SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing H281DRAFT_04572 FitnessBrowser__Burk376:H281DRAFT_04572 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)

7arcF Cryo-em structure of polytomella complex-i (peripheral arm) (see paper)
48% identity, 95% coverage: 1:422/442 of query aligns to 16:426/430 of 7arcF

query
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binding flavin mononucleotide: G61 (= G60), R62 (= R61), G63 (= G62), A65 (= A64), K72 (= K71), N90 (= N88), D92 (= D90), E93 (= E91), S94 (≠ G92), Y178 (= Y176), G181 (= G179), E182 (= E180), E183 (= E181), V216 (≠ I214), T217 (≠ N215), N218 (= N216), A400 (= A396), L401 (= L397)
binding iron/sulfur cluster: I179 (= I177), P197 (= P195), S352 (= S348), C353 (= C349), G354 (= G350), Q355 (= Q351), C356 (= C352), C359 (= C355), T397 (= T393), I398 (= I394), C399 (= C395), L401 (= L397)

4hea1 Crystal structure of the entire respiratory complex i from thermus thermophilus (see paper)
50% identity, 90% coverage: 21:416/442 of query aligns to 25:420/437 of 4hea1

query
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4hea1

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binding flavin mononucleotide: G63 (= G60), R64 (= R61), G65 (= G62), A67 (= A64), K74 (= K71), N91 (= N88), D93 (= D90), S95 (≠ G92), Y179 (= Y176), G182 (= G179), E183 (= E180), E184 (= E181), I217 (= I214), N218 (= N215), N219 (= N216), P400 (≠ A396), L401 (= L397)
binding iron/sulfur cluster: I180 (= I177), P198 (= P195), S351 (= S348), C352 (= C349), G353 (= G350), K354 (≠ Q351), C355 (= C352), C358 (= C355), S397 (≠ T393), F398 (≠ I394), C399 (= C395), L401 (= L397), A402 (≠ G398)

2ybb1 Fitted model for bovine mitochondrial supercomplex i1iii2iv1 by single particle cryo-em (emd-1876) (see paper)
50% identity, 90% coverage: 21:416/442 of query aligns to 25:420/437 of 2ybb1

query
sites
2ybb1

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G

R

R

T

S

I
x
F

C
|
C

A
x
P

L
|
L

G
x
A

D

D

A

A

A

A

A

V

M

W

P

P

V

V

R

K

G

G

M

S

L

L

K

R

H

H

Y

F

W

K

D

D

E

Q

F

Y

binding flavin mononucleotide: G63 (= G60), R64 (= R61), G65 (= G62), K74 (= K71), N91 (= N88), D93 (= D90), S95 (≠ G92), Y179 (= Y176), G182 (= G179), E183 (= E180), E184 (= E181), I217 (= I214), N218 (= N215), N219 (= N216), T222 (= T219), P400 (≠ A396), L401 (= L397)
binding 1,4-dihydronicotinamide adenine dinucleotide: G65 (= G62), G66 (= G63), A67 (= A64), F69 (= F66), K74 (= K71), F77 (= F74), E94 (= E91), E96 (= E93), Y179 (= Y176), E184 (= E181), K201 (= K198), F204 (= F201), T324 (≠ S321)
binding iron/sulfur cluster: P198 (= P195), S351 (= S348), C352 (= C349), G353 (= G350), K354 (≠ Q351), C355 (= C352), C358 (= C355), F398 (≠ I394), C399 (= C395), L401 (= L397), A402 (≠ G398)

Q56222 NADH-quinone oxidoreductase subunit 1; NADH dehydrogenase I chain 1; NDH-1 subunit 1; EC 7.1.1.- from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8) (see paper)
50% identity, 90% coverage: 21:416/442 of query aligns to 26:421/438 of Q56222

query
sites
Q56222

N

S

W

W

H

T

L

L

E

D

D

Y

Y

Y

V

L

A

R

R

H

G

G

G

G

Y

Y

A

E

Q

T

L

A

R

K

R

R

I

V

L

L

E

K

E

E

K

K

I

T

P

P

P

-

E

D

Q

E

V

V

I

I

A

E

D

E

V

V

K

K

A

R

S

S

G

G

L

L

R

R

G

G

R

R

G

G

G

G

A

A

G

G

F

F

P

P

T

T

G

G

L

L

K
|
K

W

W

S

S

F

F

M

M

P

P

R

K

Q

D

F

D

P

G

G

K

Q

Q

K

H

Y

Y

L

L

V

I

C

C

N
|
N

S
x
A

D
|
D

E
|
E

G
x
S

E

E

P

P

G

G

T

S

F

F

K

K

D

D

R

R

D

Y

I

I

L

L

R

E

F

D

N

V

P

P

H

H

S

L

L

L

I

I

E

E

G

G

M

M

A

I

I

L

G

A

A

G

Y

Y

A

A

M

I

G

R

I

A

T

T

V

V

G

G

Y

Y

N

I

Y

Y

I

V

H

R

G

G

E

E

I

Y

W

R

E

R

V

A

Y

A

K

D

R

R

F

L

E

E

E

Q

A

A

L

I

D

K

E

E

A

A

R

R

R

A

A

R

G

G

F

Y

L

L

G

G

E

K

N

N

I

L

M

F

G

G

S

T

G

D

F

F

S

S

F

F

E

D

L

L

H

H

A

V

H

H

H

R

G

G

Y

A

G

G

A

A

Y
|
Y

I
|
I

C
|
C

G
|
G

E
|
E

E
|
E

T

T

A

A

L

L

L

M

E

N

S

S

L

L

E

E

G

G

K

L

K

R

G

A

Q

N

P

P

R

R

F

L

K

K

P

P

P

P

F

F

P

P

A

A

S

Q

F

S

G

G

V

L

Y

W

G

G

K

K

P

P

T

T

T

T

I
|
I

N
|
N

N
|
N

T

V

E

E

T

T

F

L

A

A

A

S

V

V

P

V

F

P

L

I

L

M

A

E

I

R

G

G

P

A

Q

D

N

W

Y

F

L

A

E

Q

I

M

G

G

K

T

P

E

N

Q

N

S

G

K

G

G

T

M

K

K

I

L

F

Y

S

Q

I

I

S

S

G

G

D

P

V

V

E

K

R

R

P

P

G

G

N

V

Y

Y

E

E

V

L

P

P

L

M

G

G

T

T

P

T

F

F

A

R

T

E

L

L

M

I

-

Y

E

E

L

W

A

A

G

G

G

G

M

P

R

L

G

-

G

-

R

E

K

P

I

I

K

Q

A

A

V

I

I

I

P

P

G

G

G

G

S

S

S

S

A

T

P

P

V

P

I

L

P

P

-

F

G

T

D

E

V

E

M

V

M

L

Q

D

T

T

D

P

L

M

D

S

Y

Y

D

E

S

H

I

L

A

Q

K

A

A

K

G

G

S

S

M

M

L

L

G

G

S

T

G

G

A

G

V

V

I

I

V

L

M

I

D

P

E

E

T

R

R

V

C

S

M

M

V

V

R

D

S

A

L

M

L

W

R

N

L

L

S

T

Y

R

F

F

Y

Y

Y

A

E

H

E

E

S

S

C
|
C

G

G

Q

K

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

V

-

A

G

G

W

F

L

M

Y

V

R

N

V

L

V

F

H

A

R

K

I

I

E

G

H

T

G

G

L

Q

G

G

R

E

P

E

E

K

D

D

L

V

D

E

L

N

L

L

N

E

S

A

V

L

A

L

E

P

N

L

I

I

M

E

G

G

R

R

T

S

I

F

C
|
C

A

P

L

L

G

A

D

D

A

A

A

A

A

V

M

W

P

P

V

V

R

K

G

G

M

S

L

L

K

R

H

H

Y

F

W

K

D

D

E

Q

F

Y

K75 (= K71) binding
NADES 92:96 (≠ NSDEG 88:92) binding
YICGEE 180:185 (= YICGEE 176:181) binding
INN 218:220 (= INN 214:216) binding
C353 (= C349) binding
C356 (= C352) binding
C359 (= C355) binding
C400 (= C395) binding

7aqrF Cryo-em structure of arabidopsis thaliana complex-i (peripheral arm) (see paper)
49% identity, 93% coverage: 4:412/442 of query aligns to 21:415/434 of 7aqrF

query
sites
7aqrF

L

L

H

H

D

D

R

-

H

-

I

-

K

-

P

P

L

F

I

L

L

K

A

G

G

A

L

M

N

K

G

R

D

G

N

D

W

W

H

H

-

R

L

T

E

K

D

D

Y

L

V

V

A

L

R

K

G

G

G

-

Y

-

A

-

Q

-

L

-

R

-

R

-

I

-

L

-

E

-

E

-

K

-

I

-

P

-

P

T

E

D

Q

W

V

I

I

V

A

N

D

E

V

M

K

K

A

K

S

S

G

G

L

L

R

R

G
|
G

R
|
R

G
|
G

G

G

A

A

G

G

F

F

P

P

T

S

G

G

L

L

K
|
K

W

W

S

S

F

F

M

M

P

P

R

K

Q

V

F

S

P

D

G

G

Q

R

-

P

K

S

Y

Y

L

L

V

V

C

V

N
|
N

S

A

D
|
D

E
|
E

G

S

E

E

P

P

G

G

T

T

F

C

K

K

D

D

R

R

D

E

I

I

L

M

R

R

F

H

N

D

P

P

H

H

S

K

L

L

I

L

E

E

G

G

M

C

A

L

I

I

G

A

A

G

Y

V

A

G

M

M

G

R

I

A

T

S

V

A

G

A

Y

Y

N

I

Y

Y

I

I

H

R

G

G

E

E

I

Y

W

V

E

N

V

E

Y

R

K

L

R

N

F

L

E

E

E

K

A

A

L

R

D

R

E

E

A

A

R

Y

R

A

A

A

G

G

F

L

L

L

G

G

E

K

N

N

I

A

M

C

G

G

S

S

G

G

F

Y

S

D

F

F

E

E

L

V

H

Y

A

I

H

H

H

F

G

G

Y

A

G

G

A

A

Y
|
Y

I
|
I

C

C

G
|
G

E
|
E

E
|
E

T

T

A

A

L

L

L

L

E

E

S

S

L

L

E

E

G

G

K

K

K

Q

G

G

Q

K

P
|
P

R

R

F

L

K

K

P

P

P

P

F

F

P

P

A

A

S

N

F

A

G

G

V

L

Y

Y

G

G

K

C

P

P

T

T

T

T

I
x
V

N
x
T

N
|
N

T

V

E

E

T
|
T

F

V

A

A

A

V

V

S

P

P

F

T

L

I

L

L

A

R

I

R

G

G

P

P

Q

E

N

W

Y

F

L

S

E

S

I

F

G

G

K

R

P

K

N

N

N

N

G

A

G

G

T

T

K

K

I

L

F

F

S

C

I

I

S

S

G

G

D

H

V

V

E

N

R

K

P

P

G

C

N

T

Y

V

E

E

V

E

P

E

L

M

G

S

T

I

P

P

F

L

A

K

T

E

L

L

M

I

E

E

L

R

-

H

A

C

G

G

G

G

M

V

R

R

G

G

G

G

-

W

R

D

K

N

I

L

K

L

A

A

V

I

I

I

P

P

G

G

G

G

S

S

S

S

A

V

P

P

V

L

I

I

P

P

G

K

D

N

V

I

M

C

M

E

Q

D

T

V

D

L

L

M

D

D

Y

F

D

D

S

A

I

L

A

K

K

A

A

V

G

Q

S

S

M

G

L

L

G

G

S

T

G

A

A

A

V

V

I

I

V

V

M

M

D

D

E

K

T

S

R

T

C

D

M

V

V

V

R

D

S

A

L

I

L

A

R

R

L

L

S

S

Y

Y

F

F

Y

Y

Y

K

E

H

E

E

S
|
S

C
|
C

G
|
G

Q
|
Q

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

T

G

G

W

W

L

L

Y

W

R

M

V

I

V

M

H

E

R

R

I

M

E

K

H

V

G

G

L

N

G

A

R

K

P

L

E

E

D

E

L

I

D

D

L

M

L

L

N

Q

S

E

V

V

A

T

E

K

N

Q

I

I

M

E

G

G

R

H

T
|
T

I

I

C
|
C

A
|
A

L
|
L

G

G

D

D

A

A

A

A

A

A

M

W

P

P

V

V

R

Q

G

G

M

L

L

I

K

R

H

H

Y

F

binding flavin mononucleotide: G60 (= G60), R61 (= R61), G62 (= G62), K71 (= K71), N89 (= N88), D91 (= D90), E92 (= E91), Y177 (= Y176), G180 (= G179), E181 (= E180), E182 (= E181), V215 (≠ I214), T216 (≠ N215), N217 (= N216), T220 (= T219), A399 (= A396), L400 (= L397)
binding iron/sulfur cluster: I178 (= I177), P196 (= P195), S351 (= S348), C352 (= C349), G353 (= G350), Q354 (= Q351), C355 (= C352), C358 (= C355), T396 (= T393), C398 (= C395), L400 (= L397)

8gymv1 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (see paper)
49% identity, 89% coverage: 28:422/442 of query aligns to 28:429/442 of 8gymv1

query
sites
8gymv1

V

L

A

K

R

R

G

G

G

D

Y

W

A

H

Q

Q

L

T

R

K

R

E

I

I

L

L

E

S

E

N

K

G

I

-

P

-

P

P

E

E

Q

W

V

I

I

I

A

D

D

E

V

I

K

K

A

K

S

S

G

G

L

L

R

R

G
|
G

R
|
R

G
|
G

G
|
G

A

A

G

G

F

F

P

L

T

S

G

G

L

L

K
|
K

W

Y

S

S

F

F

M

M

P

P

R

K

Q

V

F

N

P

P

G

D

Q

G

K

R

-

P

-

S

Y

Y

L

L

V

V

C

I

N
|
N

S

S

D
|
D

E
|
E

G

S

E

E

P

P

G

G

T

T

F

C

K

K

D

D

R

R

D

E

I

I

L

L

R

R

F

N

N

D

P

P

H

H

S

K

L

L

I

V

E

E

G

G

M

A

A

L

I

V

G

V

A

G

Y

F

A

S

M

M

G

R

I

A

T

R

V

A

G

A

Y

Y

N

I

Y

Y

I

I

H

R

G

G

E

E

I

F

W

W

E

V

V

E

Y

A

K

N

R

I

F

L

E

Q

E

Q

A

A

L

I

D

D

E

E

A

A

R

Y

R

A

A

K

G

G

F

F

L

I

G

G

E

K

N

N

I

A

M

C

G

G

S

S

G

G

F

Y

S

D

F

F

E

D

L

V

H

Y

A

I

H

H

H

R

G

G

Y

A

G

G

A

A

Y
|
Y

I
|
I

C

C

G
|
G

E
|
E

E
|
E

T

T

A

G

L

L

L

I

E

E

S

S

L

I

E

E

G

G

K

K

K

A

G

G

Q

Q

P
|
P

R

R

F

V

K

K

P

P

P

P

F

F

P

P

A

A

S

N

F

A

G

G

V

L

Y

Y

G

G

K

C

P

P

T

T

T

T

I
x
V

N
x
T

N
|
N

T

V

E

E

T
|
T

F

V

A

A

A

V

V

C

P

P

F

T

L

I

L

M

A

R

I

R

G

G

P

A

Q

S

N

W

Y

F

L

A

E

S

I

F

G

G

K

R

P

P

N

N

N

N

G

A

G

G

T

T

K

K

I

L

F

Y

S

C

I

I

S

S

G

G

D

H

V

V

E

N

R

N

P

P

G

C

N

T

Y

V

E

E

V

E

P

E

L

M

G

S

T

I

P

P

F

L

A

R

T

E

L

L

M

L

E

E

L

K

-

H

A

C

G

G

G

G

M

V

R

R

G

G

G

G

-

W

R

D

K

N

I

L

K

L

A

A

V

V

I

I

P

P

G

G

G

G

S

S

S

S

A

V

P

P

V

M

I

M

P

P

G

K

D

N

V

V

M

C

M

D

Q

D

T

V

D

L

L

M

D

D

Y

F

D

D

S

A

I

L

A

K

K

A

A

V

G

G

S

S

M

G

L

L

G

G

S

T

G

A

A

A

V

V

I

I

V

V

M

M

D

D

E

K

T

S

R

T

C

D

M

P

V

I

R

D

S

A

L

I

L

L

R

R

L

L

S

S

Y

K

F

F

Y

Y

Y

K

E

H

E

E

S
|
S

C
|
C

G
|
G

Q
|
Q

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

T

G

G

W

W

L

I

Y

V

R

D

V

V

V

M

H

E

R

R

I

L

E

L

H

V

G

G

L

N

G

A

R

D

P

Y

E

A

D

E

L

I

D

D

L

M

L

L

N

Q

S

Q

V

V

A

T

E

Q

N

Q

I

I

M

E

G

M

R

H

T
|
T

I
|
I

C
|
C

A
|
A

L
|
L

G
|
G

D

D

A

A

A

A

A

A

M

W

P

P

V

V

R

Q

G

G

M

L

L

I

K

K

H

N

Y

F

W

R

D

E

E

E

F

I

E

E

-

D

-

R

-

I

-

D

-

S

Y

Y

H

H

V

A

A

K

H

H

binding flavin mononucleotide: G58 (= G60), R59 (= R61), G60 (= G62), G61 (= G63), K69 (= K71), N88 (= N88), D90 (= D90), E91 (= E91), Y176 (= Y176), G179 (= G179), E180 (= E180), E181 (= E181), V214 (≠ I214), T215 (≠ N215), N216 (= N216), T219 (= T219), A398 (= A396), L399 (= L397)
binding iron/sulfur cluster: I177 (= I177), P195 (= P195), S350 (= S348), C351 (= C349), G352 (= G350), Q353 (= Q351), C354 (= C352), C357 (= C355), T395 (= T393), I396 (= I394), C397 (= C395), L399 (= L397), G400 (= G398)

5ldxF Structure of mammalian respiratory complex i, class3. (see paper)
47% identity, 94% coverage: 1:417/442 of query aligns to 9:414/425 of 5ldxF

query
sites
5ldxF

M

F

T

T

S

N

L

L

H

Y

D

G

R

R

H

H

I

-

K

-

P

-

L

-

I

-

L

-

A

-

G

-

L

-

N

-

G

-

D

-

N

D

W

W

H

R

L

L

E

K

D

G

Y

A

V

Q

A

S

R

R

G

G

G

D

Y

W

A

Y

Q

K

L

T

R

K

R

E

I

I

L

L

E

L

E

K

K

G

I

-

P

-

P

P

E

D

Q

W

V

I

I

L

A

G

D

E

V

V

K

K

A

T

S

S

G

G

L

L

R

R

G
|
G

R
|
R

G
|
G

G
|
G

A
|
A

G

G

F

F

P

P

T

T

G

G

L

L

K

K

W

W

S

S

F

F

M

M

P

N

R

K

Q

P

F

S

P

D

G

G

Q

R

-

P

K

K

Y

Y

L

L

V

V

C

V

N
|
N

S

A

D
|
D

E

E

G
|
G

E

E

P
|
P

G
|
G

T

T

F

C

K

K

D

D

R

R

D

E

I

I

L

I

R

R

F

H

N

D

P

P

H

H

S

K

L

L

I

V

E

E

G

G

M

C

A

L

I

V

G

G

A

G

Y

R

A

A

M

M

G

G

I

A

T

R

V

A

G

A

Y

Y

N

I

Y

Y

I

I

H

R

G

G

E

E

I

F

W

Y

E

N

V

E

Y

A

K

S

R

N

F

L

E

Q

E

V

A

A

L

I

D

R

E

E

A

A

R

Y

R

E

A

A

G

G

F

L

L

I

G

G

E

K

N

N

I

A

M

C

G

G

S

S

G

G

F

Y

S

D

F

F

E

D

L

V

H

F

A

V

H

V

H

R

G

G

Y

A

G

G

A

A

Y

Y

I

I

C
|
C

G
|
G

E

E

E
|
E

T

T

A

A

L

L

L

I

E

E

S

S

L

I

E

E

G

G

K

K

K

Q

G

G

Q

K

P
|
P

R

R

F

L

K

K

P

P

P

P

F

F

P

P

A

A

S

D

F

V

G

G

V

V

Y

F

G

G

K

C

P

P

T

T

T

T

I
x
V

N
x
A

N
|
N

T

V

E

E

T

T

F

V

A

A

A

V

V

S

P

P

F

T

L

I

L

C

A

R

I

R

G

G

P

G

Q

A

N

W

Y

F

L

A

E

S

I

F

G

G

K

R

P

E

N

R

N

N

G

S

G

G

T

T

K

K

I

L

F

F

S

N

I

I

S

S

G

G

D

H

V

V

E

N

R

N

P

P

G

C

N

T

Y

V

E

E

V

E

P

E

L

M

G

S

T

V

P

P

F

L

A

K

T

E

L

L

M

I

E

E

L

K

-

H

A

A

G

G

G

G

M

V

R

T

G

G

G

G

-

W

R

D

K

N

I

L

K

L

A

A

V

V

I

I

P

P

G

G

G

G

S

S

S

S

A

T

P

P

V

L

I

I

P

P

G

K

D

S

V

V

M

C

M

E

Q

T

T

V

D

L

L

M

D

D

Y

F

D

D

S

A

I

L

A

I

K

Q

A

A

G

Q

S

T

M

G

L

L

G

G

S

T

G

A

A

A

V

V

I

I

V

V

M

M

D

D

E

R

T

S

R

T

C

D

M

I

V

V

R

K

S

A

L

I

L

A

R

R

L

L

S

I

Y

E

F

F

Y

Y

Y

K

E

H

E

E

S

S

C
|
C

G
|
G

Q
|
Q

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

V

G

D

W

W

L

M

Y

N

R

K

V

V

V

M

H

A

R

R

I

F

E

V

H

R

G

G

L

D

G

A

R

R

P

P

E

A

D

E

L

I

D

D

L

S

L

L

N

W

S

E

V

I

A

S

E

K

N

Q

I

I

M

E

G

G

R

H

T
|
T

I

I

C
|
C

A
|
A

L

L

G
|
G

D

D

A

G

A

A

A

A

M

W

P

P

V

V

R

Q

G

G

M

L

L

I

K

R

H

H

Y

F

W

R

D

P

E

E

F

L

E

E

binding fe2/s2 (inorganic) cluster: P89 (= P94), G90 (= G95)
binding flavin mononucleotide: G54 (= G60), R55 (= R61), G56 (= G62), G57 (= G63), A58 (= A64), N83 (= N88), D85 (= D90), G87 (= G92), C173 (= C178), G174 (= G179), E176 (= E181), V209 (≠ I214), A210 (≠ N215), N211 (= N216), A393 (= A396)
binding iron/sulfur cluster: P190 (= P195), C346 (= C349), G347 (= G350), Q348 (= Q351), C349 (= C352), C352 (= C355), T390 (= T393), C392 (= C395), G395 (= G398)

6zk91 Peripheral domain of open complex i during turnover (see paper)
47% identity, 94% coverage: 1:417/442 of query aligns to 14:419/430 of 6zk91

query
sites
6zk91

M

F

T

T

S

N

L

L

H

Y

D

G

R

R

H

H

I

-

K

-

P

-

L

-

I

-

L

-

A

-

G

-

L

-

N

-

G

-

D

-

N

D

W

W

H

R

L

L

E

K

D

G

Y

A

V

Q

A

S

R

R

G

G

G

D

Y

W

A

Y

Q

K

L

T

R

K

R

E

I

I

L

L

E

L

E

K

K

G

I

-

P

-

P

P

E

D

Q

W

V

I

I

L

A

G

D

E

V

V

K

K

A

T

S

S

G

G

L

L

R

R

G
|
G

R
|
R

G
|
G

G
|
G

A
|
A

G

G

F
|
F

P

P

T

T

G

G

L

L

K
|
K

W

W

S

S

F
|
F

M

M

P

N

R

K

Q

P

F

S

P

D

G

G

Q

R

-

P

K

K

Y

Y

L

L

V

V

C

V

N
|
N

S

A

D
|
D

E
|
E

G

G

E
|
E

P

P

G

G

T

T

F

C

K

K

D

D

R

R

D

E

I

I

L

I

R

R

F

H

N

D

P

P

H

H

S

K

L

L

I

V

E

E

G

G

M

C

A

L

I

V

G

G

A

G

Y

R

A

A

M

M

G

G

I

A

T

R

V

A

G

A

Y

Y

N

I

Y

Y

I

I

H

R

G

G

E

E

I

F

W

Y

E

N

V

E

Y

A

K

S

R

N

F

L

E

Q

E

V

A

A

L

I

D

R

E

E

A

A

R

Y

R

E

A

A

G

G

F

L

L

I

G

G

E

K

N

N

I

A

M

C

G

G

S

S

G

G

F

Y

S

D

F

F

E

D

L

V

H

F

A

V

H

V

H

R

G

G

Y

A

G

G

A

A

Y
|
Y

I
|
I

C

C

G
|
G

E
|
E

E
|
E

T

T

A

A

L

L

L

I

E

E

S

S

L

I

E

E

G

G

K

K

K

Q

G

G

Q

K

P
|
P

R

R

F

L

K
|
K

P

P

P

P

F
|
F

P

P

A

A

S

D

F

V

G

G

V

V

Y

F

G

G

K

C

P

P

T

T

T

T

I
x
V

N
x
A

N
|
N

T

V

E

E

T

T

F

V

A

A

A

V

V

S

P

P

F

T

L

I

L

C

A

R

I

R

G

G

P

G

Q

A

N

W

Y

F

L

A

E

S

I

F

G

G

K

R

P

E

N

R

N

N

G

S

G

G

T

T

K

K

I

L

F

F

S

N

I

I

S

S

G

G

D

H

V

V

E

N

R

N

P

P

G

C

N

T

Y

V

E

E

V

E

P

E

L

M

G

S

T

V

P

P

F

L

A

K

T

E

L

L

M

I

E

E

L

K

-

H

A

A

G

G

G

G

M

V

R

T

G

G

G

G

-

W

R

D

K

N

I

L

K

L

A

A

V

V

I

I

P

P

G

G

G

G

S

S

S
|
S

A

T

P

P

V

L

I

I

P

P

G

K

D

S

V

V

M

C

M

E

Q

T

T

V

D

L

L

M

D

D

Y

F

D

D

S

A

I

L

A

I

K

Q

A

A

G

Q

S

T

M

G

L

L

G

G

S
x
T

G

A

A

A

V

V

I

I

V

V

M

M

D

D

E

R

T

S

R

T

C

D

M

I

V

V

R

K

S

A

L

I

L

A

R

R

L

L

S

I

Y

E

F

F

Y

Y

Y

K

E

H

E

E

S
|
S

C
|
C

G
|
G

Q
|
Q

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

V

G

D

W

W

L

M

Y

N

R

K

V

V

V

M

H

A

R

R

I

F

E

V

H

R

G

G

L

D

G

A

R

R

P

P

E

A

D

E

L

I

D

D

L

S

L

L

N

W

S

E

V

I

A

S

E

K

N

Q

I

I

M

E

G

G

R

H

T
|
T

I
|
I

C
|
C

A
|
A

L
|
L

G

G

D

D

A

G

A

A

A

A

M

W

P

P

V

V

R

Q

G

G

M

L

L

I

K

R

H

H

Y

F

W

R

D

P

E

E

F

L

E

E

binding flavin mononucleotide: G59 (= G60), R60 (= R61), G61 (= G62), K70 (= K71), N88 (= N88), D90 (= D90), E91 (= E91), Y176 (= Y176), G179 (= G179), E180 (= E180), E181 (= E181), V214 (≠ I214), A215 (≠ N215), N216 (= N216), A398 (= A396), L399 (= L397)
binding 1,4-dihydronicotinamide adenine dinucleotide: G61 (= G62), G62 (= G63), A63 (= A64), F65 (= F66), K70 (= K71), F73 (= F74), E91 (= E91), E93 (= E93), Y176 (= Y176), E181 (= E181), K198 (= K198), F201 (= F201), S295 (= S293), T323 (≠ S321), A398 (= A396)
binding iron/sulfur cluster: I177 (= I177), P195 (= P195), S350 (= S348), C351 (= C349), G352 (= G350), Q353 (= Q351), C354 (= C352), C357 (= C355), T395 (= T393), I396 (= I394), C397 (= C395), L399 (= L397)

7dgq8 NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (see paper)
47% identity, 94% coverage: 1:417/442 of query aligns to 11:416/427 of 7dgq8

query
sites
7dgq8

M

F

T

T

S

N

L

L

H

Y

D

G

R

R

H

H

I

-

K

-

P

-

L

-

I

-

L

-

A

-

G

-

L

-

N

-

G

-

D

-

N

D

W

W

H

R

L

L

E

K

D

G

Y

A

V

Q

A

S

R

R

G

G

G

D

Y

W

A

Y

Q

K

L

T

R

K

R

E

I

I

L

L

E

L

E

K

K

G

I

-

P

-

P

P

E

D

Q

W

V

I

I

L

A

G

D

E

V

V

K

K

A

T

S

S

G

G

L

L

R

R

G
|
G

R
|
R

G
|
G

G

G

A

A

G

G

F

F

P

P

T

T

G

G

L

L

K
|
K

W

W

S

S

F

F

M

M

P

N

R

K

Q

P

F

S

P

D

G

G

Q

R

-

P

K

K

Y

Y

L

L

V

V

C

V

N
|
N

S

A

D
|
D

E
|
E

G
|
G

E

E

P

P

G

G

T

T

F

C

K

K

D

D

R

R

D

E

I

I

L

I

R

R

F

H

N

D

P

P

H

H

S

K

L

L

I

V

E

E

G

G

M

C

A

L

I

V

G

G

A

G

Y

R

A

A

M

M

G

G

I

A

T
x
R

V

A

G

A

Y

Y

N

I

Y

Y

I

I

H

R

G

G

E

E

I

F

W
x
Y

E
x
N

V

E

Y

A

K

S

R

N

F

L

E
x
Q

E

V

A

A

L

I

D
x
R

E

E

A

A

R
x
Y

R
x
E

A

A

G

G

F

L

L

I

G

G

E

K

N

N

I

A

M

C

G

G

S

S

G

G

F

Y

S

D

F

F

E

D

L

V

H
x
F

A

V

H

V

H
x
R

G

G

Y

A

G

G

A

A

Y

Y

I

I

C
|
C

G
|
G

E

E

E

E

T

T

A

A

L

L

L

I

E

E

S

S

L

I

E

E

G

G

K

K

K

Q

G

G

Q

K

P

P

R

R

F

L

K

K

P

P

P

P

F

F

P

P

A

A

S

D

F

V

G

G

V

V

Y

F

G

G

K

C

P

P

T

T

T

T

I
x
V

N
x
A

N
|
N

T

V

E

E

T

T

F

V

A

A

A

V

V

S

P

P

F

T

L

I

L

C

A

R

I

R

G

G

P

G

Q

A

N

W

Y

F

L

A

E

S

I

F

G

G

K

R

P

E

N

R

N

N

G

S

G

G

T

T

K

K

I

L

F

F

S

N

I

I

S

S

G

G

D

H

V

V

E

N

R

N

P

P

G

C

N

T

Y

V

E

E

V

E

P

E

L

M

G

S

T

V

P

P

F

L

A

K

T

E

L

L

M

I

E

E

L

K

-

H

A

A

G

G

G

G

M

V

R

T

G

G

G

G

-

W

R

D

K

N

I

L

K

L

A

A

V

V

I

I

P

P

G

G

G

G

S

S

S

S

A

T

P

P

V

L

I

I

P

P

G

K

D

S

V

V

M

C

M

E

Q

T

T

V

D

L

L

M

D

D

Y

F

D

D

S

A

I

L

A

I

K

Q

A

A

G

Q

S

T

M

G

L

L

G

G

S

T

G

A

A

A

V

V

I

I

V

V

M

M

D

D

E

R

T

S

R

T

C

D

M

I

V

V

R

K

S

A

L

I

L

A

R

R

L

L

S

I

Y

E

F

F

Y

Y

Y

K

E

H

E

E

S
|
S

C
|
C

G
|
G

Q

Q

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

V

G

D

W

W

L

M

Y

N

R

K

V

V

V

M

H

A

R

R

I

F

E

V

H

R

G

G

L

D

G

A

R

R

P

P

E

A

D

E

L

I

D

D

L

S

L

L

N

W

S

E

V

I

A

S

E

K

N

Q

I

I

M

E

G

G

R

H

T

T

I
|
I

C
|
C

A

A

L
|
L

G

G

D

D

A

G

A

A

A

A

M

W

P

P

V

V

R

Q

G

G

M

L

L

I

K

R

H

H

Y

F

W

R

D

P

E

E

F

L

E

E

binding flavin mononucleotide: G56 (= G60), R57 (= R61), G58 (= G62), K67 (= K71), N85 (= N88), D87 (= D90), E88 (= E91), G89 (= G92), C175 (= C178), G176 (= G179), V211 (≠ I214), A212 (≠ N215), N213 (= N216)
binding iron/sulfur cluster: S347 (= S348), C348 (= C349), G349 (= G350), C351 (= C352), C354 (= C355), I393 (= I394), C394 (= C395), L396 (= L397)
binding : R121 (≠ T124), Y132 (≠ W135), N133 (≠ E136), Q139 (≠ E142), R143 (≠ D146), Y146 (≠ R149), E147 (≠ R150), F165 (≠ H168), R168 (≠ H171)

7v2cA Active state complex i from q10 dataset (see paper)
47% identity, 94% coverage: 1:417/442 of query aligns to 17:422/433 of 7v2cA

query
sites
7v2cA

M

F

T

T

S

N

L

L

H

Y

D

G

R

R

H

H

I

-

K

-

P

-

L

-

I

-

L

-

A

-

G

-

L

-

N

-

G

-

D

-

N

D

W

W

H

R

L

L

E

K

D

G

Y

A

V

Q

A

S

R

R

G

G

G

D

Y

W

A

Y

Q

K

L

T

R

K

R

E

I

I

L

L

E

L

E

K

K

G

I

-

P

-

P

P

E

D

Q

W

V

I

I

L

A

G

D

E

V

V

K

K

A

T

S

S

G

G

L

L

R

R

G
|
G

R
|
R

G
|
G

G

G

A

A

G

G

F

F

P

P

T

T

G

G

L

L

K
|
K

W

W

S

S

F

F

M

M

P

N

R

K

Q

P

F

S

P

D

G

G

Q

R

-

P

K

K

Y

Y

L

L

V

V

C

V

N
|
N

S

A

D
|
D

E
|
E

G
|
G

E

E

P

P

G

G

T

T

F

C

K

K

D

D

R

R

D

E

I

I

L

I

R

R

F

H

N

D

P

P

H

H

S

K

L

L

I

V

E

E

G

G

M

C

A

L

I

V

G

G

A

G

Y

R

A

A

M

M

G

G

I

A

T

R

V

A

G

A

Y

Y

N

I

Y

Y

I

I

H

R

G

G

E

E

I

F

W

Y

E

N

V

E

Y

A

K

S

R

N

F

L

E

Q

E

V

A

A

L

I

D

R

E

E

A

A

R

Y

R

E

A

A

G

G

F

L

L

I

G

G

E

K

N

N

I

A

M

C

G

G

S

S

G

G

F

Y

S

D

F

F

E

D

L

V

H

F

A

V

H

V

H

R

G

G

Y

A

G

G

A

A

Y
|
Y

I
|
I

C

C

G
|
G

E
|
E

E
|
E

T

T

A

A

L

L

L

I

E

E

S

S

L

I

E

E

G

G

K

K

K

Q

G

G

Q

K

P
|
P

R

R

F

L

K

K

P

P

P

P

F

F

P

P

A

A

S

D

F

V

G

G

V

V

Y

F

G

G

K

C

P

P

T

T

T

T

I
x
V

N
x
A

N
|
N

T

V

E

E

T

T

F

V

A

A

A

V

V

S

P

P

F

T

L

I

L

C

A

R

I

R

G

G

P

G

Q

A

N

W

Y

F

L

A

E

S

I

F

G

G

K

R

P

E

N

R

N

N

G

S

G

G

T

T

K

K

I

L

F

F

S

N

I

I

S

S

G

G

D

H

V

V

E

N

R

H

P

P

G

C

N

T

Y

V

E

E

V

E

P

E

L

M

G

S

T

V

P

P

F

L

A

K

T

E

L

L

M

I

E

E

L

K

-

H

A

A

G

G

G

G

M

V

R

I

G

G

G

G

-

W

R

D

K

N

I

L

K

L

A

A

V

V

I

I

P

P

G

G

G

G

S

S

S

S

A

T

P

P

V

L

I

I

P

P

G

K

D

S

V

V

M

C

M

E

Q

T

T

V

D

L

L

M

D

D

Y

F

D

D

S

A

I

L

A

V

K

Q

A

A

G

Q

S

T

M

G

L

L

G

G

S

T

G

A

A

A

V

V

I

I

V

V

M

M

D

D

E

R

T

S

R

T

C

D

M

I

V

V

R

K

S

A

L

I

L

A

R

R

L

L

S

I

Y

E

F

F

Y

Y

Y

K

E

H

E

E

S
|
S

C
|
C

G
|
G

Q
|
Q

C
|
C

T

T

P

P

C
|
C

R

R

E

E

G

G

T

V

G

D

W

W

L

M

Y

N

R

K

V

V

V

M

H

A

R

R

I

F

E

V

H

K

G

G

L

D

G

A

R

R

P

P

E

A

D

E

L

I

D

D

L

S

L

L

N

W

S

E

V

I

A

S

E

K

N

Q

I

I

M

E

G

G

R

H

T
|
T

I

I

C
|
C

A
|
A

L
|
L

G

G

D

D

A

G

A

A

A

A

M

W

P

P

V

V

R

Q

G

G

M

L

L

I

K

R

H

H

Y

F

W

R

D

P

E

E

F

L

E

E

binding flavin mononucleotide: G62 (= G60), R63 (= R61), G64 (= G62), K73 (= K71), N91 (= N88), D93 (= D90), E94 (= E91), G95 (= G92), Y179 (= Y176), G182 (= G179), E183 (= E180), E184 (= E181), V217 (≠ I214), A218 (≠ N215), N219 (= N216), A401 (= A396), L402 (= L397)
binding iron/sulfur cluster: I180 (= I177), P198 (= P195), S353 (= S348), C354 (= C349), G355 (= G350), Q356 (= Q351), C357 (= C352), C360 (= C355), T398 (= T393), C400 (= C395), L402 (= L397)

8b9zF Drosophila melanogaster complex i in the active state (dm1) (see paper)
45% identity, 94% coverage: 1:417/442 of query aligns to 24:429/441 of 8b9zF

query
sites
8b9zF

M

F

T

T

S

N

L

L

H

Y

D

G

R

R

H

H

I

-

K

-

P

-

L

-

I

-

L

-

A

-

G

-

L

-

N

-

G

-

D

-

N

D

W

W

H

R

L

L

E

K

D

G

Y

A

V

L

A

K

R

R

G

G

G

D

Y

W

A

Y

Q

K

L

T

R

K

R

E

I

I

L

V

E

L

E

K

K

G

I

-

P