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Conserved domains on  [gi|133907929|gb|ABO42424|]
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ribosomal protein S3, partial (mitochondrion) [Stachystemon axillaris]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rpsC_bact super family cl31050
ribosomal protein S3, bacterial type; This model describes the bacterial type of ribosomal ...
 364-479 6.31e-22

ribosomal protein S3, bacterial type; This model describes the bacterial type of ribosomal protein S3. Chloroplast and mitochondrial forms have large, variable inserts between conserved N-terminal and C-terminal domains. This model recognizes all bacterial forms and many chloroplast forms above the trusted cutoff score. TIGRFAMs model TIGR01008 describes S3 of the eukaryotic cytosol and of the archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


The actual alignment was detected with superfamily member TIGR01009:

Pssm-ID: 130082 [Multi-domain]  Cd Length: 211  Bit Score: 93.54  E-value: 6.31e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929  364 EMKKMRSLLSNRTN*NTLIESVKIQSVYQSASLIAQDISFQLRNKTrSFRS*LTKIvkdIPLVMKKGVEGIRICCSGRLE 443
Cdd:TIGR01009  83 EIEKLRKDLQKLTGKEVQINIAEVKRPELDAQLVADNIARQLENRV-SFRRAMKKA---IQSAMKAGAKGIKVQVSGRLG 158

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 133907929  444 GAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:TIGR01009 159 GAEIARTEWYKEGRVPLHTLRADIDYATAEAHTTYG 194
 
Name Accession Description Interval E-value
rpsC_bact TIGR01009
ribosomal protein S3, bacterial type; This model describes the bacterial type of ribosomal ...
 364-479 6.31e-22

ribosomal protein S3, bacterial type; This model describes the bacterial type of ribosomal protein S3. Chloroplast and mitochondrial forms have large, variable inserts between conserved N-terminal and C-terminal domains. This model recognizes all bacterial forms and many chloroplast forms above the trusted cutoff score. TIGRFAMs model TIGR01008 describes S3 of the eukaryotic cytosol and of the archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 130082 [Multi-domain]  Cd Length: 211  Bit Score: 93.54  E-value: 6.31e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929  364 EMKKMRSLLSNRTN*NTLIESVKIQSVYQSASLIAQDISFQLRNKTrSFRS*LTKIvkdIPLVMKKGVEGIRICCSGRLE 443
Cdd:TIGR01009  83 EIEKLRKDLQKLTGKEVQINIAEVKRPELDAQLVADNIARQLENRV-SFRRAMKKA---IQSAMKAGAKGIKVQVSGRLG 158

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 133907929  444 GAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:TIGR01009 159 GAEIARTEWYKEGRVPLHTLRADIDYATAEAHTTYG 194
RpsC COG0092
Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S3 ...
 364-479 1.34e-18

Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S3 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 439862 [Multi-domain]  Cd Length: 226  Bit Score: 84.37  E-value: 1.34e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929 364 EMKKMRSLLSNRTN*NTLIESVKIQSVYQSASLIAQDISFQLRNKTrSFRS*LTKIVKDiplVMKKGVEGIRICCSGRLE 443
Cdd:COG0092   83 EIEKLRKELEKLTGKEVQINIVEVKKPELDAQLVAENIAQQLERRV-SFRRAMKRAIQR---AMRAGAKGIKIQVSGRLG 158

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 133907929 444 GAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:COG0092  159 GAEIARTEWYREGRVPLHTLRADIDYGFAEAHTTYG 194
rps3 CHL00048
ribosomal protein S3
 321-479 4.46e-18

ribosomal protein S3


Pssm-ID: 214348 [Multi-domain]  Cd Length: 214  Bit Score: 82.56  E-value: 4.46e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929 321 VMELIEKFINPGGIGEL-----IKGIEMMIEI-----ILRNRriP*GYNSYLNEMKKMRSLLSNRTN*ntlIESVKIQSV 390
Cdd:CHL00048  43 IKNYVQKNIKYEGIARIeiqrkIDLIQVIIYTgfpklLIERK--GRGIEELQINLQKELNSVNRKLN----INITEVKKP 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929 391 YQSASLIAQDISFQLRNKTrSFRs*ltKIVKD-IPLVMKKGVEGIRICCSGRLEGAEIARTECGKYGKTSRNVFNQKIDY 469
Cdd:CHL00048 117 YGEPNILAEYIAGQLENRV-SFR----KAMKKaIELAEKADIKGIKIQISGRLNGAEIARVEWIREGRVPLQTLRAKIDY 191

                        170
                 ....*....|
gi 133907929 470 APAEVSTRYG 479
Cdd:CHL00048 192 CSYPARTIYG 201
Ribosomal_S3_C pfam00189
Ribosomal protein S3, C-terminal domain; This family contains a central domain pfam00013, ...
 426-479 6.79e-16

Ribosomal protein S3, C-terminal domain; This family contains a central domain pfam00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.


Pssm-ID: 425514 [Multi-domain]  Cd Length: 83  Bit Score: 72.40  E-value: 6.79e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 133907929  426 VMKKGVEGIRICCSGRLEGAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:pfam00189  22 AMRAGAKGIKIIISGRLGGAERARSEKYREGRVPLHTLRADIDYAFAEALTKYG 75
 
Name Accession Description Interval E-value
rpsC_bact TIGR01009
ribosomal protein S3, bacterial type; This model describes the bacterial type of ribosomal ...
 364-479 6.31e-22

ribosomal protein S3, bacterial type; This model describes the bacterial type of ribosomal protein S3. Chloroplast and mitochondrial forms have large, variable inserts between conserved N-terminal and C-terminal domains. This model recognizes all bacterial forms and many chloroplast forms above the trusted cutoff score. TIGRFAMs model TIGR01008 describes S3 of the eukaryotic cytosol and of the archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 130082 [Multi-domain]  Cd Length: 211  Bit Score: 93.54  E-value: 6.31e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929  364 EMKKMRSLLSNRTN*NTLIESVKIQSVYQSASLIAQDISFQLRNKTrSFRS*LTKIvkdIPLVMKKGVEGIRICCSGRLE 443
Cdd:TIGR01009  83 EIEKLRKDLQKLTGKEVQINIAEVKRPELDAQLVADNIARQLENRV-SFRRAMKKA---IQSAMKAGAKGIKVQVSGRLG 158

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 133907929  444 GAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:TIGR01009 159 GAEIARTEWYKEGRVPLHTLRADIDYATAEAHTTYG 194
RpsC COG0092
Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S3 ...
 364-479 1.34e-18

Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S3 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 439862 [Multi-domain]  Cd Length: 226  Bit Score: 84.37  E-value: 1.34e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929 364 EMKKMRSLLSNRTN*NTLIESVKIQSVYQSASLIAQDISFQLRNKTrSFRS*LTKIVKDiplVMKKGVEGIRICCSGRLE 443
Cdd:COG0092   83 EIEKLRKELEKLTGKEVQINIVEVKKPELDAQLVAENIAQQLERRV-SFRRAMKRAIQR---AMRAGAKGIKIQVSGRLG 158

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 133907929 444 GAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:COG0092  159 GAEIARTEWYREGRVPLHTLRADIDYGFAEAHTTYG 194
rps3 CHL00048
ribosomal protein S3
 321-479 4.46e-18

ribosomal protein S3


Pssm-ID: 214348 [Multi-domain]  Cd Length: 214  Bit Score: 82.56  E-value: 4.46e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929 321 VMELIEKFINPGGIGEL-----IKGIEMMIEI-----ILRNRriP*GYNSYLNEMKKMRSLLSNRTN*ntlIESVKIQSV 390
Cdd:CHL00048  43 IKNYVQKNIKYEGIARIeiqrkIDLIQVIIYTgfpklLIERK--GRGIEELQINLQKELNSVNRKLN----INITEVKKP 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 133907929 391 YQSASLIAQDISFQLRNKTrSFRs*ltKIVKD-IPLVMKKGVEGIRICCSGRLEGAEIARTECGKYGKTSRNVFNQKIDY 469
Cdd:CHL00048 117 YGEPNILAEYIAGQLENRV-SFR----KAMKKaIELAEKADIKGIKIQISGRLNGAEIARVEWIREGRVPLQTLRAKIDY 191

                        170
                 ....*....|
gi 133907929 470 APAEVSTRYG 479
Cdd:CHL00048 192 CSYPARTIYG 201
Ribosomal_S3_C pfam00189
Ribosomal protein S3, C-terminal domain; This family contains a central domain pfam00013, ...
 426-479 6.79e-16

Ribosomal protein S3, C-terminal domain; This family contains a central domain pfam00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.


Pssm-ID: 425514 [Multi-domain]  Cd Length: 83  Bit Score: 72.40  E-value: 6.79e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 133907929  426 VMKKGVEGIRICCSGRLEGAEIARTECGKYGKTSRNVFNQKIDYAPAEVSTRYG 479
Cdd:pfam00189  22 AMRAGAKGIKIIISGRLGGAERARSEKYREGRVPLHTLRADIDYAFAEALTKYG 75
 
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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