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Conserved domains on  [gi|2520393919|ref|WP_285334504|]
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hypothetical protein, partial [Staphylococcus lugdunensis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
kgd super family cl39092
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 3-70 2.02e-29

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;


The actual alignment was detected with superfamily member PRK09404:

Pssm-ID: 476867 [Multi-domain]  Cd Length: 924  Bit Score: 108.66  E-value: 2.02e-29
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFMHtdpmKFLPEDGsleltaGWTGDVKYHLGG 70
Cdd:PRK09404  237 AGKLGVKEIVIGMAHRGRLNVLVNVLGKPPRDLFAEFEG----KHGPDEV------LGSGDVKYHLGF 294
 
Name Accession Description Interval E-value
sucA PRK09404
2-oxoglutarate dehydrogenase E1 component; Reviewed
 3-70 2.02e-29

2-oxoglutarate dehydrogenase E1 component; Reviewed


Pssm-ID: 236499 [Multi-domain]  Cd Length: 924  Bit Score: 108.66  E-value: 2.02e-29
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFMHtdpmKFLPEDGsleltaGWTGDVKYHLGG 70
Cdd:PRK09404  237 AGKLGVKEIVIGMAHRGRLNVLVNVLGKPPRDLFAEFEG----KHGPDEV------LGSGDVKYHLGF 294
SucA COG0567
2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes ...
 3-69 2.69e-24

2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes [Energy production and conversion]; 2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes is part of the Pathway/BioSystem: TCA cycle


Pssm-ID: 440333 [Multi-domain]  Cd Length: 935  Bit Score: 93.99  E-value: 2.69e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFmhtdpmkflpEDGSLELTAGwTGDVKYHLG 69
Cdd:COG0567   245 AGELGVKEIVIGMAHRGRLNVLVNILGKPPRDIFSEF----------EGKSAEDVLG-SGDVKYHLG 300
TPP_E1_OGDC_like cd02016
Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed ...
 3-69 6.24e-21

Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of the tricarboxylic acid cycle.


Pssm-ID: 238974 [Multi-domain]  Cd Length: 265  Bit Score: 82.58  E-value: 6.24e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFmhtdpmkflpeDGSLELTAGW--TGDVKYHLG 69
Cdd:cd02016    34 AAELGVEEVVIGMAHRGRLNVLANVLGKPLEQIFSEF-----------EGKSEFPEDDegSGDVKYHLG 91
2oxo_dh_E1 TIGR00239
2-oxoglutarate dehydrogenase, E1 component; The 2-oxoglutarate dehydrogenase complex consists ...
 3-75 3.04e-17

2-oxoglutarate dehydrogenase, E1 component; The 2-oxoglutarate dehydrogenase complex consists of this thiamine pyrophosphate-binding subunit (E1), dihydrolipoamide succinyltransferase (E2), and lipoamide dehydrogenase (E3). The E1 ortholog from Corynebacterium glutamicum is unusual in having an N-terminal extension that resembles the dihydrolipoamide succinyltransferase (E2) component of 2-oxoglutarate dehydrogenase. [Energy metabolism, TCA cycle]


Pssm-ID: 161785 [Multi-domain]  Cd Length: 929  Bit Score: 74.14  E-value: 3.04e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFMHTdPMKFLPEDgsleltagwTGDVKYHLGGV---KTTD 75
Cdd:TIGR00239 237 SVNSGTRDVVLGMAHRGRLNVLVNVLGKPPEDIFSEFAGK-HKSHLPDG---------TGDVKYHMGRFssdFTTD 302
 
Name Accession Description Interval E-value
sucA PRK09404
2-oxoglutarate dehydrogenase E1 component; Reviewed
 3-70 2.02e-29

2-oxoglutarate dehydrogenase E1 component; Reviewed


Pssm-ID: 236499 [Multi-domain]  Cd Length: 924  Bit Score: 108.66  E-value: 2.02e-29
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFMHtdpmKFLPEDGsleltaGWTGDVKYHLGG 70
Cdd:PRK09404  237 AGKLGVKEIVIGMAHRGRLNVLVNVLGKPPRDLFAEFEG----KHGPDEV------LGSGDVKYHLGF 294
SucA COG0567
2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes ...
 3-69 2.69e-24

2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes [Energy production and conversion]; 2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes is part of the Pathway/BioSystem: TCA cycle


Pssm-ID: 440333 [Multi-domain]  Cd Length: 935  Bit Score: 93.99  E-value: 2.69e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFmhtdpmkflpEDGSLELTAGwTGDVKYHLG 69
Cdd:COG0567   245 AGELGVKEIVIGMAHRGRLNVLVNILGKPPRDIFSEF----------EGKSAEDVLG-SGDVKYHLG 300
TPP_E1_OGDC_like cd02016
Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed ...
 3-69 6.24e-21

Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of the tricarboxylic acid cycle.


Pssm-ID: 238974 [Multi-domain]  Cd Length: 265  Bit Score: 82.58  E-value: 6.24e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFmhtdpmkflpeDGSLELTAGW--TGDVKYHLG 69
Cdd:cd02016    34 AAELGVEEVVIGMAHRGRLNVLANVLGKPLEQIFSEF-----------EGKSEFPEDDegSGDVKYHLG 91
kgd PRK12270
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 3-76 5.08e-18

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;


Pssm-ID: 237030 [Multi-domain]  Cd Length: 1228  Bit Score: 76.08  E-value: 5.08e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2520393919    3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFmhtdpmkflpeDGSLE-LTAGWTGDVKYHLG--GVKTTDS 76
Cdd:PRK12270   541 AAEHGLDEVVIGMAHRGRLNVLANIVGKPYSQIFREF-----------EGNLDpRSAQGSGDVKYHLGaeGTFTQMF 606
2oxo_dh_E1 TIGR00239
2-oxoglutarate dehydrogenase, E1 component; The 2-oxoglutarate dehydrogenase complex consists ...
 3-75 3.04e-17

2-oxoglutarate dehydrogenase, E1 component; The 2-oxoglutarate dehydrogenase complex consists of this thiamine pyrophosphate-binding subunit (E1), dihydrolipoamide succinyltransferase (E2), and lipoamide dehydrogenase (E3). The E1 ortholog from Corynebacterium glutamicum is unusual in having an N-terminal extension that resembles the dihydrolipoamide succinyltransferase (E2) component of 2-oxoglutarate dehydrogenase. [Energy metabolism, TCA cycle]


Pssm-ID: 161785 [Multi-domain]  Cd Length: 929  Bit Score: 74.14  E-value: 3.04e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2520393919   3 AGEAGIKNIQIGMAHRGRLNVLTHVLEKPYEMMISEFMHTdPMKFLPEDgsleltagwTGDVKYHLGGV---KTTD 75
Cdd:TIGR00239 237 SVNSGTRDVVLGMAHRGRLNVLVNVLGKPPEDIFSEFAGK-HKSHLPDG---------TGDVKYHMGRFssdFTTD 302
 
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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