
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G

K

K

N

N

L

L

V
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V

G

D

M

I

M

L

E

S

G

N

A

N

G

G

F

Y

D

R

V

V

D

N

L

L

G

G

I

I

N

K

N

V

P

P

V

I

E

E

N

E

Y

I

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L

E

K

A

A

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E

E

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A

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K

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P

D

H

I

A

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G

G

M

M

S
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S

A

G

L

L

L
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L

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x
V

T

K

T

S

M

T

P

L

Y

V

M

M

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K

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E

V

N

I

L

D

E

T

Y

M

M

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R

E

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K

R

G

G

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R

-

D

-

D

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Y

L

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P

V

V

L
x
I

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L

G
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G

A
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A

P

A

L

L

N

T

E

R

E

S

F

Y

binding cobalamin: H97 (= H114), G100 (= G117), V104 (= V121), S142 (= S159), L145 (= L162), V146 (≠ T163), I169 (≠ L188), G171 (= G190), G172 (= G191), A173 (= A192)

Sites not aligning to the query:

binding cobalamin: 405, 409, 451, 452, 453, 454, 463, 485, 488, 490, 492

8g3hA Structure of cobalamin-dependent methionine synthase (meth) in a resting state (see paper)
34% identity, 85% coverage: 1:198/232 of query aligns to 615:805/841 of 8g3hA

query
sites
8g3hA

M

L

A

A

D

E

D

D

E

K

I

E

I

A

L

F

E

Q

D

A

L

L

S

P

-

V

D

E

E

E

E

R

L

L

V

R

Q

R

M

V

H

L

D

E

D

G

L

K

Y

R

D

V

G

G

L

L

K

E

E

E

E

D

I

L

E

A

D

E

G

A

T

L

N

G

I

R

L

M

L

-

E

-

R

-

G

-

W

-

T

R

P

P

Y

L

D

E

I

I

L

I

T

N

Q

G

A

P

L

L

V

L

E

E

G

A

M

M

R

K

I

E

V

V

G

G

I

E

D

L

F
|
F

R

G

D

A

G

G

I

K

L

M

F

Q

V

L

P

P

E

F

V
|
V

L

L

L

Q

S

A

A

A

N

E

A

V

M

M

K
|
K

A

Q

G

A

M

V

T

A

I

Y

L

L

R

E

P

P

L

H

L

M

A

E

E

K

T

K

G

G

A

E

P

G

K

K

L

-

G

G

K

K

M

L

V

V

I

L

G

A

T

T

V

V

K

K

G
|
G

D

D

I
x
V

H
|
H

D
|
D

I
|
I

G
|
G

K

K

N

N

L

L

V
|
V

G

D

M

I

M

L

E

T

G

N

A

N

G

G

F

Y

D

T

V

V

V

Y

D

N

L

L

G

G

I

I

N

K

N

V

P

P

V

I

E

E

N

E

Y

M

L

L

E

K

A

A

I

V

E

D

R

E

E

V

Q

K

P

P

D

H

I

A

L

L

G

G

M
|
M

S
|
S

A

G

L
|
L

L

L

T
x
V

T

K

T

S

M

T

P

Q

Y

V

M

M

K

K

V

E

V

N

I

L

D

E

T

Y

M

M

K

R

E

A

K

R

G

G

L

Y

R

-

D

-

D

T

Y

L

V

P

V

V

L
x
I

V
x
L

G
|
G

A
|
A

P

A

L

L

N

T

E

R

E

A

F

Y

binding cobalamin: F675 (= F65), V685 (= V75), K693 (= K83), G720 (= G111), V722 (≠ I113), H723 (= H114), D724 (= D115), I725 (= I116), G726 (= G117), V730 (= V121), M767 (= M158), S768 (= S159), L770 (= L161), V772 (≠ T163), I795 (≠ L188), L796 (≠ V189), G797 (= G190), G798 (= G191), A799 (= A192)

Sites not aligning to the query:

binding cobalamin: 328, 330, 331, 818, 819, 820, 821

3ezxA Structure of methanosarcina barkeri monomethylamine corrinoid protein
35% identity, 80% coverage: 18:203/232 of query aligns to 3:193/212 of 3ezxA

query
sites
3ezxA

Q

Q

Q

E

M

I

H

F

D

D

D

K

L

L

Y

R

D

D

G

A

L

I

K

V

E

N

E

Q

I

N

E

V

D

A

G

G

T

T

N

P

I

E

L

L

-

C

-

K

-

E

-

A

L

L

E

A

R

A

G

G

W

V

T

P

P

A

Y

L

D

D

I

I

L

I

T

T

Q

K

A

G

L

L

V

S

E

V

G

G

M
|
M

R

K

I

I

V

V

G

G

I

D

D

K

F
|
F

R

E

D

A

G

A

I

E

L

I

F

F

V

L

P

P

E

Q

V

I

L

M

S

S

A

G

N

K

A

A

M

M

K

S

A

N

G

A

M

M

T

E

I

V

L

L

R

T

P

P

L

E

L

L

A

-

E

E

T

K

G

N

A

K

P

K

K

E

L

A

G

G

K

L

M

A

V

I

I

T

G

F

T

V

V

A

K

E

G

G

D
|
D

I
|
I

H
|
H

D
|
D

I
|
I

G

G

K

H

N

R

L

L

V
|
V

G

T

M

T

M

M

M

L

E

G

G

A

A

N

G

G

F

F

D

Q

V

I

V

V

D

D

L

L

G

G

I

V

N

D

N

V

P

L

V

N

E

E

N

N

Y

V

L

V

E

E

A

E

I

A

E

A

R

K

E

H

Q

K

P

G

D

E

-

K

-

V

I

L

L

L

G
x
V

M

G

S
|
S

A

A

L
|
L

L
x
M

T
|
T

T

T

T
x
S

M

M

P

L

Y

G

M

Q

K

K

V

D

V

L

I

M

D

D

T

R

M

L

K

N

E

E

K

E

G

K

L

L

R

R

D

D

D

S

Y

V

V

K

V

C

L
x
M

V

F

G
|
G

A

A

P

P

L

V

N

S

E

D

E

K

F

W

G

I

K

E

A

E

V

I

G

G

active site: D100 (= D112), H102 (= H114), S155 (≠ T165)
binding 5-hydroxybenzimidazolylcobamide: M47 (= M58), F54 (= F65), D100 (= D112), I101 (= I113), H102 (= H114), D103 (= D115), I104 (= I116), V109 (= V121), V147 (≠ G157), S149 (= S159), L151 (= L161), M152 (≠ L162), T153 (= T163), M178 (≠ L188), G180 (= G190), G181 (= G191)

Sites not aligning to the query:

binding 5-hydroxybenzimidazolylcobamide: 198, 200

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)
36% identity, 63% coverage: 46:192/232 of query aligns to 704:861/1265 of Q99707

query
sites
Q99707

P

P

Y

L

D

N

I

I

L

I

T

E

Q

G

A

P

L

L

V

M

E

N

G

G

M

M

R

K

I

I

V

V

G

G

I

D

D

L

F

F

R

G

D

A

G

G

I

K

L

M

F

F

V

L

P

P

E

Q

V

V

L

I

L

K

S

S

A

A

N

R

A

V

M

M

K

K

A

K

G

A

M

V

T

G

I

H

L

L

R

I

P

P

L

F

L

M

-

E

-

K

-

E

-

R

-

E

-

T

-

R

-

V

-

L

-

N

-

G

-

T

A

V

E

E

T

E

G

E

A

D

P

P

K

Y

L

Q

G

G

K

T

M

I

V

V

I

L

G

A

T

T

V

V

K

K

G

G

D

D

I

V

H

H

D

D

I

I

G

G

K

K

N

N

L

I

V

V

G

G

M

V

M

L

E

G

G

C

A

N

G

N

F

F

D

R

V

V

V

I

D

D

L

L

G

G

I

V

N

M

N

T

P

P

V

C

E

D

N

K

Y

I

L

L

E

K

A

A

I

A

E

L

R

D

E

H

Q

K

P

A

D

D

I

I

L

I

G

G

M

L

S

S

A

G

L

L

L

I

T

T

T

P

T

S

M

L

P

D

Y

E

M

M

K

I

V

F

V

V

I

A

D

K

T

E

M

M

K

E

E

R

K

L

G

A

L

I

R

R

D

-

Y

I

V

P

V

L

L

L

V

I

G

G

A

A

Sites not aligning to the query:

61 natural variant: R -> K
255 C → Y: in dbSNP:rs1140598
382:384 binding (6S)-5,6,7,8-tetrahydrofolate
449 binding (6S)-5,6,7,8-tetrahydrofolate
470 binding (6S)-5,6,7,8-tetrahydrofolate
537 binding (6S)-5,6,7,8-tetrahydrofolate
579 binding (6S)-5,6,7,8-tetrahydrofolate
585 binding (6S)-5,6,7,8-tetrahydrofolate
591 binding (6S)-5,6,7,8-tetrahydrofolate
919 D → G: in dbSNP:rs1805087
963 D→E: Decreases binding to MTRR; when associated with N-1071.
1071 K→N: Decreases binding to MTRR; when associated with E-963.

8j2xA Saccharothrix syringae photocobilins protein, light state (see paper)
24% identity, 51% coverage: 99:216/232 of query aligns to 88:203/337 of 8j2xA

query
sites
8j2xA

P

P

K

T

L

R

G

G

K

H

M

V

V

V

I

V

G

A

T

C

V

L

K

D

G

G

D

E

I
x
W

H
|
H

D
x
A

I
x
L

G
x
P

K

A

N

R

L

I

V
|
V

G

A

M

E

M

V

M

L

E

R

G

G

A

R

G

G

F

W

D

R

V

V

V

T

D

F

L

L

G

G

I

A

N

S

N

V

P

P

V

A

E

A

N

H

Y

L

L

V

E

P

A

Y

I

L

E

E

R

E

E

H

Q

G

P

P

D

D

I

A

L

V

G
x
A

M
x
L

S
|
S

A

C

L

T

L
|
L

T

P

T

R

T

G

M

L

P

P

Y

R

M

A

K

D

V

Q

V

V

I

V

D

A

T

A

M

C

K

R

E

A

K

T

G

G

L

-

R

-

D

-

Y

T

V

P

V

V

L
|
L

V
|
V

G
|
G

A

L

P

G

L

F

N

G

E

P

E

D

-

G

-

R

F

W

G

A

K

R

A

V

V

L

G

G

A

A

D

G

A

T

Y

W

C
x
A

R
x
P

D
x
T

A
|
A

A

R

V

A

A

A

V

A

E

D

binding cobalamin: W102 (≠ I113), H103 (= H114), A104 (≠ D115), L105 (≠ I116), P106 (≠ G117), V110 (= V121), A146 (≠ G157), L147 (≠ M158), S148 (= S159), L151 (= L162), L173 (= L188), V174 (= V189), G175 (= G190), G176 (= G191), A195 (≠ C208), P196 (≠ R209), T197 (≠ D210), A198 (= A211)

Sites not aligning to the query:

binding cobalamin: 46, 49, 53, 56, 57, 287
binding biliverdine ix alpha: 56, 250, 253, 254, 257, 258, 261, 264, 287, 292, 295, 297, 301

Q59268 2-methyleneglutarate mutase; Alpha-methyleneglutarate mutase; EC 5.4.99.4 from Eubacterium barkeri (Clostridium barkeri) (see paper)
39% identity, 38% coverage: 103:191/232 of query aligns to 474:562/614 of Q59268

query
sites
Q59268

K

K

M

I

V

V

I

L

G

A

T

T

V

V

K

G

G

A

D
|
D

I

A

H
|
H

D

V

I

N

G

G

K

I

N

N

L

V

V

I

G

R

M

E

M

A

M

F

E

Q

G

D

A

A

G

G

F

Y

D

D

V

V

D

Y

L

L

-

R

G

G

I

M

N

N

N

L

P

P

V

-

E

E

N

S

Y

V

L

A

E

E

A

V

I

A

E

A

R

E

E

V

Q

G

P

A

D

D

I

A

L

V

G

G

M

V

S

S

A

N

L

L

T

G

T

L

T

G

M

M

P

E

Y

L

M

F

K

P

V

R

V

V

I

S

D

K

T

R

M

L

K

E

E

E

K

L

G

G

L

L

R

R

D

D

D

K

Y

M

V

V

L

C

V

A

G

G

D483 (= D112) mutation to N: Activity reduced 2000-fold.
H485 (= H114) mutation to Q: Loss of activity.

Sites not aligning to the query:

464 H→Q: No effect on activity.

8j2yA Acidimicrobiaceae bacterium photocobilins protein, dark state (see paper)
27% identity, 45% coverage: 102:205/232 of query aligns to 90:191/327 of 8j2yA

query
sites
8j2yA

G

G

K

L

M

V

V

V

I

V

G

A

T

C

V

A

K

E

G

G

D
|
D

I
x
W

H
|
H

D

S

I
x
L

G
x
S

K

A

N

Q

L
x
M

V
x
F

G

G

M

E

M

T

M

L

E

R

G

A

A

S

G

G

F

F

D

D

V

V

V

S

D

V

L

L

G

G

I

A

N

S

N

T

P

P

V

R

E

T

N

A

Y

V

L

V

E

D

A

F

I

L

E

T

R

R

E

A

Q

G

P

G

D

D

I

S

L

L

G

A

M

V

S
|
S

A

C

L

N

L

M

T

P

T

I

T
x
F

M

F

P

P

Y

G

M

V

K

A

V

Q

V

L

I

I

D

N

T

A

M

A

K

H

E

E

K

I

G

G

L

V

R

-

D

-

Y

-

V

P

V

V

L

I

V
|
V

G
|
G

A
x
R

P

A

L

F

N

G

E

D

F

D

G

R

K

R

A

A

-

A

-

R

V

L

G

G

A

A

D

D

binding cobalamin: D100 (= D112), W101 (≠ I113), H102 (= H114), L104 (≠ I116), S105 (≠ G117), M108 (≠ L120), F109 (≠ V121), S147 (= S159), F153 (≠ T165), V173 (= V189), G174 (= G190), G175 (= G191), R176 (≠ A192)

Sites not aligning to the query:

binding cobalamin: 45, 48, 49, 65, 286

1xrsB Crystal structure of lysine 5,6-aminomutase in complex with plp, cobalamin, and 5'-deoxyadenosine (see paper)
29% identity, 51% coverage: 104:222/232 of query aligns to 73:211/212 of 1xrsB

query
sites
1xrsB

M

V

V

V

I

V

G

G

T

A

V

S

K

T

G

G

-

T

D
|
D

I
x
A

H
|
H

D
x
T

I
x
V

G

G

K

I

N

D

L

A

V
x
I

G

M

M

N

M

M

M
x
K

E

G

G
x
Y

A

A

G

G

-

H

-

Y

-

G

-

L

-

E

-

R

-

Y

-

E

-

M

F

I

D

D

V

A

V

Y

D

N

L

L

G

G

I

S

N

Q

N

V

P

A

V

N

E

E

N

D

Y

F

L

I

E

K

A

K

I

A

E

V

R

E

E

L

Q

E

P

A

D

D

I

V

L

L

G
x
L

M
x
V

S
|
S

A

Q

L

T

L

V

T
|
T

T

Q

T

K

-

N

-

V

-

H

M

I

P

Q

Y

N

M

M

K

T

V

H

V

L

I

I

D

E

T

L

M

L

K

E

E

A

K

E

G

G

L

L

R

R

D

D

D

R

Y

F

V

V

V

L

L
|
L

V
x
C

G
|
G

A
x
P

P

R

L

I

N

N

E

N

E

E

F

I

G

A

K

K

A

E

V

L

G

G

A

Y

D

D

A

A

-

G

-
x
F

-
x
G

-
x
P

-

G

-
x
R

Y

F

C

A

R

D

D

D

-

V

A

A

A

T

V

F

A

A

V

V

E

K

T

T

A

L

K

N

D

D

Y

R

M

M

active site: K95 (≠ M125)
binding cobalamin: D82 (= D112), A83 (≠ I113), H84 (= H114), T85 (≠ D115), V86 (≠ I116), I91 (≠ V121), Y97 (≠ G127), L136 (≠ G157), V137 (≠ M158), S138 (= S159), T142 (= T163), L170 (= L188), C171 (≠ V189), G172 (= G190), G173 (= G191), P174 (≠ A192), F190 (vs. gap), G191 (vs. gap), P192 (vs. gap), R194 (vs. gap)

E3PRJ4 Lysine 5,6-aminomutase beta subunit; 5,6-LAM; D-lysine 5,6-aminomutase beta subunit; L-beta-lysine 5,6-aminomutase beta subunit; EC 5.4.3.3 from Acetoanaerobium sticklandii (strain ATCC 12662 / DSM 519 / JCM 1433 / CCUG 9281 / NCIMB 10654 / HF) (Clostridium sticklandii) (see paper)
29% identity, 51% coverage: 104:222/232 of query aligns to 122:260/262 of E3PRJ4

query
sites
E3PRJ4

M

V

V

V

I

V

G

G

T

A

V

S

K

T

G

G

-
x
T

D
|
D

I
x
A

H
|
H

D
x
T

I
x
V

G
|
G

K

I

N

D

L

A

V

I

G

M

M

N

M

M

M
x
K

E

G

G

Y

A

A

G

G

-

H

-

Y

-

G

-

L

-

E

-

R

-

Y

-

E

-

M

F

I

D

D

V

A

V

Y

D

N

L

L

G

G

I

S

N

Q

N

V

P

A

V

N

E

E

N

D

Y

F

L

I

E

K

A

K

I

A

E

V

R

E

E

L

Q

E

P

A

D

D

I

V

L

L

G
x
L

M
x
V

S
|
S

A
x
Q

L
x
T

L
x
V

T
|
T

T
x
Q

T

K

-

N

-

V

-

H

M

I

P

Q

Y

N

M

M

K

T

V

H

V

L

I

I

D

E

T

L

M

L

K

E

E

A

K

E

G

G

L

L

R

R

D

D

D

R

Y

F

V

V

V

L

L
|
L

V
x
C

G
|
G

A
x
P

P

R

L

I

N

N

E

N

E

E

F

I

G

A

K

K

A

E

V

L

G

G

A

Y

D

D

A

A

-

G

-
x
F

-
x
G

-
x
P

-
x
G

-
x
R

Y
x
F

C

A

R

D

D

D

-

V

A

A

A

T

V

F

A

A

V

V

E

K

T

T

A

L

K

N

D

D

Y

R

M

M

130:136 (vs. 112:117, 43% identical) binding adenosylcob(III)alamin
K144 (≠ M125) modified: N6-(pyridoxal phosphate)lysine
185:192 (vs. 157:164, 25% identical) binding adenosylcob(III)alamin
LCGGP 219:223 (≠ LVGGA 188:192) binding adenosylcob(III)alamin
FGPGRF 239:244 (≠ -----Y 207) binding adenosylcob(III)alamin

5c8eA Crystal structure of thermus thermophilus carh bound to adenosylcobalamin and a 26-bp DNA segment (see paper)
26% identity, 82% coverage: 16:205/232 of query aligns to 70:258/273 of 5c8eA

query
sites
5c8eA

L

L

V

A

Q

Q

Q

E

M

V

H

R

-

P

D

E

D

D

L

L

Y

G

D

T

G

G

L

L

K

L

E

E

E

A

I

L

E

L

D

R

G

G

-

D

-

L

-

A

-

G

T

A

N

E

I

A

L

L

L

F

E

R

R

R

G

G

-

L

-

R

-

F

W

W

T

G

P

P

Y

E

D

G

I

V

L

L

T

E

Q

H

A

L

L

L

V
x
L

E

P

G

V

M
x
L

R

R

I

E

V

V

G
|
G

I

E

D

A

F

W

R

H

D

R

G

G

I

E

L

I

F

G

V

V

P

A

E

E

V
x
E

L

H

L

L

S

A

A

S

N

T

A

F

M

L

K

R

A

A

G

-

M

-

T

-

I

R

L

L

R

Q

P

E

L

L

A

D

E

L

T

A

G

G

A

F

P

P

K

P

L

G

G

P

K

P

M

V

V

L

I

V

G

T

T

T

V

P

K

P

G
|
G

D

E

I
x
R

H
|
H

D
x
E

I

I

G
|
G

K

A

N

M

L

L

V

A

G

A

M

Y

M

H

M

L

E

R

G

R

A

K

G

G

F

V

D

P

V

A

V

L

D

Y

L

L

G

G

I

P

N

D

N

T

P

P

V

L

E

P

N

D

Y

-

L

L

E

R

A

A

I

L

E

A

R

R

E

R

Q

-

P

-

D

-

I

-

L

L

G

G

M

A

S

G

A

A

L

V

T

L

T
x
S

T

A

M

V

P

-

Y

-

M
x
L

K

S

V

E

V

P

I

L

D

R

T

A

M

L

K

P

E

D

K

G

G

A

L

L

R

K

D

D

-

L

D

A

Y

P

V

R

V

V

L

F

V

L

G
|
G

A

Q

P

G

L

A

N

G

E

P

E

E

F

E

G

A

K

R

A

R

V

L

G

G

A

A

D

E

binding cobalamin: L117 (≠ V55), L120 (≠ M58), G124 (= G62), E137 (≠ V75), G170 (= G111), R172 (≠ I113), H173 (= H114), E174 (≠ D115), G176 (= G117), S218 (≠ T164), L221 (≠ M169), G243 (= G190), G244 (= G191)

Sites not aligning to the query:

binding cobalamin: 260, 263
binding : 20, 25, 26, 33, 36, 37, 38, 38, 39, 62

5c8dE Crystal structure of full-length thermus thermophilus carh bound to adenosylcobalamin (dark state) (see paper)
26% identity, 82% coverage: 16:205/232 of query aligns to 71:259/280 of 5c8dE

query
sites
5c8dE

L

L

V

A

Q

Q

Q

E

M

V

H

R

-

P

D

E

D

D

L

L

Y

G

D

T

G

G

L

L

K

L

E

E

E

A

I

L

E

L

D

R

G

G

-

D

-

L

-

A

-

G

T

A

N

E

I

A

L

L

L

F

E

R

R

R

G

G

-

L

-

R

-

F

W

W

T

G

P

P

Y

E

D

G

I

V

L

L

T

E

Q

H

A

L

L

L

V
x
L

E

P

G

V

M

L

R
|
R

I

E

V

V

G
|
G

I

E

D

A

F

W

R

H

D

R

G

G

I

E

L

I

F

G

V

V

P

A

E

E

V
x
E

L

H

L

L

S

A

A
x
S

N

T

A

F

M

L

K

R

A

A

G

-

M

-

T

-

I

R

L

L

R

Q

P

E

L

L

A

D

E

L

T

A

G

G

A

F

P

P

K

P

L

G

G

P

K

P

M

V

V

L

I

V

G

T

T

T

V

P

K

P

G
|
G

D

E

I
x
R

H
|
H

D
x
E

I

I

G
|
G

K

A

N

M

L

L

V

A

G

A

M

Y

M

H

M

L

E

R

G

R

A

K

G

G

F

V

D

P

V

A

V

L

D

Y

L

L

G

G

I

P

N

D

N

T

P

P

V

L

E

P

N

D

Y

-

L

L

E

R

A

A

I

L

E

A

R

R

E

R

Q

-

P

-

D

-

I

-

L

L

G

G

M

A

S

G

A

A

L

V

T

L

T
x
S

T

A

M

V

P

-

Y

-

M
x
L

K

S

V

E

V

P

I

L

D

R

T

A

M

L

K

P

E

D

K

G

G

A

L

L

R

K

D

D

-

L

D

A

Y

P

V

R

V

V

L

F

V

L

G
|
G

A

Q

P

G

L

A

N

G

E

P

E

E

F

E

G

A

K

R

A

R

V

L

G

G

A

A

D

E

binding cobalamin: L118 (≠ V55), R122 (= R59), G125 (= G62), E138 (≠ V75), S142 (≠ A79), G171 (= G111), R173 (≠ I113), H174 (= H114), E175 (≠ D115), G177 (= G117), S219 (≠ T164), L222 (≠ M169), G244 (= G190), G245 (= G191)

Sites not aligning to the query:

binding cobalamin: 261, 263, 264

Query Sequence

>WP_012708366.1 NCBI__GCF_000018545.1:WP_012708366.1
MADDEIILEDLSDEELVQQMHDDLYDGLKEEIEDGTNILLERGWTPYDILTQALVEGMRI
VGIDFRDGILFVPEVLLSANAMKAGMTILRPLLAETGAPKLGKMVIGTVKGDIHDIGKNL
VGMMMEGAGFDVVDLGINNPVENYLEAIEREQPDILGMSALLTTTMPYMKVVIDTMKEKG
LRDDYVVLVGGAPLNEEFGKAVGADAYCRDAAVAVETAKDYMRRKHNQLAAG

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