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Conserved domains on  [gi|3913480|sp|O14521|]
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RecName: Full=Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial; Short=CybS; AltName: Full=CII-4; AltName: Full=Malate dehydrogenase [quinone] cytochrome b small subunit; AltName: Full=QPs3; AltName: Full=Succinate dehydrogenase complex subunit D; AltName: Full=Succinate-ubiquinone oxidoreductase cytochrome b small subunit; AltName: Full=Succinate-ubiquinone reductase membrane anchor subunit; Flags: Precursor

Protein Classification

succinate dehydrogenase, hydrophobic membrane anchor protein; succinate dehydrogenase hydrophobic membrane anchor subunit( domain architecture ID 10131270)

succinate dehydrogenase, hydrophobic membrane anchor protein (SdhD), together with subunit SdhC, acts to anchor the catalytic components of succinate dehydrogenase to the cytoplasmic membrane; succinate dehydrogenase hydrophobic membrane anchor subunit (SdhD), together with subunit SdhC, acts to anchor the catalytic components of succinate dehydrogenase to the cytoplasmic membrane

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SQR_TypeC_CybS cd03496
SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to ...
 60-158 7.02e-35

SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Eukaryotic SQRs reduce high potential quinones such as ubiquinone. SQR is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type C SQRs because they contain two transmembrane subunits and one heme group. CybS and CybL are the two transmembrane proteins of eukaryotic SQRs. They contain heme and quinone binding sites. CybS is the eukaryotic homolog of the bacterial SdhD subunit. The two-electron oxidation of succinate in the flavoprotein active site is coupled to the two-electron reduction of quinone in the transmembrane subunits via electron transport through FAD and three iron-sulfur centers. The reversible reduction of quinone is an essential feature of respiration, allowing transfer of electrons between respiratory complexes. Mutations in human Complex II result in various physiological disorders including hereditary paraganglioma and pheochromocytoma tumors. The gene encoding for the SdhD subunit is classified as a tumor suppressor gene.


:

Pssm-ID: 239576  Cd Length: 104  Bit Score: 117.34  E-value: 7.02e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3913480   60 KAASLHWTSERVVSVLLLGLLPAAYLNP--CSAMDYSLAAALTLHGHWGLGQVVTDYVH---GDALQKAAKAGLLALSAL 134
Cdd:cd03496   1 LHGSYHWTFERILAVSLLPLTPAAFFAPglSPVMDAALAAALLLHSHWGFESCIIDYVPkrvGGKLHKLAMYLLYAGSAL 80

                        90       100
                ....*....|....*....|....
gi 3913480  135 TFAGLCYFNYHDVGICKAVAMLWK 158
Cdd:cd03496  81 SLAGLYYFNTNDVGLTKAVKKLWS 104
 
Name Accession Description Interval E-value
SQR_TypeC_CybS cd03496
SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to ...
 60-158 7.02e-35

SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Eukaryotic SQRs reduce high potential quinones such as ubiquinone. SQR is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type C SQRs because they contain two transmembrane subunits and one heme group. CybS and CybL are the two transmembrane proteins of eukaryotic SQRs. They contain heme and quinone binding sites. CybS is the eukaryotic homolog of the bacterial SdhD subunit. The two-electron oxidation of succinate in the flavoprotein active site is coupled to the two-electron reduction of quinone in the transmembrane subunits via electron transport through FAD and three iron-sulfur centers. The reversible reduction of quinone is an essential feature of respiration, allowing transfer of electrons between respiratory complexes. Mutations in human Complex II result in various physiological disorders including hereditary paraganglioma and pheochromocytoma tumors. The gene encoding for the SdhD subunit is classified as a tumor suppressor gene.


Pssm-ID: 239576  Cd Length: 104  Bit Score: 117.34  E-value: 7.02e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3913480   60 KAASLHWTSERVVSVLLLGLLPAAYLNP--CSAMDYSLAAALTLHGHWGLGQVVTDYVH---GDALQKAAKAGLLALSAL 134
Cdd:cd03496   1 LHGSYHWTFERILAVSLLPLTPAAFFAPglSPVMDAALAAALLLHSHWGFESCIIDYVPkrvGGKLHKLAMYLLYAGSAL 80

                        90       100
                ....*....|....*....|....
gi 3913480  135 TFAGLCYFNYHDVGICKAVAMLWK 158
Cdd:cd03496  81 SLAGLYYFNTNDVGLTKAVKKLWS 104
CybS pfam05328
CybS, succinate dehydrogenase cytochrome B small subunit; This family consists of several ...
 52-158 1.23e-17

CybS, succinate dehydrogenase cytochrome B small subunit; This family consists of several eukaryotic succinate dehydrogenase [ubiquinone] cytochrome B small subunit, mitochondrial precursor (CybS) proteins. SDHD encodes the small subunit (cybS) of cytochrome b in succinate-ubiquinone oxidoreductase (mitochondrial complex II). Mitochondrial complex II is involved in the Krebs cycle and in the aerobic electron transport chain. It contains four proteins. The catalytic core consists of a flavoprotein and an iron-sulfur protein; these proteins are anchored to the mitochondrial inner membrane by the large subunit of cytochrome b (cybL) and cybS, which together comprise the heme-protein cytochrome b. Mutations in the SDHD gene can lead to hereditary paraganglioma, characterized by the development of benign, vascularised tumours in the head and neck.


Pssm-ID: 461624  Cd Length: 131  Bit Score: 74.19  E-value: 1.23e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3913480     52 SPSHHSgskaasLHWTSERVVSVLLLGLLPAAYL--NPCSAMDYSLAAALTLHGHWGLGQVVTDYVHGD---ALQKAAKA 126
Cdd:pfam05328  26 NKSHGS------YHWTFERIVAVGLLPLTPAPFAagSPSPVLDAVLASSLLGHCHIGFQSCIIDYIPKRvygKWHKAAMY 99

                          90       100       110
                  ....*....|....*....|....*....|..
gi 3913480    127 GLLALSALTFAGLCYFNYHDVGICKAVAMLWK 158
Cdd:pfam05328 100 LLYLGTGVSLYGLYELETNDNGLTELVKKLWS 131
 
Name Accession Description Interval E-value
SQR_TypeC_CybS cd03496
SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to ...
 60-158 7.02e-35

SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Eukaryotic SQRs reduce high potential quinones such as ubiquinone. SQR is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type C SQRs because they contain two transmembrane subunits and one heme group. CybS and CybL are the two transmembrane proteins of eukaryotic SQRs. They contain heme and quinone binding sites. CybS is the eukaryotic homolog of the bacterial SdhD subunit. The two-electron oxidation of succinate in the flavoprotein active site is coupled to the two-electron reduction of quinone in the transmembrane subunits via electron transport through FAD and three iron-sulfur centers. The reversible reduction of quinone is an essential feature of respiration, allowing transfer of electrons between respiratory complexes. Mutations in human Complex II result in various physiological disorders including hereditary paraganglioma and pheochromocytoma tumors. The gene encoding for the SdhD subunit is classified as a tumor suppressor gene.


Pssm-ID: 239576  Cd Length: 104  Bit Score: 117.34  E-value: 7.02e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3913480   60 KAASLHWTSERVVSVLLLGLLPAAYLNP--CSAMDYSLAAALTLHGHWGLGQVVTDYVH---GDALQKAAKAGLLALSAL 134
Cdd:cd03496   1 LHGSYHWTFERILAVSLLPLTPAAFFAPglSPVMDAALAAALLLHSHWGFESCIIDYVPkrvGGKLHKLAMYLLYAGSAL 80

                        90       100
                ....*....|....*....|....
gi 3913480  135 TFAGLCYFNYHDVGICKAVAMLWK 158
Cdd:cd03496  81 SLAGLYYFNTNDVGLTKAVKKLWS 104
CybS pfam05328
CybS, succinate dehydrogenase cytochrome B small subunit; This family consists of several ...
 52-158 1.23e-17

CybS, succinate dehydrogenase cytochrome B small subunit; This family consists of several eukaryotic succinate dehydrogenase [ubiquinone] cytochrome B small subunit, mitochondrial precursor (CybS) proteins. SDHD encodes the small subunit (cybS) of cytochrome b in succinate-ubiquinone oxidoreductase (mitochondrial complex II). Mitochondrial complex II is involved in the Krebs cycle and in the aerobic electron transport chain. It contains four proteins. The catalytic core consists of a flavoprotein and an iron-sulfur protein; these proteins are anchored to the mitochondrial inner membrane by the large subunit of cytochrome b (cybL) and cybS, which together comprise the heme-protein cytochrome b. Mutations in the SDHD gene can lead to hereditary paraganglioma, characterized by the development of benign, vascularised tumours in the head and neck.


Pssm-ID: 461624  Cd Length: 131  Bit Score: 74.19  E-value: 1.23e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3913480     52 SPSHHSgskaasLHWTSERVVSVLLLGLLPAAYL--NPCSAMDYSLAAALTLHGHWGLGQVVTDYVHGD---ALQKAAKA 126
Cdd:pfam05328  26 NKSHGS------YHWTFERIVAVGLLPLTPAPFAagSPSPVLDAVLASSLLGHCHIGFQSCIIDYIPKRvygKWHKAAMY 99

                          90       100       110
                  ....*....|....*....|....*....|..
gi 3913480    127 GLLALSALTFAGLCYFNYHDVGICKAVAMLWK 158
Cdd:pfam05328 100 LLYLGTGVSLYGLYELETNDNGLTELVKKLWS 131
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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