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Conserved domains on  [gi|2731344252|ref|WP_345447679|]
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ribulose-1,5-bisphosphate carboxylase small subunit, partial [Rothia endophytica]

Protein Classification

PLN02289 family protein( domain architecture ID 11476602)

PLN02289 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 1-161 5.20e-114

ribulose-bisphosphate carboxylase small chain


:

Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 320.27  E-value: 5.20e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252   1 MAASIISSAVVA--PAQASMVAPFTGLKSTSAFPVTRKLDTDITSLASNGGRVQCMKVWPPLGLKKFETLSYLPPLSQAE 78
Cdd:PLN02289    1 MASSMLSSAAVAtsPAQATMVAPFTGLKSSAAFPVTRKANNDITSIASNGGRVSCMQVWPPIGKKKFETLSYLPDLTDEE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  79 LGKEVDYLIRLGWIPCLEFSVQGGFVYREHNKSPGYYDGRYWTMWKLPMFGCTDSSQVLKEVEECKKEYPQSFIRIIGFD 158
Cdd:PLN02289   81 LAKEVDYLLRNKWVPCLEFELEHGFVYREHHRSPGYYDGRYWTMWKLPMFGCTDSAQVLKELEEAKKAYPNAFIRIIGFD 160


                  ...
gi 2731344252 159 NKR 161
Cdd:PLN02289  161 NTR 163
 
Name Accession Description Interval E-value
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 1-161 5.20e-114

ribulose-bisphosphate carboxylase small chain


Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 320.27  E-value: 5.20e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252   1 MAASIISSAVVA--PAQASMVAPFTGLKSTSAFPVTRKLDTDITSLASNGGRVQCMKVWPPLGLKKFETLSYLPPLSQAE 78
Cdd:PLN02289    1 MASSMLSSAAVAtsPAQATMVAPFTGLKSSAAFPVTRKANNDITSIASNGGRVSCMQVWPPIGKKKFETLSYLPDLTDEE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  79 LGKEVDYLIRLGWIPCLEFSVQGGFVYREHNKSPGYYDGRYWTMWKLPMFGCTDSSQVLKEVEECKKEYPQSFIRIIGFD 158
Cdd:PLN02289   81 LAKEVDYLLRNKWVPCLEFELEHGFVYREHHRSPGYYDGRYWTMWKLPMFGCTDSAQVLKELEEAKKAYPNAFIRIIGFD 160


                  ...
gi 2731344252 159 NKR 161
Cdd:PLN02289  161 NTR 163
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 63-161 3.21e-50

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: 156.26  E-value: 3.21e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  63 KKFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEFSvqggfvyrehnkSPGYYDGRYWTMWKLPMFGCTDSSQVLKEVEE 142
Cdd:cd03527     1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFT------------EPEHYDNRYWTMWKLPMFGCTDPAQVLREIEA 68

                          90
                  ....*....|....*....
gi 2731344252 143 CKKEYPQSFIRIIGFDNKR 161
Cdd:cd03527    69 CRKAYPDHYVRVVGFDNYK 87
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
65-161 7.20e-48

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 150.34  E-value: 7.20e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  65 FETLSYLPPLSQAELGKEVDYLIRLGWIPCLEfsvqggfvyreHNKSPGYyDGRYWTMWKLPMFGCTDSSQVLKEVEECK 144
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIE-----------FTDDPHP-RNRYWTMWKLPMFGCTDPAQVLAELEACR 68

                          90
                  ....*....|....*..
gi 2731344252 145 KEYPQSFIRIIGFDNKR 161
Cdd:pfam00101  69 KAYPNHYIRLIGFDNYR 85
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
64-161 3.37e-34

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


Pssm-ID: 443549  Cd Length: 102  Bit Score: 115.69  E-value: 3.37e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  64 KFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEfsvqggfvyreHNKSPGYYDGrYWTMWKLPMFGCTDSSQVLKEVEEC 143
Cdd:COG4451     4 TQETFSYLPPLLDAEIVAQVRYLLAQGWAIGIE-----------HADDRRFRTT-YWQMWKLPMFDSTDEAEVLAELEAC 71

                          90
                  ....*....|....*...
gi 2731344252 144 KKEYPQSFIRIIGFDNKR 161
Cdd:COG4451    72 RKEHPGEYVRLIGIDPKA 89
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 64-161 1.88e-33

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: 113.40  E-value: 1.88e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252   64 KFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEFSvqggfvyrehnkSPGYYDGRYWTmwKLPMFGCTDSSQVLKEVEEC 143
Cdd:smart00961   1 TQETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHA------------DPRRFRTSSWQ--KLPMFGATDAAEVLAELEAC 66

                           90
                   ....*....|....*...
gi 2731344252  144 KKEYPQSFIRIIGFDNKR 161
Cdd:smart00961  67 LAEHPGEYVRLIGIDPKA 84
 
Name Accession Description Interval E-value
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 1-161 5.20e-114

ribulose-bisphosphate carboxylase small chain


Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 320.27  E-value: 5.20e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252   1 MAASIISSAVVA--PAQASMVAPFTGLKSTSAFPVTRKLDTDITSLASNGGRVQCMKVWPPLGLKKFETLSYLPPLSQAE 78
Cdd:PLN02289    1 MASSMLSSAAVAtsPAQATMVAPFTGLKSSAAFPVTRKANNDITSIASNGGRVSCMQVWPPIGKKKFETLSYLPDLTDEE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  79 LGKEVDYLIRLGWIPCLEFSVQGGFVYREHNKSPGYYDGRYWTMWKLPMFGCTDSSQVLKEVEECKKEYPQSFIRIIGFD 158
Cdd:PLN02289   81 LAKEVDYLLRNKWVPCLEFELEHGFVYREHHRSPGYYDGRYWTMWKLPMFGCTDSAQVLKELEEAKKAYPNAFIRIIGFD 160


                  ...
gi 2731344252 159 NKR 161
Cdd:PLN02289  161 NTR 163
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 63-161 3.21e-50

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: 156.26  E-value: 3.21e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  63 KKFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEFSvqggfvyrehnkSPGYYDGRYWTMWKLPMFGCTDSSQVLKEVEE 142
Cdd:cd03527     1 RTFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFT------------EPEHYDNRYWTMWKLPMFGCTDPAQVLREIEA 68

                          90
                  ....*....|....*....
gi 2731344252 143 CKKEYPQSFIRIIGFDNKR 161
Cdd:cd03527    69 CRKAYPDHYVRVVGFDNYK 87
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
65-161 7.20e-48

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 150.34  E-value: 7.20e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  65 FETLSYLPPLSQAELGKEVDYLIRLGWIPCLEfsvqggfvyreHNKSPGYyDGRYWTMWKLPMFGCTDSSQVLKEVEECK 144
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIE-----------FTDDPHP-RNRYWTMWKLPMFGCTDPAQVLAELEACR 68

                          90
                  ....*....|....*..
gi 2731344252 145 KEYPQSFIRIIGFDNKR 161
Cdd:pfam00101  69 KAYPNHYIRLIGFDNYR 85
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
64-161 3.37e-34

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


Pssm-ID: 443549  Cd Length: 102  Bit Score: 115.69  E-value: 3.37e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  64 KFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEfsvqggfvyreHNKSPGYYDGrYWTMWKLPMFGCTDSSQVLKEVEEC 143
Cdd:COG4451     4 TQETFSYLPPLLDAEIVAQVRYLLAQGWAIGIE-----------HADDRRFRTT-YWQMWKLPMFDSTDEAEVLAELEAC 71

                          90
                  ....*....|....*...
gi 2731344252 144 KKEYPQSFIRIIGFDNKR 161
Cdd:COG4451    72 RKEHPGEYVRLIGIDPKA 89
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 64-161 1.88e-33

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: 113.40  E-value: 1.88e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252   64 KFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEFSvqggfvyrehnkSPGYYDGRYWTmwKLPMFGCTDSSQVLKEVEEC 143
Cdd:smart00961   1 TQETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHA------------DPRRFRTSSWQ--KLPMFGATDAAEVLAELEAC 66

                           90
                   ....*....|....*...
gi 2731344252  144 KKEYPQSFIRIIGFDNKR 161
Cdd:smart00961  67 LAEHPGEYVRLIGIDPKA 84
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 64-161 2.68e-23

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


Pssm-ID: 177052  Cd Length: 138  Bit Score: 89.05  E-value: 2.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  64 KFETLSYLPPLSQAELGKEVDYLIRLGWIPCLEFSVQGgfvyreHNKSpgyydgRYWTMWKLPMFGCTDSSQVLKEVEEC 143
Cdd:CHL00130    4 TQGTFSFLPDLTDQQIEKQIQYAISKGWALNVEWTDDP------HPRN------SYWELWGLPLFDVKDPAAVMFEINEC 71

                          90
                  ....*....|....*...
gi 2731344252 144 KKEYPQSFIRIIGFDNKR 161
Cdd:CHL00130   72 RKQKPNGYIKVNAFDASR 89
RbcS pfam12338
Ribulose-1,5-bisphosphate carboxylase small subunit; This domain family is found in eukaryotes, ...
 2-40 2.79e-17

Ribulose-1,5-bisphosphate carboxylase small subunit; This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam00101. There is a conserved APF sequence motif. There are two completely conserved residues (L and P) that may be functionally important. This family is the small subunit of ribulose-1,5-bisphosphate.


Pssm-ID: 403524  Cd Length: 45  Bit Score: 70.78  E-value: 2.79e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2731344252   2 AASIISSAVVA------PAQASMVAPFTGLKSTSAFPVTRKLDTD 40
Cdd:pfam12338   1 ASSMVSSAAVAtinraaPAQASMVAPFTGLKSTAAFPVTRKANND 45
RuBisCO_small_like cd00307
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. ...
 77-160 5.75e-16

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: 68.45  E-value: 5.75e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2731344252  77 AELGKEVDYLIRLGWIPCLEFSVQggfvyRehnkspgyydgRYWTMWKLPMFGC--TDSSQVLKEVEECKKEYPQSFIRI 154
Cdd:cd00307     2 EDVVEQVRQLLAQGYKIGLEHADA-----R-----------RFRTSSWQSCGPIegRSEAQVLAALEACLAEHPGEYVRL 65


                  ....*.
gi 2731344252 155 IGFDNK 160
Cdd:cd00307    66 IGIDPK 71
 
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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