NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1110850250|gb|APG64569|]
View 

30S ribosomal protein S6 [Tenacibaculum todarodis]

Protein Classification

30S ribosomal protein S6( domain architecture ID 10785350)

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

CATH:  3.30.70.60
Gene Ontology:  GO:0005840|GO:0019843|GO:0003735|GO:0006412|GO:1990904
PubMed:  22817455
SCOP:  4001337

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 1-106 3.45e-43

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: 136.46  E-value: 3.45e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   1 MNHYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFR 80
Cdd:COG0360     1 MRHYEIVFILRPDLSEEQVEALVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKREGHYVLMNFEADPAAIAELERQLR 80

                          90       100
                  ....*....|....*....|....*.
gi 1110850250  81 RDDSVMRYLTVKLDKHAAAWAEKRSA 106
Cdd:COG0360    81 INEDVLRFLTVRLDEAEEEPSPMMKK 106
 
Name Accession Description Interval E-value
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 1-106 3.45e-43

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: 136.46  E-value: 3.45e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   1 MNHYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFR 80
Cdd:COG0360     1 MRHYEIVFILRPDLSEEQVEALVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKREGHYVLMNFEADPAAIAELERQLR 80

                          90       100
                  ....*....|....*....|....*.
gi 1110850250  81 RDDSVMRYLTVKLDKHAAAWAEKRSA 106
Cdd:COG0360    81 INEDVLRFLTVRLDEAEEEPSPMMKK 106
bS6 cd00473
Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the ...
 3-93 2.89e-35

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: 116.01  E-value: 2.89e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   3 HYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRRD 82
Cdd:cd00473     1 KYELMFILDPDLSEEEVKALIEKVKKIIEKNGGEIVKVEDWGKRKLAYPIKKKKEGYYVLINFEAEPEAIAELERRLRIN 80

                          90
                  ....*....|.
gi 1110850250  83 DSVMRYLTVKL 93
Cdd:cd00473    81 EDVLRFLIVKL 91
Ribosomal_S6 pfam01250
Ribosomal protein S6;
3-90 2.53e-34

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 113.71  E-value: 2.53e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   3 HYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRRD 82
Cdd:pfam01250   1 KYELMFILRPDLSEEEVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHREGYYVLMNFDAPPAAIAELERLLRID 80


                  ....*...
gi 1110850250  83 DSVMRYLT 90
Cdd:pfam01250  81 EDVLRFLI 88
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 2-95 1.19e-19

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: 76.63  E-value: 1.19e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   2 NHYETVFILNPVLSDtQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRR 81
Cdd:TIGR00166   1 RHYEIIFLVRPTLSE-EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQLRAHYVLMNFSGEAQVIKEFERTARI 79

                          90
                  ....*....|....
gi 1110850250  82 DDSVMRYLTVKLDK 95
Cdd:TIGR00166  80 NDNVIRSLIIKLEH 93
rps6 CHL00123
ribosomal protein S6; Validated
 2-92 2.40e-14

ribosomal protein S6; Validated


Pssm-ID: 177046  Cd Length: 97  Bit Score: 63.10  E-value: 2.40e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   2 NHYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRR 81
Cdd:CHL00123    6 NKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEKALKL 85

                          90
                  ....*....|.
gi 1110850250  82 DDSVMRYLTVK 92
Cdd:CHL00123   86 DENVLRYLTFK 96
 
Name Accession Description Interval E-value
RpsF COG0360
Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S6 ...
 1-106 3.45e-43

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: 136.46  E-value: 3.45e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   1 MNHYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFR 80
Cdd:COG0360     1 MRHYEIVFILRPDLSEEQVEALVEKFKGIIEKNGGEIVKVEDWGKRKLAYPIKKKREGHYVLMNFEADPAAIAELERQLR 80

                          90       100
                  ....*....|....*....|....*.
gi 1110850250  81 RDDSVMRYLTVKLDKHAAAWAEKRSA 106
Cdd:COG0360    81 INEDVLRFLTVRLDEAEEEPSPMMKK 106
bS6 cd00473
Bacterial ribosomal protein S6; bS6 is one of the components of the small subunit of the ...
 3-93 2.89e-35

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: 116.01  E-value: 2.89e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   3 HYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRRD 82
Cdd:cd00473     1 KYELMFILDPDLSEEEVKALIEKVKKIIEKNGGEIVKVEDWGKRKLAYPIKKKKEGYYVLINFEAEPEAIAELERRLRIN 80

                          90
                  ....*....|.
gi 1110850250  83 DSVMRYLTVKL 93
Cdd:cd00473    81 EDVLRFLIVKL 91
Ribosomal_S6 pfam01250
Ribosomal protein S6;
3-90 2.53e-34

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 113.71  E-value: 2.53e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   3 HYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRRD 82
Cdd:pfam01250   1 KYELMFILRPDLSEEEVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHREGYYVLMNFDAPPAAIAELERLLRID 80


                  ....*...
gi 1110850250  83 DSVMRYLT 90
Cdd:pfam01250  81 EDVLRFLI 88
bS6_chloro_cyano cd15487
30S ribosomal protein S6 of chloroplasts and cyanobacteria; bS6 is one of the components of ...
 2-93 1.35e-26

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: 94.20  E-value: 1.35e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   2 NHYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRR 81
Cdd:cd15487     3 RSYETMYILRPDLTEEQVEQLINKYQELLTENGAENIEVQNRGKRRLAYEIKKFRDGIYVQMNYTADGSAVAPLERAMRL 82

                          90
                  ....*....|..
gi 1110850250  82 DDSVMRYLTVKL 93
Cdd:cd15487    83 SEEVIRYLTIKV 94
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 2-95 1.19e-19

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: 76.63  E-value: 1.19e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   2 NHYETVFILNPVLSDtQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRR 81
Cdd:TIGR00166   1 RHYEIIFLVRPTLSE-EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQLRAHYVLMNFSGEAQVIKEFERTARI 79

                          90
                  ....*....|....
gi 1110850250  82 DDSVMRYLTVKLDK 95
Cdd:TIGR00166  80 NDNVIRSLIIKLEH 93
rps6 CHL00123
ribosomal protein S6; Validated
 2-92 2.40e-14

ribosomal protein S6; Validated


Pssm-ID: 177046  Cd Length: 97  Bit Score: 63.10  E-value: 2.40e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   2 NHYETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYHLLEYKVAGEAIAAFELEFRR 81
Cdd:CHL00123    6 NKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEKALKL 85

                          90
                  ....*....|.
gi 1110850250  82 DDSVMRYLTVK 92
Cdd:CHL00123   86 DENVLRYLTFK 96
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 4-93 2.84e-11

Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small subunit of the mitochondrial ribosome. Mitochondrial and chloroplastic ribosomes are similar to bacterial ribosomes. The ribosome is a ribonucleoprotein organelle that decodes the genetic information in messenger RNA and forms peptide bonds to synthesize the corresponding polypeptide. 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). Mitochondrial and chloroplastic ribosomes synthesize proteins that are involved in oxidative phosphorylation (ATP generation) and photosynthesis. bS6_MRPS6 is one of the fourteen mitochondrial ribosomal proteins that is known to have significant sequence homology with their bacterial counterpart.


Pssm-ID: 275386  Cd Length: 95  Bit Score: 55.23  E-value: 2.84e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110850250   4 YETVFILNPVLSDTQIKETVQKFEDYLASKGASMISKEDWGLKKLAYPIEKKKSGFYH----LLEYKVAGEAIAAFELEF 79
Cdd:cd15465     2 YELVLIARALAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQERHTEgryfLMDFDASPTVVKELREEL 81

                          90
                  ....*....|....
gi 1110850250  80 RRDDSVMRYLTVKL 93
Cdd:cd15465    82 RRDPDVIRWSIVKL 95
 
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