3VRB | pdb_00003vrb

Mitochondrial rhodoquinol-fumarate reductase from the parasitic nematode Ascaris suum with the specific inhibitor flutolanil and substrate fumarate


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
HCybSe3vrbH2 A: alpha bundlesX: Transmembrane heme-binding four-helical bundle (From Homology)H: Transmembrane heme-binding four-helical bundleT: Fumarate reductase respiratory complex transmembrane subunitsF: CybSECOD (1.6)
DCybSe3vrbD2 A: alpha bundlesX: Transmembrane heme-binding four-helical bundle (From Homology)H: Transmembrane heme-binding four-helical bundleT: Fumarate reductase respiratory complex transmembrane subunitsF: CybSECOD (1.6)
GSdh_cyte3vrbG2 A: alpha bundlesX: Transmembrane heme-binding four-helical bundle (From Homology)H: Transmembrane heme-binding four-helical bundleT: Fumarate reductase respiratory complex transmembrane subunitsF: Sdh_cytECOD (1.6)
CSdh_cyte3vrbC2 A: alpha bundlesX: Transmembrane heme-binding four-helical bundle (From Homology)H: Transmembrane heme-binding four-helical bundleT: Fumarate reductase respiratory complex transmembrane subunitsF: Sdh_cytECOD (1.6)
FFer4_8e3vrbF5 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_8ECOD (1.6)
FFer2_3e3vrbF6 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Ubiquitin-likeF: Fer2_3ECOD (1.6)
BFer4_8e3vrbB5 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_8ECOD (1.6)
BFer2_3e3vrbB6 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Ubiquitin-likeF: Fer2_3ECOD (1.6)
ESucc_DH_flav_Ce3vrbE2 A: alpha bundlesX: Spectrin repeat-likeH: Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain (From Topology)T: Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domainF: Succ_DH_flav_CECOD (1.6)
EFAD_binding_2e3vrbE1 A: a+b complex topologyX: Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain (From Topology)H: Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain (From Topology)T: Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domainF: FAD_binding_2ECOD (1.6)
EFAD_binding_3_1ste3vrbE3 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: FAD_binding_3_1stECOD (1.6)
ASucc_DH_flav_Ce3vrbA1 A: alpha bundlesX: Spectrin repeat-likeH: Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain (From Topology)T: Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domainF: Succ_DH_flav_CECOD (1.6)
AFAD_binding_2e3vrbA3 A: a+b complex topologyX: Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain (From Topology)H: Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain (From Topology)T: Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domainF: FAD_binding_2ECOD (1.6)
AFAD_binding_3_1ste3vrbA2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: FAD_binding_3_1stECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
H1.20.1300.10 Mainly Alpha Up-down Bundle 3 helical TM bundles of succinate and fumarate reductases Fumarate reductase/succinate dehydrogenase, transmembrane subunitCATH (4.3.0)
D1.20.1300.10 Mainly Alpha Up-down Bundle 3 helical TM bundles of succinate and fumarate reductases Fumarate reductase/succinate dehydrogenase, transmembrane subunitCATH (4.3.0)
G1.20.1300.10 Mainly Alpha Up-down Bundle 3 helical TM bundles of succinate and fumarate reductases Fumarate reductase/succinate dehydrogenase, transmembrane subunitCATH (4.3.0)
C1.20.1300.10 Mainly Alpha Up-down Bundle 3 helical TM bundles of succinate and fumarate reductases Fumarate reductase/succinate dehydrogenase, transmembrane subunitCATH (4.3.0)
F3.10.20.30 Alpha Beta Roll Ubiquitin-like (UB roll) Beta-grasp domainCATH (4.3.0)
F1.10.1060.10 Mainly Alpha Orthogonal Bundle Fumarate Reductase Iron-sulfur Protein Chain B, domain 2CATH (4.3.0)
B3.10.20.30 Alpha Beta Roll Ubiquitin-like (UB roll) Beta-grasp domainCATH (4.3.0)
B1.10.1060.10 Mainly Alpha Orthogonal Bundle Fumarate Reductase Iron-sulfur Protein Chain B, domain 2CATH (4.3.0)
E3.50.50.60 Alpha Beta 3-Layer(bba) Sandwich FAD/NAD(P)-binding domain FAD/NAD(P)-binding domainCATH (4.3.0)
E3.90.700.10 Alpha Beta Alpha-Beta Complex Flavocytochrome C3 Chain A, domain 1CATH (4.3.0)
E1.20.58.100 Mainly Alpha Up-down Bundle Methane Monooxygenase Hydroxylase Chain G, domain 1CATH (4.3.0)
E4.10.80.40 Few Secondary Structures Irregular Rhinovirus 14, subunit 4 succinate dehydrogenase protein domainCATH (4.3.0)
A3.50.50.60 Alpha Beta 3-Layer(bba) Sandwich FAD/NAD(P)-binding domain FAD/NAD(P)-binding domainCATH (4.3.0)
A3.90.700.10 Alpha Beta Alpha-Beta Complex Flavocytochrome C3 Chain A, domain 1CATH (4.3.0)
A1.20.58.100 Mainly Alpha Up-down Bundle Methane Monooxygenase Hydroxylase Chain G, domain 1CATH (4.3.0)
A4.10.80.40 Few Secondary Structures Irregular Rhinovirus 14, subunit 4 succinate dehydrogenase protein domainCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D, H
PF05328CybS, succinate dehydrogenase cytochrome B small subunit (CybS)CybS, succinate dehydrogenase cytochrome B small subunit- Family
C, G
PF01127Succinate dehydrogenase/Fumarate reductase transmembrane subunit (Sdh_cyt)Succinate dehydrogenase/Fumarate reductase transmembrane subunit- Family
B, F
PF130852Fe-2S iron-sulfur cluster binding domain (Fer2_3)2Fe-2S iron-sulfur cluster binding domainThe 2Fe-2S ferredoxin family have a general core structure consisting of beta(2)-alpha-beta(2) which abeta-grasp type fold. The domain is around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated. Domain
B, F
PF135344Fe-4S dicluster domain (Fer4_17)4Fe-4S dicluster domainThis family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich. Domain
A, E
PF02910Fumarate reductase flavoprotein C-term (Succ_DH_flav_C)Fumarate reductase flavoprotein C-termThis family contains fumarate reductases, succinate dehydrogenases and L-aspartate oxidases. Domain
A, E
PF00890FAD binding domain (FAD_binding_2)FAD binding domainThis family includes members that bind FAD. This family includes the flavoprotein subunits from succinate and fumarate dehydrogenase, aspartate oxidase and the alpha subunit of adenylylsulphate reductase. Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
D, H
Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial
C, G
Cytochrome b-large subunit
B, F
Iron-sulfur subunit of succinate dehydrogenase
A, E
Flavoprotein subunit of complex II

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
D, H
IPR034804Fumarate reductase/succinate dehydrogenase, transmembrane subunitHomologous Superfamily
D, H
IPR007992Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, CybSFamily
C, G
IPR018495Succinate dehydrogenase, cytochrome b subunit, conserved siteConserved Site
C, G
IPR034804Fumarate reductase/succinate dehydrogenase, transmembrane subunitHomologous Superfamily
C, G
IPR000701Succinate dehydrogenase/fumarate reductase type B, transmembrane subunitFamily
C, G
IPR014314Succinate dehydrogenase, cytochrome b556 subunitFamily
B, F
IPR025192Succinate dehydogenase/fumarate reductase N-terminalDomain
B, F
IPR0360102Fe-2S ferredoxin-like superfamilyHomologous Superfamily
B, F
IPR0010412Fe-2S ferredoxin-type iron-sulfur binding domainDomain
B, F
IPR0060582Fe-2S ferredoxin, iron-sulphur binding siteBinding Site
B, F
IPR004489Succinate dehydrogenase/fumarate reductase iron-sulphur proteinFamily
B, F
IPR009051Alpha-helical ferredoxinHomologous Superfamily
B, F
IPR050573Succinate Dehydrogenase/Fumarate Reductase Iron-SulfurFamily
B, F
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
B, F
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
B, F
IPR012675Beta-grasp domain superfamilyHomologous Superfamily
A, E
IPR003953FAD-dependent oxidoreductase 2, FAD-binding domainDomain
A, E
IPR015939Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminalDomain
A, E
IPR003952Fumarate reductase/succinate dehydrogenase, FAD-binding siteBinding Site
A, E
IPR037099Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain superfamilyHomologous Superfamily
A, E
IPR036188FAD/NAD(P)-binding domain superfamilyHomologous Superfamily
A, E
IPR030664FAD-dependent oxidoreductase SdhA/FrdA/AprAFamily
A, E
IPR027477Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain superfamilyHomologous Superfamily
A, E
IPR014006Succinate dehydrogenase/fumarate reductase, flavoprotein subunitFamily
A, E
IPR011281Succinate dehydrogenase, flavoprotein subunitFamily

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
A, B, C, D, E
PDBTMAnnotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

ChainsExternal LinkComment
A, B, C, D, E
MemProtMDAnnotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage