NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1774943261|gb|KAE8635867|]
View 

hypothetical protein XENTR_v10002771 [Xenopus tropicalis]

Protein Classification

uS12 family ribosomal protein( domain architecture ID 551)

uS12 family ribosomal protein such as plant 40S ribosomal protein S23, yeast mitochondrial 37S ribosomal protein S12, and chloroplast 30S ribosomal protein s12

Gene Ontology:  GO:0003735
PubMed:  24524803

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Ribosomal_S12_like super family cl00312
Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, ...
 1-95 7.70e-59

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.


The actual alignment was detected with superfamily member PTZ00067:

Pssm-ID: 444826  Cd Length: 143  Bit Score: 176.86  E-value: 7.70e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261   1 MGKCRGLRTARKLRNHRREQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKK 80
Cdd:PTZ00067    1 MGKPRGLRAARKLRRHRRVNRWADKEYKKAHLGTRYKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKK 80

                          90
                  ....*....|....*
gi 1774943261  81 ITAFVPNDGCLNFIE 95
Cdd:PTZ00067   81 ITAFVPNDGCLNFIN 95
 
Name Accession Description Interval E-value
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 1-95 7.70e-59

40S ribosomal S23; Provisional


Pssm-ID: 185422  Cd Length: 143  Bit Score: 176.86  E-value: 7.70e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261   1 MGKCRGLRTARKLRNHRREQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKK 80
Cdd:PTZ00067    1 MGKPRGLRAARKLRRHRRVNRWADKEYKKAHLGTRYKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKK 80

                          90
                  ....*....|....*
gi 1774943261  81 ITAFVPNDGCLNFIE 95
Cdd:PTZ00067   81 ITAFVPNDGCLNFIN 95
Ribosomal_S23 cd03367
S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the ...
 26-95 1.56e-47

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: 147.42  E-value: 1.56e-47
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261  26 QYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIE 95
Cdd:cd03367     1 RYKKRHLGTKYKADPLGGAPHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPGDGCLNFID 70
uS12_E_A TIGR00982
ribosomal protein uS12, eukaryotic/archaeal form; This model represents eukaryotic and ...
 6-95 3.44e-35

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: 116.90  E-value: 3.44e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261   6 GLRTARKLRNHRREQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFV 85
Cdd:TIGR00982   1 GLFAARKLKLKRKKFRWSDRRYKRRVLRLKEKADPLEGAPQARGIVLEKIGVEAKQPNSAIRKAVRVQLIKNGKVVTAFC 80

                          90
                  ....*....|
gi 1774943261  86 PNDGCLNFIE 95
Cdd:TIGR00982  81 PGDGAINFID 90
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 29-95 7.27e-33

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: 110.24  E-value: 7.27e-33
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1774943261  29 KAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIE 95
Cdd:pfam00164   1 RRLLGLKTKSPPLEGAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIKNGKEVTAFIPGEGAIHFLQ 67
 
Name Accession Description Interval E-value
PTZ00067 PTZ00067
40S ribosomal S23; Provisional
 1-95 7.70e-59

40S ribosomal S23; Provisional


Pssm-ID: 185422  Cd Length: 143  Bit Score: 176.86  E-value: 7.70e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261   1 MGKCRGLRTARKLRNHRREQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKK 80
Cdd:PTZ00067    1 MGKPRGLRAARKLRRHRRVNRWADKEYKKAHLGTRYKANPFGGASHAKGIVVEKIGIEAKQPNSAIRKCVRVQLIKNGKK 80

                          90
                  ....*....|....*
gi 1774943261  81 ITAFVPNDGCLNFIE 95
Cdd:PTZ00067   81 ITAFVPNDGCLNFIN 95
Ribosomal_S23 cd03367
S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the ...
 26-95 1.56e-47

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: 147.42  E-value: 1.56e-47
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261  26 QYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIE 95
Cdd:cd03367     1 RYKKRHLGTKYKADPLGGAPHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPGDGCLNFID 70
rps12P PRK04211
30S ribosomal protein S12P; Reviewed
 5-95 4.45e-44

30S ribosomal protein S12P; Reviewed


Pssm-ID: 235257  Cd Length: 145  Bit Score: 139.32  E-value: 4.45e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261   5 RGLRTARKLRNHRREQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAF 84
Cdd:PRK04211    6 NGLFAARKLKLKRKKFRWSDRRYKRRMLGLKEKADPLEGAPMARGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKQVTAF 85

                          90
                  ....*....|.
gi 1774943261  85 VPNDGCLNFIE 95
Cdd:PRK04211   86 CPGDGAINFID 96
uS12_E_A TIGR00982
ribosomal protein uS12, eukaryotic/archaeal form; This model represents eukaryotic and ...
 6-95 3.44e-35

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: 116.90  E-value: 3.44e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1774943261   6 GLRTARKLRNHRREQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFV 85
Cdd:TIGR00982   1 GLFAARKLKLKRKKFRWSDRRYKRRVLRLKEKADPLEGAPQARGIVLEKIGVEAKQPNSAIRKAVRVQLIKNGKVVTAFC 80

                          90
                  ....*....|
gi 1774943261  86 PNDGCLNFIE 95
Cdd:TIGR00982  81 PGDGAINFID 90
Ribosom_S12_S23 pfam00164
Ribosomal protein S12/S23; This protein is known as S12 in bacteria and archaea and S23 in ...
 29-95 7.27e-33

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: 110.24  E-value: 7.27e-33
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1774943261  29 KAHLGTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIE 95
Cdd:pfam00164   1 RRLLGLKTKSPPLEGAPQARGVVLEKVTVEPKQPNSALRKCVRVRLIKNGKEVTAFIPGEGAIHFLQ 67
Ribosomal_S12_like cd00319
Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, ...
 33-95 5.45e-29

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: 99.78  E-value: 5.45e-29
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1774943261 33 GTALKANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIkNGKKITAFVPNDGclNFIE 95
Cdd:cd00319    1 RKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLT-SGYEVTAYIPGEG--HNLQ 60
Ribosomal_S12 cd03368
S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the ...
 37-89 1.15e-07

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: 45.59  E-value: 1.15e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1774943261  37 KANPFGGASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLiKNGKKITAFVPNDG 89
Cdd:cd03368    18 KSPALEGCPQKKGVCLKVYTTTPKKPNSALRKVARVRL-SNGKEVTAYIPGEG 69
PTZ00115 PTZ00115
40S ribosomal protein S12; Provisional
 43-89 3.11e-03

40S ribosomal protein S12; Provisional


Pssm-ID: 240276  Cd Length: 290  Bit Score: 34.82  E-value: 3.11e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1774943261  43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLiKNGKKITAFVPNDG 89
Cdd:PTZ00115  122 GAPQKKGICVKVRVQTPRKPNSGLRKVARVRL-STGRTVTVYIPGIG 167
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH