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Conserved domains on  [gi|2599465|gb|AAB84136|]
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ribosomal protein 16 large subunit, partial (chloroplast) [Adansonia perrieri]

Protein Classification

uL16 family ribosomal protein( domain architecture ID 664)

uL16 family ribosomal protein such as human 60S ribosomal protein L10, bacteria 50S ribosomal protein L16, chloroplast 50S ribosomal protein L16, and mitochondrial 39S ribosomal protein L16

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
Ribosomal_L16_L10e super family cl00353
Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, ...
 1-46 2.56e-31

Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.


The actual alignment was detected with superfamily member CHL00044:

Pssm-ID: 469737  Cd Length: 135  Bit Score: 104.59  E-value: 2.56e-31
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2599465     1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:CHL00044   4 PKRTKFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 49
 
Name Accession Description Interval E-value
rpl16 CHL00044
ribosomal protein L16
 1-46 2.56e-31

ribosomal protein L16


Pssm-ID: 176985  Cd Length: 135  Bit Score: 104.59  E-value: 2.56e-31
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2599465     1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:CHL00044   4 PKRTKFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 49
RplP COG0197
Ribosomal protein L16/L10AE [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 1-46 1.50e-22

Ribosomal protein L16/L10AE [Translation, ribosomal structure and biogenesis]; Ribosomal protein L16/L10AE is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439967  Cd Length: 136  Bit Score: 82.39  E-value: 1.50e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 2599465    1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:COG0197   4 PKRVKYRKQQRGRIKGVAKRGNKFAFGNYGLKALEPGQITSRQIEA 49
rplP_bact TIGR01164
ribosomal protein L16, bacterial/organelle; This model describes bacterial and organellar ...
 1-47 2.87e-22

ribosomal protein L16, bacterial/organelle; This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10 [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273476  Cd Length: 125  Bit Score: 81.27  E-value: 2.87e-22
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2599465      1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEAV 47
Cdd:TIGR01164   2 PKRTKYRKQQRGRVKGKAKRGNTVAFGEYGLQALEPGWITARQIEAA 48
Ribosomal_L16 pfam00252
Ribosomal protein L16p/L10e;
1-46 8.39e-17

Ribosomal protein L16p/L10e;


Pssm-ID: 459733  Cd Length: 132  Bit Score: 67.84  E-value: 8.39e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2599465      1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:pfam00252   1 PKRTKYRKSRKRYIRGVPTKGTTLDFGDYGLVALEGGQITARQLEA 46
Ribosomal_L16_L10e cd01433
Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, ...
 20-47 2.41e-07

Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.


Pssm-ID: 238714  Cd Length: 112  Bit Score: 42.86  E-value: 2.41e-07
                        10        20
                ....*....|....*....|....*...
gi 2599465   20 RGNRICFGRYALQALEPAWITSRQIEAV 47
Cdd:cd01433   1 KGNKLFFGEYGLVALEPGRITAEQLEAA 28
 
Name Accession Description Interval E-value
rpl16 CHL00044
ribosomal protein L16
 1-46 2.56e-31

ribosomal protein L16


Pssm-ID: 176985  Cd Length: 135  Bit Score: 104.59  E-value: 2.56e-31
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2599465     1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:CHL00044   4 PKRTKFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 49
RplP COG0197
Ribosomal protein L16/L10AE [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 1-46 1.50e-22

Ribosomal protein L16/L10AE [Translation, ribosomal structure and biogenesis]; Ribosomal protein L16/L10AE is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439967  Cd Length: 136  Bit Score: 82.39  E-value: 1.50e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 2599465    1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:COG0197   4 PKRVKYRKQQRGRIKGVAKRGNKFAFGNYGLKALEPGQITSRQIEA 49
rplP_bact TIGR01164
ribosomal protein L16, bacterial/organelle; This model describes bacterial and organellar ...
 1-47 2.87e-22

ribosomal protein L16, bacterial/organelle; This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10 [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273476  Cd Length: 125  Bit Score: 81.27  E-value: 2.87e-22
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2599465      1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEAV 47
Cdd:TIGR01164   2 PKRTKYRKQQRGRVKGKAKRGNTVAFGEYGLQALEPGWITARQIEAA 48
Ribosomal_L16 pfam00252
Ribosomal protein L16p/L10e;
1-46 8.39e-17

Ribosomal protein L16p/L10e;


Pssm-ID: 459733  Cd Length: 132  Bit Score: 67.84  E-value: 8.39e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2599465      1 PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEA 46
Cdd:pfam00252   1 PKRTKYRKSRKRYIRGVPTKGTTLDFGDYGLVALEGGQITARQLEA 46
Ribosomal_L16_L10e cd01433
Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, ...
 20-47 2.41e-07

Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.


Pssm-ID: 238714  Cd Length: 112  Bit Score: 42.86  E-value: 2.41e-07
                        10        20
                ....*....|....*....|....*...
gi 2599465   20 RGNRICFGRYALQALEPAWITSRQIEAV 47
Cdd:cd01433   1 KGNKLFFGEYGLVALEPGRITAEQLEAA 28
 
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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