SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_028487951.1 NCBI__GCF_000621325.1:WP_028487951.1 to proteins with known functional sites using BLASTp with E ≤ 0.001.

Or try Sites on a Tree, PaperBLAST, Conserved Domains, or compare to all protein structures

Found 20 (the maximum) hits to proteins with known functional sites (download)

P14218 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of 2-oxoglutarate dehydrogenase complex; EC 1.8.1.4 from Pseudomonas fluorescens (see 2 papers)
62% identity, 100% coverage: 1:478/478 of query aligns to 1:478/478 of P14218

query
sites
P14218

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M1 (= M1) modified: Initiator methionine, Removed
34:49 (vs. 34:49, 63% identical) binding FAD
C49 (= C49) modified: Disulfide link with 54, Redox-active
C54 (= C54) modified: Disulfide link with 49, Redox-active
K58 (= K58) binding FAD
G122 (= G122) binding FAD
D319 (= D319) binding FAD
A327 (= A327) binding FAD

5u8uD Dihydrolipoamide dehydrogenase (lpdg) from pseudomonas aeruginosa (see paper)
63% identity, 99% coverage: 1:471/478 of query aligns to 3:473/477 of 5u8uD

query
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5u8uD

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active site: P16 (= P14), L47 (= L45), C51 (= C49), C56 (= C54), S59 (= S57), G85 (= G83), V86 (≠ L84), V193 (= V191), E197 (= E195), S333 (= S331), F451 (= F449), H453 (= H451), E458 (= E456)
binding flavin-adenine dinucleotide: I12 (= I10), G15 (= G13), P16 (= P14), G17 (= G15), E36 (= E34), K37 (≠ E35), G49 (= G47), T50 (= T48), C51 (= C49), G55 (= G53), C56 (= C54), K60 (= K58), H123 (≠ R121), G124 (= G122), A152 (= A150), S153 (≠ V151), G154 (= G152), I194 (= I192), R281 (= R279), G320 (= G318), D321 (= D319), M327 (= M325), L328 (= L326), A329 (= A327), H330 (= H328), H453 (= H451), P454 (= P452)

Sites not aligning to the query:

active site: 476, 477

5u8wA Dihydrolipoamide dehydrogenase (lpdg) from pseudomonas aeruginosa bound to nadh (see paper)
63% identity, 98% coverage: 2:471/478 of query aligns to 1:470/473 of 5u8wA

query
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5u8wA

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V

A
|
A

V
|
V

G
|
G

R
|
R

K

R

S

P

N

V

T

T

A

T

G

D

V

L

L

L

A

A

D

A

D

D

C

S

G

G

V

V

Q

T

L

L

D

D

E

E

R

R

G

G

R

F

V

I

V

Y

I

V

D

D

G

D

H

H

L

C

Q

K

T

T

A

S

V

V

P

P

G

G

V

V

Y

F

A

A

I

I

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

A

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S
|
S

E

E

G

G

V

V

L

M

V

V

A

A

E

E

Q

R

I

I

V

A

G

G

Q

H

K

K

P

A

H

Q

I

M

N

N

Y

Y

D

D

A

L

I

I

P

P

W

S

V
|
V

I

I

Y
|
Y

T

T

H

H

P

P

E

E

I

I

A

A

W

W

V

V

G

G

K

K

T

T

E

E

A

Q

E

T

L

L

K

K

A

A

A

E

G

G

V

V

E

E

Y

V

N

N

V

V

G

G

S

T

F

F

P

P

F

F

A

A

N

S

G

G

R

R

A

A

K

M

A

A

M

A

D

N

Q

D

A

T

D

T

G

G

L

L

V

V

K

K

V

V

L

I

A

A

D

D

A

A

N

K

T

T

D

D

R

R

I

V

L

L

G

G

V

V

H

H

F

V

V

I

G

G

P

P

L

S

A

A

S

A

E

E

L

L

V

V

G

Q

Q

Q

A

G

V

A

I

I

A

G

I

M

E

E

T

F

E

G

C

T

S

S

A

A

E

E

D

D

L

L

A

G

R

M

M

M

T

V

F
|
F

A

S

H
|
H

P
|
P

T

T

V

L

S

S

E
|
E

A

A

I

L

H

H

E

E

A

A

M

A

L

L

A

A

V

V

D

N

G

G

R

H

A

A

L

I

H

H

active site: P13 (= P14), L44 (= L45), C48 (= C49), C53 (= C54), S56 (= S57), G82 (= G83), V83 (≠ L84), V190 (= V191), E194 (= E195), S330 (= S331), F448 (= F449), H450 (= H451), E455 (= E456)
binding flavin-adenine dinucleotide: I9 (= I10), G12 (= G13), P13 (= P14), G14 (= G15), E33 (= E34), K34 (≠ E35), G46 (= G47), T47 (= T48), C48 (= C49), G52 (= G53), C53 (= C54), K57 (= K58), H120 (≠ R121), G121 (= G122), A149 (= A150), S150 (≠ V151), G151 (= G152), S170 (= S171), G317 (= G318), D318 (= D319), M324 (= M325), L325 (= L326), A326 (= A327), H327 (= H328), Y357 (= Y358), H450 (= H451), P451 (= P452)
binding 1,4-dihydronicotinamide adenine dinucleotide: I186 (= I187), G189 (= G190), V190 (= V191), I191 (= I192), E194 (= E195), E210 (= E211), A211 (= A212), L212 (≠ M213), A275 (= A276), V276 (= V277), G277 (= G278), R278 (= R279), M324 (= M325), L325 (= L326), V355 (= V356), Y357 (= Y358)

Sites not aligning to the query:

active site: 473

5u8vA Dihydrolipoamide dehydrogenase (lpdg) from pseudomonas aeruginosa bound to NAD+ (see paper)
63% identity, 98% coverage: 4:471/478 of query aligns to 2:469/472 of 5u8vA

query
sites
5u8vA

K

K

Y

F

D

D

V

V

I

V

V

V

I
|
I

G

G

A

A

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

R

C

A

A

A

Q

Q

L

L

G

G

L

L

K

K

T

T

A

A

C

C

V

I

E
|
E

E

K

W

Y

I

I

N

G

K

K

Q

E

Q

G

K

K

P

V

A

A

L
|
L

G

G

G
|
G

T
|
T

C
|
C

L

L

N

N

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

D

S

S

E

Y

R

K

F

Y

E

H

E

E

I

A

A

K

K

E

H

A

N

F

A

K

D

V

H

H

G

G

I

I

T

E

V

A

D

K

G
|
G

L
x
V

Q

T

I

I

D

D

V

V

A

P

K

A

M

M

V

V

A

A

R

R

K

K

D

A

K

N

I

I

V

V

N

K

Q

N

L

L

T

T

G

G

I

I

E

A

Q

T

L

L

F

F

K

K

A

A

N

N

G

G

I

V

T

T

W

S

L

F

Q

E

G

G

R
x
H

G
|
G

K

K

L

L

A

A

G

N

K

K

Q

Q

V

V

E

E

V

V

T

T

A

G

H

L

D

D

G

G

T

K

V

T

A

Q

T

V

H

L

A

E

A

A

D

E

N

N

V

V

I

I

A
|
A

V
x
S

G
|
G

S

S

T

R

P

P

I

V

E

E

L

I

P

P

I

P

A

A

K

P

W

L

L

T

D

D

T

D

R

I

I

I

V

V

D

D

S
|
S

A

T

G

G

A

A

L

L

D

E

W

F

E

Q

T

A

V

V

P

P

E

K

K

K

L

L

G

G

V

V

I
|
I

G
|
G

A

A

G
|
G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

L

G

G

S

S

V

V

W

W

R

A

R

R

L

L

G

G

S

A

E

E

V

V

V

T

V

V

I
x
L

E
|
E

A
|
A

M

L

D

D

D

K

F

F

L

L

G

P

A

A

D

D

R

E

D

Q

V

I

A

A

K

K

S

E

A

A

Q

L

M

K

Q

V

F

L

K

T

K

K

Q

Q

G

G

L

L

D

N

I

I

R

R

L

L

S

G

S

A

K

R

V
|
V

A

T

K

A

V

S

E

E

A

V

G

K

D

K

N

K

G

Q

I

V

T

T

V

V

T

T

Y

F

N

T

D

D

P

A

K

N

G

G

E

E

Q

Q

T

K

L

E

L

T

V

F

D

D

R

K

L

L

I

I

V

V

A

A

V
|
V

G
|
G

R
|
R

K

R

S

P

N

V

T

T

A

T

G

D

V

L

L

L

A

A

D

A

D

D

C

S

G

G

V

V

Q

T

L

L

D

D

E

E

R

R

G

G

R

F

V

I

V

Y

I

V

D

D

G

D

H

H

L

C

Q

K

T

T

A

S

V

V

P

P

G

G

V

V

Y

F

A

A

I

I

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

A

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S
|
S

E

E

G

G

V

V

L

M

V

V

A

A

E

E

Q

R

I

I

V

A

G

G

Q

H

K

K

P

A

H

Q

I

M

N

N

Y

Y

D

D

A

L

I

I

P

P

W

S

V

V

I

I

Y

Y

T

T

H

H

P

P

E

E

I

I

A

A

W

W

V

V

G

G

K

K

T

T

E

E

A

Q

E

T

L

L

K

K

A

A

A

E

G

G

V

V

E

E

Y

V

N

N

V

V

G

G

S

T

F

F

P

P

F

F

A

A

N

S

G

G

R

R

A

A

K

M

A

A

M

A

D

N

Q

D

A

T

D

T

G

G

L

L

V

V

K

K

V

V

L

I

A

A

D

D

A

A

N

K

T

T

D

D

R

R

I

V

L

L

G

G

V

V

H

H

F

V

V

I

G

G

P

P

L

S

A

A

S

A

E

E

L

L

V

V

G

Q

Q

Q

A

G

V

A

I

I

A

G

I

M

E

E

T

F

E

G

C

T

S

S

A

A

E

E

D

D

L

L

A

G

R

M

M

M

T

V

F
|
F

A

S

H
|
H

P
|
P

T

T

V

L

S

S

E
|
E

A

A

I

L

H

H

E

E

A

A

M

A

L

L

A

A

V

V

D

N

G

G

R

H

A

A

L

I

H

H

active site: P12 (= P14), L43 (= L45), C47 (= C49), C52 (= C54), S55 (= S57), G81 (= G83), V82 (≠ L84), V189 (= V191), E193 (= E195), S329 (= S331), F447 (= F449), H449 (= H451), E454 (= E456)
binding flavin-adenine dinucleotide: I8 (= I10), G11 (= G13), P12 (= P14), G13 (= G15), E32 (= E34), G45 (= G47), T46 (= T48), C47 (= C49), G51 (= G53), C52 (= C54), K56 (= K58), H119 (≠ R121), G120 (= G122), A148 (= A150), S149 (≠ V151), G150 (= G152), S169 (= S171), I190 (= I192), R277 (= R279), G316 (= G318), D317 (= D319), M323 (= M325), L324 (= L326), A325 (= A327), H326 (= H328), H449 (= H451), P450 (= P452)
binding nicotinamide-adenine-dinucleotide: I185 (= I187), G186 (= G188), G188 (= G190), V189 (= V191), I190 (= I192), L208 (≠ I210), E209 (= E211), A210 (= A212), V243 (= V245), V275 (= V277), G276 (= G278)

Sites not aligning to the query:

active site: 472

6awaA 1.83 angstrom resolution crystal structure of dihydrolipoyl dehydrogenase from pseudomonas putida in complex with fad and adenosine-5'-monophosphate.
61% identity, 99% coverage: 1:471/478 of query aligns to 1:471/475 of 6awaA

query
sites
6awaA

M

M

T

T

D

Q

K

K

Y

F

D

D

V

V

I

V

V

V

I
|
I

G

G

A

A

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

K

C

A

A

A

Q

Q

L

L

G

G

L

L

K

K

T

T

A

A

C

C

V

I

E
|
E

E
x
K

W

Y

I

T

N

D

K

A

Q

E

Q

G

K

K

P

L

A

A

L
|
L

G

G

T
|
T

C
|
C

L

L

N

N

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

D

S

S

E

W

R

K

F

Y

E

K

E

E

I

A

A

K

K

E

H

S

N

F

A

N

D

V

H

H

G

G

I

I

T

S

V

T

D

G

G

E

L

V

Q

K

I

M

D

D

V

V

A

A

K

A

M

M

V

V

A

G

R

R

K

K

D

A

K

G

I

I

V

V

N

K

Q

N

L

L

T

T

G

G

I

V

E

A

Q

T

L

L

F

F

K

K

A

A

N

N

G

G

I

V

T

T

W

S

L

I

Q

Q

G

G

R
x
H

G
|
G

K

K

L

L

A

A

G

G

K

K

Q

K

V

V

E

E

V

V

T

T

A

K

H

A

D

D

G

G

T

T

V

T

A

E

T

V

H

I

A

E

A

A

D

E

N

N

V

V

I

I

I

L

A

A

V
x
S

G
|
G

S

S

T

R

P

P

I

I

E

D

L

I

P

P

I

P

A

A

K

P

W

V

L

D

D

Q

T

N

R

V

I

I

V

V

D

D

S

S

A

T

G

G

A

A

L

L

D

E

W

F

E

Q

T

A

V

V

P

P

E

K

K

R

L

L

G

G

V

V

I
|
I

G

G

A

A

G

G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

L

G

G

S

S

V

V

W

W

R

A

R

R

L

L

G

G

S

A

E

E

V

V

V

T

V

V

I

L

E
|
E

A
|
A

M
x
L

D

D

D

T

F

F

L

L

G

M

A

A

D

D

R

T

D

A

V

V

A

S

K

K

S

E

A

A

Q

Q

M

K

Q

T

F

L

K

T

K

K

Q

Q

G

G

L

L

D

D

I

I

R

K

L

L

S

G

S

A

K

R

V
|
V

A

T

K

G

V

S

E

K

A

V

G

N

D

G

N

N

G

E

I

V

T

E

V

V

T

T

Y

Y

N

T

D

N

P

A

K

E

G

G

E

E

Q

Q

T

K

L

I

L

T

V

F

D

D

R

K

L

L

I

I

V

V

A

A

V
|
V

G

G

R
|
R

K

R

S

P

N

V

T

T

A

T

G

D

V

L

L

L

A

A

D

S

D

D

C

S

G

G

V

V

Q

T

L

I

D

D

E

E

R

R

G

G

R

Y

V

I

V

F

I

V

D

D

G

D

H

Y

L

C

Q

A

T

T

A

S

V

V

P

P

G

G

V

V

Y

Y

A

A

I

I

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

M

M
|
M

L
|
L

A
|
A

H

H

K

K

A

A

S

S

E

E

G

G

V

I

L

M

V

V

A

V

E

E

Q

R

I

I

V

K

G

G

Q

H

K

K

P

A

H

Q

I

M

N

N

Y

Y

D

D

A

L

I

I

P

P

W

S

V

V

I

I

Y
|
Y

T

T

H

H

P

P

E

E

I

I

A

A

W

W

V

V

G

G

K

K

T

T

E

E

A

Q

E

A

L

L

K

K

A

A

A

E

G

G

V

V

E

E

Y

V

N

N

V

V

G

G

S

T

F

F

P

P

F

F

A

A

N

S

G

G

R

R

A

A

K

M

A

A

M

A

D

N

Q

D

A

T

D

G

G

G

L

F

V

V

K

K

V

V

L

I

A

A

D

D

A

A

N

K

T

T

D

D

R

R

I

V

L

L

G

G

V

V

H

H

F

V

V

I

G

G

P

P

L

S

A

A

S

A

E

E

L

L

V

V

G

Q

Q

Q

A

G

V

A

I

I

A

A

I

M

E

E

T

F

E

G

C

T

S

S

A

A

E

E

D

D

L

L

A

G

R

M

M

M

T

V

F
|
F

A

S

H
|
H

P

P

T

T

V

L

S

S

E
|
E

A

A

I

L

H

H

E

E

A

A

M

A

L

L

A

A

V

V

D

N

G

G

R

G

A

A

L

I

H

H

active site: L45 (= L45), C49 (= C49), C54 (= C54), S57 (= S57), V191 (= V191), E195 (= E195), F449 (= F449), H451 (= H451), E456 (= E456)
binding adenosine monophosphate: I187 (= I187), E211 (= E211), A212 (= A212), L213 (≠ M213), V245 (= V245), V277 (= V277)
binding flavin-adenine dinucleotide: I10 (= I10), G13 (= G13), P14 (= P14), G15 (= G15), E34 (= E34), K35 (≠ E35), T48 (= T48), C49 (= C49), G53 (= G53), C54 (= C54), K58 (= K58), H121 (≠ R121), G122 (= G122), S151 (≠ V151), G152 (= G152), I192 (= I192), R279 (= R279), G318 (= G318), D319 (= D319), M325 (= M325), L326 (= L326), A327 (= A327), Y358 (= Y358)

Sites not aligning to the query:

active site: 474, 475

P18925 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of pyruvate complex; EC 1.8.1.4 from Azotobacter vinelandii (see 2 papers)
61% identity, 100% coverage: 1:477/478 of query aligns to 1:477/477 of P18925

query
sites
P18925

M

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Y

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I

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x
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K

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34:49 (vs. 34:49, 56% identical) binding FAD
C49 (= C49) modified: Disulfide link with 54, Redox-active
C54 (= C54) modified: Disulfide link with 49, Redox-active
K58 (= K58) binding FAD
D319 (= D319) binding FAD
A327 (= A327) binding FAD

3ladA Refined crystal structure of lipoamide dehydrogenase from azotobacter vinelandii at 2.2 angstroms resolution. A comparison with the structure of glutathione reductase (see paper)
61% identity, 98% coverage: 2:471/478 of query aligns to 1:470/472 of 3ladA

query
sites
3ladA

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H

active site: L44 (= L45), C48 (= C49), C53 (= C54), S56 (= S57), V190 (= V191), E194 (= E195), F448 (= F449), H450 (= H451), E455 (= E456)
binding flavin-adenine dinucleotide: I9 (= I10), G10 (= G11), G12 (= G13), P13 (= P14), E33 (= E34), K34 (≠ E35), G46 (= G47), T47 (= T48), C48 (= C49), G52 (= G53), C53 (= C54), H120 (≠ R121), G121 (= G122), A149 (= A150), S150 (≠ V151), G151 (= G152), I191 (= I192), R278 (= R279), D318 (= D319), L325 (= L326), A326 (= A327)

6bz0A 1.83 angstrom resolution crystal structure of dihydrolipoyl dehydrogenase from acinetobacter baumannii in complex with fad.
57% identity, 98% coverage: 4:473/478 of query aligns to 1:469/469 of 6bz0A

query
sites
6bz0A

K

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I

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G
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G

G

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Y

Y

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A

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I

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A

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A

A

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E

E
x
K

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I

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H

K

-

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K

P

P

A

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T
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C

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K

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A

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x
T

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A

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G

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K

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K

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E

G

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A

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x
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I

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E

M

L

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M

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F

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D

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C

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A

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I

I

G

G

D
|
D

C

L

V

V

V

R

G

G

P

P

M
|
M

L
|
L

A
|
A

H

H

K

K

A
|
A

S

M

E

E

G

G

V

V

L

M

V

A

A

V

E

E

Q

R

I

I

V

H

G

G

Q

H

K

A

P

A

H

Q

I

V

N

N

Y

Y

D

D

A

T

I

I

P

I

W

S

V

I

I

I

Y
|
Y

T

T

H

H

P

P

E

E

I

A

A

A

W

W

V

V

G

G

K

L

T

T

E

E

A

E

E

Q

L

A

K

K

A

E

A

K

G

G

V

H

E

E

Y

V

N

K

V

T

G

G

S

Q

F

F

P

G

F

F

A

A

A

V

N

N

G

G

R

R

A

A

K

L

A

A

M

A

D

G

Q

E

A

G

D

A

G

G

L

F

V

V

K

K

V

F

L

V

A

A

D

D

A

A

N

K

T

T

D

D

R

R

I

L

L

L

G

G

V

M

H

H

F

V

V

I

G

G

P

P

L

A

A

A

S

S

E

D

L

I

V

V

G

H

Q

Q

A

G

V

M

I

I

A

A

I

L

E

E

T

F

E

V

C

S

S

S

A

V

E

E

D

D

L

L

A

Q

R

L

M

M

T

T

F

F

A

G

H
|
H

P

P

T

T

V

F

S

S

E
|
E

A

V

I

V

H

H

E

E

A

A

M

A

L

L

A

A

V

V

D

D

G

G

R

R

A

A

L

I

H

H

A

A

V

I

active site: C45 (= C49), C50 (= C54), S53 (= S57), V187 (= V191), E191 (= E195), H447 (= H451), E452 (= E456)
binding flavin-adenine dinucleotide: I7 (= I10), G10 (= G13), P11 (= P14), G12 (= G15), E31 (= E34), K32 (≠ E35), R33 (≠ W36), G43 (= G47), T44 (= T48), C45 (= C49), G49 (= G53), C50 (= C54), K54 (= K58), T117 (≠ R121), G118 (= G122), S147 (≠ V151), G148 (= G152), S167 (= S171), I188 (= I192), R275 (= R279), Y278 (≠ N282), D315 (= D319), M321 (= M325), L322 (= L326), A323 (= A327), A326 (= A330), Y354 (= Y358)

6aonA 1.72 angstrom resolution crystal structure of 2-oxoglutarate dehydrogenase complex subunit dihydrolipoamide dehydrogenase from bordetella pertussis in complex with fad
55% identity, 98% coverage: 4:471/478 of query aligns to 2:472/473 of 6aonA

query
sites
6aonA

K

Q

Y

F

D

D

V

V

I

V

V

V

I
|
I

G

G

A

A

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

I

A

A

I

I

R

R

C

A

A

A

Q

Q

L

L

G

G

L

M

K

S

T

V

A

A

C

C

V

I

E
x
D

E
x
A

W
|
W

I

Q

N

N

K

G

Q

Q

Q

G

K

G

P

P

A

A

L
x
P

G

G

G
|
G

T
|
T

C
|
C

L

T

N

N

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

Q

S

S

E

E

R

H

F

Y

E

E

E

Q

I

A

A

N

K

H

H

H

N

F

A

A

D

E

H

H

G

G

I

I

T

E

V

V

D

K

G

G

L

V

Q

S

I

L

D

K

V

L

A

D

K

T

M

L

V

I

A

G

R

R

K

K

D

N

K

T

I

V

V

V

N

K

Q

Q

L

N

T

N

G

D

G

G

I

I

E

L

Q

Y

L

L

F

F

K

K

A

K

N

N

G

K

I

V

T

T

W

Y

L

F

Q

H

G

G

R
x
K

G
|
G

K

A

L

F

L

A

A

G

-

Q

-

V

-

D

-

G

G

G

K

W

Q

S

V

I

E

K

V

V

T

T

A

G

H

T

D

-

G

-

T

T

V

D

A

A

T

D

H

L

A

V

A

A

D

K

N

H

V

V

I

I

I

V

A

A

V
x
T

G
|
G

S

S

T

S

P

A

I

R

E

E

L

L

P

P

I

G

A

L

K

P

W

F

L

D

D

E

T

K

R

N

I

I

V

L

D

S

S
x
N

A

D

G

G

A

A

L

L

D

N

W

I

E

G

T

A

V

V

P

P

E

K

K

K

L

L

G

G

V

V

I

I

G

G

A

A

G

G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

M

G

G

S

S

V

V

W

W

R

R

L

L

G

G

S

A

E

E

V

V

V

T

V

I

I

L

E

E

A

A

M

M

D

P

D

E

F

F

L

L

G
x
A

A

A

A
|
A

D

D

R
x
Q

D

Q

V

V

A

A

K

K

S

E

A

A

Q

L

M

K

Q

S

F

F

K

A

K

K

Q

Q

G

G

L

L

D

D

I

I

R

Q

L

T

S

G

S

V

K

K

V

I

A

G

K

E

V

I

E

K

A

A

G

A

D

A

N

K

G

S

I

I

T

T

V

V

T

P

Y

Y

N

V

D

D

P

A

K

K

G

G

-

A

E

E

Q

Q

T

K

L

L

L

V

V

V

D

D

R

K

L

L

I

I

V

V

A

S

V

I

G

G

R
|
R

K

V

S

P

N
x
Y

T

T

A

G

G

G

V

L

L

N

A

A

D

E

D

A

C

V

G

G

V

L

Q

K

L

L

D

D

E

E

R

R

G

G

R

F

V

V

V

A

I

V

D

D

G

E

H

D

L

C

Q

K

T

T

A

N

V

L

P

P

G

N

V

V

Y

W

A

A

I

V

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

P

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S

E

E

E

G

G

V

V

L

A

V

V

A

A

E

E

Q

R

I

I

V

A

G

G

Q

Q

K

H

P

G

H

H

I

V

N

N

Y

F

D

A

A

T

I

V

P

P

W

W

V

V

I

I

Y

Y

T

T

H

S

P

P

E

E

I

I

A

A

W

W

V

V

G

G

K

K

T

T

E

E

A

Q

E

Q

L

L

K

K

A

A

A

E

G

G

V

R

E

E

Y

Y

N

K

V

A

G

G

S

S

F

F

P

P

F

F

A

M

A

A

N

N

G

G

R

R

A

A

K

R

A

A

M

L

D

G

Q

D

A

T

D

T

G

G

L

F

V

A

K

K

V

V

L

I

A

A

D

D

A

A

N

K

T

T

D

D

R

E

I

V

L

L

G

G

V

V

H

H

F

I

V

I

G

G

P

P

L

M

A

A

S

S

E

E

L

L

V

I

G

S

Q

E

A

A

V

V

I

T

A

I

I

M

E

E

T

F

E

R

C

G

S

A

A

A

E

E

D

D

L

I

A

A

R

R

M

I

T

C

F
x
H

A

A

H
|
H

P

P

T

T

V

L

S

S

E
|
E

A

A

I

V

H

K

E

E

A

A

M

A

L

L

A

A

V

V

D

D

G

K

R

R

A

T

L

L

H

N

active site: P43 (≠ L45), C47 (= C49), C52 (= C54), S55 (= S57), V191 (= V191), E195 (= E195), H450 (≠ F449), H452 (= H451), E457 (= E456)
binding calcium ion: A218 (≠ G218), A220 (= A220), Q222 (≠ R222)
binding flavin-adenine dinucleotide: I8 (= I10), G11 (= G13), P12 (= P14), G13 (= G15), D32 (≠ E34), A33 (≠ E35), W34 (= W36), G45 (= G47), T46 (= T48), C47 (= C49), G51 (= G53), C52 (= C54), K56 (= K58), K119 (≠ R121), G120 (= G122), T151 (≠ V151), G152 (= G152), N171 (≠ S171), I192 (= I192), R280 (= R279), Y283 (≠ N282), G319 (= G318), D320 (= D319), M326 (= M325), L327 (= L326), A328 (= A327), H329 (= H328)

6uziC Crystal structure of dihydrolipoyl dehydrogenase from elizabethkingia anophelis nuhp1
52% identity, 98% coverage: 3:471/478 of query aligns to 5:469/470 of 6uziC

query
sites
6uziC

D

N

K

Q

Y

F

D

D

V

V

I

A

V

V

I
|
I

G
|
G

A

S

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

R

C

C

A

A

Q

Q

L

L

G

G

L

F

K

K

T

T

A

V

C

I

V

I

E
|
E

E
x
K

W

Y

I

-

N

-

K

-

Q

-

K

-

P

S

A

T

L

L

G

G

G
|
G

T
|
T

C
|
C

L

L

N

N

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

D

S

S

E

E

R

H

F

F

E

E

E

N

I

-

A

A

K

K

H

H

N

T

-

F

A

A

D

T

H

H

G

G

I

I

T

L

V

I

D

D

G

E

L

P

Q

K

I

V

D

D

V

I

A

A

K

Q

M

M

V

I

A

S

R

R

K

K

D

N

K

D

I

V

V

V

N

D

Q

Q

L

T

T

T

G

K

G

G

I

I

E

N

Q

F

L

L

F

M

K

D

A

K

N

N

G

K

I

I

T

T

W

V

L

L

Q

Q

G

G

R
x
V

G
|
G

K

S

L

F

L

E

A

S

G

A

K

T

Q

Q

V

I

E

K

V

V

T

T

A

K

H

A

D

D

G

G

T

S

V

S

A

E

T

V

H

I

A

E

A

A

D

K

N

N

V

T

I

I

A

A

V
x
T

G
|
G

S

S

T

K

P

P

I

S

E

S

L

L

P

P

I

F

A

I

K

T

W

L

L

D

D

K

T

E

R

R

I

V

V

I

D

T

S

S

A

T

G

E

A

A

L

L

D

N

W

L

E

K

T

E

V

V

P

P

E

K

K

H

L

L

G

I

V

V

I

I

G

G

A

G

G

G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

L

G

G

S

S

V

V

W

Y

R

L

R

R

L

L

G

G

S

S

E

D

V

V

V

T

V

V

I

V

E

E

A

Y

M

L

D

D

D

K

F

I

L

I

G

P

A

G

A

M

D

D

R

G

D

T

V

L

A

S

K

K

S

E

A

L

Q

Q

M

K

Q

T

F

L

K

K

Q

Q

G

G

L

M

D

K

I

F

R

M

L

L

S

S

S

T

K

A

V

V

A

S

K

G

V

V

E

E

A

R

G

N

D

G

N

D

G

T

I

V

T

K

V

V

T

T

Y

A

N

K

D

D

P

K

K

K

G

G

E

E

Q

D

T

V

L

V

V

E

-

G

D

D

R

Y

L

C

I

L

V

V

A

S

V

V

G

G

R
|
R

K

R

S

P

N

Y

T

T

A

D

G

G

V

L

L

G

A

L

D

E

D

K

C

A

G

G

V

V

Q

E

L

L

D

D

E

E

R

R

G

G

R

R

V

V

V

K

I

T

D

N

G

D

H

H

L

L

Q

Q

T

T

A

N

V

V

P

P

G

N

V

I

Y

Y

A

A

I

I

G

G

D
|
D

C

V

V

V

V

K

G

G

P

A

M
|
M

L
|
L

A
|
A

H

H

K

K

A

A

S

E

E

E

G

G

V

V

L

F

V

V

A

A

E

E

Q

T

I

L

V

A

G

G

Q

E

K

K

P

P

H

H

I

V

N

N

Y

Y

D

N

A

L

I

I

P

P

W

G

V

V

I

V

Y

Y

T

T

H

W

P

P

E

E

I

V

A

A

W

G

V

V

G

G

K

K

T

T

E

E

A

E

E

Q

L

L

K

K

A

E

A

A

G

G

V

V

E

A

Y

Y

N

K

V

T

G

G

S

S

F

F

P

P

F

M

A

R

A

A

N

L

G

G

R

R

A

S

K

R

A

A

M

S

D

M

Q

D

A

T

D

D

G

G

L

V

V

I

K

K

V

I

L

L

A

A

D

D

A

E

N

K

T

T

D

D

R

E

I

I

L

L

G

G

V

V

H

H

F

M

V

I

G

G

P

A

L

R

A

A

S

A

E

D

L

M

V

I

G

A

Q

E

A

A

V

V

I

V

A

A

I

M

E

E

T

F

E

R

C

A

S

S

A

A

E

E

D

D

L

I

A

A

R

R

M

I

T

S

F

H

A

A

H
|
H

P

P

T

T

V

Y

S

T

E
|
E

A

A

I

I

H

K

E

E

A

A

M

A

L

L

A

D

V

A

D

T

G

G

-

K

R

R

A

A

L

I

H

H

active site: C45 (= C49), C50 (= C54), S53 (= S57), V187 (= V191), E191 (= E195), H448 (= H451), E453 (= E456)
binding flavin-adenine dinucleotide: I12 (= I10), G13 (= G11), G15 (= G13), P16 (= P14), G17 (= G15), E36 (= E34), K37 (≠ E35), G43 (= G47), T44 (= T48), C45 (= C49), G49 (= G53), C50 (= C54), S53 (= S57), K54 (= K58), V117 (≠ R121), G118 (= G122), T147 (≠ V151), G148 (= G152), I188 (= I192), R276 (= R279), D316 (= D319), M322 (= M325), L323 (= L326), A324 (= A327)
binding zinc ion: H448 (= H451), E453 (= E456)

P31023 Dihydrolipoyl dehydrogenase, mitochondrial; Dihydrolipoamide dehydrogenase; Glycine cleavage system L protein; Pyruvate dehydrogenase complex E3 subunit; E3; PDC-E3; EC 1.8.1.4 from Pisum sativum (Garden pea) (Lathyrus oleraceus) (see 2 papers)
49% identity, 98% coverage: 2:471/478 of query aligns to 35:500/501 of P31023

query
sites
P31023

T

S

D

D

K

E

Y

N

D

D

V

V

I

V

V

I

I

I

G

G

A

G

G

G

P

P

G

G

Y

Y

V

V

A

A

I

I

R

K

C

A

A

A

Q

Q

L

L

G

G

L

F

K

K

T

T

A

T

C

C

V

I

E
|
E

E

-

W

-

I

-

N

-

K

-

Q

-

Q
x
K

K
x
R

P
x
G

A
|
A

L
|
L

G
|
G

T
|
T

C
|
C

L

L

N

N

V

V

G

G

C
|
C

I

I

P

P

S

S

K

K

A

A

L

L

E

H

S

S

E

H

R

M

F

Y

E

H

E

E

I

-

A

A

K

K

H

H

N

S

-

F

A

A

D

N

H

H

G

G

I

V

T

K

V

V

D

S

G

N

L

V

Q

E

I

I

D

D

V

L

A

A

K

A

M

M

V

M

A

G

R

Q

K

K

D

D

K

K

I

A

V

V

N

S

Q

N

L

L

T

T

G

R

G

G

I

I

E

E

Q

G

L

L

F

F

K

K

A

K

N

N

G

K

I

V

T

T

W

Y

L

V

Q

K

G

G

R

Y

G
|
G

K

K

L

F

L

V

A

S

G

P

K

S

Q

E

V

I

E

S

V

V

T

D

A

T

H

I

D

E

G

G

T

E

V

N

A

T

T

V

H

V

A

K

A

G

D

K

N

H

V

I

I

I

A

A

V

T

G

G

S

S

T

D

P

V

I

K

E

S

L

L

P

P

I

G

A

V

K

T

W

I

L

D

D

E

T

K

R

K

I

I

V

V

D

S

S

S

A

T

G

G

A

A

L

L

D

A

W

L

E

S

T

E

V

I

P

P

E

K

K

K

L

L

G

V

V

V

I

I

G

G

A

A

G

G

V

Y

I

I

G

G

L

L

E

E

M

M

G

G

S

S

V

V

W

W

R

G

R

R

L

I

G

G

S

S

E

E

V

V

V

T

V

V

I

V

E

E

A

F

M

A

D

S

D

E

F

I

L

V

G

P

A

T

A

M

D

D

R

A

D

E

V

I

A

R

K

K

S

Q

A

F

Q

Q

M

R

Q

S

F

L

K

E

K

K

Q

Q

G

G

L

M

D

K

I

F

R

K

L

L

S

K

S

T

K

K

V

V

A

V

K

G

V

V

E

D

A

T

G

S

D

G

N

D

G

G

I

V

T

K

V

L

T

T

Y

V

N

-

D

E

P

P

K

S

-

A

-

G

G

G

E

E

Q

Q

T

T

L

I

-

E

V

A

D

D

R

V

L

V

I

L

V

V

A

S

V

A

G

G

R

R

K

T

S

P

N

F

T

T

A

S

G

G

V

L

L

N

A

L

D

D

D

K

C

I

G

G

V

V

Q

E

L

T

D

D

E

K

R

L

G

G

R

R

V

I

V

L

I

V

D

N

G

E

H

R

L

F

Q

S

T

T

A

N

V

V

P

S

G

G

V

V

Y

Y

A

A

I

I

G

G

D
|
D

C

V

V

I

V

P

G

G

P

P

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S

E

E

E

E

D

G

G

V

V

L

A

V

C

A

V

E

E

Q

Y

I

L

V

A

G

G

Q

K

K

V

P

G

H

H

I

V

N

D

Y

Y

D

D

A

K

I

V

P

P

W

G

V

V

I

V

Y

Y

T

T

H

N

P

P

E

E

I

V

A

A

W

S

V

V

G

G

K

K

T

T

E

E

A

E

E

Q

L

V

K

K

A

E

A

T

G

G

V

V

E

E

Y

Y

N

R

V

V

G

G

S

K

F

F

P

P

F

F

A

M

A

A

N

N

G

S

R

R

A

A

K

K

A

A

M

I

D

D

Q

N

A

A

D

E

G

G

L

L

V

V

K

K

V

I

L

I

A

A

D

E

A

K

N

E

T

T

D

D

R

K

I

I

L

L

G

G

V

V

H

H

F

I

V

M

G

A

P

P

L

N

A

A

S

G

E

E

L

L

V

I

G

H

Q

E

A

A

V

A

I

I

A

A

I

L

E

Q

T

Y

E

D

C

A

S

S

A

S

E

E

D

D

L

I

A

A

R

R

M

V

T

C

F

H

A

A

H

H

P

P

T

T

V

M

S

S

E

E

A

A

I

I

H

K

E

E

A

A

M

A

L

M

A

A

V

T

D

Y

G

D

R

K

A

P

L

I

H

H

67:76 (vs. 34:49, 44% identical) binding FAD
C76 (= C49) modified: Disulfide link with 81, Redox-active
C81 (= C54) modified: Disulfide link with 76, Redox-active
G149 (= G122) binding FAD
D348 (= D319) binding FAD
MLAH 354:357 (= MLAH 325:328) binding FAD

Sites not aligning to the query:

1:31 modified: transit peptide, Mitochondrion

3urhB Crystal structure of a dihydrolipoamide dehydrogenase from sinorhizobium meliloti 1021
50% identity, 98% coverage: 5:471/478 of query aligns to 1:465/465 of 3urhB

query
sites
3urhB

Y

Y

D

D

V

L

I

I

V

V

I
|
I

G
|
G

A

S

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

C

A

A

I

I

R

K

C

A

A

A

Q

Q

L

L

G

G

L

M

K

K

T

V

A

A

C

V

V

V

E
|
E

E

-

W

-

I

-

N

-

K

-

Q

-

Q
x
K

K

R

P

S

A

T

L
x
Y

G

G

G
|
G

T
|
T

C
|
C

L

L

N

N

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

H

S

A

S

S

E

E

R

M

F

F

E

-

I

-

A

-

K

-

H

H

N

Q

A

A

D

Q

H

H

G

G

I

L

T

E

V

A

D

L

G

G

L

V

Q

E

I

V

-

A

-

N

-

P

-

K

-

L

D

N

V

L

A

Q

K

K

M

M

V

M

A

A

R

H

K

K

D

D

K

A

I

T

V

V

N

K

Q

S

L

N

T

V

G

D

G

G

I

V

E

S

Q

F

L

L

F

F

K

K

A

K

N

N

G

K

I

I

T

D

W

G

L

F

Q

Q

G

G

R
x
T

G
|
G

K

K

L

V

L

L

A

G

G

Q

K

G

Q

K

V

V

E

S

V

V

T

T

A

N

H

E

D

K

G

G

T

E

V

E

A

Q

T

V

H

L

A

E

A

A

D

K

N

N

V

V

I

V

I

I

A
|
A

V
x
T

G
|
G

S

S

T

D

P

V

I

A

E

G

L

I

P

P

I

G

A

V

K

E

-

V

-

A

W

F

L

D

D

E

T

K

R

T

I

I

V

V

D

S

S

S

A

T

G

G

A

A

L

L

D

A

W

L

E

E

T

K

V

V

P

P

E

A

K

S

L

M

G

I

V

V

I

V

G

G

A

G

G

G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

L

G

G

S

S

V

V

W

W

R

A

R

R

L

L

G

G

S

A

E

K

V

V

V

T

V

V

I

V

E

E

A

F

M

L

D

D

D

T

F

I

L

L

G

G

A

G

A

M

D

D

R

G

D

E

V

V

A

A

K

K

S

Q

A

L

Q

Q

M

R

Q

M

F

L

K

T

K

K

Q

Q

G

G

L

I

D

D

I

F

R

K

L

L

S

G

S

A

K

K

V

V

A

T

K

G

V

A

E

V

A

K

G

S

D

G

N

D

G

G

I

A

T

K

V

V

T

T

Y

F

N

E

D

P

P

V

K

K

G

G

E

G

Q

E

-

A

-

T

T

T

L

L

L

D

V

A

D

E

R

V

L

V

I

L

V

I

A

A

V

T

G

G

R
|
R

K

K

S

P

N

S

T

T

A

D

G

G

V

L

L

G

A

L

D

A

D

K

C

A

G

G

V

V

Q

V

L

L

D

D

E

S

R

R

G

G

R

R

V

V

V

E

I

I

D

D

G

R

H

H

L

F

Q

Q

T

T

A

S

V

I

P

A

G

G

V

V

Y

Y

A

A

I

I

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

P

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S

E

E

D

E

E

G

G

V

V

L

A

V

V

A

A

E

E

Q

I

I

I

V

A

G

G

Q

Q

K

A

P

G

H

H

I

V

N

N

Y

Y

D

D

A

V

I

I

P

P

W

G

V

V

I

V

Y

Y

T

T

H

Q

P

P

E

E

I

V

A

A

W

S

V

V

G

G

K

K

T

T

E

E

A

E

E

E

L

L

K

K

A

A

G

G

V

V

E

A

Y

Y

N

K

V

I

G

G

S

K

F

F

P

P

F

F

A

T

A

A

N

N

G

G

R

R

A

A

K

R

A

A

M

M

D

L

Q

Q

A

T

D

D

G

G

L

F

V

V

K

K

V

I

L

L

A

A

D

D

A

K

N

E

T

T

D

D

R

R

I

V

L

L

G

G

V

G

H

H

F

I

V

I

G

G

P

F

L

G

A

A

S

G

E

E

L

M

V

I

G

H

Q

E

A

I

V

A

I

V

A

L

I

M

E

E

T

F

E

G

C

G

S

S

A

S

E

E

D

D

L

L

A

G

R

R

M

T

T

C

F
x
H

A

A

H
|
H

P

P

T

T

V

M

S

S

E
|
E

A

A

I

V

H

K

E

E

A

A

M

A

L

L

A

S

V

T

D

F

G

F

R

K

A

P

L

I

H

H

active site: Y35 (≠ L45), C39 (= C49), C44 (= C54), S47 (= S57), V183 (= V191), E187 (= E195), H443 (≠ F449), H445 (= H451), E450 (= E456)
binding flavin-adenine dinucleotide: I6 (= I10), G7 (= G11), G9 (= G13), P10 (= P14), G11 (= G15), E30 (= E34), K31 (≠ Q41), G37 (= G47), T38 (= T48), C39 (= C49), G43 (= G53), C44 (= C54), K48 (= K58), T111 (≠ R121), G112 (= G122), A140 (= A150), T141 (≠ V151), G142 (= G152), I184 (= I192), R273 (= R279), G312 (= G318), D313 (= D319), M319 (= M325), L320 (= L326), A321 (= A327), H322 (= H328)

1dxlA Dihydrolipoamide dehydrogenase of glycine decarboxylase from pisum sativum (see paper)
49% identity, 98% coverage: 2:471/478 of query aligns to 1:466/467 of 1dxlA

query
sites
1dxlA

T

S

D

D

K

E

Y

N

D

D

V

V

I

V

V

I

I
|
I

G

G

A

G

G

G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

K

C

A

A

A

Q

Q

L

L

G

G

L

F

K

K

T

T

A

T

C

C

V

I

E
|
E

E

-

W

-

I

-

N

-

K

-

Q

-

Q
x
K

K
x
R

P

G

A

A

L
|
L

G

G

G
|
G

T
|
T

C
|
C

L

L

N

N

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

H

S

S

E

H

R

M

F

Y

E

H

E

E

I

-

A

A

K

K

H

H

N

S

-

F

A

A

D

N

H

H

G

G

I

V

T

K

V

V

D

S

G

N

L

V

Q

E

I

I

D

D

V

L

A

A

K

A

M

M

V

M

A

G

R

Q

K

K

D

D

K

K

I

A

V

V

N

S

Q

N

L

L

T

T

G

R

G

G

I

I

E

E

Q

G

L

L

F

F

K

K

A

K

N

N

G

K

I

V

T

T

W

Y

L

V

Q

K

G

G

R
x
Y

G
|
G

K

K

L

F

L

V

A

S

G

P

K

S

Q

E

V

I

E

S

V

V

T

D

A

T

H

I

D

E

G

G

T

E

V

N

A

T

T

V

H

V

A

K

A

G

D

K

N

H

V

I

I

I

A

A

V
x
T

G
|
G

S

S

T

D

P

V

I

K

E

S

L

L

P

P

I

G

A

V

K

T

W

I

L

D

D

E

T

K

R

K

I

I

V

V

D

S

S

S

A

T

G

G

A

A

L

L

D

A

W

L

E

S

T

E

V

I

P

P

E

K

K

K

L

L

G

V

V

V

I

I

G

G

A

A

G

G

V
x
Y

I
|
I

G

G

L

L

E
|
E

M

M

G

G

S

S

V

V

W

W

R

G

R

R

L

I

G

G

S

S

E

E

V

V

V

T

V

V

I

V

E

E

A

F

M

A

D

S

D

E

F

I

L

V

G

P

A

T

A

M

D

D

R

A

D

E

V

I

A

R

K

K

S

Q

A

F

Q

Q

M

R

Q

S

F

L

K

E

K

K

Q

Q

G

G

L

M

D

K

I

F

R

K

L

L

S

K

S

T

K

K

V

V

A

V

K

G

V

V

E

D

A

T

G

S

D

G

N

D

G

G

I

V

T

K

V

L

T

T

Y

V

N

-

D

E

P

P

K

S

-

A

-

G

G

G

E

E

Q

Q

T

T

L

I

-

E

V

A

D

D

R

V

L

V

I

L

V

V

A

S

V

A

G

G

R
|
R

K

T

S

P

N

F

T

T

A

S

G

G

V

L

L

N

A

L

D

D

D

K

C

I

G

G

V

V

Q

E

L

T

D

D

E

K

R

L

G

G

R

R

V

I

V

L

I

V

D

N

G

E

H

R

L

F

Q

S

T

T

A

N

V

V

P

S

G

G

V

V

Y

Y

A

A

I

I

G

G

D
|
D

C

V

V

I

V

P

G

G

P

P

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S

E

E

E

E

D

G

G

V

V

L

A

V

C

A

V

E

E

Q

Y

I

L

V

A

G

G

Q

K

K

V

P

G

H

H

I

V

N

D

Y

Y

D

D

A

K

I

V

P

P

W

G

V

V

I

V

Y

Y

T

T

H

N

P

P

E

E

I

V

A

A

W

S

V

V

G

G

K

K

T

T

E

E

A

E

E

Q

L

V

K

K

A

E

A

T

G

G

V

V

E

E

Y

Y

N

R

V

V

G

G

S

K

F

F

P

P

F

F

A

M

A

A

N

N

G

S

R

R

A

A

K

K

A

A

M

I

D

D

Q

N

A

A

D

E

G

G

L

L

V

V

K

K

V

I

L

I

A

A

D

E

A

K

N

E

T

T

D

D

R

K

I

I

L

L

G

G

V

V

H

H

F

I

V

M

G

A

P

P

L

N

A

A

S

G

E

E

L

L

V

I

G

H

Q

E

A

A

V

A

I

I

A

A

I

L

E

Q

T

Y

E

D

C

A

S

S

A

S

E

E

D

D

L

I

A

A

R

R

M

V

T

C

F
x
H

A

A

H
|
H

P

P

T

T

V

M

S

S

E
|
E

A

A

I

I

H

K

E

E

A

A

M

A

L

M

A

A

V

T

D

Y

G

D

R

K

A

P

L

I

H

H

active site: L38 (= L45), C42 (= C49), C47 (= C54), S50 (= S57), Y184 (≠ V191), E188 (= E195), H444 (≠ F449), H446 (= H451), E451 (= E456)
binding flavin-adenine dinucleotide: I9 (= I10), P13 (= P14), G14 (= G15), E33 (= E34), K34 (≠ Q41), R35 (≠ K42), G40 (= G47), T41 (= T48), C42 (= C49), G46 (= G53), C47 (= C54), K51 (= K58), Y114 (≠ R121), G115 (= G122), T144 (≠ V151), G145 (= G152), Y184 (≠ V191), I185 (= I192), R274 (= R279), D314 (= D319), M320 (= M325), L321 (= L326), A322 (= A327), H323 (= H328)

2yquB Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(e3s) from thermus thermophilus
49% identity, 98% coverage: 5:471/478 of query aligns to 2:454/455 of 2yquB

query
sites
2yquB

Y

Y

D

D

V

L

I

L

V

V

I

I

G
|
G

A

A

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

R

C

A

A

A

Q

Q

L

L

G

G

L

M

K

K

T

V

A

G

C

V

V

V

E
|
E

E

-

W

-

I

-

N

-

K

-

Q

-

Q
x
K

K

E

P

K

A

A

L
|
L

G

G

G
|
G

T
|
T

C
|
C

L

L

N
x
R

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

E

S

T

E

E

R

R

F

I

E

Y

E

E

I

A

A

K

K

K

H

-

N

-

A

G

D

L

H

L

G

G

I

A

T

K

V

V

D

K

G
|
G

L
x
V

Q

E

I

L

D

D

V

L

A

P

K

A

M

L

V

M

A

A

R

H

K

K

D

D

K

K

I

V

V

V

N

Q

Q

A

L

N

T

T

G

Q

G

G

I

V

E

E

Q

F

L

L

F

F

K

K

A

K

N

N

G

G

I

I

T

A

W

R

L

H

Q

Q

G

G

R
x
T

G
x
A

K

R

L

F

L

L

A

S

G

E

K

R

Q

K

V

V

E

L

V

V

T

-

A

-

H

-

D

E

G

E

T

T

V

G

A

E

T

E

H

L

A

E

A

A

D

R

N

Y

V

I

I

L

I

I

A

A

V
x
T

G
|
G

S

S

T

A

P

P

I

L

E

I

L

P

P

P

I

W

A

A

K

Q

W

V

L

D

D

Y

T

E

R

R

I

V

V

V

D

T

S

S

A

T

G

E

A

A

L

L

D

S

W

F

E

P

T

E

V

V

P

P

E

K

K

R

L

L

G

I

V

V

I

V

G

G

A

G

G

G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

L

G

G

S

V

V

V

W

W

R

H

R

R

L

L

G

G

S

A

E

E

V

V

V

I

V

V

I

L

E

E

A

Y

M

M

D

D

D

R

F

I

L

L

G

P

A

T

A

M

D

D

R

L

D

E

V

V

A

S

K

R

S

A

A

A

Q

E

M

R

Q

V

F

F

K

K

Q

Q

G

G

L

L

D

T

I

I

R

R

L

T

S

G

S

V

K

R

V

V

A

T

K

A

V

V

E

V

A

P

G

E

D

A

N

K

G

G

I

A

T

R

V

V

T

-

Y

-

N

-

D

E

P

L

K

E

G

G

E

G

Q

E

T

V

L

L

L

E

V

A

D

D

R

R

L

V

I

L

V

V

A

A

V

V

G

G

R

R

K

R

S

P

N
x
Y

T

T

A

E

G

G

V

L

L

S

A

L

D

E

D

N

C

A

G

G

V

L

Q

S

L

T

D

D

E

E

R

R

G

G

R

R

V

I

V

P

I

V

D

D

G

E

H

H

L

L

Q

R

T

T

A

R

V

V

P

P

G

H

V

I

Y

Y

A

A

I

I

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

P

M
|
M

L
|
L

A
|
A

H
|
H

K

K

A

A

S
|
S

E

E

G

G

V

I

L

A

V

A

A

V

E

E

Q

H

I

M

V

V

G

R

Q

G

K

F

P

G

H

H

I

V

N

D

Y

Y

D

Q

A

A

I

I

P

P

W

S

V

V

I

V

Y

Y

T

T

H

H

P

P

E

E

I

I

A

A

W

A

V

V

G

G

K

Y

T

T

E

E

A

E

E

E

L

L

K

K

A

A

A

Q

G

G

V

I

E

P

Y

Y

N

K

V

V

G

G

S

K

F

F

P

P

F

Y

A

S

A

A

N

S

G

G

R

R

A

A

K

R

A

A

M

M

D

G

Q

E

A

T

D

E

G

G

L

F

V

I

K

K

V

V

L

L

A

A

D

H

A

A

N

K

T

T

D

D

R

R

I

I

L

L

G

G

V

V

H

H

F

G

V

I

G

G

P

A

L

R

A

V

S

G

E

D

L

V

V

L

G

A

Q

E

A

A

V

A

I

L

A

A

I

L

E

F

T

F

E

K

C

A

S
|
S

A

A

E

E

D
|
D

L

L

A

G

R

R

M

A

T

P

F
x
H

A

A

H
|
H

P

P

T

S

V

L

S

S

E
|
E

A

I

I

L

H

K

E

E

A

A

M

A

L

L

A

A

V

A

D

W

G

E

R

R

A

P

L

I

H

H

active site: P11 (= P14), L36 (= L45), C40 (= C49), C45 (= C54), S48 (= S57), G72 (= G83), V73 (≠ L84), V177 (= V191), E181 (= E195), S314 (= S331), H432 (≠ F449), H434 (= H451), E439 (= E456)
binding carbonate ion: A310 (= A327), S314 (= S331), S423 (= S440), D426 (= D443)
binding flavin-adenine dinucleotide: G8 (= G11), G10 (= G13), P11 (= P14), G12 (= G15), E31 (= E34), K32 (≠ Q41), G38 (= G47), T39 (= T48), C40 (= C49), R42 (≠ N51), G44 (= G53), C45 (= C54), K49 (= K58), T110 (≠ R121), A111 (≠ G122), T137 (≠ V151), G138 (= G152), I178 (= I192), Y265 (≠ N282), G301 (= G318), D302 (= D319), M308 (= M325), L309 (= L326), A310 (= A327), H311 (= H328)

2yquA Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(e3s) from thermus thermophilus
49% identity, 98% coverage: 5:471/478 of query aligns to 2:454/455 of 2yquA

query
sites
2yquA

Y

Y

D

D

V

L

I

L

V

V

I

I

G
|
G

A

A

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

R

C

A

A

A

Q

Q

L

L

G

G

L

M

K

K

T

V

A

G

C

V

V

V

E
|
E

E

-

W

-

I

-

N

-

K

-

Q

-

Q
x
K

K

E

P

K

A

A

L
|
L

G

G

G
|
G

T
|
T

C
|
C

L

L

N
x
R

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

E

S

T

E

E

R

R

F

I

E

Y

E

E

I

A

A

K

K

K

H

-

N

-

A

G

D

L

H

L

G

G

I

A

T

K

V

V

D

K

G
|
G

L
x
V

Q

E

I

L

D

D

V

L

A

P

K

A

M

L

V

M

A

A

R

H

K

K

D

D

K

K

I

V

V

V

N

Q

Q

A

L

N

T

T

G

Q

G

G

I

V

E

E

Q

F

L

L

F

F

K

K

A

K

N

N

G

G

I

I

T

A

W

R

L

H

Q

Q

G

G

R
x
T

G
x
A

K

R

L

F

L

L

A

S

G

E

K

R

Q

K

V

V

E

L

V

V

T

-

A

-

H

-

D

E

G

E

T

T

V

G

A

E

T

E

H

L

A

E

A

A

D

R

N

Y

V

I

I

L

I

I

A

A

V
x
T

G
|
G

S

S

T

A

P

P

I

L

E

I

L

P

P

P

I

W

A

A

K

Q

W

V

L

D

D

Y

T

E

R

R

I

V

V

V

D

T

S
|
S

A

T

G

E

A

A

L

L

D

S

W

F

E

P

T

E

V

V

P

P

E

K

K

R

L

L

G

I

V

V

I

V

G

G

A

G

G

G

V
|
V

I
|
I

G

G

L

L

E
|
E

M

L

G

G

S

V

V

V

W

W

R

H

R

R

L

L

G

G

S

A

E

E

V

V

V

I

V

V

I

L

E

E

A

Y

M

M

D

D

D

R

F

I

L

L

G

P

A

T

A

M

D

D

R

L

D

E

V

V

A

S

K

R

S

A

A

A

Q

E

M

R

Q

V

F

F

K

K

Q

Q

G

G

L

L

D

T

I

I

R

R

L

T

S

G

S

V

K

R

V

V

A

T

K

A

V

V

E

V

A

P

G

E

D

A

N

K

G

G

I

A

T

R

V

V

T

-

Y

-

N

-

D

E

P

L

K

E

G

G

E

G

Q

E

T

V

L

L

L

E

V

A

D

D

R

R

L

V

I

L

V

V

A

A

V

V

G

G

R

R

K

R

S

P

N
x
Y

T

T

A

E

G

G

V

L

L

S

A

L

D

E

D

N

C

A

G

G

V

L

Q

S

L

T

D

D

E

E

R

R

G

G

R

R

V

I

V

P

I

V

D

D

G

E

H

H

L

L

Q

R

T

T

A

R

V

V

P

P

G

H

V

I

Y

Y

A

A

I

I

G
|
G

D
|
D

C

V

V

V

V

R

G

G

P

P

M
|
M

L
|
L

A
|
A

H

H

K

K

A

A

S
|
S

E

E

G

G

V

I

L

A

V

A

A

V

E

E

Q

H

I

M

V

V

G

R

Q

G

K

F

P

G

H

H

I

V

N

D

Y

Y

D

Q

A

A

I

I

P

P

W

S

V

V

I

V

Y

Y

T

T

H

H

P

P

E

E

I

I

A

A

W

A

V

V

G

G

K

Y

T

T

E

E

A

E

E

E

L

L

K

K

A

A

A

Q

G

G

V

I

E

P

Y

Y

N

K

V

V

G

G

S

K

F

F

P

P

F

Y

A

S

A

A

N

S

G

G

R

R

A

A

K

R

A

A

M

M

D

G

Q

E

A

T

D

E

G

G

L

F

V

I

K

K

V

V

L

L

A

A

D

H

A

A

N

K

T

T

D

D

R

R

I

I

L

L

G

G

V

V

H

H

F

G

V

I

G

G

P

A

L

R

A

V

S

G

E

D

L

V

V

L

G

A

Q

E

A

A

V

A

I

L

A

A

I

L

E

F

T

F

E

K

C

A

S

S

A

A

E

E

D

D

L

L

A

G

R

R

M

A

T

P

F
x
H

A

A

H
|
H

P

P

T

S

V

L

S

S

E
|
E

A

I

I

L

H

K

E

E

A

A

M

A

L

L

A

A

V

A

D

W

G

E

R

R

A

P

L

I

H

H

active site: P11 (= P14), L36 (= L45), C40 (= C49), C45 (= C54), S48 (= S57), G72 (= G83), V73 (≠ L84), V177 (= V191), E181 (= E195), S314 (= S331), H432 (≠ F449), H434 (= H451), E439 (= E456)
binding flavin-adenine dinucleotide: G8 (= G11), G10 (= G13), P11 (= P14), G12 (= G15), E31 (= E34), K32 (≠ Q41), G38 (= G47), T39 (= T48), C40 (= C49), R42 (≠ N51), G44 (= G53), C45 (= C54), K49 (= K58), T110 (≠ R121), A111 (≠ G122), T137 (≠ V151), G138 (= G152), S157 (= S171), I178 (= I192), Y265 (≠ N282), G301 (= G318), D302 (= D319), M308 (= M325), L309 (= L326), A310 (= A327)

2eq7A Crystal structure of lipoamide dehydrogenase from thermus thermophilus hb8 with psbdo
50% identity, 96% coverage: 5:464/478 of query aligns to 2:447/452 of 2eq7A

query
sites
2eq7A

Y

Y

D

D

V

L

I

L

V

V

I

I

G

G

A

A

G
|
G

P
|
P

G
|
G

G

G

Y

Y

V

V

A

A

I

I

R

R

C

A

A

A

Q

Q

L

L

G

G

L

M

K

K

T

V

A

G

C

V

V

V

E
|
E

E

-

W

-

I

-

N

-

K

-

Q

-

Q
x
K

K

E

P

K

A

A

L
|
L

G

G

G
|
G

T
|
T

C
|
C

L

L

N
x
R

V

V

G
|
G

C
|
C

I

I

P

P

S
|
S

K
|
K

A

A

L

L

E

E

S

T

E

E

R

R

F

I

E

Y

E

E

I

A

A

K

K

K

H

-

N

-

A

G

D

L

H

L

G

G

I

A

T

K

V

V

D

K

G
|
G

L
x
V

Q

E

I

L

D

D

V

L

A

P

K

A

M

L

V

M

A

A

R

H

K

K

D

D

K

K

I

V

V

V

N

Q

Q

A

L

N

T

T

G

Q

G

G

I

V

E

E

Q

F

L

L

F

F

K

K

A

K

N

N

G

G

I

I

T

A

W

R

L

H

Q

Q

G

G

R
x
T

G
x
A

K

R

L

F

L

L

A

S

G

E

K

R

Q

K

V

V

E

L

V

V

T

-

A

-

H

-

D

E

G

E

T

T

V

G

A

E

T

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active site: P11 (= P14), L36 (= L45), C40 (= C49), C45 (= C54), S48 (= S57), G72 (= G83), V73 (≠ L84), V177 (= V191), E181 (= E195), S314 (= S331), H432 (≠ F449), H434 (= H451), E439 (= E456)
binding flavin-adenine dinucleotide: G10 (= G13), P11 (= P14), G12 (= G15), E31 (= E34), K32 (≠ Q41), G38 (= G47), T39 (= T48), C40 (= C49), R42 (≠ N51), G44 (= G53), C45 (= C54), K49 (= K58), T110 (≠ R121), A111 (≠ G122), T137 (≠ V151), G138 (= G152), S157 (= S171), I178 (= I192), R262 (= R279), Y265 (≠ N282), D302 (= D319), M308 (= M325), L309 (= L326), A310 (= A327), H311 (= H328), Y341 (= Y358)
binding nicotinamide-adenine-dinucleotide: W146 (≠ I160), G174 (= G188), G176 (= G190), V177 (= V191), I178 (= I192), E197 (= E211), Y198 (≠ A212), V231 (= V245), V260 (= V277), G261 (= G278), R262 (= R279), M308 (= M325), L309 (= L326), V339 (= V356)

P09624 Dihydrolipoyl dehydrogenase, mitochondrial; DLD; 2-oxoglutarate dehydrogenase complex component E3; OGDC-E3; OGDHC subunit E3; Alpha-ketoglutarate dehydrogenase complex subunit E3; alpha-KGDHC subunit E3; Dihydrolipoamide dehydrogenase; Dihydrolipoamide:NAD(+) oxidoreductase; Glycine decarboxylase complex subunit L; GDC subunit L; Lipoamide dehydrogenase component of pyruvate dehydrogenase complex; Pyruvate dehydrogenase complex E3 component; PDC subunit E3; PDH complex subunit E3; EC 1.8.1.4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 2 papers)
46% identity, 99% coverage: 1:471/478 of query aligns to 23:498/499 of P09624

query
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P09624

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56:65 (vs. 34:49, 38% identical) binding FAD
C65 (= C49) modified: Disulfide link with 70, Redox-active
C70 (= C54) modified: Disulfide link with 65, Redox-active
K74 (= K58) binding FAD
G139 (= G122) binding FAD
D346 (= D319) binding FAD
MLAH 352:355 (= MLAH 325:328) binding FAD
H478 (= H451) active site, Proton acceptor

Sites not aligning to the query:

1:21 modified: transit peptide, Mitochondrion

1v59A Crystal structure of yeast lipoamide dehydrogenase complexed with NAD+
46% identity, 99% coverage: 1:471/478 of query aligns to 2:477/478 of 1v59A

query
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R

R

A

A

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K

A

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M

N

D

Q

Q

D

A

T

D

E

G

G

L

F

V

V

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K

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A

I

D

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N

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x
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active site: L40 (= L45), C44 (= C49), C49 (= C54), S52 (= S57), I193 (≠ V191), E197 (= E195), T349 (≠ G343), H455 (≠ F449), H457 (= H451), E462 (= E456)
binding flavin-adenine dinucleotide: G14 (= G13), P15 (= P14), A16 (≠ G15), E35 (= E34), K36 (≠ Q41), R37 (≠ K42), G42 (= G47), T43 (= T48), C44 (= C49), G48 (= G53), C49 (= C54), K53 (= K58), N117 (≠ R121), G118 (= G122), T153 (≠ V151), G154 (= G152), R285 (= R279), Y288 (≠ N282), G324 (= G318), D325 (= D319), M331 (= M325), L332 (= L326), A333 (= A327), H334 (= H328), Y364 (= Y358)
binding nicotinamide-adenine-dinucleotide: I189 (= I187), G190 (= G188), E213 (= E211), F214 (≠ A212), K246 (= K244), V283 (= V277)

1jehA Crystal structure of yeast e3, lipoamide dehydrogenase (see paper)
46% identity, 99% coverage: 1:471/478 of query aligns to 2:477/478 of 1jehA

query
sites
1jehA

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A

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Y

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x
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H

active site: L40 (= L45), C44 (= C49), C49 (= C54), S52 (= S57), I193 (≠ V191), E197 (= E195), T349 (≠ G343), H455 (≠ F449), H457 (= H451), E462 (= E456)
binding flavin-adenine dinucleotide: I11 (= I10), G14 (= G13), P15 (= P14), A16 (≠ G15), V34 (= V33), E35 (= E34), K36 (≠ Q41), R37 (≠ K42), G42 (= G47), T43 (= T48), C44 (= C49), G48 (= G53), C49 (= C54), K53 (= K58), G118 (= G122), T153 (≠ V151), G154 (= G152), I194 (= I192), R285 (= R279), Y288 (≠ N282), L292 (≠ V286), G324 (= G318), D325 (= D319), M331 (= M325), L332 (= L326), A333 (= A327), H334 (= H328)

P09622 Dihydrolipoyl dehydrogenase, mitochondrial; Dihydrolipoamide dehydrogenase; Glycine cleavage system L protein; EC 1.8.1.4 from Homo sapiens (Human) (see 14 papers)
46% identity, 96% coverage: 6:464/478 of query aligns to 43:500/509 of P09622

query
sites
P09622

D

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C

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A

71:80 (vs. 34:49, 38% identical) binding FAD
K72 (≠ Q41) to E: in DLDD; reduced dihydrolipoyl dehydrogenase activity; no effect on interaction with PDHX; dbSNP:rs121964987
K89 (= K58) binding FAD; mutation to E: Abolishes dihydrolipoyl dehydrogenase activity. Does not affect interaction with PDHX.
K104 (= K72) to T: in dbSNP:rs1130477
G154 (= G122) binding FAD
TGS 183:185 (≠ VGS 151:153) binding FAD
220:227 (vs. 188:195, 88% identical) binding NAD(+)
E243 (= E211) binding NAD(+)
V278 (= V245) binding NAD(+)
G314 (= G278) binding NAD(+)
D355 (= D319) binding FAD
MLAH 361:364 (= MLAH 325:328) binding FAD
E375 (= E339) to K: in DLDD; loss of enzyme activity; abolished interaction with PDHX; dbSNP:rs121964992
H383 (= H347) mutation to A: Reduces dihydrolipoyl dehydrogenase activity.; mutation to L: Reduces dihydrolipoyl dehydrogenase activity.
D448 (= D412) Important for interaction with PDHX and activity of multienzyme pyruvate dehydrogenase complex; mutation to A: Reduces interaction with PDHX. Inhibits multienzyme pyruvate dehydrogenase complex activity. Does not affect dihydrolipoyl dehydrogenase activity.; mutation to N: Does not affect dihydrolipoyl dehydrogenase activity.
E466 (≠ Q430) mutation to A: Decreases dehydrogenase activity. Loss of proteolytic activity.
Y473 (≠ T437) Important for interaction with PDHX and activity of multienzyme pyruvate dehydrogenase complex; mutation to A: Reduces interaction with PDHX. Inhibits multienzyme pyruvate dehydrogenase complex activity. Does not affect dihydrolipoyl dehydrogenase activity.; mutation to F: Does not affect dihydrolipoyl dehydrogenase activity.; mutation to H: Reduces interaction with PDHX. Inhibits multienzyme pyruvate dehydrogenase complex activity. Does not affect dihydrolipoyl dehydrogenase activity.
D479 (= D443) to V: in DLDD; reduced dehydrogenase activity; increased proteolytic activity; dbSNP:rs397514649
R482 (= R446) to G: in DLDD; reduced enzyme activity; dbSNP:rs397514650; mutation to A: Does not affect dihydrolipoyl dehydrogenase activity.; mutation to M: Does not affect interaction with PDHX.
H485 (≠ F449) mutation to A: Loss of dehydrogenase activity. Increases proteolytic activity.
P488 (= P452) to L: in DLDD; no effect on interaction with PDHX; dbSNP:rs121964988
S491 (= S455) mutation to A: Loss of proteolytic activity. Does not affect dehydrogenase activity.
E492 (= E456) mutation to Q: Reduces dihydrolipoyl dehydrogenase activity. Does not affect interaction with PDHX.
R495 (≠ H459) to G: in DLDD; loss of enzyme activity; reduced interaction with PDHX; dbSNP:rs121964989

Sites not aligning to the query:

505 K→M: Reduces dihydrolipoyl dehydrogenase activity. Does not affect interaction with PDHX.

Query Sequence

>WP_028487951.1 NCBI__GCF_000621325.1:WP_028487951.1
MTDKYDVIVIGAGPGGYVAAIRCAQLGLKTACVEEWINKQQKPALGGTCLNVGCIPSKAL
LESSERFEEIAKHNADHGITVDGLQIDVAKMVARKDKIVNQLTGGIEQLFKANGITWLQG
RGKLLAGKQVEVTAHDGTVATHAADNVIIAVGSTPIELPIAKWLDTRIVDSAGALDWETV
PEKLGVIGAGVIGLEMGSVWRRLGSEVVVIEAMDDFLGAADRDVAKSAQMQFKKQGLDIR
LSSKVAKVEAGDNGITVTYNDPKGEQTLLVDRLIVAVGRKSNTAGVLADDCGVQLDERGR
VVIDGHLQTAVPGVYAIGDCVVGPMLAHKASEEGVLVAEQIVGQKPHINYDAIPWVIYTH
PEIAWVGKTEAELKAAGVEYNVGSFPFAANGRAKAMDQADGLVKVLADANTDRILGVHFV
GPLASELVGQAVIAIETECSAEDLARMTFAHPTVSEAIHEAMLAVDGRALHAVGKKRK

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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