NCBI Conserved Domain Search

Conserved domains on [gi|261399864|ref|NP_997699|]

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small ribosomal subunit protein mS40 [Rattus norvegicus]

Protein Classification

bS18 family ribosomal protein( domain architecture ID 10471228)

bS18 (bS18m and bS18c for mitoribosome and chloroplast) family ribosomal protein is a component of the small ribosomal subunit and it is involved in ribosomal assembly.

Gene Symbol: rpsR

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

PubMed: 24524803|27023846

Graphical summary

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List of domain hits

Name

Accession

Description

Interval

E-value

Ribosomal_S18

pfam01084

Ribosomal protein S18;

112-164

1.99e-16

Ribosomal protein S18;

Pssm-ID: 460054 Cd Length: 52 Bit Score: 70.86 E-value: 1.99e-16

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 261399864  112 HKLHVDFRNVKLLEQFVcAHTGIIFHAPYTGVCMKQHKKLTQAIQKAREYGLL 164
Cdd:pfam01084   1 KNEYIDYKDVELLSQFI-TERGKILPRRITGLCAKHQRKLAKAIKRARHLALL 52

Name

Accession

Description

Interval

E-value

Ribosomal_S18

pfam01084

Ribosomal protein S18;

112-164

1.99e-16

Ribosomal protein S18;

Pssm-ID: 460054 Cd Length: 52 Bit Score: 70.86 E-value: 1.99e-16

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 261399864  112 HKLHVDFRNVKLLEQFVcAHTGIIFHAPYTGVCMKQHKKLTQAIQKAREYGLL 164
Cdd:pfam01084   1 KNEYIDYKDVELLSQFI-TERGKILPRRITGLCAKHQRKLAKAIKRARHLALL 52

RpsR

COG0238

Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S18 ...

87-166

6.13e-13

Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S18 is part of the Pathway/BioSystem: Ribosome 30S subunit

Pssm-ID: 440008 Cd Length: 81 Bit Score: 62.48 E-value: 6.13e-13

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 261399864  87 PPQRTRKtciRKDKVagnpCPICRDHKLHVDFRNVKLLEQFVcAHTGIIFHAPYTGVCMKQHKKLTQAIQKAREYGLLSY 166
Cdd:COG0238    5 RPRRRRF---RRKKV----CRFCADKIEYIDYKDVELLKKFI-SERGKILPRRITGTCAKHQRQLATAIKRARHLALLPY 76

Name

Accession

Description

Interval

E-value

Ribosomal_S18

pfam01084

Ribosomal protein S18;

112-164

1.99e-16

Ribosomal protein S18;

Pssm-ID: 460054 Cd Length: 52 Bit Score: 70.86 E-value: 1.99e-16

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 261399864  112 HKLHVDFRNVKLLEQFVcAHTGIIFHAPYTGVCMKQHKKLTQAIQKAREYGLL 164
Cdd:pfam01084   1 KNEYIDYKDVELLSQFI-TERGKILPRRITGLCAKHQRKLAKAIKRARHLALL 52

RpsR

COG0238

Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S18 ...

87-166

6.13e-13

Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S18 is part of the Pathway/BioSystem: Ribosome 30S subunit

Pssm-ID: 440008 Cd Length: 81 Bit Score: 62.48 E-value: 6.13e-13

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 261399864  87 PPQRTRKtciRKDKVagnpCPICRDHKLHVDFRNVKLLEQFVcAHTGIIFHAPYTGVCMKQHKKLTQAIQKAREYGLLSY 166
Cdd:COG0238    5 RPRRRRF---RRKKV----CRFCADKIEYIDYKDVELLKKFI-SERGKILPRRITGTCAKHQRQLATAIKRARHLALLPY 76

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