SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_054557393.1 NCBI__GCF_001306415.1:WP_054557393.1 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)

Q16836 Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial; HCDH; Medium and short-chain L-3-hydroxyacyl-coenzyme A dehydrogenase; Short-chain 3-hydroxyacyl-CoA dehydrogenase; EC 1.1.1.35 from Homo sapiens (Human) (see 7 papers)
32% identity, 38% coverage: 5:307/801 of query aligns to 27:312/314 of Q16836

query
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Q16836

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GGGLMG 34:39 (≠ GSGIMG 12:17) binding NAD(+)
A40 (≠ S18) to T: in HADH deficiency; dbSNP:rs137853101
D57 (= D35) binding NAD(+); to E: in HADH deficiency; dbSNP:rs137853102; to G: found in a patient with Reye-like syndrome; does not affect 3-hydroxyacyl-CoA dehydrogenase activity; increases KM value for NADH; does not affect dimerization
S73 (≠ T56) binding CoA
K80 (≠ D64) binding CoA
L86 (= L70) to P: in dbSNP:rs4956145
E122 (= E110) binding NAD(+)
K127 (= K115) binding NAD(+); modified: N6-(2-hydroxyisobutyryl)lysine
S149 (= S137) binding CoA; binding NAD(+)
Q152 (≠ P140) to H: in dbSNP:rs1051519
N173 (= N163) binding NAD(+)
Y226 (≠ S217) to H: found in a patient with Reye-like syndrome; loss of 3-hydroxyacyl-CoA dehydrogenase activity. Does not affect dimerization; dbSNP:rs146036912
P258 (≠ T250) to L: in HHF4; loss of 3-hydroxyacyl-CoA dehydrogenase activity; dbSNP:rs137853103
K305 (= K300) binding NAD(+)

1f0yA L-3-hydroxyacyl-coa dehydrogenase complexed with acetoacetyl-coa and NAD+ (see paper)
31% identity, 38% coverage: 5:307/801 of query aligns to 4:289/291 of 1f0yA

query
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active site: S126 (= S137), H147 (= H160), E159 (= E172), N197 (= N211)
binding acetoacetyl-coenzyme a: S50 (= S65), K57 (≠ S72), S126 (= S137), H147 (= H160), F149 (= F162), N150 (= N163), P151 (= P164), P153 (≠ R166), V154 (≠ Y167), N197 (= N211), P232 (= P246), M233 (≠ S248), L238 (≠ T253)
binding nicotinamide-adenine-dinucleotide: G13 (= G14), L14 (≠ I15), M15 (= M16), D34 (= D35), Q35 (≠ I36), A96 (≠ V107), I97 (≠ V108), E99 (= E110), K104 (= K115), N124 (= N135), S126 (= S137), H147 (= H160), N150 (= N163), V242 (= V257), T246 (= T261), K282 (= K300)

1f17A L-3-hydroxyacyl-coa dehydrogenase complexed with nadh (see paper)
32% identity, 38% coverage: 5:307/801 of query aligns to 4:289/293 of 1f17A

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active site: S126 (= S137), H147 (= H160), E159 (= E172), N197 (= N211)
binding 1,4-dihydronicotinamide adenine dinucleotide: G13 (= G14), L14 (≠ I15), M15 (= M16), D34 (= D35), Q35 (≠ I36), A96 (≠ V107), I97 (≠ V108), E99 (= E110), K104 (= K115), N124 (= N135), S126 (= S137), H147 (= H160)

1f12A L-3-hydroxyacyl-coa dehydrogenase complexed with 3-hydroxybutyryl-coa (see paper)
32% identity, 38% coverage: 5:307/801 of query aligns to 4:289/293 of 1f12A

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A

T

M

G

K

P

L

V

G

I

A

G

G

R

Y

P
|
P

K

-

S
x
M

A

G

T

P

F

F

R

E

T
x
L

V

L

D

D

V

Y

V

V

G

G

L

L

D

D

T

T

L

T

V

K

H

F

V

I

A

V

N

D

G

G

I

W

S

H

E

E

N

M

C

D

K

A

D

E

D

N

E

P

R

L

H

H

E

Q

L

-

F

-

A

P

L

S

P

P

D

S

F

L

I

N

A

K

T

L

M

V

M

A

E

E

N

N

K

K

W

F

L

-

G

G

S

K

K

K

T

T

G

G

Q

E

G

G

F

F

Y

Y

K

K

active site: S126 (= S137), H147 (= H160), E159 (= E172), N197 (= N211)
binding 3-hydroxybutanoyl-coenzyme a: K57 (≠ D64), S126 (= S137), H147 (= H160), F149 (= F162), N150 (= N163), M155 (≠ L168), N197 (= N211), L200 (≠ G214), P232 (= P246), M233 (≠ S248), L238 (≠ T253)

P00348 Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial; HCDH; L-3-hydroxyacyl CoA dehydrogenase; Medium and short-chain L-3-hydroxyacyl-coenzyme A dehydrogenase; Short-chain 3-hydroxyacyl-CoA dehydrogenase; EC 1.1.1.35 from Sus scrofa (Pig) (see paper)
32% identity, 38% coverage: 5:307/801 of query aligns to 27:312/314 of P00348

query
sites
P00348

I

V

N

K

K

H

I

V

A

T

V

V

I

I

G
|
G

S
x
G

G
|
G

I
x
L

M
|
M

G
|
G

S

A

G

G

I

I

A

A

C

Q

H

V

F

A

A

A

N

A

I

T

G

G

V

H

E

T

V

V

L

V

L

L

L

V

D
|
D

I

Q

V

T

P

-

R

E

E

D

L

I

N

L

A

A

K

K

E

S

K

K

A

-

K

K

G

G

L

I

T

-

L

-

D

-

D

E

T

E

T

S

V

L

R

R

N

-

R

K

I

V

V

A

N

K

D

K

S

K

L

F

A

A

A

E

A

-

L

-

K

N

S

P

K

K

P

A

S

G

P

D

V

E

Y

F

H

V

Q

E

K

K

F

T

A

L

N

S

R

S

I

I

T

S

T

T

G

S

N

T

L

-

E

-

D

D

D

A

I

A

A

S

K

V

V

V

A

H

K

S

V

T

D

D

W

L

I

V

E

E

V

A

V

I

V

V

E
|
E

R

N

L

L

D

K

I

V

K
|
K

K

S

Q

E

V

L

F

F

E

K

T

R

L

L

E

D

R

K

H

F

R

A

T

A

P

E

G

H

T

T

L

I

I

F

T

A

S

S

N

N

T

T

S
|
S

G

S

I

L

P

Q

I

I

H

T

F

S

M

L

S

A

E

N

G

A

R

T

S

T

D

R

D

-

F

-

Q

Q

K

D

H

R

F

F

C

A

G

G

T

L

H

H

F

F

N

N

P

P

A

V

R

P

Y

L

L

M

K

K

L

L

F

V

E

E

I

V

P

K

G

T

P

P

K

M

T

T

S

S

P

Q

E

K

V

T

L

L

V

E

F

S

L

L

N

V

G

D

Y

F

G

S

E

K

Q

T

F

-

L

L

G

G

K

K

T

H

S

P

V

V

L

S

A

C

K

K

D

D

T

T

P

P

A

G

F

F

I

I

G

V

N

N

R

R

I

L

G

L

I

V

F

P

S

Y

I

L

Q

I

S

E

L

A

F

V

H

R

A

L

L

Y

K

E

A

R

L

G

G

D

M

A

T

S

V

K

E

E

E

D

V

I

D

D

K

T

L

A

T

M

G

K

P

L

V

G

I

A

G

G

R

Y

P

P

K

-

S

M

A

G

T

P

F

F

R

E

T

L

V

L

D

D

V

Y

V

V

G

G

L

L

D

D

T

T

L

T

V

K

H

F

V

I

A

I

N

D

G

G

I

W

S

H

E

E

N

M

C

-

K

-

D

-

D

D

E

S

R

Q

H

N

E

P

L

L

F

F

-

Q

A

P

L

S

P

P

D

A

F

M

I

N

A

K

T

L

M

V

M

A

E

E

N

N

K

K

W

F

L

-

G

G

S

K

K

K

T

T

G

G

Q

E

G

G

F

F

Y

Y

K

K

GGGLMG 34:39 (≠ GSGIMG 12:17) binding NAD(+)
D57 (= D35) binding NAD(+)
E122 (= E110) binding NAD(+)
K127 (= K115) binding NAD(+)
S149 (= S137) binding NAD(+)

P21177 Fatty acid oxidation complex subunit alpha; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Escherichia coli (strain K12) (see 2 papers)
32% identity, 30% coverage: 81:317/801 of query aligns to 373:601/729 of P21177

query
sites
P21177

K

K

F

L

A

A

N

G

R

V

I

I

T

S

T

T

G

I

N

H

L

P

E

T

D

L

D

D

I

Y

A

A

K

G

V

F

A

D

K

R

V

V

D

D

W

I

I

V

E

E

V

A

V

V

E

E

R

N

L

P

D

K

I

V

K

K

Q

A

V

V

F

L

E

A

T

E

L

T

E

E

R

Q

H

K

R

V

T

R

P

Q

G

D

T

T

L

V

I

L

T

A

S

S

N

N

T

T

S

S

G

T

I

I

P

P

I

I

H

S

F

E

M

L

S

A

E

N

G

A

R

L

S

-

D

-

D

E

F

R

Q

P

K

E

H

N

F

F

C

C

G

G

T

M

H
|
H

F

F

N

N

P

P

A

V

R

H

Y

R

L

M

K

P

L

L

F

V

E

E

I

I

P

R

G

G

P

E

K

K

T

S

S

S

P

D

E

E

V

T

L

I

V

A

F

K

L

V

N

V

G

A

Y

W

G

A

E

S

Q

K

F

-

L

M

G

G

K

K

T

T

S

P

V

I

L

V

A

V

K

N

D

D

T

C

P

P

A

G

F

F

I

F

G

V

N

N

R

R

I

V

G

-

I

L

F

F

S

P

I

Y

Q

F

S

A

L

G

F

F

H

S

A

Q

L

L

K

L

A

R

L

D

G

G

M

A

T

D

V

F

E

R

E

K

V

I

D

D

K

K

L

V

T

M

G

E

P

K

V

Q

I

F

G

G

R

W

P

P

K

M

S

G

A

P

T

A

F

Y

R

-

T

L

V

L

D

D

V

V

G

G

L

I

D

D

T

T

L

A

V

H

H

H

-

A

-

Q

-

A

-

V

V

M

A

A

N

A

G

G

I

F

S

P

E

Q

N

R

C

M

K

Q

D

K

D

D

E

Y

R

R

H

-

E

-

L

-

F

-

A

-

L

-

P

-

D

D

F

A

I

I

A

D

T

A

M

L

M

F

E

D

N

A

K

N

W

R

L

F

G

G

S

Q

K

K

T

N

G

G

Q

L

G

G

F

F

Y

W

K

R

K

Y

S

K

K

E

D

D

A

S

K

K

G

G

K

K

T

P

E

K

H450 (= H160) active site, For 3-hydroxyacyl-CoA dehydrogenase activity; mutation H->A,Q: Almost complete loss of 3-hydroxyacyl-CoA dehydrogenase activity.

Sites not aligning to the query:

116 G→F: Absence of both enoyl-CoA hydratase and 3-hydroxyacyl-CoA epimerase activities. Delta(3)-cis-Delta(2)-trans-enoyl-CoA isomerase is only slightly affected.
322 G→A: 10-fold increase in KM for NADH.

6tnmA E. Coli aerobic trifunctional enzyme subunit-alpha (see paper)
32% identity, 30% coverage: 81:317/801 of query aligns to 373:601/719 of 6tnmA

query
sites
6tnmA

K

K

F

L

A

A

N

G

R

V

I

I

T

S

T

T

G

I

N

H

L

P

E

T

D

L

D

D

I

Y

A

A

K

G

V

F

A

D

K

R

V

V

D

D

W

I

I

V

E

E

V

A

V
|
V

E

E

R

N

L

P

D

K

I
x
V

K

K

Q

A

V

V

F

L

E

A

T

E

L

T

E

E

R

Q

H

K

R

V

T

R

P

Q

G

D

T

T

L

V

I

L

T

A

S

S

N

N

T

T

S
|
S

G

T

I

I

P

P

I

I

H

S

F

E

M

L

S

A

E

N

G

A

R

L

S

-

D

-

D

E

F

R

Q

P

K

E

H

N

F

F

C

C

G

G

T

M

H
|
H

F

F

N

N

P

P

A

V

R

H

Y

R

L

M

K

P

L

L

F

V

E
|
E

I

I

P

R

G

G

P

E

K

K

T

S

S

S

P

D

E

E

V

T

L

I

V

A

F

K

L

V

N

V

G

A

Y

W

G

A

E

S

Q

K

F

-

L

M

G

G

K

K

T

T

S

P

V

I

L

V

A

V

K

N

D

D

T

C

P

P

A

G

F

F

I

F

G

V

N
|
N

R

R

I

V

G

-

I

L

F

F

S

P

I

Y

Q

F

S

A

L

G

F

F

H

S

A

Q

L

L

K

L

A

R

L

D

G

G

M

A

T

D

V

F

E

R

E

K

V

I

D

D

K

K

L

V

T

M

G

E

P

K

V

Q

I

F

G

G

R

W

P

P

K

M

S

G

A

P

T

A

F

Y

R

-

T

L

V

L

D

D

V

V

G

G

L

I

D

D

T

T

L

A

V

H

H

H

-

A

-

Q

-

A

-

V

V

M

A

A

N

A

G

G

I

F

S

P

E

Q

N

R

C

M

K

Q

D

K

D

D

E

Y

R

R

H

-

E

-

L

-

F

-

A

-

L

-

P

-

D

D

F

A

I

I

A

D

T

A

M

L

M

F

E

D

N

A

K

N

W

R

L

F

G

G

S

Q

K
|
K

T

N

G

G

Q

L

G

G

F

F

Y

W

K

R

K

Y

S

K

K

E

D

D

A

S

K

K

G

G

K

K

T

P

E

K

active site: S429 (= S137), H450 (= H160), E462 (= E172), N500 (= N211)
binding adenosine-5'-triphosphate: V400 (= V108), V401 (= V109), V406 (≠ I114), K584 (= K300)

Sites not aligning to the query:

active site: 68, 73, 116, 119, 138, 139, 147, 271
binding adenosine-5'-triphosphate: 343, 344

6aa8E Crystal structure of (s)-3-hydroxybutyryl-coenzymea dehydrogenase from clostridium acetobutylicum complexed with NAD+ (see paper)
32% identity, 38% coverage: 7:310/801 of query aligns to 2:281/281 of 6aa8E

query
sites
6aa8E

K

K

I

V

A

C

V

V

I
|
I

G

G

S

A

G
|
G

I
x
T

M
|
M

G

G

S

S

G

G

I

I

A

A

C

Q

H

A

F

F

A

A

N

A

I

K

G

G

V

F

E

E

V

V

L

V

L

L

L
x
R

D
|
D

I
|
I

V

K

P

D

R

E

E

F

L

V

N

D

A

-

K

-

E

-

K

-

A

-

K

R

G

G

L

L

T

D

L

F

D

-

T

-

V

-

R

-

N

-

R

-

I

-

V

I

N

N

D

K

S

N

L

L

A

S

A

K

A

L

L

V

K

K

S

K

-

G

K

K

P

I

S

E

P

E

V

A

Y

T

H

K

Q

V

K

E

F

I

A

L

N

T

R

R

I

I

T

S

T

-

G

G

N

T

L

V

E

D

D

L

D

N

I

M

A

A

K

-

V

-

A

A

K

D

V

C

D

D

W

L

I

V

I

I

E

E

V
x
A

V

V

E
|
E

R

R

L

M

D

D

I

I

K
|
K

K

K

Q

Q

V

I

F

F

E

A

T

D

L

L

E

D

R

N

H

I

R

C

T

K

P

P

G

E

T

T

L

I

I

L

T

A

S

S

N
|
N

T

T

S
|
S

G

S

I

L

P

S

I

I

H

T

F

E

M

V

S

A

E

S

G

A

-

T

-

K

R

R

S

P

D

D

D

-

F

-

Q

-

K

-

H

K

F

V

C

I

G

G

T

M

H
|
H

F

F

N

N

P

P

A

A

R

P

Y

V

L

M

K

K

L

L

F

V

E
|
E

I

V

I

I

P

R

G

G

P

I

K

A

T

T

S

S

P

Q

E

E

V

T

L

F

V

D

F

A

L

V

N

K

G

E

Y

T

G

S

E

I

Q

A

F

-

L

I

G

G

K

K

T

D

S

P

V

V

L

E

A

V

K

A

D

E

T

A

P

P

A

G

F

F

I

V

G

V

N
|
N

R

R

I

I

G

L

I

I

F

P

S

M

I

I

Q

N

S

E

L

A

F

V

H

G

A

I

L

L

K

A

A

E

L

G

G

I

M

A

T

S

V

V

E

E

E

D

V

I

D

D

K

K

L

A

T

M

G

K

P

L

V

G

I

A

G

N

R

H

P

P

K

-

S

M

A

G

T

P

F

L

R

E

T

L

V

G

D

D

V

F

V

I

G

G

L

L

D

D

T

I

L

C

V

L

H

A

V

I

A

M

N

D

G

V

I

L

S

Y

E

S

N

E

C

T

K

G

D

D

D

S

E

K

R

Y

H

R

E

P

L

H

F

T

A

L

L

L

P

K

D

K

F

Y

I

V

A

-

T

-

M

-

E

R

N

A

K

G

W

W

L

L

G

G

S

R

K

K

T

S

G

G

Q

K

G

G

F

F

Y

Y

K

D

K

Y

S

S

K

K

active site: S116 (= S137), H137 (= H160), E149 (= E172), N187 (= N211)
binding nicotinamide-adenine-dinucleotide: I6 (= I11), G9 (= G14), T10 (≠ I15), M11 (= M16), R29 (≠ L34), D30 (= D35), I31 (= I36), A86 (≠ V107), A87 (≠ V108), E89 (= E110), K94 (= K115), N114 (= N135), S116 (= S137)

P9WNP7 3-hydroxybutyryl-CoA dehydrogenase; Beta-hydroxybutyryl-CoA dehydrogenase; BHBD; EC 1.1.1.157 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
32% identity, 38% coverage: 1:306/801 of query aligns to 1:284/286 of P9WNP7

query
sites
P9WNP7

M

M

K

S

R

D

H

A

I

I

N

Q

K

R

I

V

A

G

V

V

I

V

G

G

S

A

G

G

I

Q

M

M

G

G

S

S

G

G

I

I

A

A

C

E

H

V

F

S

A

A

N

R

I

A

G

G

V

V

E

E

V

V

L

T

L

V

L

F

D

-

I

-

V

-

P

-

R

-

E

-

L

-

N

-

A

-

K

-

E

E

K

P

A

A

K

E

G

A

L

L

T

I

L

-

D

-

T

T

T

A

V

G

R

R

N

N

R

R

I

I

V

V

N

K

D

-

S

S

L

L

A

E

A

R

A

A

L

V

K

S

S

A

K

-

P

-

S

G

P

K

V

V

Y

T

H

E

Q

R

K

E

F

R

A

D

N

R

R

A

I

L

T

G

T

L

G

L

N

T

L

F

E

T

D

T

D

D

I

L

A

N

K

D

V

L

A

S

K

D

V

R

D

Q

W

L

I

V

I

I

E

E

V

A

V

V

E

E

R

D

L

E

D

A

I

V

K

K

K

S

Q

E

V

I

F

F

E

A

T

E

L

L

E

D

R

R

H

V

R

V

T

T

-

D

P

P

G

D

T

A

L

V

I

L

T

A

S

S

N

N

T

T

S
|
S

G

S

I

I

P

P

I

I

H

-

F

-

M

M

S

K

E

V

G

A

R

A

S

A

D

T

D

K

F

Q

Q

P

K

Q

H

R

F

V

C

L

G

G

T

L

H

H

F

F

N

N

P

P

A

V

R

P

Y

V

L

L

K

P

L

L

F

V

E

E

I

L

I

V

P

R

G

T

P

L

K

V

T

T

S

D

P

E

E

A

V

A

L

A

V

A

F

R

L

T

N

E

G

E

Y

F

G

A

E

S

Q

T

F

V

L

L

G

G

K

K

T

Q

S

V

V

V

L

R

A

C

K

S

D

D

T

R

P

S

A

G

F

F

I

V

G

V

N

N

R

A

I

L

G

L

I

V

F

P

S

Y

I

L

Q

L

S

S

L

A

F

I

H

R

A

M

L

V

K

E

A

A

L

G

G

F

M

A

T

T

V

V

E

E

E

D

V

V

D

D

K

K

L

A

T

V

G

V

P

A

V

G

I

L

G

S

R

H

P

P

K

M

S

-

A

G

T

P

F

L

R

R

T

L

V

S

D

D

V

L

V

V

G

G

L

L

D

D

T

T

L

L

V

K

H

L

V

I

A

A

N

D

G

K

I

M

S

F

E

E

N

E

C

F

K

K

D

-

E

E

R

P

H

H

E

-

L

-

F

Y

A

G

L

P

P

P

D

P

F

L

I

L

A

L

T

R

M

M

M

V

E

E

N

A

K

G

W

Q

L

L

G

G

S

K

K

K

T

S

G

G

Q

R

G

G

F

F

Y

Y

S122 (= S137) mutation to A: Loss of fatty acyl dehydrogenase activity.

1wdlA Fatty acid beta-oxidation multienzyme complex from pseudomonas fragi, form ii (native4) (see paper)
33% identity, 27% coverage: 101:320/801 of query aligns to 394:604/715 of 1wdlA

query
sites
1wdlA

V

V

D

D

W

L

I

V

E

E

V
x
A

V
|
V

V

V

E
|
E

R

N

L

P

D

K

I

V

K

K

K

Q

Q

A

V

V

F

L

E

A

T

E

L

V

E

E

R

N

H

H

R

V

T

R

P

E

G

D

T

A

L

I

I

L

T

A

S

S

N
|
N

T
|
T

S
|
S

G

T

I

I

P

S

I

I

H

S

F

L

M

L

S

A

E

K

G

A

R

L

S

K

D

R

D

-

F

-

Q

P

K

E

H

N

F

F

C

V

G

G

T

M

H
|
H

F

F

N

N

P

P

A

V

R

H

Y

M

L

M

K

P

L

L

F

V

E
|
E

I

V

I

I

P

R

G

G

P

E

K

K

T

S

S

S

P

D

E

L

V

A

L

V

V

A

F

T

L

T

N

V

G

A

Y

Y

G

A

E

K

Q

K

F

-

L

M

G

G

K

K

T

N

S

P

V

I

L

V

A

V

K

N

D

D

T

C

P

P

A

G

F

F

I

L

G

V

N
|
N

R

R

I

V

G

-

I

L

F

F

S

P

I

Y

Q

F

S

G

L

G

F

F

H

A

A

K

L

L

K

V

A

S

L

A

G

G

M

V

T

D

V

F

E

V

E

R

V

I

D

D

K

K

L

V

T

M

G

E

P

K

V

-

I

F

G

G

R

W

P

P

K

M

S

G

A

P

T

A

F

Y

R

-

T

L

V

M

D

D

V

V

G

G

L

I

D

D

T

T

L

G

V

H

H

H

-

G

-

R

-

D

-

V

V

M

A

A

N

E

G

G

I

F

S

P

E

D

N

R

C

M

K

K

D

D

E

R

R

R

H

S

E

A

L

I

F

D

A

A

L

L

P

-

D

-

F

-

I

-

A

-

T

-

M

-

M

Y

E

E

N

A

K

K

W

R

L

L

G

G

S

Q

K

K

T

N

G

G

Q

K

G

G

F

F

Y

Y

K

A

K

Y

S

E

K

A

D

D

A

K

K

K

G

G

K

K

T

Q

E

K

I

K

L

L

T

V

active site: S430 (= S137), H451 (= H160), E463 (= E172), N501 (= N211)
binding nicotinamide-adenine-dinucleotide: A400 (≠ V107), V401 (= V108), E403 (= E110), N428 (= N135), T429 (= T136), S430 (= S137)

Sites not aligning to the query:

active site: 69, 89, 93, 117, 120, 139, 140, 147, 148
binding nicotinamide-adenine-dinucleotide: 322, 324, 325, 344, 345

P28793 Fatty acid oxidation complex subunit alpha; EC 4.2.1.17; EC 5.1.2.3; EC 5.3.3.8; EC 1.1.1.35 from Pseudomonas fragi (see paper)
33% identity, 27% coverage: 101:320/801 of query aligns to 394:604/715 of P28793

query
sites
P28793

V

V

D

D

W

L

I

V

E

E

V

A

V
|
V

E
|
E

R

N

L

P

D

K

I

V

K
|
K

K

Q

Q

A

V

V

F

L

E

A

T

E

L

V

E

E

R

N

H

H

R

V

T

R

P

E

G

D

T

A

L

I

I

L

T

A

S

S

N

N

T

T

S
|
S

G

T

I

I

P

S

I

I

H

S

F

L

M

L

S

A

E

K

G

A

R

L

S

K

D

R

D

-

F

-

Q

P

K

E

H

N

F

F

C

V

G

G

T

M

H

H

F

F

N
|
N

P

P

A

V

R

H

Y

M

L

M

K

P

L

L

F

V

E

E

I

V

I

I

P

R

G

G

P

E

K

K

T

S

S

S

P

D

E

L

V

A

L

V

V

A

F

T

L

T

N

V

G

A

Y

Y

G

A

E

K

Q

K

F

-

L

M

G

G

K

K

T

N

S

P

V

I

L

V

A

V

K

N

D

D

T

C

P

P

A

G

F

F

I

L

G

V

N
|
N

R

R

I

V

G

-

I

L

F

F

S

P

I

Y

Q

F

S

G

L

G

F

F

H

A

A

K

L

L

K

V

A

S

L

A

G

G

M

V

T

D

V

F

E

V

E

R

V

I

D

D

K

K

L

V

T

M

G

E

P

K

V

-

I

F

G

G

R

W

P

P

K

M

S

G

A

P

T

A

F

Y

R

-

T

L

V

M

D

D

V

V

G

G

L

I

D

D

T

T

L

G

V

H

H

H

-

G

-

R

-

D

-

V

V

M

A

A

N

E

G

G

I

F

S

P

E

D

N

R

C

M

K

K

D

D

E

R

R

R

H

S

E

A

L

I

F

D

A

A

L

L

P

-

D

-

F

-

I

-

A

-

T

-

M

-

M

Y

E

E

N

A

K

K

W

R

L

L

G

G

S

Q

K

K

T

N

G

G

Q

K

G

G

F

F

Y

Y

K

A

K

Y

S

E

K

A

D

D

A

K

K

K

G

G

K

K

T

Q

E

K

I

K

L

L

T

V

VVE 401:403 (= VVE 108:110) binding NAD(+)
K408 (= K115) binding NAD(+)
S430 (= S137) binding NAD(+)
N454 (= N163) binding NAD(+)
N501 (= N211) binding substrate

Sites not aligning to the query:

297 binding substrate
325 binding NAD(+)
344 binding NAD(+)
660 binding substrate

4kugA Crystal structure of 3-hydroxybutylryl-coa dehydrogenase with NAD from clostridium butyricum
28% identity, 38% coverage: 5:310/801 of query aligns to 1:282/282 of 4kugA

query
sites
4kugA

I

M

N

K

K

K

I

V

A

F

V

V

I

L

G

G

S

A

G
|
G

I
x
T

M
|
M

G

G

S

A

G

G

I

I

A

V

C

Q

H

A

F

F

A

A

N

A

I

K

G

G

V

C

E

E

V

V

L

I

L

V

L
x
R

D
|
D

I

I

V

-

P

-

R

-

E

-

L

-

N

-

A

-

K

-

E

-

K

-

A

-

K

-

G

-

L

-

T

-

L

-

D

-

T

-

V

-

R

K

N

E

R

E

I

F

V

V

N

D

D

R

S

G

L

I

A

A

A

T

A

I

L

T

K

K

S

S

K

L

P

S

S

K

P

L

V

V

Y

A

H

K

Q

E

K

K

F

-

A

-

N

-

R

-

I

I

T

T

T

E

G

A

N

D

L

K

E

E

D

E

D

I

I

L

A

S

K

R

V

I

-

S

-

G

-

T

-

D

-

M

-

K

-

L

-

A

A

A

K

D

V

C

D

D

W

L

I

V

E

E

V
x
A

V

I

E
|
E

R

N

L

M

D

K

I

I

K

K

Q

E

V

I

F

F

E

A

T

E

L

L

E

D

R

G

H

I

R

C

T

K

P

P

G

E

T

T

L

I

I

L

T

A

S

S

N
|
N

T

T

S
|
S

G

S

I

L

P

S

I

I

H

T

F

E

M

V

S

A

E

S

G

A

-

T

-

K

R

R

S

A

D

D

D

-

F

-

Q

-

K

-

H

K

F

V

C

I

G

G

T

M

H
|
H

F

F

N

N

P

P

A

A

R

P

Y

V

L

M

K

K

L

L

F

V

E
|
E

I

V

I

I

P

R

G

G

P

A

K

A

T

T

S

S

P

Q

E

E

V

T

L

F

V

D

F

A

L

V

N

K

G

E

Y

M

G

S

E

E

Q

S

F

-

L

I

G

G

K

K

T

T

S

P

V

V

L

E

A

V

K

A

D

E

T

A

P

P

A

G

F

F

I

V

G

V

N
|
N

R

R

I

I

G

L

I

I

F

P

S

M

I

I

Q

N

S

E

L

A

F

T

H

F

A

I

L

L

K

Q

A

E

L

G

G

V

M

A

T

K

V

E

E

E

E

D

V

I

D

D

K

A

L

A

T

M

G

K

P

L

V

G

I

A

G

N

R

H

P

P

K

-

S

M

A

G

T

P

F

L

R

A

T

L

V

G

D

D

V

L

V

I

G

G

L

L

D

D

T

V

L

C

V

L

H

A

V

I

A

M

N

D

G

V

I

L

S

Y

E

N

N

E

C

T

K

G

D

D

D

T

E

K

R

Y

H

R

E

A

L

S

F

S

A

L

L

L

P

R

D

K

F

Y

I

V

A

-

T

-

M

-

E

R

N

A

K

G

W

W

L

L

G

G

S

R

K

K

T

T

G

G

Q

K

G

G

F

F

Y

Y

K

D

K

Y

S

S

K

K

active site: S117 (= S137), H138 (= H160), E150 (= E172), N188 (= N211)
binding nicotinamide-adenine-dinucleotide: G10 (= G14), T11 (≠ I15), M12 (= M16), R30 (≠ L34), D31 (= D35), A87 (≠ V107), A88 (≠ V108), E90 (= E110), N115 (= N135), S117 (= S137), H138 (= H160)

4kuhA Crystal structure of 3-hydroxybutylryl-coa dehydrogenase with acetoacetyl-coa from clostridium butyricum
28% identity, 38% coverage: 5:306/801 of query aligns to 1:278/280 of 4kuhA

query
sites
4kuhA

I

M

N

K

K

K

I

V

A

F

V

V

I

L

G

G

S

A

G

G

I

T

M

M

G

G

S

A

G

G

I

I

A

V

C

Q

H

A

F

F

A

A

N

A

I

K

G

G

V

C

E

E

V

V

L

I

L

V

L

R

D

D

I

I

V

-

P

-

R

-

E

-

L

-

N

-

A

-

K

-

E

-

K

-

A

-

K

-

G

-

L

-

T

-

L

-

D

-

T

-

V

-

R

K

N

E

R

E

I

F

V

V

N

D

D

R

S

G

L

I

A

A

A

T

A

I

L

T

K

K

S

S

K

L

P

S

S
x
K

P

L

V

V

Y

A

H
x
K

Q

E

K
|
K

F

-

A

-

N

-

R

-

I

I

T

T

T

E

G

A

N

D

L

K

E

E

D

E

D

I

I

L

A

S

K

R

V

I

-

S

-

G

-

T

-

D

-

M

-

K

-

L

-

A

A

A

K

D

V

C

D

D

W

L

I

V

E

E

V

A

V

I

E

E

R

N

L

M

D

K

I

I

K

K

Q

E

V

I

F

F

E

A

T

E

L

L

E

D

R

G

H

I

R

C

T

K

P

P

G

E

T

T

L

I

I

L

T

A

S

S

N

N

T

T

S
|
S

G

S

I

L

P

S

I

I

H

T

F

E

M

V

S

A

E

S

G

A

-

T

-

K

R

R

S

A

D

D

D

-

F

-

Q

-

K

-

H

K

F

V

C

I

G

G

T

M

H
|
H

F

F

N

N

P

P

A

A

R

P

Y

V

L

M

K

K

L

L

F

V

E
|
E

I

V

I

I

P

R

G

G

P

A

K

A

T

T

S

S

P

Q

E

E

V

T

L

F

V

D

F

A

L

V

N

K

G

E

Y

M

G

S

E

E

Q

S

F

-

L

I

G

G

K

K

T

T

S

P

V

V

L

E

A

V

K

A

D

E

T

A

P

P

A

G

F

F

I

V

G

V

N
|
N

R

R

I

I

G

L

I

I

F

P

S

M

I

I

Q

N

S

E

L

A

F

T

H

F

A

I

L

L

K

Q

A

E

L

G

G

V

M

A

T

K

V

E

E

E

E

D

V

I

D

D

K

A

L

A

T

M

G

K

P

L

V

G

I

A

G

N

R

H

P

P

K

-

S

M

A

G

T

P

F

L

R

A

T

L

V

G

D

D

V

L

V

I

G

G

L

L

D

D

T

V

L

C

V

L

H

A

V

I

A

M

N

D

G

V

I

L

S

Y

E

N

N

E

C

T

K

G

D

D

D

T

E

K

R

Y

H

R

E

A

L

S

F

S

A

L

L

L

P

R

D

K

F

Y

I

V

A

-

T

-

M

-

E

R

N

A

K

G

W

W

L

L

G

G

S

R

K

K

T

T

G

G

Q

K

G

G

F

F

Y

Y

active site: S117 (= S137), H138 (= H160), E150 (= E172), N188 (= N211)
binding acetoacetyl-coenzyme a: K50 (≠ S75), K54 (≠ H79), K56 (= K81), S117 (= S137), H138 (= H160), N188 (= N211)

1wdmA Fatty acid beta-oxidation multienzyme complex from pseudomonas fragi, form i (native3) (see paper)
33% identity, 26% coverage: 101:310/801 of query aligns to 394:594/707 of 1wdmA

query
sites
1wdmA

V

V

D

D

W

L

I

V

E

E

V

A

V
|
V

V

V

E
|
E

R

N

L

P

D

K

I

V

K

K

K

Q

Q

A

V

V

F

L

E

A

T

E

L

V

E

E

R

N

H

H

R

V

T

R

P

E

G

D

T

A

L

I

I

L

T

A

S

S

N
|
N

T

T

S
|
S

G

T

I

I

P

S

I

I

H

S

F

L

M

L

S

A

E

K

G

A

R

L

S

K

D

R

D

-

F

-

Q

P

K

E

H

N

F

F

C

V

G

G

T

M

H
|
H

F

F

N
|
N

P

P

A

V

R

H

Y

M

L
x
M

K

P

L

L

F

V

E
|
E

I

V

I

I

P

R

G

G

P

E

K

K

T

S

S

S

P

D

E

L

V

A

L

V

V

A

F

T

L

T

N

V

G

A

Y

Y

G

A

E

K

Q

K

F

-

L

M

G

G

K

K

T

N

S

P

V

I

L

V

A

V

K

N

D

D

T

C

P

P

A

G

F

F

I

L

G

V

N
|
N

R

R

I

V

G

-

I

L

F

F

S

P

I

Y

Q

F

S

G

L

G

F

F

H

A

A

K

L

L

K

V

A

S

L

A

G

G

M

V

T

D

V

F

E

V

E

R

V

I

D

D

K

K

L

V

T

M

G

E

P

K

V

-

I

F

G

G

R

W

P
|
P

K

M

S

G

A

P

T

A

F

Y

R

-

T

L

V

M

D

D

V

V

G

G

L

I

D

D

T

T

L

G

V

H

H

H

-

G

-

R

-

D

-

V

V

M

A

A

N

E

G

G

I

F

S

P

E

D

N

R

C

M

K

K

D

D

E

R

R

R

H

S

E

A

L

I

F

D

A

A

L

L

P

-

D

-

F

-

I

-

A

-

T

-

M

-

M

Y

E

E

N

A

K

K

W

R

L

L

G

G

S

Q

K

K

T

N

G

G

Q

K

G

G

F

F

Y

Y

K

A

K

Y

S

K

K

K

active site: S430 (= S137), H451 (= H160), E463 (= E172), N501 (= N211)
binding acetyl coenzyme *a: M459 (≠ L168), N501 (= N211), P534 (= P246)
binding nicotinamide-adenine-dinucleotide: V401 (= V108), E403 (= E110), N428 (= N135), S430 (= S137), N454 (= N163)

Sites not aligning to the query:

active site: 69, 89, 93, 117, 120, 139, 140, 147, 148
binding acetyl coenzyme *a: 142, 297, 652, 658
binding nicotinamide-adenine-dinucleotide: 321, 322, 324, 325, 344

3zw9A Crystal structure of rat peroxisomal multifunctional enzyme type 1 (rpmfe1) complexed with (2s,3s)-3-hydroxy-2-methylbutanoyl-coa (see paper)
27% identity, 38% coverage: 5:310/801 of query aligns to 299:586/723 of 3zw9A

query
sites
3zw9A

I

V

N

S

K

S

I

V

A

G

V

V

I
x
L

G
|
G

S

L

G
|
G

I
x
T

M
|
M

G

G

S

R

G

G

I

I

A

A

C

I

H

S

F

F

A

A

N

R

I

V

G

G

V

I

E

S

V

V

L

V

L

A

L

V

D
x
E

I

S

V

D

P

P

R

K

E
x
Q

L

L

N

D

A

A

K

A

E

K

K

K

A

I

K

I

G

T

L

F

T

T

L

L

D

E

D

K

T

E

T

A

V

S

R

R

N

-

R

-

I

-

V

A

N

H

D

Q

S

N

L

G

A

Q

A

A

A

S

L

A

K

K

S

P

K

K

P

-

S

-

P

-

V

-

Y

-

H

-

Q

-

K

-

F

-

A

-

N

L

R

R

I

F

T

S

G

S

N

T

L

K

E

E

D

-

I

-

A

-

K

-

V

L

A

S

K

T

V

V

D

D

W

L

I

V

E

E

V
x
A

V
|
V

V
x
F

E
|
E

R

D

L

M

D

N

I

L

K

K

Q

K

V

V

F

F

E

A

T

E

L

L

E

S

R

A

H

L

R

C

T

K

P

P

G

G

T

A

L

F

I

L

T

C

S

T

N
|
N

T

T

S
|
S

G

A

I

L

P

N

I

V

H

D

F

D

M

I

S

A

E

S

G

-

R

-

S

S

D

T

D

D

F

R

Q

P

K

Q

H

L

F

V

C

I

G

G

T

T

H
|
H

F

F

N

S

P

P

A

A

R

H

Y

V

L

M

K

R

L

L

F

L

E
|
E

I

V

I

I

P

P

G

S

P

R

K

Y

T

S

S

S

P

P

E

T

V

T

L

I

V

A

F

T

L

V

N

M

G

S

Y

L

G

S

E

K

Q

K

F

-

L

I

G

G

K

K

T

I

S

G

V

V

L

V

A

V

K

G

D

N

T

C

P

Y

A

G

F

F

I

V

G

G

N
|
N

R

R

-

M

I

L

G

A

I

P

F

Y

S

Y

I

N

Q

Q

S

G

L

F

F

F

H

-

A

-

L

L

K

L

A

E

L

E

G

G

M

S

T

K

V

P

E

E

E

D

V

V

D

D

K

G

L

V

-

L

-

E

-

F

-

G

-

F

-

K

T

M

G

G

P

P

V

-

I

-

G

-

R

-

P

-

K

-

S

-

A

-

T

-

F

F

R

R

T

V

V

S

D

D

V

L

V

A

G

G

L

L

D

D

-

V

-

G

-

W

-

K

-

I

-

R

-

K

-

G

-

Q

-

G

-

L

T

T

L

G

V

P

H

S

V

L

A

P

N

P

G

G

I

T

S

P

E

V

N

R

C

K

K

R

D

G

D

N

E

S

R

R

H

Y

E

S

L

-

F

-

A

P

L

L

P

G

D

D

F

M

I

L

A

C

T

-

M

-

E

E

N

A

K

G

W

R

L

F

G

G

S

Q

K

K

T

T

G

G

Q

K

G

G

F

W

Y

Y

K

Q

K

Y

S

D

K

K

active site: S413 (= S137), H434 (= H160), E446 (= E172), N484 (= N211)
binding nicotinamide-adenine-dinucleotide: L305 (≠ I11), G306 (= G12), G308 (= G14), T309 (≠ I15), M310 (= M16), E329 (≠ D35), Q334 (≠ E40), A383 (≠ V107), V384 (= V108), F385 (≠ V109), E386 (= E110), N411 (= N135), S413 (= S137), H434 (= H160)

Sites not aligning to the query:

active site: 64, 69, 79, 103, 106, 125, 126, 133, 134, 252
binding (2s,3s)-3-hydroxy-2-methylbutanoyl-coa: 24, 62, 63, 64, 66, 102, 103, 106, 126, 133, 159

5omoA Crystal structure of rat peroxisomal multifunctional enzyme type-1 (rpmfe1) complexed with with 3s-hydroxy-decanoyl-coa and 3-keto- decanoyl-coa
27% identity, 38% coverage: 5:310/801 of query aligns to 301:588/725 of 5omoA

query
sites
5omoA

I

V

N

S

K

S

I

V

A

G

V

V

I

L

G

G

S

L

G

G

I

T

M

M

G

G

S

R

G

G

I

I

A

A

C

I

H

S

F

F

A

A

N

R

I

V

G

G

V

I

E

S

V

V

L

V

L

A

L

V

D

E

I

S

V

D

P

P

R

K

E

Q

L

L

N

D

A

A

K

A

E

K

K

K

A

I

K

I

G

T

L

F

T

T

L

L

D

E

D

K

T

E

T

A

V

S

R

R

N

-

R

-

I

-

V

A

N

H

D

Q

S

N

L

G

A

Q

A

A

A

S

L

A

K

K

S

P

K

K

P

-

S

-

P

-

V

-

Y

-

H

-

Q

-

K

-

F

-

A

-

N

L

R

R

I

F

T

S

G

S

N

T

L

K

E

E

D

-

I

-

A

-

K

-

V

L

A

S

K

T

V

V

D

D

W

L

I

V

E

E

V

A

V

V

V

F

E

E

R

D

L

M

D

N

I

L

K

K

Q

K

V

V

F

F

E

A

T

E

L

L

E

S

R

A

H

L

R

C

T

K

P

P

G

G

T

A

L

F

I

L

T

C

S

T

N

N

T

T

S
|
S

G

A

I

L

P

N

I

V

H

D

F

D

M

I

S

A

E

S

G

-

R

-

S

S

D

T

D

D

F

R

Q

P

K

Q

H

L

F

V

C

I

G

G

T

T

H
|
H

F

F

N

S

P

P

A

A

R

H

Y

V

L

M

K

R

L

L

F

L

E
|
E

I

V

I

I

P

P

G

S

P

R

K

Y

T

S

S

S

P

P

E

T

V

T

L

I

V

A

F

T

L

V

N

M

G

S

Y

L

G

S

E

K

Q

K

F

-

L

I

G

G

K

K

T

I

S

G

V

V

L

V

A

V

K

G

D

N

T

C

P

Y

A

G

F

F

I

V

G

G

N
|
N

R

R

-

M

I

L

G

A

I

P

F

Y

S

Y

I

N

Q

Q

S

G

L

F

F

F

H

-

A

-

L

L

K

L

A

E

L

E

G

G

M

S

T

K

V

P

E

E

E

D

V

V

D

D

K

G

L

V

-

L

-

E

-

F

-

G

-

F

-
x
K

T
x
M

G

G

P

P

V

-

I

-

G

-

R

-

P

-

K

-

S

-

A

-

T

-

F

F

R

R

T
x
V

V

S

D

D

V

L

V

A

G

G

L

L

D

D

-

V

-

G

-

W

-

K

-

I

-

R

-

K

-

G

-

Q

-

G

-

L

T

T

L

G

V

P

H

S

V

L

A

P

N

P

G

G

I

T

S

P

E

V

N

R

C

K

K

R

D

G

D

N

E

S

R

R

H

Y

E

S

L

-

F

-

A

P

L

L

P

G

D

D

F

M

I

L

A

C

T

-

M

-

E

E

N

A

K

G

W

R

L

F

G

G

S

Q

K

K

T

T

G

G

Q

K

G

G

F

W

Y

Y

K

Q

K

Y

S

D

K

K

active site: S415 (= S137), H436 (= H160), E448 (= E172), N486 (= N211)
binding 3-keto-decanoyl-coa: S415 (= S137), N486 (= N211), K519 (vs. gap), M520 (≠ T239), V525 (≠ T253)

Sites not aligning to the query:

active site: 66, 71, 81, 105, 108, 127, 128, 135, 136, 254
binding (s)-3-hydroxydecanoyl-coa: 25, 26, 28, 31, 64, 66, 67, 68, 103, 105, 108, 127, 128, 161, 260, 280
binding 3-keto-decanoyl-coa: 658

5mgbA Crystal structure of rat peroxisomal multifunctional enzyme type-1 (rpmfe1) complexed with acetoacetyl-coa and NAD (see paper)
27% identity, 38% coverage: 5:310/801 of query aligns to 301:588/725 of 5mgbA

query
sites
5mgbA

I

V

N

S

K

S

I

V

A

G

V

V

I
x
L

G
|
G

S

L

G
|
G

I
x
T

M
|
M

G

G

S

R

G

G

I

I

A

A

C

I

H

S

F

F

A

A

N

R

I

V

G

G

V

I

E

S

V

V

L

V

L

A

L

V

D
x
E

I
x
S

V

D

P

P

R

K

E
x
Q

L

L

N

D

A

A

K

A

E

K

K

K

A

I

K

I

G

T

L

F

T

T

L

L

D

E

D

K

T

E

T

A

V

S

R

R

N

-

R

-

I

-

V

A

N

H

D

Q

S

N

L

G

A

Q

A

A

A

S

L

A

K

K

S

P

K

K

P

-

S

-

P

-

V

-

Y

-

H

-

Q

-

K

-

F

-

A

-

N

L

R

R

I

F

T

S

G

S

N

T

L

K

E

E

D

-

I

-

A

-

K

-

V

L

A

S

K

T

V

V

D

D

W

L

I

V

E

E

V

A

V
|
V

V
x
F

E
|
E

R

D

L

M

D

N

I

L

K

K

Q

K

V

V

F

F

E

A

T

E

L

L

E

S

R

A

H

L

R

C

T

K

P

P

G

G

T

A

L

F

I

L

T

C

S

T

N
|
N

T

T

S
|
S

G

A

I

L

P

N

I

V

H

D

F

D

M

I

S

A

E

S

G

-

R

-

S

S

D

T

D

D

F

R

Q

P

K

Q

H

L

F

V

C

I

G

G

T

T

H
|
H

F

F

N

S

P

P

A

A

R

H

Y

V

L

M

K

R

L

L

F

L

E
|
E

I

V

I

I

P

P

G

S

P

R

K

Y

T

S

S

S

P

P

E

T

V

T

L

I

V

A

F

T

L

V

N

M

G

S

Y

L

G

S

E

K

Q

K

F

-

L

I

G

G

K

K

T

I

S

G

V

V

L

V

A

V

K

G

D

N

T

C

P

Y

A

G

F

F

I

V

G

G

N
|
N

R

R

-

M

I

L

G

A

I

P

F

Y

S

Y

I

N

Q

Q

S

G

L

F

F

F

H

-

A

-

L

L

K

L

A

E

L

E

G

G

M

S

T

K

V

P

E

E

E

D

V

V

D

D

K

G

L

V

-

L

-

E

-

F

-

G

-

F

-

K

T

M

G

G

P

P

V

-

I

-

G

-

R

-

P

-

K

-

S

-

A

-

T

-

F

F

R

R

T

V

V

S

D

D

V

L

V

A

G

G

L

L

D

D

-

V

-

G

-

W

-

K

-

I

-

R

-

K

-

G

-

Q

-

G

-

L

T

T

L

G

V

P

H

S

V

L

A

P

N

P

G

G

I

T

S

P

E

V

N

R

C

K

K

R

D

G

D

N

E

S

R

R

H

Y

E

S

L

-

F

-

A

P

L

L

P

G

D

D

F

M

I

L

A

C

T

-

M

-

E

E

N

A

K

G

W

R

L

F

G

G

S

Q

K

K

T

T

G

G

Q

K

G

G

F

W

Y

Y

K

Q

K

Y

S

D

K

K

active site: S415 (= S137), H436 (= H160), E448 (= E172), N486 (= N211)
binding nicotinamide-adenine-dinucleotide: L307 (≠ I11), G308 (= G12), G310 (= G14), T311 (≠ I15), M312 (= M16), E331 (≠ D35), S332 (≠ I36), Q336 (≠ E40), V386 (= V108), F387 (≠ V109), E388 (= E110), N413 (= N135), S415 (= S137), H436 (= H160)

Sites not aligning to the query:

active site: 66, 71, 81, 105, 108, 127, 128, 135, 136, 254
binding acetoacetyl-coenzyme a: 25, 26, 64, 65, 66, 67, 68, 105, 128, 161

3zwcA Crystal structure of rat peroxisomal multifunctional enzyme type 1 (rpmfe1) complexed with 3s-hydroxy-decanoyl-coa (see paper)
27% identity, 38% coverage: 5:310/801 of query aligns to 301:588/725 of 3zwcA

query
sites
3zwcA

I

V

N

S

K

S

I

V

A

G

V

V

I

L

G
|
G

S

L

G
|
G

I
x
T

M
|
M

G

G

S

R

G

G

I

I

A

A

C

I

H

S

F

F

A

A

N

R

I

V

G

G

V

I

E

S

V

V

L

V

L

A

L

V

D
x
E

I

S

V

D

P

P

R

K

E
x
Q

L

L

N

D

A

A

K

A

E

K

K

K

A

I

K

I

G

T

L

F

T

T

L

L

D

E

D

K

T

E

T

A

V

S

R

R

N

-

R

-

I

-

V

A

N

H

D

Q

S

N

L

G

A

Q

A

A

A

S

L

A

K

K

S

P

K

K

P

-

S

-

P

-

V

-

Y

-

H

-

Q

-

K

-

F

-

A

-

N

L

R

R

I

F

T

S

G

S

N

T

L

K

E

E

D

-

I

-

A

-

K

-

V

L

A

S

K

T

V

V

D

D

W

L

I

V

E

E

V
x
A

V
|
V

V
x
F

E
|
E

R

D

L

M

D

N

I

L

K
|
K

K

K

Q

K

V

V

F

F

E

A

T

E

L

L

E

S

R

A

H

L

R

C

T

K

P

P

G

G

T

A

L

F

I

L

T

C

S

T

N
|
N

T

T

S
|
S

G

A

I

L

P

N

I

V

H

D

F

D

M

I

S

A

E

S

G

-

R

-

S

S

D

T

D

D

F

R

Q

P

K

Q

H

L

F

V

C

I

G

G

T

T

H
|
H

F

F

N

S

P

P

A

A

R

H

Y

V

L

M

K

R

L

L

F

L

E
|
E

I

V

I

I

P

P

G

S

P

R

K

Y

T

S

S

S

P

P

E

T

V

T

L

I

V

A

F

T

L

V

N

M

G

S

Y

L

G

S

E

K

Q

K

F

-

L

I

G

G

K

K

T

I

S

G

V

V

L

V

A

V

K

G

D

N

T

C

P

Y

A

G

F

F

I

V

G

G

N
|
N

R

R

-

M

I

L

G

A

I

P

F

Y

S

Y

I

N

Q

Q

S

G

L

F

F

F

H

-

A

-

L

L

K

L

A

E

L

E

G

G

M

S

T

K

V

P

E

E

E

D

V

V

D

D

K

G

L

V

-

L

-

E

-

F

-

G

-

F

-

K

T

M

G

G

P

P

V

-

I

-

G

-

R

-

P

-

K

-

S

-

A

-

T

-

F

F

R

R

T

V

V

S

D

D

V

L

V

A

G

G

L

L

D

D

-

V

-

G

-

W

-

K

-

I

-

R

-

K

-

G

-

Q

-

G

-

L

T

T

L

G

V

P

H

S

V

L

A

P

N

P

G

G

I

T

S

P

E

V

N

R

C

K

K

R

D

G

D

N

E

S

R

R

H

Y

E

S

L

-

F

-

A

P

L

L

P

G

D

D

F

M

I

L

A

C

T

-

M

-

E

E

N

A

K

G

W

R

L

F

G

G

S

Q

K

K

T

T

G

G

Q

K

G

G

F

W

Y

Y

K

Q

K

Y

S

D

K

K

active site: S415 (= S137), H436 (= H160), E448 (= E172), N486 (= N211)
binding nicotinamide-adenine-dinucleotide: G308 (= G12), G310 (= G14), T311 (≠ I15), M312 (= M16), E331 (≠ D35), Q336 (≠ E40), A385 (≠ V107), V386 (= V108), F387 (≠ V109), E388 (= E110), K393 (= K115), N413 (= N135), S415 (= S137), H436 (= H160)

Sites not aligning to the query:

active site: 66, 71, 81, 105, 108, 127, 128, 135, 136, 254
binding (s)-3-hydroxydecanoyl-coa: 26, 64, 65, 66, 67, 68, 77, 78, 80, 101, 104, 105, 108, 128, 260

2x58A The crystal structure of mfe1 liganded with coa (see paper)
27% identity, 38% coverage: 5:310/801 of query aligns to 301:588/725 of 2x58A

query
sites
2x58A

I

V

N

S

K

S

I

V

A

G

V

V

I

L

G

G

S

L

G
|
G

I
x
T

M
|
M

G

G

S

R

G

G

I

I

A

A

C

I

H

S

F

F

A

A

N

R

I

V

G

G

V

I

E

S

V

V

L

V

L

A

L

V

D
x
E

I
x
S

V

D

P

P

R

K

E
x
Q

L

L

N

D

A

A

K

A

E

K

K

K

A

I

K

I

G

T

L

F

T

T

L

L

D

E

D

K

T

E

T

A

V

S

R

R

N

-

R

-

I

-

V

A

N

H

D

Q

S

N

L

G

A

Q

A

A

A

S

L

A

K

K

S

P

K

K

P

-

S

-

P

-

V

-

Y

-

H

-

Q

-

K

-

F

-

A

-

N

L

R

R

I

F

T

S

G

S

N

T

L

K

E

E

D

-

I

-

A

-

K

-

V

L

A

S

K

T

V

V

D

D

W

L

I

V

E

E

V

A

V
|
V

V

F

E

E

R

D

L

M

D

N

I
x
L

K

K

Q

K

V

V

F

F

E

A

T

E

L

L

E

S

R

A

H

L

R

C

T

K

P

P

G

G

T

A

L

F

I

L

T

C

S

T

N

N

T

T

S
|
S

G

A

I

L

P

N

I

V

H

D

F

D

M

I

S

A

E

S

G

-

R

-

S

S

D

T

D

D

F

R

Q

P

K

Q

H

L

F

V

C

I

G

G

T

T

H
|
H

F

F

N

S

P

P

A

A

R

H

Y

V

L

M

K

R

L

L

F

L

E
|
E

I

V

I

I

P

P

G

S

P

R

K

Y

T

S

S

S

P

P

E

T

V

T

L

I

V

A

F

T

L

V

N

M

G

S

Y

L

G

S

E

K

Q

K

F

-

L

I

G

G

K

K

T

I

S

G

V

V

L

V

A

V

K

G

D

N

T

C

P

Y

A

G

F

F

I

V

G

G

N
|
N

R

R

-

M

I

L

G

A

I

P

F

Y

S

Y

I

N

Q

Q

S

G

L

F

F

F

H

-

A

-

L

L

K

L

A

E

L

E

G

G

M

S

T

K

V

P

E

E

E

D

V

V

D

D

K

G

L

V

-

L

-

E

-

F

-

G

-

F

-

K

T

M

G

G

P

P

V

-

I

-

G

-

R

-

P

-

K

-

S

-

A

-

T

-

F

F

R

R

T

V

V

S

D

D

V

L

V

A

G

G

L

L

D

D

-

V

-

G

-

W

-

K

-

I

-

R

-

K

-

G

-

Q

-

G

-

L

T

T

L

G

V

P

H

S

V

L

A

P

N

P

G

G

I

T

S

P

E

V

N

R

C

K

K

R

D

G

D

N

E

S

R

R

H

Y

E

S

L

-

F

-

A

P

L

L

P

G

D

D

F

M

I

L

A

C

T

-

M

-

E

E

N

A

K

G

W

R

L

F

G

G

S

Q

K

K

T

T

G

G

Q

K

G

G

F

W

Y

Y

K

Q

K

Y

S

D

K

K

active site: S415 (= S137), H436 (= H160), E448 (= E172), N486 (= N211)
binding adenosine-5'-diphosphate: G310 (= G14), T311 (≠ I15), M312 (= M16), E331 (≠ D35), S332 (≠ I36), Q336 (≠ E40), V386 (= V108), L392 (≠ I114)

Sites not aligning to the query:

active site: 66, 71, 81, 105, 108, 127, 128, 135, 136, 254
binding coenzyme a: 26, 28, 64, 66, 67, 68, 128

3zwaA Crystal structure of rat peroxisomal multifunctional enzyme type 1 (rpmfe1) complexed with 3s-hydroxy-hexanoyl-coa (see paper)
27% identity, 38% coverage: 5:310/801 of query aligns to 302:589/727 of 3zwaA

query
sites
3zwaA

I

V

N

S

K

S

I

V

A

G

V

V

I

L

G

G

S

L

G

G

I

T

M

M

G

G

S

R

G

G

I

I

A

A

C

I

H

S

F

F

A

A

N

R

I

V

G

G

V

I

E

S

V

V

L

V

L

A

L

V

D

E

I

S

V

D

P

P

R

K

E

Q

L

L

N

D

A

A

K

A

E

K

K

K

A

I

K

I

G

T

L

F

T

T

L

L

D

E

D

K

T

E

T

A

V

S

R

R

N

-

R

-

I

-

V

A

N

H

D

Q

S

N

L

G

A

Q

A

A

A

S

L

A

K

K

S

P

K

K

P

-

S

-

P

-

V

-

Y

-

H

-

Q

-

K

-

F

-

A

-

N

L

R

R

I

F

T

S

G

S

N

T

L

K

E

E

D

-

I

-

A

-

K

-

V

L

A

S

K

T

V

V

D

D

W

L

I

V

E

E

V

A

V

V

V

F

E

E

R

D

L

M

D

N

I

L

K

K

Q

K

V

V

F

F

E

A

T

E

L

L

E

S

R

A

H

L

R

C

T

K

P

P

G

G

T

A

L

F

I

L

T

C

S

T

N

N

T

T

S
|
S

G

A

I

L

P

N

I

V

H

D

F

D

M

I

S

A

E

S

G

-

R

-

S

S

D

T

D

D

F

R

Q

P

K

Q

H

L

F

V

C

I

G

G

T

T

H
|
H

F

F

N

S

P

P

A

A

R

H

Y

V

L

M

K

R

L

L

F

L

E
|
E

I

V

I

I

P

P

G

S

P

R

K

Y

T

S

S

S

P

P

E

T

V

T

L

I

V

A

F

T

L

V

N

M

G

S

Y

L

G

S

E

K

Q

K

F

-

L

I

G

G

K

K

T

I

S

G

V

V

L

V

A

V

K

G

D

N

T

C

P

Y

A

G

F

F

I

V

G

G

N
|
N

R

R

-

M

I

L

G

A

I

P

F

Y

S

Y

I

N

Q

Q

S

G

L

F

F

F

H

-

A

-

L

L

K

L

A

E

L

E

G

G

M

S

T

K

V

P

E

E

E

D

V

V

D

D

K

G

L

V

-

L

-

E

-

F

-

G

-

F

-

K

T

M

G

G

P

P

V

-

I

-

G

-

R

-

P

-

K

-

S

-

A

-

T

-

F

F

R

R

T

V

V

S

D

D

V

L

V

A

G

G

L

L

D

D

-

V

-

G

-

W

-

K

-

I

-

R

-

K

-

G

-

Q

-

G

-

L

T

T

L

G

V

P

H

S

V

L

A

P

N

P

G

G

I

T

S

P

E

V

N

R

C

K

K

R

D

G

D

N

E

S

R

R

H

Y

E

S

L

-

F

-

A

P

L

L

P

G

D

D

F

M

I

L

A

C

T

-

M

-

E

E

N

A

K

G

W

R

L

F

G

G

S

Q

K

K

T

T

G

G

Q

K

G

G

F

W

Y

Y

K

Q

K

Y

S

D

K

K

active site: S416 (= S137), H437 (= H160), E449 (= E172), N487 (= N211)

Sites not aligning to the query:

active site: 67, 72, 82, 106, 109, 128, 129, 136, 137, 255
binding (S)-3-Hydroxyhexanoyl-CoA: 27, 65, 66, 67, 68, 69, 104, 109, 124, 129, 132, 137, 162

Query Sequence

>WP_054557393.1 NCBI__GCF_001306415.1:WP_054557393.1
MKRHINKIAVIGSGIMGSGIACHFANIGVEVLLLDIVPRELNAKEKAKGLTLDDTTVRNR
IVNDSLAAALKSKPSPVYHQKFANRITTGNLEDDIAKVAKVDWIIEVVVERLDIKKQVFE
TLERHRTPGTLITSNTSGIPIHFMSEGRSDDFQKHFCGTHFFNPARYLKLFEIIPGPKTS
PEVLVFLNGYGEQFLGKTSVLAKDTPAFIGNRIGIFSIQSLFHALKALGMTVEEVDKLTG
PVIGRPKSATFRTVDVVGLDTLVHVANGISENCKDDERHELFALPDFIATMMENKWLGSK
TGQGFYKKSKDAKGKTEILTLDLDTMEYRSKKSAKFPTLEQTKTIDTVVDRFAVLTAGTD
KAGEFYRKSFGQLFAYVSHRIPEISDELYKIDDAMKAGFGWEHGPFQIWDAIGLDKGLEF
IAAEKQEAAAWVSEMKTAGITSFYQVKDGATYFYDIPSKQMVKVPGQDAFIILDNIRTTK
EVFKNAGVVIEDLGDGILNCEFQSKMNTIGADVLAGLNKAIDLAEKDFQGLVVGNQAANF
SVGANIGMIFMMAVEQEYDELNMAIKMFQDSMMRMRYSSIPTVAAPHGMTLGGGCELSLH
ADKVVAAAETYMGLVEFGVGVIPGGGGSKELAMRASDSFRKGDVELNVLQEYFLTIGMAK
VSTSAYEAYDLGLLQKGKDIVVVNKDRQIATAKAHAKLMAEAGYTRPPARKDVKVLGKQA
LGMFLVGTDSMEASNYISEHDKKIANKLAYVMAGGDLSEPTMVSEQYLLDIEREAFLSLC
TERKTLERIQHMLKTGKPLRN

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