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Conserved domains on  [gi|2463611508|pdb|8BQD|c]
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Chain c, 40S ribosomal protein S23-A

Protein Classification

40S ribosomal protein S23( domain architecture ID 10015179)

40S ribosomal protein S23

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 3-144 3.42e-85

40S ribosomal S23; Provisional


:

Pssm-ID: 185422  Cd Length: 143  Bit Score: 245.42  E-value: 3.42e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c         3 GKPRGLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKV 82
Cdd:PTZ00067   2 GKPRGLRAARKLRRHRRVNRWADKEYKKAHLGTRYKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKKI 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
8BQD_c        83 TAFVPNDGCLNFVDENDEVLLAGFGRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPRS 144
Cdd:PTZ00067  82 TAFVPNDGCLNFINENDEVLVSGFGRSGHAVGDIPGVRFKVVKVAGVSLLALYKGKKEKPRN 143
 
Name Accession Description Interval E-value
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 3-144 3.42e-85

40S ribosomal S23; Provisional


Pssm-ID: 185422  Cd Length: 143  Bit Score: 245.42  E-value: 3.42e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c         3 GKPRGLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKV 82
Cdd:PTZ00067   2 GKPRGLRAARKLRRHRRVNRWADKEYKKAHLGTRYKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKKI 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
8BQD_c        83 TAFVPNDGCLNFVDENDEVLLAGFGRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPRS 144
Cdd:PTZ00067  82 TAFVPNDGCLNFINENDEVLVSGFGRSGHAVGDIPGVRFKVVKVAGVSLLALYKGKKEKPRN 143
Ribosomal_S23 cd03367
S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the ...
 27-141 3.73e-76

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: 221.76  E-value: 3.73e-76
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c       27 NYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDEVLLAGF 106
Cdd:cd03367   1 RYKKRHLGTKYKADPLGGAPHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPGDGCLNFIDENDEVLVAGF 80

                        90       100       110
                ....*....|....*....|....*....|....*
8BQD_c      107 GRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEK 141
Cdd:cd03367  81 GRKGRAVGDIPGVRFKVVKVNGVSLLALFKGKKEK 115
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 30-143 3.29e-58

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: 176.11  E-value: 3.29e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c         30 KRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDEVLLAGFGRK 109
Cdd:pfam00164   1 RRLLGLKTKSPPLEGAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIKNGKEVTAFIPGEGAIHFLQEHDEVLIRGGGGP 80

                          90       100       110
                  ....*....|....*....|....*....|....
8BQD_c        110 GKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPR 143
Cdd:pfam00164  81 GHAVGDLPGVRYKVVRVAGVSLQALSKYGAEKPK 114
uS12_E_A TIGR00982
ribosomal protein uS12, eukaryotic/archaeal form; This model represents eukaryotic and ...
 7-143 3.93e-54

ribosomal protein uS12, eukaryotic/archaeal form; This model represents eukaryotic and archaeal forms of ribosomal protein uS12. This protein was known previously as S23 in eukaryotes and as either S12 or S23 in the Archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273377  Cd Length: 139  Bit Score: 166.97  E-value: 3.93e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c          7 GLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFV 86
Cdd:TIGR00982   1 GLFAARKLKLKRKKFRWSDRRYKRRVLRLKEKADPLEGAPQARGIVLEKIGVEAKQPNSAIRKAVRVQLIKNGKVVTAFC 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
8BQD_c         87 PNDGCLNFVDENDEVLLAGF-GRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPR 143
Cdd:TIGR00982  81 PGDGAINFIDEHDEVIIEGIgGPKGRSMGDIPGVRYKVVKVNNVSLKELVKGRKEKPR 138
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 61-124 8.65e-07

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: 45.19  E-value: 8.65e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
8BQD_c       61 KQPNSAIRKCVRVQLiKNGKKVTAFVPNDGclNFVDENDEVLLAGfgrkGKAKgDIPGVRFKVV 124
Cdd:COG0048  43 KKPNSALRKVARVRL-SNGIEVTAYIPGEG--HNLQEHSVVLVRG----GRVK-DLPGVRYHIV 98
 
Name Accession Description Interval E-value
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 3-144 3.42e-85

40S ribosomal S23; Provisional


Pssm-ID: 185422  Cd Length: 143  Bit Score: 245.42  E-value: 3.42e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c         3 GKPRGLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKV 82
Cdd:PTZ00067   2 GKPRGLRAARKLRRHRRVNRWADKEYKKAHLGTRYKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKKI 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
8BQD_c        83 TAFVPNDGCLNFVDENDEVLLAGFGRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPRS 144
Cdd:PTZ00067  82 TAFVPNDGCLNFINENDEVLVSGFGRSGHAVGDIPGVRFKVVKVAGVSLLALYKGKKEKPRN 143
Ribosomal_S23 cd03367
S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the ...
 27-141 3.73e-76

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: 221.76  E-value: 3.73e-76
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c       27 NYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDEVLLAGF 106
Cdd:cd03367   1 RYKKRHLGTKYKADPLGGAPHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPGDGCLNFIDENDEVLVAGF 80

                        90       100       110
                ....*....|....*....|....*....|....*
8BQD_c      107 GRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEK 141
Cdd:cd03367  81 GRKGRAVGDIPGVRFKVVKVNGVSLLALFKGKKEK 115
rps12P PRK04211
30S ribosomal protein S12P; Reviewed
 1-143 6.78e-69

30S ribosomal protein S12P; Reviewed


Pssm-ID: 235257  Cd Length: 145  Bit Score: 204.41  E-value: 6.78e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c         1 GKGKPRGLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGK 80
Cdd:PRK04211   1 GKKSPNGLFAARKLKLKRKKFRWSDRRYKRRMLGLKEKADPLEGAPMARGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGK 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
8BQD_c        81 KVTAFVPNDGCLNFVDENDEVLLAGF-GRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPR 143
Cdd:PRK04211  81 QVTAFCPGDGAINFIDEHDEVVIEGIgGPKGRSMGDIPGVRYKVIKVNGVSLKELVKGKKEKPV 144
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 30-143 3.29e-58

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: 176.11  E-value: 3.29e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c         30 KRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDEVLLAGFGRK 109
Cdd:pfam00164   1 RRLLGLKTKSPPLEGAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIKNGKEVTAFIPGEGAIHFLQEHDEVLIRGGGGP 80

                          90       100       110
                  ....*....|....*....|....*....|....
8BQD_c        110 GKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPR 143
Cdd:pfam00164  81 GHAVGDLPGVRYKVVRVAGVSLQALSKYGAEKPK 114
uS12_E_A TIGR00982
ribosomal protein uS12, eukaryotic/archaeal form; This model represents eukaryotic and ...
 7-143 3.93e-54

ribosomal protein uS12, eukaryotic/archaeal form; This model represents eukaryotic and archaeal forms of ribosomal protein uS12. This protein was known previously as S23 in eukaryotes and as either S12 or S23 in the Archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273377  Cd Length: 139  Bit Score: 166.97  E-value: 3.93e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c          7 GLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFV 86
Cdd:TIGR00982   1 GLFAARKLKLKRKKFRWSDRRYKRRVLRLKEKADPLEGAPQARGIVLEKIGVEAKQPNSAIRKAVRVQLIKNGKVVTAFC 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
8BQD_c         87 PNDGCLNFVDENDEVLLAGF-GRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPR 143
Cdd:TIGR00982  81 PGDGAINFIDEHDEVIIEGIgGPKGRSMGDIPGVRYKVVKVNNVSLKELVKGRKEKPR 138
Ribosomal_S12_like cd00319
Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, ...
 34-138 4.31e-49

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: 152.55  E-value: 4.31e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c       34 GTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLIkNGKKVTAFVPNDGclNFVDENDEVLLAGfgrkGKAK 113
Cdd:cd00319   1 RKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLT-SGYEVTAYIPGEG--HNLQEHSVVLIRG----GRVK 73

                        90       100
                ....*....|....*....|....*
8BQD_c      114 gDIPGVRFKVVKvsGVSLLALWKEK 138
Cdd:cd00319  74 -DLPGVRYHIVR--GVYDAAGVKDR 95
Ribosomal_S12 cd03368
S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the ...
 38-125 1.97e-10

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: 54.45  E-value: 1.97e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c       38 KSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLiKNGKKVTAFVPNDGclNFVDENDEVLLagfgRKGKAKgDIP 117
Cdd:cd03368  18 KSPALEGCPQKKGVCLKVYTTTPKKPNSALRKVARVRL-SNGKEVTAYIPGEG--HNLQEHSVVLV----RGGRVK-DLP 89


                ....*...
8BQD_c      118 GVRFKVVK 125
Cdd:cd03368  90 GVRYHIVR 97
rps12 CHL00051
ribosomal protein S12
 38-125 5.85e-10

ribosomal protein S12


Pssm-ID: 176992  Cd Length: 123  Bit Score: 53.49  E-value: 5.85e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c        38 KSSPFGGSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLiKNGKKVTAFVPNDGclNFVDENDEVLLagfgRKGKAKgDIP 117
Cdd:CHL00051  20 KSPALRGCPQRRGTCTRVYTITPKKPNSALRKVARVRL-TSGFEITAYIPGIG--HNLQEHSVVLV----RGGRVK-DLP 91


                 ....*...
8BQD_c       118 GVRFKVVK 125
Cdd:CHL00051  92 GVRYHIVR 99
RpsL COG0048
Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S12 ...
 61-124 8.65e-07

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: 45.19  E-value: 8.65e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
8BQD_c       61 KQPNSAIRKCVRVQLiKNGKKVTAFVPNDGclNFVDENDEVLLAGfgrkGKAKgDIPGVRFKVV 124
Cdd:COG0048  43 KKPNSALRKVARVRL-SNGIEVTAYIPGEG--HNLQEHSVVLVRG----GRVK-DLPGVRYHIV 98
PTZ00115 PTZ00115
40S ribosomal protein S12; Provisional
 44-125 3.82e-03

40S ribosomal protein S12; Provisional


Pssm-ID: 240276  Cd Length: 290  Bit Score: 35.97  E-value: 3.82e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8BQD_c        44 GSSHAKGIVLEKLGIESKQPNSAIRKCVRVQLiKNGKKVTAFVPNDGclNFVDENDEVLLagfgRKGKAKgDIPGVRFKV 123
Cdd:PTZ00115 122 GAPQKKGICVKVRVQTPRKPNSGLRKVARVRL-STGRTVTVYIPGIG--HNLNTHSVVLV----RGGRCK-DVPGCNYKA 193


                 ..
8BQD_c       124 VK 125
Cdd:PTZ00115 194 VR 195
 
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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