SitesBLAST

P07598 Periplasmic [Fe] hydrogenase large subunit; Fe hydrogenlyase; EC 1.12.7.2 from Desulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / NCIMB 8303 / VKM B-1760 / Hildenborough) (see paper)
27% identity, 29% coverage: 24:155/448 of query aligns to 34:134/421 of P07598

query
sites
P07598

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C35 (= C25) binding
C38 (= C28) binding
C41 (= C31) binding
C45 (= C35) binding
C66 (= C76) binding
C69 (= C79) binding
C72 (= C82) binding
C76 (= C86) binding

Sites not aligning to the query:

179 binding
234 binding
378 binding
382 binding ; binding

1e08A Structural model of the [fe]-hydrogenase/cytochrome c553 complex combining nmr and soft-docking (see paper)
27% identity, 29% coverage: 24:155/448 of query aligns to 8:108/371 of 1e08A

query
sites
1e08A

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binding fe (ii) ion: P82 (= P127)
binding heme c: C12 (= C28), D13 (≠ G29), G29 (= G62)
binding 1,3-propanedithiol: A81 (≠ N126), P82 (= P127), A83 (≠ R128), V84 (≠ L129)
binding iron/sulfur cluster: K8 (= K24), C9 (= C25), I10 (≠ V26), G11 (≠ H27), C12 (= C28), D13 (≠ G29), C15 (= C31), Y18 (≠ T34), C19 (= C35), I24 (≠ L40), H32 (= H68), C40 (= C76), N42 (≠ S78), C43 (= C79), C43 (= C79), G44 (≠ L80), C46 (= C82), H49 (≠ T85), C50 (= C86), I55 (≠ N91)

Sites not aligning to the query:

active site: 130, 133, 152, 172, 211, 214, 219, 356
binding fe (ii) ion: 267, 270
binding 1,3-propanedithiol: 269, 270, 271
binding iron/sulfur cluster: 1, 2, 4, 153, 154, 208, 211, 350, 351, 352, 355, 356, 359

6sg2AAA Periplasmic [Fe] hydrogenase large subunit (see paper)
27% identity, 29% coverage: 24:155/448 of query aligns to 33:133/396 of 6sg2AAA

query
sites
6sg2AAA

K

K

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binding dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) sulphide: A106 (≠ N126), P107 (= P127), A108 (≠ R128)
binding iron/sulfur cluster: C34 (= C25), I35 (≠ V26), G36 (≠ H27), C37 (= C28), D38 (≠ G29), T39 (≠ F30), C40 (= C31), C44 (= C35), P45 (= P36), A48 (≠ V39), I49 (≠ L40), H57 (= H68), I59 (≠ V70), C65 (= C76), I66 (≠ L77), N67 (≠ S78), C68 (= C79), G69 (≠ L80), C71 (= C82), C75 (= C86), E77 (≠ S88), I80 (≠ N91)

Sites not aligning to the query:

active site: 155, 158, 177, 197, 236, 239, 244, 381
binding dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+) sulphide: 144, 177, 178, 201, 202, 203, 231, 232, 233, 236, 295, 296, 375, 381
binding iron/sulfur cluster: 178, 233, 375, 376, 377, 381

1hfeM 1.6 a resolution structure of the fe-only hydrogenase from desulfovibrio desulfuricans (see paper)
27% identity, 29% coverage: 24:155/448 of query aligns to 33:133/396 of 1hfeM

query
sites
1hfeM

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binding cysteine: Q70 (≠ S81), T73 (= T84), H74 (≠ T85)
binding iron/sulfur cluster: C34 (= C25), I35 (≠ V26), G36 (≠ H27), C37 (= C28), D38 (≠ G29), T39 (≠ F30), C40 (= C31), C44 (= C35), P45 (= P36), I49 (≠ L40), H57 (= H68), I59 (≠ V70), C65 (= C76), I66 (≠ L77), N67 (≠ S78), C68 (= C79), G69 (≠ L80), C71 (= C82), C75 (= C86), E77 (≠ S88), I80 (≠ N91)

Sites not aligning to the query:

active site: 155, 158, 177, 197, 236, 239, 244, 381
binding cysteine: 383, 384, 387, 388, 389, 390
binding 1,3-propanedithiol: 177, 178, 236, 295, 301, 375, 381
binding iron/sulfur cluster: 29, 178, 179, 180, 233, 375, 376, 377, 381
binding zinc ion: 395, 396

Q9YHT2 Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial; Iron-sulfur subunit of complex II; Ip; EC 1.3.5.1 from Gallus gallus (Chicken) (see 2 papers)
28% identity, 16% coverage: 22:91/448 of query aligns to 193:268/290 of Q9YHT2

query
sites
Q9YHT2

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N

W211 (≠ L40) binding

2wdrB E. Coli succinate:quinone oxidoreductase (sqr) with pentachlorophenol bound (see paper)
23% identity, 19% coverage: 22:108/448 of query aligns to 146:238/238 of 2wdrB

query
sites
2wdrB

L

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binding fe3-s4 cluster: C159 (= C35), P172 (= P48), C206 (= C76), H207 (≠ L77), S208 (= S78), I209 (≠ C79), M210 (≠ L80), N211 (≠ S81), C212 (= C82), T223 (≠ M93)
binding pentachlorophenol: P160 (= P36), W164 (≠ L40), I209 (≠ C79)
binding iron/sulfur cluster: C149 (= C25), I150 (≠ V26), L151 (≠ H27), C152 (= C28), A153 (≠ G29), C155 (= C31), A173 (≠ R49), C216 (= C86), P217 (= P87)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 53, 54, 55, 56, 58, 59, 60, 61, 63, 73, 75

2wdqB E. Coli succinate:quinone oxidoreductase (sqr) with carboxin bound (see paper)
23% identity, 19% coverage: 22:108/448 of query aligns to 146:238/238 of 2wdqB

query
sites
2wdqB

L

L

R

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K

E

C
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C

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x
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C

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C

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A

binding 2-methyl-n-phenyl-5,6-dihydro-1,4-oxathiine-3-carboxamide: P160 (= P36), S161 (≠ T37), W164 (≠ L40), H207 (≠ L77), I209 (≠ C79)
binding fe3-s4 cluster: C159 (= C35), P172 (= P48), C206 (= C76), H207 (≠ L77), S208 (= S78), I209 (≠ C79), M210 (≠ L80), N211 (≠ S81), C212 (= C82), T223 (≠ M93)
binding iron/sulfur cluster: C149 (= C25), I150 (≠ V26), L151 (≠ H27), C152 (= C28), A153 (≠ G29), C154 (≠ F30), C155 (= C31), A173 (≠ R49), C216 (= C86), P217 (= P87)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 53, 54, 55, 56, 58, 59, 60, 61, 62, 63, 75

2aczB Complex ii (succinate dehydrogenase) from e. Coli with atpenin a5 inhibitor co-crystallized at the ubiquinone binding site (see paper)
23% identity, 19% coverage: 22:108/448 of query aligns to 146:238/238 of 2aczB

query
sites
2aczB

L

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C
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L
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W

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A

binding 3-[(2s,4s,5r)-5,6-dichloro-2,4-dimethyl-1-oxohexyl]-4-hydroxy-5,6-dimethoxy-2(1h)-pyridinone: P160 (= P36), W164 (≠ L40), H207 (≠ L77), I209 (≠ C79)
binding fe3-s4 cluster: C159 (= C35), P172 (= P48), C206 (= C76), S208 (= S78), I209 (≠ C79), M210 (≠ L80), N211 (≠ S81), C212 (= C82), T223 (≠ M93), I226 (≠ V96)
binding iron/sulfur cluster: C149 (= C25), I150 (≠ V26), L151 (≠ H27), C152 (= C28), A153 (≠ G29), C154 (≠ F30), C155 (= C31), C216 (= C86), L220 (≠ V90)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 53, 54, 55, 56, 58, 59, 60, 61, 63, 75

1nenB Complex ii (succinate dehydrogenase) from e. Coli with dinitrophenol-17 inhibitor co-crystallized at the ubiquinone binding site (see paper)
23% identity, 19% coverage: 22:108/448 of query aligns to 146:238/238 of 1nenB

query
sites
1nenB

L

L

R

Y

K

E

C
|
C

V
x
I

H
x
L

C
|
C

G
x
A

F
x
C

C
|
C

T

S

A

T

T

S

C
|
C

P
|
P

T

S

Y

F

V
x
W

L
x
W

L

N

G

P

D

D

E

K

L

F

D

I

S

G

P
|
P

R

A

G

G

R

L

I

L

Y

A

Q

A

I

Y

K

R

D

F

M

L

L

I

E

D

K

S

G

R

G
x
D

P

T

P

E

T
|
T

E

D

H

S

Q

R

V

L

K

D

-

G

-

L

-

S

-

D

-

A

-

F

H

S

V

V

D

F

R

R

C
|
C

L
x
H

S
|
S

C
x
I

L
x
M

S
x
N

C
|
C

M

V

T

S

T

V

C
|
C

P

P

S

K

G

G

V
x
L

N

N

Y

P

M
x
T

H

R

L

A

V

I

D

G

H

H

A

I

R

K

A

S

H

M

I

L

E

L

A

Q

T

R

H

N

A

A

binding calcium ion: D187 (≠ G63), T190 (= T66)
binding 2-[1-methylhexyl]-4,6-dinitrophenol: P160 (= P36), W163 (≠ V39), W164 (≠ L40), I209 (≠ C79)
binding fe3-s4 cluster: C159 (= C35), P172 (= P48), C206 (= C76), H207 (≠ L77), S208 (= S78), I209 (≠ C79), M210 (≠ L80), N211 (≠ S81), C212 (= C82), T223 (≠ M93)
binding iron/sulfur cluster: C149 (= C25), I150 (≠ V26), L151 (≠ H27), C152 (= C28), A153 (≠ G29), C154 (≠ F30), C155 (= C31), C216 (= C86), L220 (≠ V90)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 54, 55, 56, 58, 59, 60, 61, 63, 75

1nekB Complex ii (succinate dehydrogenase) from e. Coli with ubiquinone bound (see paper)
23% identity, 19% coverage: 22:108/448 of query aligns to 146:238/238 of 1nekB

query
sites
1nekB

L

L

R

Y

K

E

C
|
C

V
x
I

H
x
L

C
|
C

G
x
A

F
x
C

C
|
C

T

S

A

T

T

S

C
|
C

P
|
P

T

S

Y

F

V

W

L
x
W

L

N

G

P

D

D

E

K

L

F

D

I

S

G

P
|
P

R
x
A

G

G

R

L

I

L

Y

A

Q

A

I

Y

K

R

D

F

M

L

L

I

E

D

K

S

G

R

G
x
D

P

T

P

E

T
|
T

E

D

H

S

Q

R

V

L

K

D

-

G

-

L

-

S

-

D

-

A

-

F

H

S

V

V

D

F

R

R

C
|
C

L
x
H

S
|
S

C
x
I

L
x
M

S
x
N

C
|
C

M

V

T

S

T

V

C
|
C

P
|
P

S

K

G

G

V
x
L

N

N

Y

P

M
x
T

H

R

L

A

V

I

D

G

H

H

A

I

R

K

A

S

H

M

I

L

E

L

A

Q

T

R

H

N

A

A

binding calcium ion: D187 (≠ G63), T190 (= T66)
binding fe3-s4 cluster: C159 (= C35), P172 (= P48), C206 (= C76), H207 (≠ L77), S208 (= S78), I209 (≠ C79), M210 (≠ L80), N211 (≠ S81), C212 (= C82), T223 (≠ M93)
binding iron/sulfur cluster: C149 (= C25), I150 (≠ V26), L151 (≠ H27), C152 (= C28), A153 (≠ G29), C154 (≠ F30), C155 (= C31), A173 (≠ R49), C216 (= C86), P217 (= P87), L220 (≠ V90)
binding ubiquinone-2: P160 (= P36), W164 (≠ L40), I209 (≠ C79)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 54, 55, 56, 58, 59, 60, 61, 63, 75

P07014 Succinate dehydrogenase iron-sulfur subunit; EC 1.3.5.1 from Escherichia coli (strain K12) (see paper)
23% identity, 19% coverage: 22:108/448 of query aligns to 146:238/238 of P07014

query
sites
P07014

L

L

R

Y

K

E

C

C

V

I

H

L

C

C

G

A

F

C

C

C

T

S

A

T

T

S

C

C

P

P

T

S

Y

F

V

W

L
x
W

L

N

G

P

D

D

E

K

L

F

D

I

S

G

P

P

R

A

G

G

R

L

I

L

Y

A

Q

A

I

Y

K

R

D

F

M

L

L

I

E

D

K

S

G

R

G

D

P

T

P

E

T

T

E

D

H

S

Q

R

V

L

K

D

-

G

-

L

-

S

-

D

-

A

-

F

H

S

V

V

D

F

R

R

C

C

L

H

S

S

C

I

L

M

S

N

C

C

M

V

T

S

T

V

C

C

P

P

S

K

G

G

V

L

N

N

Y

P

M

T

H

R

L

A

V

I

D

G

H

H

A

I

R

K

A

S

H

M

I

L

E

L

A

Q

T

R

H

N

A

A

W164 (≠ L40) binding

Query Sequence

>AZOBR_RS05735 AZOBR_RS05735 2-hydroxy-acid oxidase
MQTNFTLTQLANADYRDSEAILRKCVHCGFCTATCPTYVLLGDELDSPRGRIYQIKDMLE
KGGPPTEHQVKHVDRCLSCLSCMTTCPSGVNYMHLVDHARAHIEATHARPPADRAIRDLL
ARVLPNPRLFRLALIAAWFGKPFAGLLPGRLGALLALAPKSVPGPSHSDRPGSHPAVGPR
RKRAALLVGCAQQVLAPQINEATIRLLNRQGVEVVVAKGADCCGALTHHMGKTDLSDAAA
KKTINAWIAEMDGEGLDAIIVNTSGCGTTVKDYAFQFREDAEYAPKALRVAAIARDVTEF
LAEIGLSAPVIETGQAIAYHSACSMQHGQRIKDPPRHLLRGAGFEVKEIPEAHICCGSAG
TYNMLQPEIAVQLRDRKVRNIESTKAAAIAAGNLGCITQIATGTGLPVVHTVELLDWATG
GPKPDALRDSPAFAGPAQAPGAAVRAAE

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