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Conserved domains on  [gi|394298810|gb|EJE42372|]
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ribosomal protein S12 [Staphylococcus epidermidis NIH05003]

Protein Classification

30S ribosomal protein S12( domain architecture ID 17564814)

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 1-136 5.39e-87

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: 248.97  E-value: 5.39e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:COG0048    1 MPTINQLVRKGRKKKKKKSKSPALK-------------GCPQKRGVCTRVYTTTPKKPNSALRKVARVRLSNGIEVTAYI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810  81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:COG0048   68 PGEGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTAGVKGRKQSRSKYGAKKPK 123
 
Name Accession Description Interval E-value
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 1-136 5.39e-87

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: 248.97  E-value: 5.39e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:COG0048    1 MPTINQLVRKGRKKKKKKSKSPALK-------------GCPQKRGVCTRVYTTTPKKPNSALRKVARVRLSNGIEVTAYI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810  81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:COG0048   68 PGEGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTAGVKGRKQSRSKYGAKKPK 123
rpsL_bact TIGR00981
ribosomal protein S12, bacterial/organelle; This model recognizes ribosomal protein S12 of ...
 1-136 2.55e-73

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: 214.65  E-value: 2.55e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810    1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:TIGR00981   1 MPTINQLIRKGRKKKKKKSKSPALE-------------ACPQKRGVCTRVYTTTPKKPNSALRKVARVRLTNGFEVTAYI 67

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810   81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:TIGR00981  68 PGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGALDTAGVKNRKQGRSKYGAKRPK 123
rps12 CHL00051
ribosomal protein S12
 1-136 1.14e-69

ribosomal protein S12


Pssm-ID: 176992  Cd Length: 123  Bit Score: 205.26  E-value: 1.14e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:CHL00051   1 MPTIKQLIRNTRQPIRNKTKSPALR-------------GCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810  81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:CHL00051  68 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Ribosomal_S12 cd03368
S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the ...
 3-123 1.05e-61

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: 184.64  E-value: 1.05e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   3 TINQLVRKPRKSKTKQSDSPALNRgfnskkkqftnlnSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYIPG 82
Cdd:cd03368    1 TINQLIRKGRKKKKKKSKSPALEG-------------CPQKKGVCLKVYTTTPKKPNSALRKVARVRLSNGKEVTAYIPG 67

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 394298810  83 IGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGR 123
Cdd:cd03368   68 EGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGVLDLAGVKNR 108
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 12-136 8.96e-37

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: 121.79  E-value: 8.96e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   12 RKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNN-IEVNAYIPGIG--HNLQ 88
Cdd:pfam00164   1 RRLLGLKTKSPPLE-------------GAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIKNgKEVTAFIPGEGaiHFLQ 67

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 394298810   89 EHSVVLVRGGR-----VKDLPGVRYHIVRgaldTSGVdgRRQGRSLYGTKKPK 136
Cdd:pfam00164  68 EHDEVLIRGGGgpghaVGDLPGVRYKVVR----VAGV--SLQALSKYGAEKPK 114
 
Name Accession Description Interval E-value
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 1-136 5.39e-87

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: 248.97  E-value: 5.39e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:COG0048    1 MPTINQLVRKGRKKKKKKSKSPALK-------------GCPQKRGVCTRVYTTTPKKPNSALRKVARVRLSNGIEVTAYI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810  81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:COG0048   68 PGEGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTAGVKGRKQSRSKYGAKKPK 123
rpsL_bact TIGR00981
ribosomal protein S12, bacterial/organelle; This model recognizes ribosomal protein S12 of ...
 1-136 2.55e-73

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: 214.65  E-value: 2.55e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810    1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:TIGR00981   1 MPTINQLIRKGRKKKKKKSKSPALE-------------ACPQKRGVCTRVYTTTPKKPNSALRKVARVRLTNGFEVTAYI 67

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810   81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:TIGR00981  68 PGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGALDTAGVKNRKQGRSKYGAKRPK 123
rps12 CHL00051
ribosomal protein S12
 1-136 1.14e-69

ribosomal protein S12


Pssm-ID: 176992  Cd Length: 123  Bit Score: 205.26  E-value: 1.14e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   1 MPTINQLVRKPRKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYI 80
Cdd:CHL00051   1 MPTIKQLIRNTRQPIRNKTKSPALR-------------GCPQRRGTCTRVYTITPKKPNSALRKVARVRLTSGFEITAYI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 394298810  81 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGRRQGRSLYGTKKPK 136
Cdd:CHL00051  68 PGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQGRSKYGVKKPK 123
Ribosomal_S12 cd03368
S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the ...
 3-123 1.05e-61

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: 184.64  E-value: 1.05e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   3 TINQLVRKPRKSKTKQSDSPALNRgfnskkkqftnlnSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYIPG 82
Cdd:cd03368    1 TINQLIRKGRKKKKKKSKSPALEG-------------CPQKKGVCLKVYTTTPKKPNSALRKVARVRLSNGKEVTAYIPG 67

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 394298810  83 IGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSGVDGR 123
Cdd:cd03368   68 EGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGVLDLAGVKNR 108
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 12-136 8.96e-37

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: 121.79  E-value: 8.96e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   12 RKSKTKQSDSPALNrgfnskkkqftnlNSPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNN-IEVNAYIPGIG--HNLQ 88
Cdd:pfam00164   1 RRLLGLKTKSPPLE-------------GAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIKNgKEVTAFIPGEGaiHFLQ 67

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 394298810   89 EHSVVLVRGGR-----VKDLPGVRYHIVRgaldTSGVdgRRQGRSLYGTKKPK 136
Cdd:pfam00164  68 EHDEVLIRGGGgpghaVGDLPGVRYKVVR----VAGV--SLQALSKYGAEKPK 114
PTZ00115 PTZ00115
40S ribosomal protein S12; Provisional
 40-133 6.48e-34

40S ribosomal protein S12; Provisional


Pssm-ID: 240276  Cd Length: 290  Bit Score: 119.56  E-value: 6.48e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810  40 SPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYIPGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRGALDTSG 119
Cdd:PTZ00115 123 APQKKGICVKVRVQTPRKPNSGLRKVARVRLSTGRTVTVYIPGIGHNLNTHSVVLVRGGRCKDVPGCNYKAVRGVYDLLP 202

                         90
                 ....*....|....
gi 394298810 120 VDGRRQGRSLYGTK 133
Cdd:PTZ00115 203 VKNRARSRSKYGVK 216
Ribosomal_S12_like cd00319
Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, ...
 40-113 1.34e-13

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: 62.03  E-value: 1.34e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 394298810  40 SPQKRGVCTRVGTMTPKKPNSALRKYARVRLSNNIEVNAYIPGIGHNLQEHSVVLVRGGRVKDLPGVRYHIVRG 113
Cdd:cd00319   12 APFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRG 85
Ribosomal_S23 cd03367
S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the ...
 40-112 2.44e-09

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: 51.50  E-value: 2.44e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810  40 SPQKRG-VCTRVGtMTPKKPNSALRKYARVRL-SNNIEVNAYIPGIG--HNLQEHSVVLV-----RGGRVKDLPGVRYHI 110
Cdd:cd03367   19 APHAKGiVLEKVG-VEAKQPNSAIRKCVRVQLiKNGKKITAFVPGDGclNFIDENDEVLVagfgrKGRAVGDIPGVRFKV 97


                 ..
gi 394298810 111 VR 112
Cdd:cd03367   98 VK 99
rps12P PRK04211
30S ribosomal protein S12P; Reviewed
 9-111 7.73e-08

30S ribosomal protein S12P; Reviewed


Pssm-ID: 235257  Cd Length: 145  Bit Score: 48.02  E-value: 7.73e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 394298810   9 RKPRKSKTKQ--SDSPALNRGFNSKKKQFTNLNSPQKRG-VCTRVGtMTPKKPNSALRKYARVRL-SNNIEVNAYIPGIG 84
Cdd:PRK04211  12 RKLKLKRKKFrwSDRRYKRRMLGLKEKADPLEGAPMARGiVLEKVG-VEAKQPNSAIRKCVRVQLiKNGKQVTAFCPGDG 90

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 394298810  85 --HNLQEHSVVLVRG-----GRVK-DLPGVRYHIV 111
Cdd:PRK04211  91 aiNFIDEHDEVVIEGiggpkGRSMgDIPGVRYKVI 125
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 56-112 4.23e-06

40S ribosomal S23; Provisional


Pssm-ID: 185422  Cd Length: 143  Bit Score: 43.58  E-value: 4.23e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 394298810  56 KKPNSALRKYARVRL-SNNIEVNAYIPGIG--HNLQEHSVVLVRG-GR----VKDLPGVRYHIVR 112
Cdd:PTZ00067  60 KQPNSAIRKCVRVQLiKNGKKITAFVPNDGclNFINENDEVLVSGfGRsghaVGDIPGVRFKVVK 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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