NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15217660|ref|NP_176632|]
View 

Translation elongation factor EF1B/ribosomal protein S6 family protein [Arabidopsis thaliana]

Protein Classification

30S ribosomal protein S6( domain architecture ID 10203049)

30S ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
bS6_chloro_cyano cd15487
30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of ...
 100-201 8.67e-36

30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Mitochondrial and chloroplastic ribosomes are similar to bacterial ribosomes. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


:

Pssm-ID: 275387  Cd Length: 94  Bit Score: 121.16  E-value: 8.67e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660 100 LRQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPES 179
Cdd:cd15487   2 LRSYETMYILRPDLTEEQVEQLINKYQELLTENGAENIEVQNRGKRRLAYEIKK---------FRDGIYVQMNYTADGSA 72

                        90       100
                ....*....|....*....|..
gi 15217660 180 IVPLETVLTADDDIIRSSSFKI 201
Cdd:cd15487  73 VAPLERAMRLSEEVIRYLTIKV 94
 
Name Accession Description Interval E-value
bS6_chloro_cyano cd15487
30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of ...
 100-201 8.67e-36

30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Mitochondrial and chloroplastic ribosomes are similar to bacterial ribosomes. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


Pssm-ID: 275387  Cd Length: 94  Bit Score: 121.16  E-value: 8.67e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660 100 LRQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPES 179
Cdd:cd15487   2 LRSYETMYILRPDLTEEQVEQLINKYQELLTENGAENIEVQNRGKRRLAYEIKK---------FRDGIYVQMNYTADGSA 72

                        90       100
                ....*....|....*....|..
gi 15217660 180 IVPLETVLTADDDIIRSSSFKI 201
Cdd:cd15487  73 VAPLERAMRLSEEVIRYLTIKV 94
Ribosomal_S6 pfam01250
Ribosomal protein S6;
102-197 1.88e-21

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 84.05  E-value: 1.88e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660   102 QYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKKNKagetntyldGIYLLFTYFTKPESIV 181
Cdd:pfam01250   1 KYELMFILRPDLSEEEVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHRE---------GYYVLMNFDAPPAAIA 71

                          90
                  ....*....|....*.
gi 15217660   182 PLETVLTADDDIIRSS 197
Cdd:pfam01250  72 ELERLLRIDEDVLRFL 87
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 101-205 4.21e-19

Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440129  Cd Length: 107  Bit Score: 78.68  E-value: 4.21e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660 101 RQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKKNKagetntyldGIYLLFTYFTKPESI 180
Cdd:COG0360   2 RHYEIVFILRPDLSEEQVEALVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKRE---------GHYVLMNFEADPAAI 72

                        90       100
                ....*....|....*....|....*
gi 15217660 181 VPLETVLTADDDIIRSSSFKIKKRK 205
Cdd:COG0360  73 AELERQLRINEDVLRFLTVRLDEAE 97
rps6 CHL00123
ribosomal protein S6; Validated
 100-201 1.90e-14

ribosomal protein S6; Validated


Pssm-ID: 177046  Cd Length: 97  Bit Score: 66.18  E-value: 1.90e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660  100 LRQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPES 179
Cdd:CHL00123   5 LNKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINK---------YEDGIYIQMNYSGNGKL 75

                         90       100
                 ....*....|....*....|..
gi 15217660  180 IVPLETVLTADDDIIRSSSFKI 201
Cdd:CHL00123  76 VNSLEKALKLDENVLRYLTFKK 97
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 101-203 6.89e-10

ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows more than two-fold length variation from 95 residues in Bacillus subtilis to 215 in Mycoplasma pneumoniae. This length variation comes primarily from poorly conserved C-terminal extensions that are particularly long in the Mycoplasmas. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 129270  Cd Length: 93  Bit Score: 53.91  E-value: 6.89e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660   101 RQYETMAVLRPDMSEdERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPESI 180
Cdd:TIGR00166   1 RHYEIIFLVRPTLSE-EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKK---------QLRAHYVLMNFSGEAQVI 70

                          90       100
                  ....*....|....*....|...
gi 15217660   181 VPLETVLTADDDIIRSSSFKIKK 203
Cdd:TIGR00166  71 KEFERTARINDNVIRSLIIKLEH 93
 
Name Accession Description Interval E-value
bS6_chloro_cyano cd15487
30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of ...
 100-201 8.67e-36

30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Mitochondrial and chloroplastic ribosomes are similar to bacterial ribosomes. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


Pssm-ID: 275387  Cd Length: 94  Bit Score: 121.16  E-value: 8.67e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660 100 LRQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPES 179
Cdd:cd15487   2 LRSYETMYILRPDLTEEQVEQLINKYQELLTENGAENIEVQNRGKRRLAYEIKK---------FRDGIYVQMNYTADGSA 72

                        90       100
                ....*....|....*....|..
gi 15217660 180 IVPLETVLTADDDIIRSSSFKI 201
Cdd:cd15487  73 VAPLERAMRLSEEVIRYLTIKV 94
Ribosomal_S6 pfam01250
Ribosomal protein S6;
102-197 1.88e-21

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 84.05  E-value: 1.88e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660   102 QYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKKNKagetntyldGIYLLFTYFTKPESIV 181
Cdd:pfam01250   1 KYELMFILRPDLSEEEVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHRE---------GYYVLMNFDAPPAAIA 71

                          90
                  ....*....|....*.
gi 15217660   182 PLETVLTADDDIIRSS 197
Cdd:pfam01250  72 ELERLLRIDEDVLRFL 87
bS6 cd00473
Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the ...
 102-195 8.88e-20

Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the prokaryotic ribosome, a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptides. Ribosomes consist of a large and a small subunit, which assemble during the initiation stage of protein synthesis. Prokaryotic ribosomes consist of three molecules of RNA and more than 50 proteins. The small subunits of bacterial and eukaryotic ribosomes have the same overall shapes (with structural elements described as head, body, platform, beak and shoulder). The bacterial ribosomal protein S6 is important for the assembly of the central domain of the small subunit via heterodimerization with ribosomal protein S18.


Pssm-ID: 275385  Cd Length: 91  Bit Score: 79.80  E-value: 8.88e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660 102 QYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKKNKagetntyldGIYLLFTYFTKPESIV 181
Cdd:cd00473   1 KYELMFILDPDLSEEEVKALIEKVKKIIEKNGGEIVKVEDWGKRKLAYPIKKKKE---------GYYVLINFEAEPEAIA 71

                        90
                ....*....|....
gi 15217660 182 PLETVLTADDDIIR 195
Cdd:cd00473  72 ELERRLRINEDVLR 85
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 101-205 4.21e-19

Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440129  Cd Length: 107  Bit Score: 78.68  E-value: 4.21e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660 101 RQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKKNKagetntyldGIYLLFTYFTKPESI 180
Cdd:COG0360   2 RHYEIVFILRPDLSEEQVEALVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKRE---------GHYVLMNFEADPAAI 72

                        90       100
                ....*....|....*....|....*
gi 15217660 181 VPLETVLTADDDIIRSSSFKIKKRK 205
Cdd:COG0360  73 AELERQLRINEDVLRFLTVRLDEAE 97
rps6 CHL00123
ribosomal protein S6; Validated
 100-201 1.90e-14

ribosomal protein S6; Validated


Pssm-ID: 177046  Cd Length: 97  Bit Score: 66.18  E-value: 1.90e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660  100 LRQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPES 179
Cdd:CHL00123   5 LNKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINK---------YEDGIYIQMNYSGNGKL 75

                         90       100
                 ....*....|....*....|..
gi 15217660  180 IVPLETVLTADDDIIRSSSFKI 201
Cdd:CHL00123  76 VNSLEKALKLDENVLRYLTFKK 97
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 101-203 6.89e-10

ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows more than two-fold length variation from 95 residues in Bacillus subtilis to 215 in Mycoplasma pneumoniae. This length variation comes primarily from poorly conserved C-terminal extensions that are particularly long in the Mycoplasmas. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 129270  Cd Length: 93  Bit Score: 53.91  E-value: 6.89e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15217660   101 RQYETMAVLRPDMSEdERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKknkagetntYLDGIYLLFTYFTKPESI 180
Cdd:TIGR00166   1 RHYEIIFLVRPTLSE-EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKK---------QLRAHYVLMNFSGEAQVI 70

                          90       100
                  ....*....|....*....|...
gi 15217660   181 VPLETVLTADDDIIRSSSFKIKK 203
Cdd:TIGR00166  71 KEFERTARINDNVIRSLIIKLEH 93
 
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