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Conserved domains on  [gi|1806018974|gb|KAF1872247|]
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hypothetical protein Lal_00028153 [Lupinus albus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ndhB super family cl31774
NADH dehydrogenase subunit 2
 68-174 5.04e-72

NADH dehydrogenase subunit 2


The actual alignment was detected with superfamily member CHL00049:

Pssm-ID: 176990 [Multi-domain]  Cd Length: 494  Bit Score: 226.81  E-value: 5.04e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMITYMLFYISMNLGTFACIVSFGLRTGTDNIRDYA 147
Cdd:CHL00049  290 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNDGYASMITYMLFYIFMNLGTFACIVLFGLRTGTDNIRDYA 369

                          90       100
                  ....*....|....*....|....*..
gi 1806018974 148 GLYTKDPFLALSLALCLLSLGGLPPLA 174
Cdd:CHL00049  370 GLYTKDPFLALSLALCLLSLGGIPPLA 396
 
Name Accession Description Interval E-value
ndhB CHL00049
NADH dehydrogenase subunit 2
 68-174 5.04e-72

NADH dehydrogenase subunit 2


Pssm-ID: 176990 [Multi-domain]  Cd Length: 494  Bit Score: 226.81  E-value: 5.04e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMITYMLFYISMNLGTFACIVSFGLRTGTDNIRDYA 147
Cdd:CHL00049  290 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNDGYASMITYMLFYIFMNLGTFACIVLFGLRTGTDNIRDYA 369

                          90       100
                  ....*....|....*....|....*..
gi 1806018974 148 GLYTKDPFLALSLALCLLSLGGLPPLA 174
Cdd:CHL00049  370 GLYTKDPFLALSLALCLLSLGGIPPLA 396
NuoN COG1007
NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; NADH: ...
 68-155 3.70e-19

NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; NADH:ubiquinone oxidoreductase subunit 2 (chain N) is part of the Pathway/BioSystem: NADH dehydrogenase


Pssm-ID: 440631 [Multi-domain]  Cd Length: 473  Bit Score: 85.17  E-value: 3.70e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIgqigyviigiivgdSNGGY-------------ASMITYMLFYISMNLGTFACIVSF 134
Cdd:COG1007   279 SMTVGNLAALAQTNVKRMLAYSSI--------------AHAGYlllglaagtplgvSAALFYLLAYLFMNLGAFAVILLL 344

                          90       100
                  ....*....|....*....|..
gi 1806018974 135 GLR-TGTDNIRDYAGLYTKDPF 155
Cdd:COG1007   345 SRKgGEAEEIEDLAGLARRSPL 366
Proton_antipo_M pfam00361
Proton-conducting membrane transporter; This is a family of membrane transporters that ...
 68-155 1.26e-16

Proton-conducting membrane transporter; This is a family of membrane transporters that inlcudes some 7 of potentially 14-16 TM regions. In many instances the family forms part of complex I that catalyzes the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane, and in this context is a combination predominantly of subunits 2, 4, 5, 14, L, M and N. In many bacterial species these proteins are probable stand-alone transporters not coupled with oxidoreduction. The family in total represents homologs across the phyla.


Pssm-ID: 425636 [Multi-domain]  Cd Length: 291  Bit Score: 76.58  E-value: 1.26e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDsNGGYASMITYMLFYISMNLGTFACIVSFGL-RTGTDNIRDY 146
Cdd:pfam00361 157 SMLLGSLAALVQTDIKRLLAYSSISHMGYMLIALGAGT-IYGIQAAIFHLLTHGLFSAGLFLCAGSVIYrRVHTRNIRDY 235


                  ....*....
gi 1806018974 147 AGLYTKDPF 155
Cdd:pfam00361 236 GGLAKTMPI 244
NDH_I_N TIGR01770
proton-translocating NADH-quinone oxidoreductase, chain N; This model describes the 14th ...
 67-155 4.82e-10

proton-translocating NADH-quinone oxidoreductase, chain N; This model describes the 14th (based on E. coli) structural gene, N, of bacterial and chloroplast energy-transducing NADH (or NADPH) dehydrogenases. This model does not describe any subunit of the mitochondrial complex I (for which the subunit composition is very different), nor NADH dehydrogenases that are not coupled to ion transport. The Enzyme Commission designation 1.6.5.3, for NADH dehydrogenase (ubiquinone), is applied broadly, perhaps unfortunately, even if the quinone is menaquinone (Thermus, Mycobacterium) or plastoquinone (chloroplast). For chloroplast members, the name NADH-plastoquinone oxidoreductase is used for the complex and this protein is designated as subunit 2 or B. This model also includes a subunit of a related complex in the archaeal methanogen, Methanosarcina mazei, in which F420H2 replaces NADH and 2-hydroxyphenazine replaces the quinone. [Energy metabolism, Electron transport]


Pssm-ID: 273795 [Multi-domain]  Cd Length: 468  Bit Score: 58.42  E-value: 4.82e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  67 GSMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMItYMLFYISMNLGTFAC--IVSFGLRTGTDNIR 144
Cdd:TIGR01770 278 LSMLIGNFGALAQKKVKRLLAYSSISHVGYILIGLLAGTLEGIKAVLF-YIFIYALMSLGAFGVlsLLRSYKDEWIEYIS 356

                          90
                  ....*....|.
gi 1806018974 145 DYAGLYTKDPF 155
Cdd:TIGR01770 357 DFAGLFKTNPI 367
 
Name Accession Description Interval E-value
ndhB CHL00049
NADH dehydrogenase subunit 2
 68-174 5.04e-72

NADH dehydrogenase subunit 2


Pssm-ID: 176990 [Multi-domain]  Cd Length: 494  Bit Score: 226.81  E-value: 5.04e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMITYMLFYISMNLGTFACIVSFGLRTGTDNIRDYA 147
Cdd:CHL00049  290 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNDGYASMITYMLFYIFMNLGTFACIVLFGLRTGTDNIRDYA 369

                          90       100
                  ....*....|....*....|....*..
gi 1806018974 148 GLYTKDPFLALSLALCLLSLGGLPPLA 174
Cdd:CHL00049  370 GLYTKDPFLALSLALCLLSLGGIPPLA 396
PRK02504 PRK02504
NAD(P)H-quinone oxidoreductase subunit N;
68-168 4.69e-29

NAD(P)H-quinone oxidoreductase subunit N;


Pssm-ID: 235044 [Multi-domain]  Cd Length: 513  Bit Score: 113.22  E-value: 4.69e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGdSNGGYASMITYMLFYISMNLGTFACIVSFGLRTGTDNIRDYA 147
Cdd:PRK02504  286 SMVLGNVVALAQTSMKRMLAYSSIGQAGFVMIGLVAG-TEAGYASMVFYLLAYLFMNLGAFACVILFSLRTGTDQISDYA 364

                          90       100
                  ....*....|....*....|.
gi 1806018974 148 GLYTKDPFLALSLALCLLSLG 168
Cdd:PRK02504  365 GLYQKDPLLTLGLSLCLLSLG 385
NuoN COG1007
NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; NADH: ...
 68-155 3.70e-19

NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; NADH:ubiquinone oxidoreductase subunit 2 (chain N) is part of the Pathway/BioSystem: NADH dehydrogenase


Pssm-ID: 440631 [Multi-domain]  Cd Length: 473  Bit Score: 85.17  E-value: 3.70e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIgqigyviigiivgdSNGGY-------------ASMITYMLFYISMNLGTFACIVSF 134
Cdd:COG1007   279 SMTVGNLAALAQTNVKRMLAYSSI--------------AHAGYlllglaagtplgvSAALFYLLAYLFMNLGAFAVILLL 344

                          90       100
                  ....*....|....*....|..
gi 1806018974 135 GLR-TGTDNIRDYAGLYTKDPF 155
Cdd:COG1007   345 SRKgGEAEEIEDLAGLARRSPL 366
Proton_antipo_M pfam00361
Proton-conducting membrane transporter; This is a family of membrane transporters that ...
 68-155 1.26e-16

Proton-conducting membrane transporter; This is a family of membrane transporters that inlcudes some 7 of potentially 14-16 TM regions. In many instances the family forms part of complex I that catalyzes the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane, and in this context is a combination predominantly of subunits 2, 4, 5, 14, L, M and N. In many bacterial species these proteins are probable stand-alone transporters not coupled with oxidoreduction. The family in total represents homologs across the phyla.


Pssm-ID: 425636 [Multi-domain]  Cd Length: 291  Bit Score: 76.58  E-value: 1.26e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDsNGGYASMITYMLFYISMNLGTFACIVSFGL-RTGTDNIRDY 146
Cdd:pfam00361 157 SMLLGSLAALVQTDIKRLLAYSSISHMGYMLIALGAGT-IYGIQAAIFHLLTHGLFSAGLFLCAGSVIYrRVHTRNIRDY 235


                  ....*....
gi 1806018974 147 AGLYTKDPF 155
Cdd:pfam00361 236 GGLAKTMPI 244
PRK05777 PRK05777
NADH-quinone oxidoreductase subunit NuoN;
68-155 1.63e-16

NADH-quinone oxidoreductase subunit NuoN;


Pssm-ID: 235603 [Multi-domain]  Cd Length: 476  Bit Score: 77.55  E-value: 1.63e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIgqigyviigiivgdSNGGYA-------------SMITYMLFYISMNLGTFACIVSF 134
Cdd:PRK05777  280 SMLVGNLAALSQTNIKRLLAYSSI--------------AHAGYLlvglaagtaegysAVLFYLLAYLFMTLGAFGVISLL 345

                          90       100
                  ....*....|....*....|..
gi 1806018974 135 GLRTG-TDNIRDYAGLYTKDPF 155
Cdd:PRK05777  346 RRKGGeAESISDFAGLSKRSPL 367
NDH_I_N TIGR01770
proton-translocating NADH-quinone oxidoreductase, chain N; This model describes the 14th ...
 67-155 4.82e-10

proton-translocating NADH-quinone oxidoreductase, chain N; This model describes the 14th (based on E. coli) structural gene, N, of bacterial and chloroplast energy-transducing NADH (or NADPH) dehydrogenases. This model does not describe any subunit of the mitochondrial complex I (for which the subunit composition is very different), nor NADH dehydrogenases that are not coupled to ion transport. The Enzyme Commission designation 1.6.5.3, for NADH dehydrogenase (ubiquinone), is applied broadly, perhaps unfortunately, even if the quinone is menaquinone (Thermus, Mycobacterium) or plastoquinone (chloroplast). For chloroplast members, the name NADH-plastoquinone oxidoreductase is used for the complex and this protein is designated as subunit 2 or B. This model also includes a subunit of a related complex in the archaeal methanogen, Methanosarcina mazei, in which F420H2 replaces NADH and 2-hydroxyphenazine replaces the quinone. [Energy metabolism, Electron transport]


Pssm-ID: 273795 [Multi-domain]  Cd Length: 468  Bit Score: 58.42  E-value: 4.82e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  67 GSMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMItYMLFYISMNLGTFAC--IVSFGLRTGTDNIR 144
Cdd:TIGR01770 278 LSMLIGNFGALAQKKVKRLLAYSSISHVGYILIGLLAGTLEGIKAVLF-YIFIYALMSLGAFGVlsLLRSYKDEWIEYIS 356

                          90
                  ....*....|.
gi 1806018974 145 DYAGLYTKDPF 155
Cdd:TIGR01770 357 DFAGLFKTNPI 367
PRK08375 PRK08375
putative monovalent cation/H+ antiporter subunit D; Reviewed
 68-155 3.53e-08

putative monovalent cation/H+ antiporter subunit D; Reviewed


Pssm-ID: 236251 [Multi-domain]  Cd Length: 487  Bit Score: 52.96  E-value: 3.53e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMItYMLFYISMNLGTFACIVSFGLRTGTDNIRDYA 147
Cdd:PRK08375  281 SMLVGSLAALGQDDVKRVLAYSTVSQMGYILLGLALLTPLALAAGLL-HLLHHALMKGALFLAAGAIEVTYGTRRLSELS 359


                  ....*...
gi 1806018974 148 GLYTKDPF 155
Cdd:PRK08375  360 GLGRRMPL 367
HyfB COG0651
Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy ...
 60-155 1.60e-05

Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion, Inorganic ion transport and metabolism];


Pssm-ID: 440416 [Multi-domain]  Cd Length: 430  Bit Score: 44.75  E-value: 1.60e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  60 FGLIhtrgSMILGNLIAITQTSMKRMLAYSSIgqigyviigiivgdSNGGyasmitYMLFYISMN--LGTFACIV----- 132
Cdd:COG0651   278 LGLL----TMLVGALGALAQRDLKRLLAYSSV--------------SQIG------YILLGLGLGtpLGLAGALFhllnh 333

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1806018974 133 ---------SFGL---RTGTDNIRDYAGLYTKDPF 155
Cdd:COG0651   334 alakallflAAGAierATGTRDLDKLGGLGKRMPL 368
NuoM COG1008
NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; NADH: ...
 59-155 1.30e-04

NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; NADH:ubiquinone oxidoreductase subunit 4 (chain M) is part of the Pathway/BioSystem: NADH dehydrogenase


Pssm-ID: 440632 [Multi-domain]  Cd Length: 488  Bit Score: 42.38  E-value: 1.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  59 GFGLIhtrgSMILGNLIAITQTSMKRMLAYSSIgqigyviigiivgdSNGGYASMITYMLFYISMNLGTFAcIVSFGL-- 136
Cdd:COG1008   280 ALGVI----GIIYGALVALAQTDLKRLIAYSSV--------------SHMGFVLLGIFALNPLGLQGAVLQ-MVSHGLit 340

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1806018974 137 ------------RTGTDNIRDYAGLYTKDPF 155
Cdd:COG1008   341 aalfllvgvlydRTHTRDIADLGGLAKRMPV 371
ND2 MTH00199
NADH dehydrogenase subunit 2; Provisional
 68-154 7.12e-04

NADH dehydrogenase subunit 2; Provisional


Pssm-ID: 177245 [Multi-domain]  Cd Length: 460  Bit Score: 40.00  E-value: 7.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMItYMLFYISMNLGTFACIVSFGLRTGTdnIRDYA 147
Cdd:MTH00199  257 SIIYGAIGALNQTKIKRLLAYSGIGHMGFILFGVAIGSFESIQASLI-YMIIYVIMSICSFSIILSLKLTKGL--IVEVS 333


                  ....*..
gi 1806018974 148 GLYTKDP 154
Cdd:MTH00199  334 GLSRKNP 340
PRK08668 PRK08668
NADH dehydrogenase subunit M; Validated
 68-155 2.83e-03

NADH dehydrogenase subunit M; Validated


Pssm-ID: 236332 [Multi-domain]  Cd Length: 610  Bit Score: 38.44  E-value: 2.83e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  68 SMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASM---ITYMLFYISMNLGTFACIvsfgLRTGTDNIR 144
Cdd:PRK08668  282 SIIVGTLMAILQEDIKKLIAYSSVANGGYILVGLGLGTSLGFAGGLfhvFNHALFKGLFFLIFAAVI----YRTGTTKIS 357

                          90
                  ....*....|.
gi 1806018974 145 DYAGLYTKDPF 155
Cdd:PRK08668  358 EMGGLIEKMPF 368
ND2 MTH00196
NADH dehydrogenase subunit 2; Provisional
 62-155 3.40e-03

NADH dehydrogenase subunit 2; Provisional


Pssm-ID: 214453 [Multi-domain]  Cd Length: 365  Bit Score: 37.70  E-value: 3.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  62 LIHTRGSMILGNLIAITQTSMKRMLAYSSIGQIGYVIIGIIVGDSNGGYASMItYMLFYISMNLGTFACIVSFGlrTGTD 141
Cdd:MTH00196  156 LIGGLFSLFVGAIGALNQTKIKRLLAYSGIGHMGFVLWGIEIGSFESIQASLV-YLFIYIIMSICVFSIILALN--VYKN 232

                          90
                  ....*....|....
gi 1806018974 142 NIRDYAGLYTKDPF 155
Cdd:MTH00196  233 LIIEFSGLSRRLPI 246
PRK05846 PRK05846
NADH:ubiquinone oxidoreductase subunit M; Reviewed
 60-155 6.12e-03

NADH:ubiquinone oxidoreductase subunit M; Reviewed


Pssm-ID: 235622 [Multi-domain]  Cd Length: 497  Bit Score: 37.10  E-value: 6.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1806018974  60 FGLIhtrgSMILGNLIAITQTSMKRMLAYSSIgqigyviigiivgdSNGGYASMITYMLFYISMNLGTFAcIVSFGL--- 136
Cdd:PRK05846  283 LGVI----AIIYGALVALAQTDIKKLIAYSSI--------------SHMGFVTLGIFAGNQLGIQGAIFQ-MISHGLssa 343

                          90       100       110
                  ....*....|....*....|....*....|
gi 1806018974 137 -----------RTGTDNIRDYAGLYTKDPF 155
Cdd:PRK05846  344 alfllvgvlydRLHTRDIADYGGLAKVMPV 373
PRK06521 PRK06521
hydrogenase 4 subunit B; Validated
 59-90 6.59e-03

hydrogenase 4 subunit B; Validated


Pssm-ID: 235820 [Multi-domain]  Cd Length: 667  Bit Score: 37.18  E-value: 6.59e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1806018974  59 GFGLIhtrgSMILGNLIAITQTSMKRMLAYSS 90
Cdd:PRK06521  281 ALGAI----SAVLGVLYALAEHDLKRLLAYST 308
 
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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