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3VRB
Asym. Unit
Info
Asym.Unit (379 KB)
Biol.Unit 1 (189 KB)
Biol.Unit 2 (187 KB)
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(1)
Title
:
MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARASITIC NEMATODE ASCARIS SUUM WITH THE SPECIFIC INHIBITOR FLUTOLANIL AND SUBSTRATE FUMARATE
Authors
:
H. Shimizu, T. Shiba, D. K. Inaoka, A. Osanai, K. Kita, K. Sakamoto, S. Ha
Date
:
07 Apr 12 (Deposition) - 11 Jul 12 (Release) - 03 Jun 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.91
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Ascaris Suum, Membrane Protein, Reductase, Mitochondrial Membrane, Oxidoreductase-Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Shimizu, A. Osanai, K. Sakamoto, D. K. Inaoka, T. Shiba, S. Harada, K. Kita
Crystal Structure Of Mitochondrial Quinol-Fumarate Reductas From The Parasitic Nematode Ascaris Suum
J. Biochem. V. 151 589 2012
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Hetero Components
(8, 16)
Info
All Hetero Components
1a: L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-G... (EPHa)
1b: L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-G... (EPHb)
2a: FE3-S4 CLUSTER (F3Sa)
2b: FE3-S4 CLUSTER (F3Sb)
3a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
3b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
4a: FE2/S2 (INORGANIC) CLUSTER (FESa)
4b: FE2/S2 (INORGANIC) CLUSTER (FESb)
5a: N-[3-(1-METHYLETHOXY)PHENYL]-2-(TR... (FTNa)
5b: N-[3-(1-METHYLETHOXY)PHENYL]-2-(TR... (FTNb)
6a: FUMARIC ACID (FUMa)
6b: FUMARIC ACID (FUMb)
7a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
7b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
8a: IRON/SULFUR CLUSTER (SF4a)
8b: IRON/SULFUR CLUSTER (SF4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPH
2
Ligand/Ion
L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
2
F3S
2
Ligand/Ion
FE3-S4 CLUSTER
3
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
4
FES
2
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
5
FTN
2
Ligand/Ion
N-[3-(1-METHYLETHOXY)PHENYL]-2-(TRIFLUOROMETHYL)BENZAMIDE
6
FUM
2
Ligand/Ion
FUMARIC ACID
7
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
8
SF4
2
Ligand/Ion
IRON/SULFUR CLUSTER
[
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Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:85 , HIS A:276 , THR A:288 , GLU A:289 , ARG A:320 , HIS A:387 , ARG A:432 , ALA A:435 , FAD A:702
BINDING SITE FOR RESIDUE FUM A 701
02
AC2
SOFTWARE
GLY A:48 , ALA A:49 , GLY A:50 , GLY A:51 , ALA A:52 , THR A:71 , LYS A:72 , MET A:73 , SER A:78 , HIS A:79 , THR A:80 , ALA A:83 , GLN A:84 , GLY A:85 , GLY A:86 , TYR A:199 , ALA A:201 , ALA A:235 , THR A:236 , GLY A:237 , THR A:247 , ASP A:255 , LEU A:286 , HIS A:387 , TYR A:388 , GLY A:420 , GLU A:421 , ARG A:432 , ALA A:435 , ASN A:436 , SER A:437 , LEU A:438 , FUM A:701
BINDING SITE FOR RESIDUE FAD A 702
03
AC3
SOFTWARE
SER B:88 , CYS B:89 , ILE B:93 , CYS B:94 , GLY B:95 , CYS B:97 , CYS B:109
BINDING SITE FOR RESIDUE FES B 301
04
AC4
SOFTWARE
CYS B:182 , ILE B:183 , LEU B:184 , CYS B:185 , ALA B:186 , CYS B:187 , CYS B:188 , CYS B:249 , LEU B:253
BINDING SITE FOR RESIDUE SF4 B 302
05
AC5
SOFTWARE
CYS B:192 , TYR B:202 , CYS B:239 , HIS B:240 , THR B:241 , ILE B:242 , MET B:243 , CYS B:245
BINDING SITE FOR RESIDUE F3S B 303
06
AC6
SOFTWARE
HIS B:240 , HIS C:75 , ARG C:76 , GLY C:79 , MET C:82 , HIS C:131 , THR C:132 , ARG D:63 , ALA D:66 , MET D:69 , VAL D:70 , HIS D:95
BINDING SITE FOR RESIDUE HEM C 201
07
AC7
SOFTWARE
PRO B:193 , SER B:194 , TRP B:197 , HIS B:240 , TRP C:69 , SER C:72 , ARG C:76 , ASP D:106 , TYR D:107
BINDING SITE FOR RESIDUE FTN C 202
08
AC8
SOFTWARE
MET C:82 , THR C:85 , PRO C:127 , LEU C:133 , VAL C:170 , ALA D:76 , TYR D:77 , HIS D:80 , PHE D:150 , GLU D:151 , TRP D:154
BINDING SITE FOR RESIDUE EPH D 201
09
AC9
SOFTWARE
GLN E:84 , GLY E:85 , PHE E:153 , HIS E:276 , THR E:288 , GLU E:289 , ARG E:320 , HIS E:387 , ARG E:432 , ALA E:435 , FAD E:702
BINDING SITE FOR RESIDUE FUM E 701
10
BC1
SOFTWARE
ALA E:49 , GLY E:50 , GLY E:51 , ALA E:52 , THR E:71 , LYS E:72 , MET E:73 , SER E:78 , HIS E:79 , THR E:80 , ALA E:83 , GLN E:84 , GLY E:85 , GLY E:86 , TYR E:199 , PHE E:200 , ALA E:201 , ALA E:235 , THR E:236 , GLY E:237 , ASN E:252 , ASP E:255 , LEU E:286 , HIS E:387 , TYR E:388 , GLY E:420 , GLU E:421 , ARG E:432 , ALA E:435 , SER E:437 , LEU E:438 , FUM E:701
BINDING SITE FOR RESIDUE FAD E 702
11
BC2
SOFTWARE
SER F:88 , CYS F:89 , GLY F:92 , ILE F:93 , CYS F:94 , GLY F:95 , CYS F:97 , CYS F:109
BINDING SITE FOR RESIDUE FES F 301
12
BC3
SOFTWARE
CYS F:182 , ILE F:183 , CYS F:185 , ALA F:186 , CYS F:187 , CYS F:188 , CYS F:249 , PRO F:250 , LEU F:253
BINDING SITE FOR RESIDUE SF4 F 302
13
BC4
SOFTWARE
CYS F:192 , TYR F:202 , PRO F:205 , CYS F:239 , HIS F:240 , THR F:241 , ILE F:242 , MET F:243 , CYS F:245 , ILE F:259
BINDING SITE FOR RESIDUE F3S F 303
14
BC5
SOFTWARE
PRO F:193 , SER F:194 , TRP F:196 , TRP F:197 , HIS F:240 , TRP G:69 , SER G:72 , ARG G:76 , ASP H:106 , TYR H:107
BINDING SITE FOR RESIDUE FTN F 304
15
BC6
SOFTWARE
HIS F:240 , HIS G:75 , ARG G:76 , GLY G:79 , MET G:82 , HIS G:131 , THR G:132 , GLY G:135 , ARG H:63 , MET H:69 , HIS H:95 , VAL H:96 , GLY H:99
BINDING SITE FOR RESIDUE HEM G 201
16
BC7
SOFTWARE
MET G:82 , THR G:85 , ILE G:123 , PRO G:174 , ILE H:73 , ALA H:76 , TYR H:77 , HIS H:80 , PHE H:150 , TRP H:154 , GLU H:155
BINDING SITE FOR RESIDUE EPH H 201
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
Info
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3vrbb2 (B:139-281)
1b: SCOP_d3vrbf2 (F:139-281)
2a: SCOP_d3vrbb1 (B:33-138)
2b: SCOP_d3vrbf1 (F:33-138)
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Protein Domains
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(
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Organisms
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)
(
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Class
:
All alpha proteins
(14657)
Fold
:
Globin-like
(1351)
Superfamily
:
alpha-helical ferredoxin
(43)
Family
:
automated matches
(3)
Protein domain
:
automated matches
(3)
Pig roundworm (Ascaris suum) [TaxId: 6253]
(3)
1a
d3vrbb2
B:139-281
1b
d3vrbf2
F:139-281
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
2Fe-2S ferredoxin-like
(174)
Family
:
automated matches
(18)
Protein domain
:
automated matches
(18)
Pig roundworm (Ascaris suum) [TaxId: 6253]
(3)
2a
d3vrbb1
B:33-138
2b
d3vrbf1
F:33-138
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CATH Domains
(0, 0)
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Pfam Domains
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Chain H
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