SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing 3606773 Dshi_0204 acyl-CoA dehydrogenase domain protein (RefSeq) 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)

6es9A Methylsuccinyl-coa dehydrogenase of paracoccus denitrificans with bound flavin adenine dinucleotide (see paper)
73% identity, 95% coverage: 30:563/564 of query aligns to 18:544/545 of 6es9A

query
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active site: F281 (= F299), T282 (= T300), A408 (= A427), R541 (= R560)
binding coenzyme a: R75 (≠ T87), F467 (= F486), W470 (≠ F489)
binding flavin-adenine dinucleotide: Q50 (= Q62), A279 (= A297), V280 (= V298), F281 (= F299), T282 (= T300), G287 (= G305), S288 (= S306), W312 (= W331), I313 (= I332), T314 (= T333), R370 (= R389), E374 (= E393), R434 (= R453), Q436 (= Q455), F437 (= F456), L441 (= L460), F444 (= F463), R446 (= R465), V447 (= V466), Q502 (= Q521), I503 (= I522), G505 (= G524), G506 (= G525), F509 (= F528), I527 (= I546), F528 (= F547), A531 (= A550), E533 (= E552), I534 (= I553)

4iv6B X-ray crystal structure of an isovaleryl-coa dehydrogenase from mycobacterium smegmatis (see paper)
39% identity, 68% coverage: 179:563/564 of query aligns to 2:376/383 of 4iv6B

query
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4iv6B

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active site: L121 (≠ F299), T122 (= T300), G240 (≠ A427), E361 (= E548), K373 (≠ R560)
binding dihydroflavine-adenine dinucleotide: M119 (≠ A297), A120 (≠ V298), L121 (≠ F299), T122 (= T300), G126 (≠ T304), G127 (= G305), S128 (= S306), W152 (= W331), I153 (= I332), S154 (≠ T333), Y201 (= Y388), S206 (≠ E393), R266 (= R453), S268 (≠ Q455), F269 (= F456), I273 (≠ L460), H276 (≠ F463), S278 (≠ R465), V279 (= V466), R334 (≠ Q521), V335 (≠ I522), G337 (= G524), G338 (= G525), Y339 (≠ N526), Y341 (≠ F528), L356 (≠ I543), V359 (≠ I546), G360 (≠ F547), G362 (= G549), T363 (≠ A550), E365 (= E552), I366 (= I553), N369 (≠ Q556)

5ol2C The electron transferring flavoprotein/butyryl-coa dehydrogenase complex from clostridium difficile (see paper)
38% identity, 68% coverage: 182:563/564 of query aligns to 7:377/378 of 5ol2C

query
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5ol2C

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x
T

S

Q

G

F

K

Q

L

L

A

A

M

D

M

M

A

E

V

V

E

K

I

V

M

Q

V

A

A

A

R

R

Q

H

L

L

T

V

Y

Y

F

Q

S

A

A

A

F

I

E

N

K

K

D

D

E

L

G

G

R

K

R

P

C

Y

D

G

V

V

E

E

A

A

G

A

M

M

A

A

K

K

L

L

L

F

G

A

A

A

R

E

V

T

A

A

W

M

A

E

A

V

A

T

D

T

N

K

G

A

L

V

Q
|
Q

I
x
L

H
|
H

G
|
G

N
x
Y

G

G

F

Y

A
x
T

L

R

E
x
D

Y
|
Y

G

P

I

V

S

E

R

R

I

M

L

M

C

R

D

D

A

A

R

K

I
|
I

L

T

N

E

I
|
I

F
x
Y

E
|
E

G
|
G

A
x
T

A

S

E
|
E

I
x
V

Q

Q

A

R

Q

M

V

V

I

I

A

S

R
x
G

R

K

L

L

active site: L124 (≠ F299), T125 (= T300), G241 (≠ A427), G374 (≠ R560)
binding calcium ion: E29 (= E204), E33 (≠ D209)
binding coenzyme a persulfide: T125 (= T300), T131 (≠ S306), S134 (≠ G309), F231 (= F417), M235 (= M421), L238 (≠ F424), R242 (= R428), E362 (= E548), G363 (= G549), V367 (≠ I553)
binding flavin-adenine dinucleotide: F122 (≠ A297), L124 (≠ F299), T125 (= T300), P127 (= P302), G130 (= G305), T131 (≠ S306), F155 (≠ W331), F155 (≠ W331), I156 (= I332), T157 (= T333), T208 (≠ E393), R267 (= R453), Q269 (= Q455), F270 (= F456), L274 (= L460), F277 (= F463), T280 (≠ V466), Q335 (= Q521), L336 (≠ I522), H337 (= H523), G338 (= G524), G339 (= G525), Y340 (≠ N526), Y340 (≠ N526), T343 (≠ A529), D345 (≠ E531), Y346 (= Y532), I357 (= I543), I360 (= I546), Y361 (≠ F547), G363 (= G549), T364 (≠ A550), E366 (= E552)

1ukwB Crystal structure of medium-chain acyl-coa dehydrogenase from thermus thermophilus hb8
35% identity, 68% coverage: 179:563/564 of query aligns to 5:377/379 of 1ukwB

query
sites
1ukwB

L

L

D

T

D

E

E

E

L

Q

E

R

M

Q

I

L

R

Q

E

A

Q

L

F

A

R

R

F

F

S

A

V

K

D

E

K

V

V

I

E

L

P

P

H

V

A

A

H

Q

E

E

W

Y

H

D

L

E

K

K

D

E

E

E

L

-

I

V

P

P

M

W

E

P

I

V

I

I

E

E

E

K

L

L

A

H

E

E

M

V

G

G

V

L

F

L

G

N

L

A

T

I

I

I

P

P

E

E

Y

Y

G

G

F

M

G

G

L

L

S

K

K

M

A

L

S

D

M

E

C

V

V

I

V

V

S

G

E

E

L

L

S

A

R

Y

G

A

Y

C

I

M

G

G

V

I

G

Y

S

T

L

I

G

P

T

M

R

A

S

S

E

D

I

L

A

G

A

I

E

T

L

P

I

V

I

L

C

L

G

A

G

G

T

T

E

E

Q

Q

K

K

Q

E

K

R

W

F

L

L

P

R

R

P

L

L

A

T

S

E

A

K

E

P

T

A

L

L

P

A

T

A

A
x
F

V

A

F
x
L

T
x
S

E

E

P

P

N

G

T

N

G
|
G

S
|
S

D

D

L

A

G

A

A

A

L

L

R

K

T

T

R

R

A

A

V

I

Q

R

D

-

E

-

N

Q

G

G

D
|
D

-
x
H

W

Y

K

V

V

L

T

N

G

G

N

T

K

K

T

M

W
|
W

I
|
I

T
x
S

H

N

A

G

R

E

T

A

H

E

V

W

M

V

T

V

L

V

L

F

A

A

R

T

T

V

K

N

P

P

D

E

T

L

T

R

D

-

H

H

R

K

G

G

L

V

S

V

M

A

F

L

L

V

A

V

E

E

K

R

-

G

T

T

P

P

G

G

T

-

D

-

E

-

A

-

P

-

F

F

P

K

T

A

E

I

G

K

M

I

T

H

G

G

G
x
K

E

-

I

-

E

-

V

-

L

M

G

G

Y

Q

R

R

G

A

M

S

K

G

E
x
T

Y

Y

E

E

L

L

A

V

F

F

D

E

N

D

F

V

H

K

V

V

K

P

G

V

E

E

N

N

L

R

L

L

G

G

G

-

E

E

G

G

K

E

G

G

F

F

K

K

Q

I

L

A

M

M

E

Q

T

T

F

L

E

N

S

K

A
x
T

R

R

I

I

Q

P

T

V

A

A

R

G

A

S

I

V

G

G

V

V

A

A

Q

R

S

R

A

A

L

L

D

D

V

E

S

A

M

R

Q

K

Y

Y

A

A

I

K

D

E

R

R

K

E

Q

A

F

F

G

G

K

E

S

P

L

I

I

A

N

N

F

F

P

Q

R

A

V

I

S

Q

G

F

K

K

L

L

A

V

M

D

M

M

A

L

V

I

E

G

I

I

M

E

V

T

A

A

R

R

Q

M

L

Y

T

T

Y

Y

F

Y

S

A

A

A

F

W

E

L

K

A

D

D

E

Q

G

G

R

L

R

P

C

H

D

A

V

H

E

A

A

S

G

A

M

I

A

A

K

K

L

A

L

Y

G

A

A

S

R

E

V

I

A

A

W

F

A

E

A

A

D

N

N

Q

G

A

L

I

Q

Q

I

I

H

H

G

G

N

Y

G

G

F

Y

A

V

L

R

E

E

Y

F

G

P

I

V

S

E

R

K

I

L

L

L

C

R

D

D

A

V

R

K

I
x
L

L

N

N

Q

I
|
I

F
x
Y

E
|
E

G

G

A
x
T

A

N

E
|
E

I

I

Q

Q

A

R

Q
x
L

V

I

I

I

A

A

R
|
R

R

H

L

I

L

L

active site: L124 (≠ F299), S125 (≠ T300), T241 (≠ A427), E362 (= E548), R374 (= R560)
binding cobalt (ii) ion: D145 (= D322), H146 (vs. gap)
binding flavin-adenine dinucleotide: F122 (≠ A297), L124 (≠ F299), S125 (≠ T300), G130 (= G305), S131 (= S306), W155 (= W331), I156 (= I332), S157 (≠ T333), K200 (≠ G381), T208 (≠ E393), L357 (≠ I543), I360 (= I546), Y361 (≠ F547), E362 (= E548), T364 (≠ A550), E366 (= E552), L370 (≠ Q556)

1ukwA Crystal structure of medium-chain acyl-coa dehydrogenase from thermus thermophilus hb8
35% identity, 68% coverage: 179:563/564 of query aligns to 5:377/379 of 1ukwA

query
sites
1ukwA

L

L

D

T

D

E

E

E

L

Q

E

R

M

Q

I

L

R

Q

E

A

Q

L

F

A

R

R

F

F

S

A

V

K

D

E

K

V

V

I

E

L

P

P

H

V

A

A

H

Q

E

E

W

Y

H

D

L

E

K

K

D

E

E

E

L

-

I

V

P

P

M

W

E

P

I

V

I

I

E

E

E

K

L

L

A

H

E

E

M

V

G

G

V

L

F

L

G

N

L

A

T

I

I

I

P

P

E

E

Y

Y

G

G

F

M

G

G

L

L

S

K

K

M

A

L

S

D

M

E

C

V

V

I

V

V

S

G

E

E

L

L

S

A

R

Y

G

A

Y

C

I

M

G

G

V

I

G

Y

S

T

L

I

G

P

T

M

R

A

S

S

E

D

I

L

A

G

A

I

E

T

L

P

I

V

I

L

C

L

G

A

G

G

T

T

E

E

Q

Q

K

K

Q

E

K

R

W

F

L

L

P

R

R

P

L

L

A

T

S

E

A

K

E

P

T

A

L

L

P

A

T

A

A
x
F

V

A

F
x
L

T
x
S

E

E

P

P

N

G

T

N

G
|
G

S
|
S

D

D

L

A

G

A

A

A

L

L

R

K

T

T

R

R

A

A

V

I

Q

R

D

-

E

-

N

Q

G

G

D

D

-

H

W

Y

K

V

V

L

T

N

G

G

N

T

K

K

T

M

W
|
W

I
|
I

T
x
S

H

N

A

G

R

E

T

A

H

E

V

W

M

V

T

V

L

V

L

F

A

A

R

T

T

V

K

N

P

P

D

E

T

L

T

R

D

-

H

H

R

K

G

G

L

V

S

V

M

A

F

L

L

V

A

V

E

E

K

R

-

G

T

T

P

P

G

G

T

-

D

-

E

-

A

-

P

-

F

F

P

K

T

A

E

I

G

K

M

I

T

H

G

G

G
x
K

E

-

I

-

E

-

V

-

L

M

G

G

Y

Q

R

R

G

A

M

S

K

G

E
x
T

Y

Y

E

E

L

L

A

V

F

F

D

E

N

D

F

V

H

K

V

V

K

P

G

V

E

E

N

N

L

R

L

L

G

G

G

-

E

E

G

G

K

E

G

G

F

F

K

K

Q

I

L

A

M

M

E

Q

T

T

F

L

E

N

S

K

A
x
T

R

R

I

I

Q

P

T

V

A

A

R

G

A

S

I

V

G

G

V

V

A

A

Q

R

S

R

A

A

L

L

D

D

V

E

S

A

M

R

Q

K

Y

Y

A

A

I

K

D

E

R

R

K

E

Q

A

F

F

G

G

K

E

S

P

L

I

I

A

N

N

F

F

P

Q

R

A

V

I

S

Q

G

F

K

K

L

L

A

V

M

D

M

M

A

L

V

I

E

G

I

I

M

E

V

T

A

A

R

R

Q

M

L

Y

T

T

Y

Y

F

Y

S

A

A

A

F

W

E

L

K

A

D

D

E

Q

G

G

R

L

R

P

C

H

D

A

V

H

E

A

A

S

G

A

M

I

A

A

K

K

L

A

L

Y

G

A

A

S

R

E

V

I

A

A

W

F

A

E

A

A

D

N

N

Q

G

A

L

I

Q

Q

I

I

H

H

G

G

N

Y

G

G

F

Y

A

V

L

R

E

E

Y

F

G

P

I

V

S

E

R

K

I

L

L

L

C

R

D

D

A

V

R

K

I
x
L

L

N

N

Q

I
|
I

F
x
Y

E
|
E

G

G

A
x
T

A

N

E
|
E

I

I

Q

Q

A

R

Q
x
L

V

I

I

I

A

A

R
|
R

R

H

L

I

L

L

active site: L124 (≠ F299), S125 (≠ T300), T241 (≠ A427), E362 (= E548), R374 (= R560)
binding flavin-adenine dinucleotide: F122 (≠ A297), L124 (≠ F299), S125 (≠ T300), G130 (= G305), S131 (= S306), W155 (= W331), I156 (= I332), S157 (≠ T333), K200 (≠ G381), T208 (≠ E393), L357 (≠ I543), I360 (= I546), Y361 (≠ F547), E362 (= E548), T364 (≠ A550), E366 (= E552), L370 (≠ Q556)

5lnxD Crystal structure of mmgc, an acyl-coa dehydrogenase from bacillus subtilis.
37% identity, 67% coverage: 185:564/564 of query aligns to 8:374/374 of 5lnxD

query
sites
5lnxD

M

M

I

M

R

R

E

K

Q

M

F

V

R

R

R

D

F

F

S

A

V

R

D

K

K

E

V

I

E

A

P

P

H

A

A

A

H

E

E

I

W

M

H

E

L

K

K

T

D

D

E

E

L

F

I

-

P

P

M

F

E

Q

I

L

I

I

E

K

L

M

A

G

E

K

M

H

G

G

V

L

F

M

G

G

L

I

T

P

I

V

P

P

E

E

E

Q

Y

Y

G

G

F

A

G

G

L

A

S

D

K

V

A

V

S

S

M

Y

C

I

V

L

V

A

S

I

E

H

E

E

L

I

S

S

R

R

G

I

Y

S

I

A

G

A

V

V

G

G

S

V

-

I

L

L

G

S

T

V

R

H

S

T

E

S

I

V

A

G

A

T

E

N

L

P

I

I

I

L

C

Y

G

F

G

G

T

N

E

E

Q

Q

K

K

Q

M

K

K

W

Y

L

I

P

P

R

N

L

L

A

A

S

S

A

G

E

D

T

H

L

L

P

G

T

A

A
x
F

V

A

F
x
L

T
|
T

E

E

P

P

N

H

T

S

G
|
G

S
|
S

D

D

L

A

G

G

A

S

L

L

R

R

T

T

R

T

A

A

V

I

Q

K

D

-

E

K

N

N

G

G

D

K

W

Y

K

L

V

L

T

N

G

G

N

S

K

K

T

I

W
x
F

I
|
I

T
|
T

H

N

A

G

R

A

T

A

H

D

V

I

M

Y

T

I

L

T

L

F

A

A

R

L

T

T

K

A

P

P

D

D

T

Q

T

G

D

R

H

H

R

-

G

G

L

I

S

S

M

A

F

F

L

I

A

V

E

E

K

K

T

N

P

-

G

-

T

-

D

-

E

-

A

-

P

-

F

-

P

-

T

T

E

P

G

G

M

F

T

T

G

V

G

G

E

K

I

K

E

E

-

R

V

K

L

L

G

G

Y

L

R

Y

G

G

M

S

K

N

E

T

Y

T

E

E

L

L

A

I

F

F

D

D

N

N

F

A

H

E

V

V

K

P

G

E

E

A

N

N

L

L

G

G

G

-

E

K

E

E

G

G

K

D

G

G

F

F

K

H

Q

I

L

A

M

M

E

A

T

N

F

L

E

N

S

V

A
x
G

R

R

I

I

Q

G

T

I

A

A

R

Q

A

A

I

L

G

G

V

I

A

A

Q

E

S

A

A

A

L

L

D

E

V

H

S

A

M

V

Q

D

Y

Y

A

A

I

K

D

Q

R
|
R

K

V

Q
|
Q

F
|
F

G

G

K

R

S

P

L
x
I

I

A

N

A

F
x
N

P

Q

R

G

V
x
I

S

S

G

F

K

K

L

L

A

A

M

D

M

M

A

A

V

T

E

R

I

A

M

E

V

A

A

A

R

R

Q

H

L

L

T

V

Y

Y

F

H

S

A

A

A

F

-

E

D

K

L

D

H

E

N

G

R

R

L

R

N

C

C

D

G

V

K

E

E

A

A

G

S

M

M

A

A

K

K

L

Q

L

F

G

A

A

S

R

D

V

A

A

A

W

V

A

K

A

A

A

L

D

D

N

-

G

A

L

V

Q
|
Q

I
|
I

H

Y

G
|
G

N
x
Y

G

G

F

Y

A

M

L

K

E

D

Y

Y

G

P

I

V

S

E

R

R

I

L

L

L

C

R

D

D

A

A

R

K

I

V

L

T

N

Q

I

I

F
x
Y

E
|
E

G

G

A
x
T

A

N

E
|
E

I

I

Q

Q

A

R

Q

L

V

I

I

I

A

S

R
x
K

R

Y

L

L

G

G

active site: L122 (≠ F299), T123 (= T300), G239 (≠ A427), E358 (= E548), K370 (≠ R560)
binding flavin-adenine dinucleotide: F120 (≠ A297), L122 (≠ F299), T123 (= T300), G128 (= G305), S129 (= S306), F153 (≠ W331), I154 (= I332), T155 (= T333), R265 (= R453), Q267 (= Q455), F268 (= F456), I272 (≠ L460), N275 (≠ F463), I278 (≠ V466), Q331 (= Q521), I332 (= I522), G334 (= G524), G335 (= G525), Y336 (≠ N526), Y357 (≠ F547), T360 (≠ A550), E362 (= E552)

7w0jE Acyl-coa dehydrogenase, tfu_1647
34% identity, 68% coverage: 181:563/564 of query aligns to 9:381/382 of 7w0jE

query
sites
7w0jE

D

E

E

E

L

H

E

E

M

A

I

L

R

R

E

E

Q

A

F

I

R

R

R

S

F

V

S

A

V

E

D

D

K

K

V

I

E

A

P

P

H

H

A

A

H

A

E

D

W

V

H

D

L

E

K

Q

D

S

E

R

L

F

I

-

P

P

M

Q

E

E

I

A

I

Y

E

E

E

A

L

L

A

R

E

A

M

S

G

D

V

F

F

H

G

A

L

P

T

H

I

V

P

A

E

E

Y

Y

G

G

F

V

G

G

L

A

S

D

K

A

A

L

S

A

M

T

C

C

V

I

V

V

S

I

E

E

L

I

S

A

R

R

G

V

Y

C

I

A

G

S

V

S

G

S

S

L

L

I

G

P

T

A

R

V

S

N

E

K

I

L

A

G

A

S

E

M

L

P

I

L

I

I

C

L

G

S

G

G

T

S

E

D

E

E

Q

V

K

K

Q

Q

K

R

W

Y

L

L

P

P

R

E

L

L

A

A

S

S

A

G

E

E

T

A

L

M

P

F

T

S

A

Y

V

G

F

L

T
x
S

E

E

P

R

N

E

T

A

G

G

S
|
S

D

D

L

T

G

A

A

S

L

M

R

R

T

T

R

R

A

A

V

V

Q

R

D

D

E

G

N

D

G

-

D

D

W

W

K

I

V

L

T

N

G

G

N

Q

K

K

T

S

W
|
W

I

I

T
|
T

H

N

A

A

A

G

R

I

T

S

H

K

V

Y

M

Y

T

T

L

V

L

M

A

A

R

V

T

T

K

D

P

P

D

D

T

G

T

P

D

R

H

G

R

R

G

N

L

I

S

S

M

A

F

F

L

V

A

V

E

H

K

-

T

-

P

-

G

-

T

-

D

-

E

-

A

-

P

-

F

I

P

D

T

D

E

P

G

G

M

F

T

S

G

F

G

G

E

E

I

P

E

E

-

R

V

K

L

L

G

G

Y

I

R

K

G

G

M

S

K

P

E

T

Y

R

E

E

L

L

A

I

F

F

D

D

N

N

F

V

H

R

V

I

K

P

G

G

E

D

N

R

L

L

L

V

G

-

G

G

E

K

E

V

G

G

K

E

G

G

F

L

K

R

Q

T

L

A

M

L

E

R

T

T

F

L

E

D

S

H

A

T

R

R

I

V

Q

T

T

I

A

G

A

A

R

Q

A

A

I

V

G

G

V

I

A

A

Q

Q

S

G

A

A

L

L

D

D

V

Y

S

A

M

L

Q

G

Y

Y

A

V

I

K

D

E

R
|
R

K

K

Q
|
Q

F
|
F

G

G

K

K

S

A

L
x
I

I

A

N

D

F
|
F

P

Q

R

G

V
x
I

S

Q

G

F

K

M

L

L

A

A

M

D

M

M

A

A

V

M

E

K

I

L

M

E

V

A

A

A

R

R

Q

Q

L

M

T

V

Y

Y

F

V

S

A

A

A

F

-

E

A

K

K

D

S

E

E

G

R

R

D

C

A

D

D

V

L

E

S

-

F

-

Y

A

G

G

A

M

A

A

A

K

K

L

C

L

F

G

A

A

S

R

D

V

V

A

A

W

M

A

E

A

I

A

T

D

T

N

D

G

A

L

V

Q
|
Q

I
x
L

H

L

G
|
G

N

Y

G

G

F

Y

A

T

L

R

E

D

Y

Y

G

P

I

V

S

E

R

R

I

M

L

M

C

R

D

D

A

A

R

K

I

I

L

T

N

Q

I
|
I

F
x
Y

E
|
E

G

G

A
x
T

A

N

E
x
Q

I
|
I

Q

Q

A

R

Q

V

V

V

I

M

A

A

R

R

R

Q

L

L

binding [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4S)-5-azanyl-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate: S127 (≠ T300), S133 (= S306), W157 (= W331), T159 (= T333), R270 (= R453), Q272 (= Q455), F273 (= F456), I277 (≠ L460), F280 (= F463), I283 (≠ V466), Q339 (= Q521), L340 (≠ I522), G342 (= G524), G343 (= G525), I364 (= I546), Y365 (≠ F547), E366 (= E548), T368 (≠ A550), Q370 (≠ E552), I371 (= I553)

4n5fA Crystal structure of a putative acyl-coa dehydrogenase with bound fadh2 from burkholderia cenocepacia j2315
34% identity, 68% coverage: 181:562/564 of query aligns to 8:378/378 of 4n5fA

query
sites
4n5fA

D

E

E

D

L

Q

E

R

M

M

I

I

R

R

E

D

Q

A

F

A

R

R

R

A

F

F

S

A

V

T

D

E

K

M

V

L

E

A

P

P

H

N

A

A

H

A

E

Q

W

W

H

D

L

-

K

H

D

D

E

A

L

H

I

L

P

P

M

D

E

A

I

I

I

V

E

A

E

Q

L

L

A

G

E

E

M

L

G

G

V

L

F

L

G

G

L

M

T

I

I

V

P

P

E

Q

E

E

Y

L

G

G

F

S

G

Y

L

T

S

D

K

Y

A

V

S

A

M

Y

C

A

V

L

V

A

S

M

E

E

L

V

S

A

R

A

G

G

Y

D

I

A

G

A

V

C

G

A

S

T

L

M

-

M

G

S

T

V

R

H

S

N

E

S

I

V

A

G

A

C

E

G

L

P

I

I

I

L

C

G

G

F

G

G

T

T

E

P

E

A

Q

Q

K

K

Q

D

K

R

W

W

L

L

P

A

R

D

L

M

A

A

S

A

A

G

E

R

T

V

L

I

P

G

T

A

A
x
F

V

C

F
x
L

T
|
T

E

E

P

P

N

H

T

A

G
|
G

S
|
S

D

E

L

A

G

N

A

N

L

L

R

R

T

T

R

R

A

A

V

-

Q

E

D

L

E

R

N

D

G

G

D

Q

W

W

K

V

V

L

T

N

G

G

N

A

K

K

T

Q

W
x
F

I
x
V

T
|
T

H

N

A

G

A

Q

R

R

T

A

H

G

V

V

M

A

T

I

L

V

L

F

A

A

R

M

T

T

K

D

P

P

D

E

T

A

T

G

D

K

H

-

R

R

G

G

L

I

S

S

M

A

F

F

L

L

A

V

E

-

K

-

T

-

P

-

G

-

T

-

D

-

E

-

A

-

P

P

F

T

P

D

T

T

E

P

G

G

M

F

T

I

G

V

G

G

E

K

I

P

E

E

V

K

-

K

L

M

G

G

Y

I

R

R

G

A

M

S

K

D

E
x
T

Y

C

E

P

L

I

A

T

F

F

D

E

N

N

F

C

H

A

V

I

K

P

G

E

E

D

N

N

L

L

G

G

G

-

E

N

E

R

G

G

K

E

G

G

F

L

K

K

Q

I

L

A

M

L

E

S

T

N

F

L

E

E

S

G

A
x
G

R

R

I

I

Q

G

T

I

A

A

R

Q

A

A

I

L

G

G

V

I

A

A

Q

R

S

A

A

A

L

F

D

D

V

K

S

A

M

R

Q

R

Y

Y

A

A

I

G

D

E

R

R

K

V

Q

Q

F

F

G

G

K

K

S

P

L

I

I

A

N

E

F

H

P

Q

R

A

V

I

S

Q

G

Q

K

K

L

L

A

A

M

D

M

M

A

A

V

V

E

Q

I

I

M

N

V

A

A

A

R

R

Q

L

L

L

T

V

Y

H

F

H

S

A

A

A

F

K

E

L

K

R

D

T

E

A

G

G

R

L

R

P

C

C

D

L

V

S

E

E

A

A

G

S

M

Q

A

A

K

K

L

L

L

F

G

A

A

S

R

E

V

M

A

A

W

E

A

R

A

V

A

C

D

S

N

D

G

A

L

I

Q

Q

I

I

H

H

G

G

N

Y

G

G

F

Y

A

L

L

V

E

D

Y

Y

G

E

I

V

S

E

R

R

I

H

L

Y

C

R

D

D

A

A

R

R

I
|
I

L

T

N

Q

I

I

F
x
Y

E
|
E

G

G

A
x
T

A

S

E
|
E

I

V

Q

Q

A

R

Q
x
M

V

V

I

I

A

A

R
|
R

R

Q

L

L

active site: L126 (≠ F299), T127 (= T300), G243 (≠ A427), E364 (= E548), R376 (= R560)
binding dihydroflavine-adenine dinucleotide: F124 (≠ A297), L126 (≠ F299), T127 (= T300), G132 (= G305), S133 (= S306), F157 (≠ W331), V158 (≠ I332), T159 (= T333), T210 (≠ E393), I359 (= I543), Y363 (≠ F547), T366 (≠ A550), E368 (= E552), M372 (≠ Q556)

P41367 Medium-chain specific acyl-CoA dehydrogenase, mitochondrial; MCAD; EC 1.3.8.7 from Sus scrofa (Pig) (see 2 papers)
34% identity, 69% coverage: 177:564/564 of query aligns to 35:417/421 of P41367

query
sites
P41367

T

S

G

G

L

F

D

S

D

F

E

E

L

L

E

T

M

E

I

Q

R

Q

E

K

Q

E

F

F

-

Q

-

A

-

T

-

A

R

R

R

K

F

F

S

A

V

R

D

E

K

E

V

I

E

I

P

P

H

V

A

A

H

A

E

E

W

Y

H

D

L

R

K

T

D

G

E

E

L

Y

I

-

P

P

M

V

E

P

I

L

E

K

E

R

L

A

A

W

E

E

M

L

G

G

V

L

F

M

G

N

L

T

T

H

I

I

P

P

E

E

E

S

Y

F

G

G

F

L

G

G

L

L

S

G

K

I

A

I

S

D

M

S

C

C

V

L

V

I

S

T

E

E

L

L

S

A

R

Y

G

G

Y

C

I

T

G

G

V

V

G

Q

S

T

L

A

G

I

T

E

R

A

S

N

E

T

I

L

A

G

A

Q

E

V

L

P

I

L

I

I

C

I

G

G

T

N

E

Y

E

Q

Q

Q

K

Q

Q

K

K

K

W

Y

L

L

P

G

R

R

L

M

A

T

S

E

A

E

E

P

T

L

L

M

P

C

T

A

A
x
Y

V
x
C

F
x
V

T
|
T

E
|
E

P
|
P

N
x
G

T
x
A

G
|
G

S
|
S

D

D

L

V

G

A

A

G

L

I

R

K

T

T

R

K

A

A

V

-

Q

-

D

E

E

K

N

K

G

G

D

D

-

E

W

Y

K

I

V

I

T

N

G

G

N

Q

K

K

T

M

W
|
W

I
|
I

T
|
T

H

N

A

G

R

K

T

A

H

N

V

W

M

Y

T

F

L

L

A

A

R

R

T

S

K

D

P

P

D

D

-

P

-

K

T

A

T

P

D

A

H
x
S

R

K

G

A

L

F

S

T

M

G

F

F

L

I

A

V

E

E

K

A

T

D

P

-

G

-

T

-

D

-

E

-

A

-

P

-

F

-

P

-

T

T

E

P

G

G

M

V

T

Q

G

I

G

G

E

R

I

K

E

E

V

I

-

N

L

M

G

G

Y

Q

R

R

G

C

M

S

K

D

E

T

Y

R

E

G

L

I

A

V

F

F

D

E

N

D

F

V

H

R

V

V

K

P

G

K

E

E

N

N

L

V

L

L

G

T

G

G

E

E

E

-

G

G

K

A

G

G

F

F

K

K

Q

I

L

A

M

M

E

G

T

T

F

F

E
x
D

S

K

A

T

R
|
R

I

P

Q

P

T

V

A

A

R

G

A

A

I

V

G

G

V

L

A

A

Q

Q

S

R

A

A

L

L

D

D

V

E

S

A

M

T

Q

K

Y

Y

A

A

I

L

D

E

R
|
R

K
|
K

Q
x
T

F

F

G

G

K

K

S

L

L

L

I

A

N

E

F
x
H

P
x
Q

R

G

V

I

S

S

G

F

K

L

L

L

A

A

M

D

M

M

A

A

V

M

E

K

I

V

M

E

V

L

A

A

R

R

Q

L

L

S

T

Y

Y

Q

F

R

S

A

A

A

F

W

E

E

K

I

D

D

E

S

G

G

R

R

R
|
R

C

N

D
x
T

V

Y

E

Y

A

A

G

S

M

I

A

A

K

K

L

A

L

Y

G

A

A

A

R

D

V

I

A

A

W

N

A

Q

A

L

A

A

D

T

N

D

G

A

L

V

Q
|
Q

I
x
V

H
x
F

G
|
G

N

N

G

G

F

F

A

N

L

T

E

E

Y

Y

G

P

I

V

S

E

R

K

I

L

L

M

C

R

D

D

A

A

R

K

I

I

L

Y

N

Q

I

I

F

Y

E
|
E

G
|
G

A
x
T

A
|
A

E
x
Q

I

I

Q

Q

A

R

Q

I

V

I

I

I

A

A

R

R

R

E

L

H

L

I

G

G

158:167 (vs. 297:306, 50% identical) binding in other chain
S167 (= S306) binding
WIT 191:193 (= WIT 331:333) binding in other chain
S216 (≠ H354) binding
D278 (≠ E425) binding
R281 (= R428) binding
RKT 306:308 (≠ RKQ 453:455) binding
HQ 316:317 (≠ FP 463:464) binding in other chain
R349 (= R496) binding
T351 (≠ D498) binding
QVFGG 374:378 (≠ QIHGG 521:525) binding
E401 (= E548) active site, Proton acceptor; binding
GTAQ 402:405 (≠ GAAE 549:552) binding in other chain

3mdeA Crystal structures of medium chain acyl-coa dehydrogenase from pig liver mitochondria with and without substrate (see paper)
34% identity, 69% coverage: 178:564/564 of query aligns to 1:382/385 of 3mdeA

query
sites
3mdeA

G

G

L

F

D

S

D

F

E

E

L

L

E

T

M

E

I

Q

R

Q

E

K

Q

E

F

F

-

Q

-

A

-

T

-

A

R

R

R

K

F

F

S

A

V

R

D

E

K

E

V

I

E

I

P

P

H

V

A

A

H

A

E

E

W

Y

H

D

L

R

K

T

D

G

E

E

L

Y

I

-

P

P

M

V

E

P

I

L

E

K

E

R

L

A

A

W

E

E

M

L

G

G

V

L

F

M

G

N

L

T

T

H

I

I

P

P

E

E

E

S

Y

F

G

G

F

L

G

G

L

L

S

G

K

I

A

I

S

D

M

S

C

C

V

L

V

I

S

T

E

E

L

L

S

A

R

Y

G

G

Y

C

I

T

G

G

V

V

G

Q

S
x
T

L

A

G

I

T
x
E

R
x
A

S

N

E

T

I
x
L

A

G

A

Q

E

V

L

P

I

L

I

I

C

I

G

G

T

N

E

Y

E

Q

Q

Q

K

Q

Q

K

K

K

W

Y

L

L

P

G

R

R

L

M

A

T

S

E

A

E

E

P

T

L

L

M

P

C

T

A

A
x
Y

V

C

F
x
V

T
|
T

E

E

P

P

N

G

T

A

G
|
G

S
|
S

D

D

L
x
V

G

A

A

G

L

I

R

K

T

T

R

K

A

A

V

-

Q

-

D

E

E

K

N

K

G

G

D

D

-

E

W

Y

K

I

V

I

T

N

G

G

N

Q

K

K

T

M

W
|
W

I
|
I

T
|
T

H

N

A

G

R

K

T

A

H

N

V

W

M

Y

T

F

L

L

A

A

R

R

T

S

K

D

P

P

D

D

-

P

-

K

T

A

T

P

D

A

H
x
S

R

K

G

A

L

F

S

T

M

G

F

F

L

I

A

V

E

E

K

A

T

D

P

-

G

-

T

-

D

-

E

-

A

-

P

-

F

-

P

-

T

T

E

P

G

G

M

V

T

Q

G

I

G

G

E

R

I

K

E

E

V

I

-

N

L

M

G

G

Y

Q

R

R

G

C

M

S

K

D

E

T

Y

R

E

G

L

I

A

V

F

F

D

E

N

D

F

V

H

R

V

V

K

P

G

K

E

E

N

N

L

V

L

L

G

T

G

G

E

E

E

-

G

G

K

A

G

G

F
|
F

K

K

Q

I

L

A

M
|
M

E

G

T

T

F
|
F

E
x
D

S

K

A
x
T

R

R

I

P

Q

P

T

V

A

A

R

G

A

A

I

V

G

G

V

L

A

A

Q

Q

S

R

A

A

L

L

D

D

V

E

S

A

M

T

Q

K

Y

Y

A

A

I

L

D

E

R
|
R

K

K

Q
x
T

F
|
F

G

G

K

K

S

L

L
|
L

I

A

N

E

F
x
H

P

Q

R

G

V
x
I

S

S

G

F

K

L

L

L

A

A

M

D

M

M

A

A

V

M

E

K

I

V

M

E

V

L

A

A

R

R

Q

L

L

S

T

Y

Y

Q

F

R

S

A

A

A

F

W

E

E

K

I

D

D

E

S

G

G

R

R

R
|
R

C

N

D
x
T

V

Y

E

Y

A

A

G

S

M

I

A

A

K

K

L

A

L

Y

G

A

A

A

R

D

V

I

A

A

W

N

A

Q

A

L

A

A

D

T

N

D

G

A

L

V

Q
|
Q

I
x
V

H

F

G
|
G

N

N

G

G

F

F

A

N

L

T

E

E

Y

Y

G

P

I

V

S

E

R

K

I

L

L

M

C

R

D

D

A

A

R

K

I
|
I

L

Y

N

Q

I
|
I

F
x
Y

E
|
E

G
|
G

A
x
T

A

A

E
x
Q

I
|
I

Q

Q

A

R

Q
x
I

V
x
I

I

I

A

A

R
|
R

R

E

L

H

L

I

G

G

active site: V125 (≠ F299), T126 (= T300), T245 (≠ A427), E366 (= E548), R378 (= R560)
binding octanoyl-coenzyme a: T86 (≠ S260), E89 (≠ T263), A90 (≠ R264), L93 (≠ I267), G131 (= G305), S132 (= S306), V134 (≠ L308), T158 (= T333), S181 (≠ H354), F235 (= F417), M239 (= M421), F242 (= F424), D243 (≠ E425), R314 (= R496), T316 (≠ D498), Y365 (≠ F547), E366 (= E548), G367 (= G549), I375 (≠ V557), R378 (= R560)
binding flavin-adenine dinucleotide: Y123 (≠ A297), V125 (≠ F299), T126 (= T300), G131 (= G305), S132 (= S306), W156 (= W331), I157 (= I332), T158 (= T333), R271 (= R453), T273 (≠ Q455), F274 (= F456), L278 (= L460), H281 (≠ F463), I284 (≠ V466), Q339 (= Q521), V340 (≠ I522), G342 (= G524), G343 (= G525), I361 (= I543), I364 (= I546), Y365 (≠ F547), T368 (≠ A550), Q370 (≠ E552), I371 (= I553), I374 (≠ Q556)

3mddA Crystal structures of medium chain acyl-coa dehydrogenase from pig liver mitochondria with and without substrate (see paper)
34% identity, 69% coverage: 178:564/564 of query aligns to 1:382/385 of 3mddA

query
sites
3mddA

G

G

L

F

D

S

D

F

E

E

L

L

E

T

M

E

I

Q

R

Q

E

K

Q

E

F

F

-

Q

-

A

-

T

-

A

R

R

R

K

F

F

S

A

V

R

D

E

K

E

V

I

E

I

P

P

H

V

A

A

H

A

E

E

W

Y

H

D

L

R

K

T

D

G

E

E

L

Y

I

-

P

P

M

V

E

P

I

L

E

K

E

R

L

A

A

W

E

E

M

L

G

G

V

L

F

M

G

N

L

T

T

H

I

I

P

P

E

E

E

S

Y

F

G

G

F

L

G

G

L

L

S

G

K

I

A

I

S

D

M

S

C

C

V

L

V

I

S

T

E

E

L

L

S

A

R

Y

G

G

Y

C

I

T

G

G

V

V

G

Q

S

T

L

A

G

I

T

E

R

A

S

N

E

T

I

L

A

G