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Conserved domains on  [gi|398364831|ref|NP_012923|]
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mitochondrial 37S ribosomal protein YmS16 [Saccharomyces cerevisiae S288C]

Protein Classification

bS6m family ribosomal protein( domain architecture ID 10202521)

bS6m family mitoribosomal protein such as vertebrate 28S mitoribosomal protein S6 and fungal 37S mitoribosomal protein MRP17

Gene Ontology:  GO:0006412|GO:0003735|GO:0019843
PubMed:  24524803

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 2-99 2.42e-34

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: 114.55  E-value: 2.42e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831   2 LYELIGLVRItnsNAPKLEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKDQEKHFRAYHFLMLFDSSAAVQSEI 81
Cdd:cd15465    1 LYELVLIARA---LAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQERHTEGRYFLMDFDASPTVVKEL 77

                         90
                 ....*....|....*...
gi 398364831  82 LRTLKKDPRVIRSSIVKV 99
Cdd:cd15465   78 REELRRDPDVIRWSIVKL 95
 
Name Accession Description Interval E-value
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 2-99 2.42e-34

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: 114.55  E-value: 2.42e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831   2 LYELIGLVRItnsNAPKLEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKDQEKHFRAYHFLMLFDSSAAVQSEI 81
Cdd:cd15465    1 LYELVLIARA---LAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQERHTEGRYFLMDFDASPTVVKEL 77

                         90
                 ....*....|....*...
gi 398364831  82 LRTLKKDPRVIRSSIVKV 99
Cdd:cd15465   78 REELRRDPDVIRWSIVKL 95
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 1-101 1.60e-30

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: 104.75  E-value: 1.60e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831    1 MLYELIGLVRITNSNapklEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKdqekHFRAYHFLMLFDSSAAVQSE 80
Cdd:TIGR00166   1 RHYEIIFLVRPTLSE----EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKK----QLRAHYVLMNFSGEAQVIKE 72

                          90       100
                  ....*....|....*....|.
gi 398364831   81 ILRTLKKDPRVIRSSIVKVDL 101
Cdd:TIGR00166  73 FERTARINDNVIRSLIIKLEH 93
Ribosomal_S6 pfam01250
Ribosomal protein S6;
2-96 1.66e-22

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 84.44  E-value: 1.66e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831    2 LYELIGLVRITNSNApklEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKdqekHFRAYHFLMLFDSSAAVQSEI 81
Cdd:pfam01250   1 KYELMFILRPDLSEE---EVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKK----HREGYYVLMNFDAPPAAIAEL 73

                          90
                  ....*....|....*
gi 398364831   82 LRTLKKDPRVIRSSI 96
Cdd:pfam01250  74 ERLLRIDEDVLRFLI 88
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 3-100 4.18e-04

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: 37.08  E-value: 4.18e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831   3 YELIGLVRitnsnaPKLEAKELSSTIGK---LIIQNRGVVRDIVPMGIRYLPKIMKKDQEkhfrAYHFLMLFDSSAAVQS 79
Cdd:COG0360    4 YEIVFILR------PDLSEEQVEALVEKfkgIIEKNGGEIVKVEDWGKRKLAYPIKKKRE----GHYVLMNFEADPAAIA 73

                         90       100
                 ....*....|....*....|.
gi 398364831  80 EILRTLKKDPRVIRSSIVKVD 100
Cdd:COG0360   74 ELERQLRINEDVLRFLTVRLD 94
 
Name Accession Description Interval E-value
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 2-99 2.42e-34

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: 114.55  E-value: 2.42e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831   2 LYELIGLVRItnsNAPKLEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKDQEKHFRAYHFLMLFDSSAAVQSEI 81
Cdd:cd15465    1 LYELVLIARA---LAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQERHTEGRYFLMDFDASPTVVKEL 77

                         90
                 ....*....|....*...
gi 398364831  82 LRTLKKDPRVIRSSIVKV 99
Cdd:cd15465   78 REELRRDPDVIRWSIVKL 95
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 1-101 1.60e-30

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: 104.75  E-value: 1.60e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831    1 MLYELIGLVRITNSNapklEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKdqekHFRAYHFLMLFDSSAAVQSE 80
Cdd:TIGR00166   1 RHYEIIFLVRPTLSE----EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKK----QLRAHYVLMNFSGEAQVIKE 72

                          90       100
                  ....*....|....*....|.
gi 398364831   81 ILRTLKKDPRVIRSSIVKVDL 101
Cdd:TIGR00166  73 FERTARINDNVIRSLIIKLEH 93
Ribosomal_S6 pfam01250
Ribosomal protein S6;
2-96 1.66e-22

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 84.44  E-value: 1.66e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831    2 LYELIGLVRITNSNApklEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLPKIMKKdqekHFRAYHFLMLFDSSAAVQSEI 81
Cdd:pfam01250   1 KYELMFILRPDLSEE---EVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKK----HREGYYVLMNFDAPPAAIAEL 73

                          90
                  ....*....|....*
gi 398364831   82 LRTLKKDPRVIRSSI 96
Cdd:pfam01250  74 ERLLRIDEDVLRFLI 88
bS6 cd00473
Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the ...
 3-99 8.64e-06

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: 41.28  E-value: 8.64e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831   3 YELIGLVRITNSNApklEAKELSSTIGKLIIQNRGVVRDIVPMGIRYLP-KImkkdqEKHFRAYHFLMLFDSSAAVQSEI 81
Cdd:cd00473    2 YELMFILDPDLSEE---EVKALIEKVKKIIEKNGGEIVKVEDWGKRKLAyPI-----KKKKEGYYVLINFEAEPEAIAEL 73

                         90
                 ....*....|....*...
gi 398364831  82 LRTLKKDPRVIRSSIVKV 99
Cdd:cd00473   74 ERRLRINEDVLRFLIVKL 91
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 3-100 4.18e-04

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: 37.08  E-value: 4.18e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398364831   3 YELIGLVRitnsnaPKLEAKELSSTIGK---LIIQNRGVVRDIVPMGIRYLPKIMKKDQEkhfrAYHFLMLFDSSAAVQS 79
Cdd:COG0360    4 YEIVFILR------PDLSEEQVEALVEKfkgIIEKNGGEIVKVEDWGKRKLAYPIKKKRE----GHYVLMNFEADPAAIA 73

                         90       100
                 ....*....|....*....|.
gi 398364831  80 EILRTLKKDPRVIRSSIVKVD 100
Cdd:COG0360   74 ELERQLRINEDVLRFLTVRLD 94
 
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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