NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|492913245|ref|WP_006043651|]
View 

MULTISPECIES: ribulose bisphosphate carboxylase small subunit [Synechococcales]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 15-112 1.51e-55

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: 167.82  E-value: 1.51e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:cd03527    2 TFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEACRKAYPDHYVRVV 81

                         90
                 ....*....|....*...
gi 492913245  95 GYDAYTQSQGACFVVFEG 112
Cdd:cd03527   82 GFDNYKQSQCMSFIVHRP 99
 
Name Accession Description Interval E-value
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 15-112 1.51e-55

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: 167.82  E-value: 1.51e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:cd03527    2 TFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEACRKAYPDHYVRVV 81

                         90
                 ....*....|....*...
gi 492913245  95 GYDAYTQSQGACFVVFEG 112
Cdd:cd03527   82 GFDNYKQSQCMSFIVHRP 99
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
15-113 3.14e-52

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


Pssm-ID: 443549  Cd Length: 102  Bit Score: 159.21  E-value: 3.14e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:COG4451    4 TQETFSYLPPLLDAEIVAQVRYLLAQGWAIGIEHADDRRFRTTYWQMWKLPMFDSTDEAEVLAELEACRKEHPGEYVRLI 83

                         90
                 ....*....|....*....
gi 492913245  95 GYDAYTQSQGACFVVFEGR 113
Cdd:COG4451   84 GIDPKAKRRVLEFIVQRPN 102
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
16-110 3.43e-52

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 159.20  E-value: 3.43e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245   16 LETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIVG 95
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIEFTDDPHPRNRYWTMWKLPMFGCTDPAQVLAELEACRKAYPNHYIRLIG 80

                          90
                  ....*....|....*
gi 492913245   96 YDAYTQSQGACFVVF 110
Cdd:pfam00101  81 FDNYRQSQVMSFIVQ 95
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 15-109 7.87e-43

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: 135.36  E-value: 7.87e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245    15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSywKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:smart00961   1 TQETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHADPRRFRTSSWQ--KLPMFGATDAAEVLAELEACLAEHPGEYVRLI 78

                           90
                   ....*....|....*
gi 492913245    95 GYDAYTQSQGACFVV 109
Cdd:smart00961  79 GIDPKAKRRVLEFII 93
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 15-109 6.68e-27

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


Pssm-ID: 177052  Cd Length: 138  Bit Score: 96.37  E-value: 6.68e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHV---HPSNSmatYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHV 91
Cdd:CHL00130   4 TQGTFSFLPDLTDQQIEKQIQYAISKGWALNVEWTddpHPRNS---YWELWGLPLFDVKDPAAVMFEINECRKQKPNGYI 80

                         90       100
                 ....*....|....*....|
gi 492913245  92 RIVGYDAYTQSQGAC--FVV 109
Cdd:CHL00130  81 KVNAFDASRGVESCVlsFIV 100
 
Name Accession Description Interval E-value
RuBisCO_small cd03527
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a ...
 15-112 1.51e-55

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: 167.82  E-value: 1.51e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:cd03527    2 TFETFSYLPPLTDEQIAKQIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEACRKAYPDHYVRVV 81

                         90
                 ....*....|....*...
gi 492913245  95 GYDAYTQSQGACFVVFEG 112
Cdd:cd03527   82 GFDNYKQSQCMSFIVHRP 99
RbcS COG4451
Ribulose bisphosphate carboxylase small subunit [Carbohydrate transport and metabolism];
15-113 3.14e-52

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


Pssm-ID: 443549  Cd Length: 102  Bit Score: 159.21  E-value: 3.14e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:COG4451    4 TQETFSYLPPLLDAEIVAQVRYLLAQGWAIGIEHADDRRFRTTYWQMWKLPMFDSTDEAEVLAELEACRKEHPGEYVRLI 83

                         90
                 ....*....|....*....
gi 492913245  95 GYDAYTQSQGACFVVFEGR 113
Cdd:COG4451   84 GIDPKAKRRVLEFIVQRPN 102
RuBisCO_small pfam00101
Ribulose bisphosphate carboxylase, small chain;
16-110 3.43e-52

Ribulose bisphosphate carboxylase, small chain;


Pssm-ID: 425465  Cd Length: 97  Bit Score: 159.20  E-value: 3.43e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245   16 LETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHVRIVG 95
Cdd:pfam00101   1 FETFSYLPPLTDEQIAKQVQYILSQGWIPGIEFTDDPHPRNRYWTMWKLPMFGCTDPAQVLAELEACRKAYPNHYIRLIG 80

                          90
                  ....*....|....*
gi 492913245   96 YDAYTQSQGACFVVF 110
Cdd:pfam00101  81 FDNYRQSQVMSFIVQ 95
RuBisCO_small smart00961
Ribulose bisphosphate carboxylase, small chain; RuBisCO (ribulose-1,5-bisphosphate carboxylase ...
 15-109 7.87e-43

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: 135.36  E-value: 7.87e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245    15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHVHPSNSMATYWSywKLPFFGEKDLNVVVSELEACHRAYPDHHVRIV 94
Cdd:smart00961   1 TQETFSYLPPLTDAEIVAQVRYLLAQGYAIGVEHADPRRFRTSSWQ--KLPMFGATDAAEVLAELEACLAEHPGEYVRLI 78

                           90
                   ....*....|....*
gi 492913245    95 GYDAYTQSQGACFVV 109
Cdd:smart00961  79 GIDPKAKRRVLEFII 93
rbcS CHL00130
ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit; Reviewed
 15-109 6.68e-27

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


Pssm-ID: 177052  Cd Length: 138  Bit Score: 96.37  E-value: 6.68e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  15 TLETFGFLPPMTQDEIYDQIAYIIAQGWSPLVEHV---HPSNSmatYWSYWKLPFFGEKDLNVVVSELEACHRAYPDHHV 91
Cdd:CHL00130   4 TQGTFSFLPDLTDQQIEKQIQYAISKGWALNVEWTddpHPRNS---YWELWGLPLFDVKDPAAVMFEINECRKQKPNGYI 80

                         90       100
                 ....*....|....*....|
gi 492913245  92 RIVGYDAYTQSQGAC--FVV 109
Cdd:CHL00130  81 KVNAFDASRGVESCVlsFIV 100
PLN02289 PLN02289
ribulose-bisphosphate carboxylase small chain
 17-111 2.37e-21

ribulose-bisphosphate carboxylase small chain


Pssm-ID: 215163 [Multi-domain]  Cd Length: 176  Bit Score: 83.37  E-value: 2.37e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  17 ETFGFLPPMTQDEIYDQIAYIIAQGWSPLVE------------HVHPSNSMATYWSYWKLPFFGEKDLNVVVSELEACHR 84
Cdd:PLN02289  68 ETLSYLPDLTDEELAKEVDYLLRNKWVPCLEfelehgfvyrehHRSPGYYDGRYWTMWKLPMFGCTDSAQVLKELEEAKK 147

                         90       100
                 ....*....|....*....|....*..
gi 492913245  85 AYPDHHVRIVGYDAYTQSQGACFVVFE 111
Cdd:PLN02289 148 AYPNAFIRIIGFDNTRQVQCISFIAYK 174
RuBisCO_small_like cd00307
Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. ...
 29-109 1.90e-12

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: 58.05  E-value: 1.90e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492913245  29 EIYDQIAYIIAQGWSPLVEHVHPSnsmaTYWSYWKLPFFG--EKDLNVVVSELEACHRAYPDHHVRIVGYDAYTQSQGAC 106
Cdd:cd00307    3 DVVEQVRQLLAQGYKIGLEHADAR----RFRTSSWQSCGPieGRSEAQVLAALEACLAEHPGEYVRLIGIDPKAKRRVLE 78


                 ...
gi 492913245 107 FVV 109
Cdd:cd00307   79 III 81
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH