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Conserved domains on  [gi|1083829395|gb|OGJ06469|]
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30S ribosomal protein S6 [Candidatus Nomurabacteria bacterium RIFOXYA1_FULL_35_17]

Protein Classification

30S ribosomal protein S6( domain architecture ID 10472485)

30S ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_S6 pfam01250
Ribosomal protein S6;
7-93 3.29e-15

Ribosomal protein S6;


:

Pssm-ID: 460134  Cd Length: 88  Bit Score: 64.41  E-value: 3.29e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNR 84
Cdd:pfam01250  1 KYELMFILRPDLSEEEVkaLVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHREGYYVLMNFDAPPAA-IAELERLLRI 79


                 ....*....
gi 1083829395 85 EVNVIRYLI 93
Cdd:pfam01250 80 DEDVLRFLI 88
 
Name Accession Description Interval E-value
Ribosomal_S6 pfam01250
Ribosomal protein S6;
7-93 3.29e-15

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 64.41  E-value: 3.29e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNR 84
Cdd:pfam01250  1 KYELMFILRPDLSEEEVkaLVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHREGYYVLMNFDAPPAA-IAELERLLRI 79


                 ....*....
gi 1083829395 85 EVNVIRYLI 93
Cdd:pfam01250 80 DEDVLRFLI 88
bS6 cd00473
Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the ...
 7-95 1.58e-13

Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


Pssm-ID: 275385  Cd Length: 91  Bit Score: 60.16  E-value: 1.58e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNR 84
Cdd:cd00473    1 KYELMFILDPDLSEEEVkaLIEKVKKIIEKNGGEIVKVEDWGKRKLAYPIKKKKEGYYVLINFEAEPEA-IAELERRLRI 79

                         90
                 ....*....|.
gi 1083829395 85 EVNVIRYLILK 95
Cdd:cd00473   80 NEDVLRFLIVK 90
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 7-95 4.93e-13

Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440129  Cd Length: 107  Bit Score: 59.42  E-value: 4.93e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395   7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVES--------EKNLKFN 76
Cdd:COG0360     3 HYEIVFILRPDLSEEQVeaLVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKREGHYVLMNFEAdpaaiaelERQLRIN 82

                          90
                  ....*....|....*....
gi 1083829395  77 DfnvflnrevNVIRYLILK 95
Cdd:COG0360    83 E---------DVLRFLTVR 92
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 7-95 1.37e-07

ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows more than two-fold length variation from 95 residues in Bacillus subtilis to 215 in Mycoplasma pneumoniae. This length variation comes primarily from poorly conserved C-terminal extensions that are particularly long in the Mycoplasmas. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 129270  Cd Length: 93  Bit Score: 45.05  E-value: 1.37e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPK-VEKKEVFIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNRE 85
Cdd:TIGR00166  2 HYEIIFLVRPTlSEEVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQLRAHYVLMNFSGEAQV-IKEFERTARIN 80

                         90
                 ....*....|
gi 1083829395 86 VNVIRYLILK 95
Cdd:TIGR00166 81 DNVIRSLIIK 90
rps6 CHL00123
ribosomal protein S6; Validated
 1-95 3.29e-05

ribosomal protein S6; Validated


Pssm-ID: 177046  Cd Length: 97  Bit Score: 38.83  E-value: 3.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  1 MKENKIKYQIVVVLDPKV--EKKEVFIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDF 78
Cdd:CHL00123   1 MMSKLNKYETMYLLKPDLneEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKL-VNSL 79

                         90
                 ....*....|....*..
gi 1083829395 79 NVFLNREVNVIRYLILK 95
Cdd:CHL00123  80 EKALKLDENVLRYLTFK 96
 
Name Accession Description Interval E-value
Ribosomal_S6 pfam01250
Ribosomal protein S6;
7-93 3.29e-15

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 64.41  E-value: 3.29e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNR 84
Cdd:pfam01250  1 KYELMFILRPDLSEEEVkaLVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHREGYYVLMNFDAPPAA-IAELERLLRI 79


                 ....*....
gi 1083829395 85 EVNVIRYLI 93
Cdd:pfam01250 80 DEDVLRFLI 88
bS6 cd00473
Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the ...
 7-95 1.58e-13

Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


Pssm-ID: 275385  Cd Length: 91  Bit Score: 60.16  E-value: 1.58e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNR 84
Cdd:cd00473    1 KYELMFILDPDLSEEEVkaLIEKVKKIIEKNGGEIVKVEDWGKRKLAYPIKKKKEGYYVLINFEAEPEA-IAELERRLRI 79

                         90
                 ....*....|.
gi 1083829395 85 EVNVIRYLILK 95
Cdd:cd00473   80 NEDVLRFLIVK 90
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 7-95 4.93e-13

Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440129  Cd Length: 107  Bit Score: 59.42  E-value: 4.93e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395   7 KYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVES--------EKNLKFN 76
Cdd:COG0360     3 HYEIVFILRPDLSEEQVeaLVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKREGHYVLMNFEAdpaaiaelERQLRIN 82

                          90
                  ....*....|....*....
gi 1083829395  77 DfnvflnrevNVIRYLILK 95
Cdd:COG0360    83 E---------DVLRFLTVR 92
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 7-95 1.37e-07

ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows more than two-fold length variation from 95 residues in Bacillus subtilis to 215 in Mycoplasma pneumoniae. This length variation comes primarily from poorly conserved C-terminal extensions that are particularly long in the Mycoplasmas. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 129270  Cd Length: 93  Bit Score: 45.05  E-value: 1.37e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  7 KYQIVVVLDPK-VEKKEVFIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDFNVFLNRE 85
Cdd:TIGR00166  2 HYEIIFLVRPTlSEEVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQLRAHYVLMNFSGEAQV-IKEFERTARIN 80

                         90
                 ....*....|
gi 1083829395 86 VNVIRYLILK 95
Cdd:TIGR00166 81 DNVIRSLIIK 90
rps6 CHL00123
ribosomal protein S6; Validated
 1-95 3.29e-05

ribosomal protein S6; Validated


Pssm-ID: 177046  Cd Length: 97  Bit Score: 38.83  E-value: 3.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  1 MKENKIKYQIVVVLDPKV--EKKEVFIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVESEKNLkFNDF 78
Cdd:CHL00123   1 MMSKLNKYETMYLLKPDLneEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKL-VNSL 79

                         90
                 ....*....|....*..
gi 1083829395 79 NVFLNREVNVIRYLILK 95
Cdd:CHL00123  80 EKALKLDENVLRYLTFK 96
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 8-95 2.28e-04

Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small subunit of the mitochondrial ribosome. Mitochondrial and chloroplastic ribosomes are similar to bacterial ribosomes. The ribosome is a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptide. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). Mitochondrial and chloroplastic ribosomes synthesize proteins that are involved in oxidative phosphorylation (ATP generation) and photosynthesis. bS6_MRPS6 is one of the fourteen mitochondrial ribosomal proteins that is known to have significant sequence homology with their bacterial counterpart.


Pssm-ID: 275386  Cd Length: 95  Bit Score: 36.74  E-value: 2.28e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  8 YQIVVVLDPKVEKKEVF--IDKIGDFIDGMGAKVAKKENLGTKELAYEIKENN----KADFWILNVESekNLKF-NDFNV 80
Cdd:cd15465    2 YELVLIARALAEKAELKelLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQerhtEGRYFLMDFDA--SPTVvKELRE 79

                         90
                 ....*....|....*
gi 1083829395 81 FLNREVNVIRYLILK 95
Cdd:cd15465   80 ELRRDPDVIRWSIVK 94
bS6_chloro_cyano cd15487
30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of ...
 4-95 3.71e-03

30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Mitochondrial and chloroplastic ribosomes are similar to bacterial ribosomes. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


Pssm-ID: 275387  Cd Length: 94  Bit Score: 33.34  E-value: 3.71e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083829395  4 NKIKYQIVVVLDPKVEKKEV--FIDKIGDFIDGMGAKVAKKENLGTKELAYEIKENNKADFWILNVES--------EKNL 73
Cdd:cd15487    1 MLRSYETMYILRPDLTEEQVeqLINKYQELLTENGAENIEVQNRGKRRLAYEIKKFRDGIYVQMNYTAdgsavaplERAM 80

                         90       100
                 ....*....|....*....|..
gi 1083829395 74 KFNDfnvflnrevNVIRYLILK 95
Cdd:cd15487   81 RLSE---------EVIRYLTIK 93
 
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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