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Conserved domains on  [gi|145332787|ref|NP_001078259|]
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Nucleic acid-binding, OB-fold-like protein [Arabidopsis thaliana]

Protein Classification

S1 domain-containing protein( domain architecture ID 10645765)

S1 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
S1 smart00316
Ribosomal protein S1-like RNA-binding domain;
271-325 2.14e-04

Ribosomal protein S1-like RNA-binding domain;


:

Pssm-ID: 197648 [Multi-domain]  Cd Length: 72  Bit Score: 39.89  E-value: 2.14e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 145332787   271 PGMVCEGTVTTLhLYQGAFVDIGGVHEGWVPIKGNDWFWIRH---FIKVGMHVIVEIT 325
Cdd:smart00316   2 VGDVVEGTVTEI-TPGGAFVDLGNGVEGLIPISELSDKRVKDpeeVLKVGDEVKVKVL 58
 
Name Accession Description Interval E-value
S1 smart00316
Ribosomal protein S1-like RNA-binding domain;
271-325 2.14e-04

Ribosomal protein S1-like RNA-binding domain;


Pssm-ID: 197648 [Multi-domain]  Cd Length: 72  Bit Score: 39.89  E-value: 2.14e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 145332787   271 PGMVCEGTVTTLhLYQGAFVDIGGVHEGWVPIKGNDWFWIRH---FIKVGMHVIVEIT 325
Cdd:smart00316   2 VGDVVEGTVTEI-TPGGAFVDLGNGVEGLIPISELSDKRVKDpeeVLKVGDEVKVKVL 58
S1_RPS1_repeat_ec3 cd05688
S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ...
 271-324 5.99e-04

S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 3 (ec3) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.


Pssm-ID: 240193 [Multi-domain]  Cd Length: 68  Bit Score: 38.76  E-value: 5.99e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 145332787 271 PGMVCEGTVTTLHLYqGAFVDIGGVhEGWVPIKGNDWFWIRH---FIKVGMHVIVEI 324
Cdd:cd05688    1 EGDVVEGTVKSITDF-GAFVDLGGV-DGLLHISDMSWGRVKHpseVVNVGDEVEVKV 55
rpsA PRK06676
30S ribosomal protein S1; Reviewed
 271-302 1.71e-03

30S ribosomal protein S1; Reviewed


Pssm-ID: 235851 [Multi-domain]  Cd Length: 390  Bit Score: 41.40  E-value: 1.71e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 145332787 271 PGMVCEGTVTTLHLYqGAFVDIGGVhEGWVPI 302
Cdd:PRK06676 192 EGDVVEGTVARLTDF-GAFVDIGGV-DGLVHI 221
RpsA COG0539
Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S1 ...
 271-324 7.76e-03

Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S1 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440305 [Multi-domain]  Cd Length: 348  Bit Score: 39.26  E-value: 7.76e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 145332787 271 PGMVCEGTVTTLHLYqGAFVDIGGVhEGWVPIKGNDWFWIRH---FIKVGMHVIVEI 324
Cdd:COG0539  189 EGDVVEGTVKNITDF-GAFVDLGGV-DGLLHISEISWGRVKHpseVLKVGDEVEVKV 243
 
Name Accession Description Interval E-value
S1 smart00316
Ribosomal protein S1-like RNA-binding domain;
271-325 2.14e-04

Ribosomal protein S1-like RNA-binding domain;


Pssm-ID: 197648 [Multi-domain]  Cd Length: 72  Bit Score: 39.89  E-value: 2.14e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 145332787   271 PGMVCEGTVTTLhLYQGAFVDIGGVHEGWVPIKGNDWFWIRH---FIKVGMHVIVEIT 325
Cdd:smart00316   2 VGDVVEGTVTEI-TPGGAFVDLGNGVEGLIPISELSDKRVKDpeeVLKVGDEVKVKVL 58
S1_RPS1_repeat_ec3 cd05688
S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ...
 271-324 5.99e-04

S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 3 (ec3) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.


Pssm-ID: 240193 [Multi-domain]  Cd Length: 68  Bit Score: 38.76  E-value: 5.99e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 145332787 271 PGMVCEGTVTTLHLYqGAFVDIGGVhEGWVPIKGNDWFWIRH---FIKVGMHVIVEI 324
Cdd:cd05688    1 EGDVVEGTVKSITDF-GAFVDLGGV-DGLLHISDMSWGRVKHpseVVNVGDEVEVKV 55
S1_Tex cd05685
S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has ...
 272-327 1.69e-03

S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. Tex has two functional domains, an N-terminal domain homologous to the Escherichia coli maltose repression protein, which is a poorly defined transcriptional factor, and a C-terminal S1 RNA-binding domain. Tex is found in prokaryotes, eukaryotes, and archaea.


Pssm-ID: 240190 [Multi-domain]  Cd Length: 68  Bit Score: 37.21  E-value: 1.69e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 145332787 272 GMVCEGTVTTLHLYqGAFVDIgGVHE-GWVPI-KGNDWFWIRHFIKVGMHVIVEITVI 327
Cdd:cd05685    1 GMVLEGVVTNVTDF-GAFVDI-GVKQdGLIHIsKMADRFVSHPSDVVSVGDIVEVKVI 56
rpsA PRK06676
30S ribosomal protein S1; Reviewed
 271-302 1.71e-03

30S ribosomal protein S1; Reviewed


Pssm-ID: 235851 [Multi-domain]  Cd Length: 390  Bit Score: 41.40  E-value: 1.71e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 145332787 271 PGMVCEGTVTTLHLYqGAFVDIGGVhEGWVPI 302
Cdd:PRK06676 192 EGDVVEGTVARLTDF-GAFVDIGGV-DGLVHI 221
RpsA COG0539
Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S1 ...
 271-324 7.76e-03

Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S1 is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440305 [Multi-domain]  Cd Length: 348  Bit Score: 39.26  E-value: 7.76e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 145332787 271 PGMVCEGTVTTLHLYqGAFVDIGGVhEGWVPIKGNDWFWIRH---FIKVGMHVIVEI 324
Cdd:COG0539  189 EGDVVEGTVKNITDF-GAFVDLGGV-DGLLHISEISWGRVKHpseVLKVGDEVEVKV 243
 
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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