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Conserved domains on  [gi|145332631|ref|NP_001078181|]
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Translation elongation factor EF1B/ribosomal protein S6 family protein [Arabidopsis thaliana]

Protein Classification

bS6m family ribosomal protein( domain architecture ID 10202521)

bS6m family mitoribosomal protein such as vertebrate 28S mitoribosomal protein S6 and fungal 37S mitoribosomal protein MRP17

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 3-91 2.80e-19

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: 76.42  E-value: 2.80e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631   3 LYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKLD-----GRHYQITMMTTPNMNKELHYL 77
Cdd:cd15465    1 LYELVLIARALAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQerhteGRYFLMDFDASPTVVKELREE 80

                         90
                 ....*....|....*
gi 145332631  78 NKED-KLLRWLLVKH 91
Cdd:cd15465   81 LRRDpDVIRWSIVKL 95
 
Name Accession Description Interval E-value
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 3-91 2.80e-19

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: 76.42  E-value: 2.80e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631   3 LYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKLD-----GRHYQITMMTTPNMNKELHYL 77
Cdd:cd15465    1 LYELVLIARALAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQerhteGRYFLMDFDASPTVVKELREE 80

                         90
                 ....*....|....*
gi 145332631  78 NKED-KLLRWLLVKH 91
Cdd:cd15465   81 LRRDpDVIRWSIVKL 95
Ribosomal_S6 pfam01250
Ribosomal protein S6;
3-87 3.23e-15

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 65.95  E-value: 3.23e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631    3 LYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKL-DGRHYQITMMTTPNMNKEL-HYLNKE 80
Cdd:pfam01250   1 KYELMFILRPDLSEEEVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHrEGYYVLMNFDAPPAAIAELeRLLRID 80


                  ....*..
gi 145332631   81 DKLLRWL 87
Cdd:pfam01250  81 EDVLRFL 87
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 3-90 1.00e-04

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: 38.50  E-value: 1.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631    3 LYDCMLLFKPIIRKEgLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRK-LDGRHYQITMMTTPNMNKEL-HYLNKE 80
Cdd:TIGR00166   2 HYEIIFLVRPTLSEE-VKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKqLRAHYVLMNFSGEAQVIKEFeRTARIN 80

                          90
                  ....*....|
gi 145332631   81 DKLLRWLLVK 90
Cdd:TIGR00166  81 DNVIRSLIIK 90
 
Name Accession Description Interval E-value
bS6_mito cd15465
Mitochondrial Ribosomal Protein (MRP) S6; bS6_MRPS6 is one of the proteins of the small ...
 3-91 2.80e-19

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: 76.42  E-value: 2.80e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631   3 LYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKLD-----GRHYQITMMTTPNMNKELHYL 77
Cdd:cd15465    1 LYELVLIARALAEKAELKELLKRTAKAILDNGGVVRKIENLGTRDLPYRIKKHQerhteGRYFLMDFDASPTVVKELREE 80

                         90
                 ....*....|....*
gi 145332631  78 NKED-KLLRWLLVKH 91
Cdd:cd15465   81 LRRDpDVIRWSIVKL 95
Ribosomal_S6 pfam01250
Ribosomal protein S6;
3-87 3.23e-15

Ribosomal protein S6;


Pssm-ID: 460134  Cd Length: 88  Bit Score: 65.95  E-value: 3.23e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631    3 LYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKL-DGRHYQITMMTTPNMNKEL-HYLNKE 80
Cdd:pfam01250   1 KYELMFILRPDLSEEEVKALVEKFKALITENGGEIRKVEDWGKRRLAYPIKKHrEGYYVLMNFDAPPAAIAELeRLLRID 80


                  ....*..
gi 145332631   81 DKLLRWL 87
Cdd:pfam01250  81 EDVLRFL 87
S6 TIGR00166
ribosomal protein S6; The ribosomal protein S6 ortholog family, including yeast MRP17, shows ...
 3-90 1.00e-04

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: 38.50  E-value: 1.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145332631    3 LYDCMLLFKPIIRKEgLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRK-LDGRHYQITMMTTPNMNKEL-HYLNKE 80
Cdd:TIGR00166   2 HYEIIFLVRPTLSEE-VKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKqLRAHYVLMNFSGEAQVIKEFeRTARIN 80

                          90
                  ....*....|
gi 145332631   81 DKLLRWLLVK 90
Cdd:TIGR00166  81 DNVIRSLIIK 90
 
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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