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Conserved domains on  [gi|81301619|ref|YP_398836|]
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ribosomal protein S12 (chloroplast) [Nicotiana tomentosiformis]

Protein Classification

30S ribosomal protein S12( domain architecture ID 10000055)

30S ribosomal protein S12 assists in rRNA folding and the binding of other proteins during small subunit assembly

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rps12 CHL00051
ribosomal protein S12
 1-123 3.38e-87

ribosomal protein S12


:

Pssm-ID: 176992  Cd Length: 123  Bit Score: 248.79  E-value: 3.38e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619    1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:CHL00051   1 MPTIKQLIRNTRQPIRNKTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 81301619   81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:CHL00051  81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
 
Name Accession Description Interval E-value
rps12 CHL00051
ribosomal protein S12
 1-123 3.38e-87

ribosomal protein S12


Pssm-ID: 176992  Cd Length: 123  Bit Score: 248.79  E-value: 3.38e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619    1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:CHL00051   1 MPTIKQLIRNTRQPIRNKTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 81301619   81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:CHL00051  81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 1-123 3.83e-86

Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 439818  Cd Length: 124  Bit Score: 246.27  E-value: 3.83e-86
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:COG0048   1 MPTINQLVRKGRKKKKKKSKSPALKGCPQKRGVCTRVYTTTPKKPNSALRKVARVRLSNGIEVTAYIPGEGHNLQEHSVV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 81301619  81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:COG0048  81 LVRGGRVKDLPGVRYHIVRGALDTAGVKGRKQSRSKYGAKKPK 123
rpsL_bact TIGR00981
ribosomal protein S12, bacterial/organelle; This model recognizes ribosomal protein S12 of ...
 1-123 2.56e-72

ribosomal protein S12, bacterial/organelle; This model recognizes ribosomal protein S12 of Bacteria, mitochondria, and chloroplasts. The homologous ribosomal proteins of Archaea and Eukarya, termed S23 in Eukarya and S12 or S23 in Archaea, score below the trusted cutoff. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 130054  Cd Length: 124  Bit Score: 211.57  E-value: 2.56e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619     1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:TIGR00981   1 MPTINQLIRKGRKKKKKKSKSPALEACPQKRGVCTRVYTTTPKKPNSALRKVARVRLTNGFEVTAYIPGEGHNLQEHSVV 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 81301619    81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:TIGR00981  81 LIRGGRVKDLPGVRYHIVRGALDTAGVKNRKQGRSKYGAKRPK 123
Ribosomal_S12 cd03368
S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the ...
 3-110 1.12e-65

S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions. S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. Antibiotics such as streptomycin bind S12 and cause the ribosome to misread the genetic code.


Pssm-ID: 239466  Cd Length: 108  Bit Score: 193.89  E-value: 1.12e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   3 TIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVVLV 82
Cdd:cd03368   1 TINQLIRKGRKKKKKKSKSPALEGCPQKKGVCLKVYTTTPKKPNSALRKVARVRLSNGKEVTAYIPGEGHNLQEHSVVLV 80

                        90       100
                ....*....|....*....|....*...
gi 81301619  83 RGGRVKDLPGVRYHIVRGTLDAVGVKDR 110
Cdd:cd03368  81 RGGRVKDLPGVRYHIVRGVLDLAGVKNR 108
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 12-123 2.50e-44

Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in eukaryotes.


Pssm-ID: 395112  Cd Length: 114  Bit Score: 140.28  E-value: 2.50e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619    12 RQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLT-SGFEITAYIPGIG--HNLQEHSVVLVRGGR-- 86
Cdd:pfam00164   1 RRLLGLKTKSPPLEGAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIkNGKEVTAFIPGEGaiHFLQEHDEVLIRGGGgp 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 81301619    87 ---VKDLPGVRYHIVRgtldAVGVKdrQQGRSKYGVKKPK 123
Cdd:pfam00164  81 ghaVGDLPGVRYKVVR----VAGVS--LQALSKYGAEKPK 114
 
Name Accession Description Interval E-value
rps12 CHL00051
ribosomal protein S12
 1-123 3.38e-87

ribosomal protein S12


Pssm-ID: 176992  Cd Length: 123  Bit Score: 248.79  E-value: 3.38e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619    1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:CHL00051   1 MPTIKQLIRNTRQPIRNKTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 81301619   81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:CHL00051  81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 1-123 3.83e-86

Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 439818  Cd Length: 124  Bit Score: 246.27  E-value: 3.83e-86
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:COG0048   1 MPTINQLVRKGRKKKKKKSKSPALKGCPQKRGVCTRVYTTTPKKPNSALRKVARVRLSNGIEVTAYIPGEGHNLQEHSVV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 81301619  81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:COG0048  81 LVRGGRVKDLPGVRYHIVRGALDTAGVKGRKQSRSKYGAKKPK 123
rpsL_bact TIGR00981
ribosomal protein S12, bacterial/organelle; This model recognizes ribosomal protein S12 of ...
 1-123 2.56e-72

ribosomal protein S12, bacterial/organelle; This model recognizes ribosomal protein S12 of Bacteria, mitochondria, and chloroplasts. The homologous ribosomal proteins of Archaea and Eukarya, termed S23 in Eukarya and S12 or S23 in Archaea, score below the trusted cutoff. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 130054  Cd Length: 124  Bit Score: 211.57  E-value: 2.56e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619     1 MPTIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVV 80
Cdd:TIGR00981   1 MPTINQLIRKGRKKKKKKSKSPALEACPQKRGVCTRVYTTTPKKPNSALRKVARVRLTNGFEVTAYIPGEGHNLQEHSVV 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 81301619    81 LVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Cdd:TIGR00981  81 LIRGGRVKDLPGVRYHIVRGALDTAGVKNRKQGRSKYGAKRPK 123
Ribosomal_S12 cd03368
S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the ...
 3-110 1.12e-65

S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions. S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. Antibiotics such as streptomycin bind S12 and cause the ribosome to misread the genetic code.


Pssm-ID: 239466  Cd Length: 108  Bit Score: 193.89  E-value: 1.12e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   3 TIKQLIRNTRQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVVLV 82
Cdd:cd03368   1 TINQLIRKGRKKKKKKSKSPALEGCPQKKGVCLKVYTTTPKKPNSALRKVARVRLSNGKEVTAYIPGEGHNLQEHSVVLV 80

                        90       100
                ....*....|....*....|....*...
gi 81301619  83 RGGRVKDLPGVRYHIVRGTLDAVGVKDR 110
Cdd:cd03368  81 RGGRVKDLPGVRYHIVRGVLDLAGVKNR 108
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 12-123 2.50e-44

Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in eukaryotes.


Pssm-ID: 395112  Cd Length: 114  Bit Score: 140.28  E-value: 2.50e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619    12 RQPIRNVTKSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLT-SGFEITAYIPGIG--HNLQEHSVVLVRGGR-- 86
Cdd:pfam00164   1 RRLLGLKTKSPPLEGAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIkNGKEVTAFIPGEGaiHFLQEHDEVLIRGGGgp 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 81301619    87 ---VKDLPGVRYHIVRgtldAVGVKdrQQGRSKYGVKKPK 123
Cdd:pfam00164  81 ghaVGDLPGVRYKVVR----VAGVS--LQALSKYGAEKPK 114
PTZ00115 PTZ00115
40S ribosomal protein S12; Provisional
 20-120 1.28e-42

40S ribosomal protein S12; Provisional


Pssm-ID: 240276  Cd Length: 290  Bit Score: 141.52  E-value: 1.28e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   20 KSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVR 99
Cdd:PTZ00115 116 RSKWLEGAPQKKGICVKVRVQTPRKPNSGLRKVARVRLSTGRTVTVYIPGIGHNLNTHSVVLVRGGRCKDVPGCNYKAVR 195

                         90       100
                 ....*....|....*....|.
gi 81301619  100 GTLDAVGVKDRQQGRSKYGVK 120
Cdd:PTZ00115 196 GVYDLLPVKNRARSRSKYGVK 216
Ribosomal_S12_like cd00319
Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, ...
 20-100 9.97e-17

Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding center. They play an important role in translocation during the peptide elongation step of protein synthesis. They are also involved in important RNA and protein interactions. Ribosomal protein S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. S23 interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes translocation. Mutations in S12 and S23 have been found to affect translational accuracy. Antibiotics such as streptomycin may also bind S12/S23 and cause the ribosome to misread the genetic code.


Pssm-ID: 238196  Cd Length: 95  Bit Score: 69.74  E-value: 9.97e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619  20 KSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYIPGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVR 99
Cdd:cd00319   5 KVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVR 84


                .
gi 81301619 100 G 100
Cdd:cd00319  85 G 85
Ribosomal_S23 cd03367
S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the ...
 20-99 2.77e-13

S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the large and small ribosomal subunits of eukaryotes, adjacent to the decoding center. It interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes the translocation of the growing peptidyl-tRNA to the P site to make room for the next aminoacyl-tRNA at the A (acceptor) site. Through its interaction with eEF2, S23 may play an important role in translocation. Also members of this subfamily are the archaeal 30S ribosomal S12 proteins. Prokaryotic S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as control element for the rRNA- and tRNA-driven movements of translocation. S12 and S23 are also implicated in translation accuracy. Antibiotics such as streptomycin bind S12/S23 and cause the ribosome to misread the genetic code.


Pssm-ID: 239465  Cd Length: 115  Bit Score: 61.13  E-value: 2.77e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619  20 KSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLT-SGFEITAYIPGIG--HNLQEHSVVLV-----RGGRVKDLP 91
Cdd:cd03367  12 KADPLGGAPHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIkNGKKITAFVPGDGclNFIDENDEVLVagfgrKGRAVGDIP 91


                ....*...
gi 81301619  92 GVRYHIVR 99
Cdd:cd03367  92 GVRFKVVK 99
rps12P PRK04211
30S ribosomal protein S12P; Reviewed
 20-98 4.93e-10

30S ribosomal protein S12P; Reviewed


Pssm-ID: 235257  Cd Length: 145  Bit Score: 53.42  E-value: 4.93e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   20 KSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLT-SGFEITAYIPGIG--HNLQEHSVVLVRG-----GRVK-DL 90
Cdd:PRK04211  38 KADPLEGAPMARGIVLEKVGVEAKQPNSAIRKCVRVQLIkNGKQVTAFCPGDGaiNFIDEHDEVVIEGiggpkGRSMgDI 117


                 ....*...
gi 81301619   91 PGVRYHIV 98
Cdd:PRK04211 118 PGVRYKVI 125
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 20-99 2.09e-09

40S ribosomal S23; Provisional


Pssm-ID: 185422  Cd Length: 143  Bit Score: 51.67  E-value: 2.09e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81301619   20 KSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRLT-SGFEITAYIPGIG--HNLQEHSVVLVRG-GR----VKDLP 91
Cdd:PTZ00067  37 KANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIkNGKKITAFVPNDGclNFINENDEVLVSGfGRsghaVGDIP 116


                 ....*...
gi 81301619   92 GVRYHIVR 99
Cdd:PTZ00067 117 GVRFKVVK 124
 
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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