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3ABV
Asym. Unit
Info
Asym.Unit (376 KB)
Biol.Unit 1 (365 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX II BOUND WITH N-BIPHENYL-3-YL-2-TRIFLUOROMETHYL-BENZAMIDE
Authors
:
S. Harada, T. Sasaki, M. Shindo, Y. Kido, D. K. Inaoka, J. Omori, A. Osana K. Sakamoto, J. Mao, S. Matsuoka, M. Inoue, T. Honma, A. Tanaka, K. Kita
Date
:
22 Dec 09 (Deposition) - 09 Feb 11 (Release) - 05 Aug 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.24
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Respiratory Complex Ii, Inhibitors, Electron Transport, Iron-Sulfur, Metal-Binding, Mitochondrion, Mitochondrion Inner Membrane, Oxidoreductase, Transit Peptide, Transport, Tricarboxylic Acid Cycle, Heme, Transmembrane, Fad-Binding Protein, Oxidoreductase- Oxidoreductase Inhibitor Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
D. K. Inaoka, T. Shiba, D. Sato, E. O. Balogun, T. Sasaki, M. Nagahama, M. Oda, S. Matsuoka, J. Ohmori, T. Honma, M. Inoue, K. Kita, S. Harada
Structural Insights Into The Molecular Design Of Flutolanil Derivatives Targeted For Fumarate Respiration Of Parasite Mitochondria
Int J Mol Sci V. 16 15287 2015
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Hetero Components
(8, 8)
Info
All Hetero Components
1a: L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-G... (EPHa)
2a: FE3-S4 CLUSTER (F3Sa)
3a: N-BIPHENYL-3-YL-2-(TRIFLUOROMETHYL... (F6Aa)
4a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
5a: FE2/S2 (INORGANIC) CLUSTER (FESa)
6a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
7a: MALONATE ION (MLIa)
8a: IRON/SULFUR CLUSTER (SF4a)
View:
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Label:
No.
Name
Count
Type
Full Name
1
EPH
1
Ligand/Ion
L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
2
F3S
1
Ligand/Ion
FE3-S4 CLUSTER
3
F6A
1
Ligand/Ion
N-BIPHENYL-3-YL-2-(TRIFLUOROMETHYL)BENZAMIDE
4
FAD
1
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
5
FES
1
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
6
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
7
MLI
1
Ligand/Ion
MALONATE ION
8
SF4
1
Ligand/Ion
IRON/SULFUR CLUSTER
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:26 , ALA A:27 , GLY A:28 , GLY A:29 , ALA A:30 , THR A:49 , LYS A:50 , LEU A:51 , SER A:56 , HIS A:57 , THR A:58 , ALA A:60 , ALA A:61 , GLN A:62 , GLY A:63 , GLY A:64 , TYR A:177 , PHE A:178 , ALA A:179 , ALA A:213 , THR A:214 , GLY A:215 , THR A:225 , ASP A:233 , LEU A:264 , HIS A:365 , TYR A:366 , GLU A:398 , ARG A:409 , ALA A:412 , ASN A:413 , SER A:414 , LEU A:415 , LEU A:418 , MLI A:701
BINDING SITE FOR RESIDUE FAD A 700
2
AC2
SOFTWARE
GLN A:62 , GLY A:63 , PHE A:131 , HIS A:254 , LEU A:264 , THR A:266 , GLU A:267 , ARG A:298 , HIS A:365 , ARG A:409 , ALA A:412 , FAD A:700
BINDING SITE FOR RESIDUE MLI A 701
3
AC3
SOFTWARE
SER B:64 , CYS B:65 , ARG B:66 , GLY B:68 , CYS B:70 , GLY B:71 , CYS B:73 , CYS B:85
BINDING SITE FOR RESIDUE FES B 302
4
AC4
SOFTWARE
HIS C:45 , ARG C:46 , GLY C:49 , LEU C:52 , SER C:53 , HIS C:101 , THR C:102 , GLY C:105 , ILE C:106 , HIS C:108 , ARG D:47 , SER D:50 , LEU D:76 , HIS D:79 , GLY D:83
BINDING SITE FOR RESIDUE HEM C 1305
5
AC5
SOFTWARE
CYS B:158 , ILE B:159 , LEU B:160 , CYS B:161 , ALA B:162 , CYS B:163 , CYS B:164 , CYS B:225 , PRO B:226
BINDING SITE FOR RESIDUE SF4 B 303
6
AC6
SOFTWARE
PRO B:169 , SER B:170 , TRP B:172 , TRP B:173 , HIS B:216 , TRP C:35 , MET C:39 , SER C:42 , ARG C:46 , ASP D:90 , TYR D:91
BINDING SITE FOR RESIDUE F6A B 1201
7
AC7
SOFTWARE
TYR D:61 , LEU D:133 , TRP D:134
BINDING SITE FOR RESIDUE EPH D 1306
8
AC8
SOFTWARE
CYS B:168 , SER B:170 , TYR B:178 , CYS B:215 , THR B:217 , ILE B:218 , MET B:219 , ASN B:220 , CYS B:221 , ILE B:235
BINDING SITE FOR RESIDUE F3S B 304
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(7, 7)
Info
All PROSITE Patterns/Profiles
1: 2FE2S_FER_2 (B:12-103)
2: SDH_CYT_1 (C:24-48)
3: 2FE2S_FER_1 (B:65-73)
4: FRD_SDH_FAD_BINDING (A:55-64)
5: SDH_CYT_2 (C:101-114)
6: 4FE4S_FER_2 (B:148-178)
7: 4FE4S_FER_1 (B:158-169)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
2FE2S_FER_2
PS51085
2Fe-2S ferredoxin-type iron-sulfur binding domain profile.
SDHB_PIG
40-131
1
B:12-103
2
SDH_CYT_1
PS01000
Succinate dehydrogenase cytochrome b subunit signature 1.
C560_PIG
50-74
1
C:24-48
3
2FE2S_FER_1
PS00197
2Fe-2S ferredoxin-type iron-sulfur binding region signature.
SDHB_PIG
93-101
1
B:65-73
4
FRD_SDH_FAD_BINDING
PS00504
Fumarate reductase / succinate dehydrogenase FAD-binding site.
SDHA_PIG
97-106
1
A:55-64
5
SDH_CYT_2
PS01001
Succinate dehydrogenase cytochrome b subunit signature 2.
C560_PIG
127-140
1
C:101-114
6
4FE4S_FER_2
PS51379
4Fe-4S ferredoxin-type iron-sulfur binding domain profile.
SDHB_PIG
176-206
1
B:148-178
7
4FE4S_FER_1
PS00198
4Fe-4S ferredoxin-type iron-sulfur binding region signature.
SDHB_PIG
186-197
1
B:158-169
[
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Exons
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (376 KB)
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