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Conserved domains on  [gi|2784090989|pdb|8Q05|X]
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Chain X, Ribulose bisphosphate carboxylase small subunit, chloroplastic

Protein Classification

ribulose bisphosphate carboxylase small subunit( domain architecture ID 10131473)

small subunit of ribulose bisphosphate carboxylase, which catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 53-169 1.12e-61

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.


:

Pssm-ID: 239603  Cd Length: 99  Bit Score: 186.31  E-value: 1.12e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X       53 KFFETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAESaytsnencvrmqnttclyYDNRYWTMWKLPMFGCTDGGQV 132
Cdd:cd03527   1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEH------------------YDNRYWTMWKLPMFGCTDPAQV 62

                        90       100       110
                ....*....|....*....|....*....|....*..
8Q05_X      133 LREVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:cd03527  63 LREIEACRKAYPDHYVRVVGFDNYKQSQCMSFIVHRP 99
 
Name Accession Description Interval E-value
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 53-169 1.12e-61

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.


Pssm-ID: 239603  Cd Length: 99  Bit Score: 186.31  E-value: 1.12e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X       53 KFFETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAESaytsnencvrmqnttclyYDNRYWTMWKLPMFGCTDGGQV 132
Cdd:cd03527   1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEH------------------YDNRYWTMWKLPMFGCTDPAQV 62

                        90       100       110
                ....*....|....*....|....*....|....*..
8Q05_X      133 LREVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:cd03527  63 LREIEACRKAYPDHYVRVVGFDNYKQSQCMSFIVHRP 99
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
55-169 1.84e-58

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 177.69  E-value: 1.84e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X         55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAEsaytsnencvrmqnttclYYDNRYWTMWKLPMFGCTDGGQVLR 134
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIEFTDDP------------------HPRNRYWTMWKLPMFGCTDPAQVLA 62

                          90       100       110
                  ....*....|....*....|....*....|....*
8Q05_X        135 EVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:pfam00101  63 ELEACRKAYPNHYIRLIGFDNYRQSQVMSFIVQRP 97
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 1-170 3.80e-56

ribulose-bisphosphate carboxylase small chain


Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 175.05  E-value: 3.80e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X         1 MACTIAAVAPVAVRPVAAT--------------PLKQARNTFAARTVSNAtiKKTTAMQVWTPLNNKFFETFSYLPPMTD 66
Cdd:PLN02289   1 MASSMLSSAAVATSPAQATmvapftglkssaafPVTRKANNDITSIASNG--GRVSCMQVWPPIGKKKFETLSYLPDLTD 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X        67 AEISRQVDYIVSNGWTPCLEFAgAESAYTSNENcvrmqNTTCLYYDNRYWTMWKLPMFGCTDGGQVLREVQACRRAFPDA 146
Cdd:PLN02289  79 EELAKEVDYLLRNKWVPCLEFE-LEHGFVYREH-----HRSPGYYDGRYWTMWKLPMFGCTDSAQVLKELEEAKKAYPNA 152

                        170       180
                 ....*....|....*....|....
8Q05_X       147 YIRVVGFDPVRQVQVSGFLVNRPA 170
Cdd:PLN02289 153 FIRIIGFDNTRQVQCISFIAYKPP 176
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
55-170 4.12e-46

Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];


Pssm-ID: 443549  Cd Length: 102  Bit Score: 146.89  E-value: 4.12e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X       55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAESAYTSnencvrmqnttclyydnrYWTMWKLPMFGCTDGGQVLR 134
Cdd:COG4451   5 QETFSYLPPLLDAEIVAQVRYLLAQGWAIGIEHADDRRFRTT------------------YWQMWKLPMFDSTDEAEVLA 66

                        90       100       110
                ....*....|....*....|....*....|....*.
8Q05_X      135 EVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRPA 170
Cdd:COG4451  67 ELEACRKEHPGEYVRLIGIDPKAKRRVLEFIVQRPN 102
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 55-169 4.17e-41

Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP), thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome. which results in RuBisCO being more abundant during the day when it is required.


Pssm-ID: 198029  Cd Length: 96  Bit Score: 133.82  E-value: 4.17e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X          55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAEsaytsnencvrmqnttclYYDNRYWTmwKLPMFGCTDGGQVLR 134
Cdd:smart00961   2 QETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHADPR------------------RFRTSSWQ--KLPMFGATDAAEVLA 61

                           90       100       110
                   ....*....|....*....|....*....|....*
8Q05_X         135 EVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:smart00961  62 ELEACLAEHPGEYVRLIGIDPKAKRRVLEFIIQRP 96
 
Name Accession Description Interval E-value
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 53-169 1.12e-61

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.


Pssm-ID: 239603  Cd Length: 99  Bit Score: 186.31  E-value: 1.12e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X       53 KFFETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAESaytsnencvrmqnttclyYDNRYWTMWKLPMFGCTDGGQV 132
Cdd:cd03527   1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEH------------------YDNRYWTMWKLPMFGCTDPAQV 62

                        90       100       110
                ....*....|....*....|....*....|....*..
8Q05_X      133 LREVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:cd03527  63 LREIEACRKAYPDHYVRVVGFDNYKQSQCMSFIVHRP 99
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
55-169 1.84e-58

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 177.69  E-value: 1.84e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X         55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAEsaytsnencvrmqnttclYYDNRYWTMWKLPMFGCTDGGQVLR 134
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIEFTDDP------------------HPRNRYWTMWKLPMFGCTDPAQVLA 62

                          90       100       110
                  ....*....|....*....|....*....|....*
8Q05_X        135 EVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:pfam00101  63 ELEACRKAYPNHYIRLIGFDNYRQSQVMSFIVQRP 97
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 1-170 3.80e-56

ribulose-bisphosphate carboxylase small chain


Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 175.05  E-value: 3.80e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X         1 MACTIAAVAPVAVRPVAAT--------------PLKQARNTFAARTVSNAtiKKTTAMQVWTPLNNKFFETFSYLPPMTD 66
Cdd:PLN02289   1 MASSMLSSAAVATSPAQATmvapftglkssaafPVTRKANNDITSIASNG--GRVSCMQVWPPIGKKKFETLSYLPDLTD 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X        67 AEISRQVDYIVSNGWTPCLEFAgAESAYTSNENcvrmqNTTCLYYDNRYWTMWKLPMFGCTDGGQVLREVQACRRAFPDA 146
Cdd:PLN02289  79 EELAKEVDYLLRNKWVPCLEFE-LEHGFVYREH-----HRSPGYYDGRYWTMWKLPMFGCTDSAQVLKELEEAKKAYPNA 152

                        170       180
                 ....*....|....*....|....
8Q05_X       147 YIRVVGFDPVRQVQVSGFLVNRPA 170
Cdd:PLN02289 153 FIRIIGFDNTRQVQCISFIAYKPP 176
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
55-170 4.12e-46

Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];


Pssm-ID: 443549  Cd Length: 102  Bit Score: 146.89  E-value: 4.12e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X       55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAESAYTSnencvrmqnttclyydnrYWTMWKLPMFGCTDGGQVLR 134
Cdd:COG4451   5 QETFSYLPPLLDAEIVAQVRYLLAQGWAIGIEHADDRRFRTT------------------YWQMWKLPMFDSTDEAEVLA 66

                        90       100       110
                ....*....|....*....|....*....|....*.
8Q05_X      135 EVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRPA 170
Cdd:COG4451  67 ELEACRKEHPGEYVRLIGIDPKAKRRVLEFIVQRPN 102
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 55-169 4.17e-41

Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP), thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome. which results in RuBisCO being more abundant during the day when it is required.


Pssm-ID: 198029  Cd Length: 96  Bit Score: 133.82  E-value: 4.17e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X          55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFAGAEsaytsnencvrmqnttclYYDNRYWTmwKLPMFGCTDGGQVLR 134
Cdd:smart00961   2 QETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHADPR------------------RFRTSSWQ--KLPMFGATDAAEVLA 61

                           90       100       110
                   ....*....|....*....|....*....|....*
8Q05_X         135 EVQACRRAFPDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:smart00961  62 ELEACLAEHPGEYVRLIGIDPKAKRRVLEFIIQRP 96
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 55-171 2.78e-35

ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed


Pssm-ID: 177052  Cd Length: 138  Bit Score: 120.63  E-value: 2.78e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X        55 FETFSYLPPMTDAEISRQVDYIVSNGWTPCLEFagaesaytsnencvrmqnTTCLYYDNRYWTMWKLPMFGCTDGGQVLR 134
Cdd:CHL00130   5 QGTFSFLPDLTDQQIEKQIQYAISKGWALNVEW------------------TDDPHPRNSYWELWGLPLFDVKDPAAVMF 66

                         90       100       110
                 ....*....|....*....|....*....|....*....
8Q05_X       135 EVQACRRAFPDAYIRVVGFDPVRQVQ--VSGFLVNRPAS 171
Cdd:CHL00130  67 EINECRKQKPNGYIKVNAFDASRGVEscVLSFIVNRPAN 105
RuBisCO_small_like cd00307
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. ...
 66-169 2.35e-26

Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits. This superfamily also contains specific proteins from cyanobacteria. CcmM plays a role in a CO2 concentrating mechanism, which cyanobacteria need to to overcome the low specificity of their Rubisco and fusions to Rubisco activase, a type of chaperone, which promotes and maintains the catalytic activity of Rubisco. CcmM contains an N-terminal carbonic anhydrase fused to four copies of the Rubisco-small subunit domain


Pssm-ID: 238187  Cd Length: 84  Bit Score: 95.80  E-value: 2.35e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8Q05_X       66 DAEISRQVDYIVSNGWTPCLEFAGAesaytsnencvrmqnttclyydNRYWTMWKLPMFGC--TDGGQVLREVQACRRAF 143
Cdd:cd00307   1 SEDVVEQVRQLLAQGYKIGLEHADA----------------------RRFRTSSWQSCGPIegRSEAQVLAALEACLAEH 58

                        90       100
                ....*....|....*....|....*.
8Q05_X      144 PDAYIRVVGFDPVRQVQVSGFLVNRP 169
Cdd:cd00307  59 PGEYVRLIGIDPKAKRRVLEIIIQRP 84
 
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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