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Conserved domains on  [gi|1443057514|ref|XP_025878603|]
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uncharacterized protein [Oryza sativa Japonica Group]

Protein Classification

50S ribosomal protein L18( domain architecture ID 10087302)

50S ribosomal protein L18 is part of the 5S rRNA/L5/L18/L25 subcomplex; it contacts 5S and 23S rRNAs

Gene Ontology:  GO:0005840|GO:0003735
PubMed:  24362565|11470155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 75-178 2.07e-15

Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.


:

Pssm-ID: 238246  Cd Length: 103  Bit Score: 68.34  E-value: 2.07e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443057514  75 WKQRTDMYMRPFLLNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNACRTIGRLIAERSMDADVFAMSY 154
Cdd:cd00432     1 RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVF 80

                          90       100
                  ....*....|....*....|....
gi 1443057514 155 EPKKNeRIEGKLGIVIDTIKEHGI 178
Cdd:cd00432    81 DRGGY-RYHGRVKALAKGAREGGL 103
 
Name Accession Description Interval E-value
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 75-178 2.07e-15

Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.


Pssm-ID: 238246  Cd Length: 103  Bit Score: 68.34  E-value: 2.07e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443057514  75 WKQRTDMYMRPFLLNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNACRTIGRLIAERSMDADVFAMSY 154
Cdd:cd00432     1 RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVF 80

                          90       100
                  ....*....|....*....|....
gi 1443057514 155 EPKKNeRIEGKLGIVIDTIKEHGI 178
Cdd:cd00432    81 DRGGY-RYHGRVKALAKGAREGGL 103
RplR COG0256
Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 ...
 84-149 4.19e-04

Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 440026  Cd Length: 119  Bit Score: 38.16  E-value: 4.19e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1443057514  84 RPFLlNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNACRTIGRLIAERSMDADV 149
Cdd:COG0256    25 RPRL-VVFRSNKHIYAQIIDDTGGKTLASASTLEKELRKKLGSGGNTEAAYLVGKLIAERAKAKGI 89
Ribosomal_L18p pfam00861
Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast; This family includes the large ...
 88-149 8.61e-03

Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast; This family includes the large subunit ribosomal proteins from bacteria, archaea, the mitochondria and the chloroplast. It does not include the 60S L18 or L5 proteins from Metazoa.


Pssm-ID: 395691  Cd Length: 116  Bit Score: 34.65  E-value: 8.61e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1443057514  88 LNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNAcrTIGRLIAERSMDADV 149
Cdd:pfam00861  27 LVVFRSNRHIYAQVIDDVKGHTLASASTLEKDLKGLSGGNQDAAK--KVGELIAERAKAKGI 86
 
Name Accession Description Interval E-value
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 75-178 2.07e-15

Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.


Pssm-ID: 238246  Cd Length: 103  Bit Score: 68.34  E-value: 2.07e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443057514  75 WKQRTDMYMRPFLLNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNACRTIGRLIAERSMDADVFAMSY 154
Cdd:cd00432     1 RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVF 80

                          90       100
                  ....*....|....*....|....
gi 1443057514 155 EPKKNeRIEGKLGIVIDTIKEHGI 178
Cdd:cd00432    81 DRGGY-RYHGRVKALAKGAREGGL 103
RplR COG0256
Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 ...
 84-149 4.19e-04

Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 440026  Cd Length: 119  Bit Score: 38.16  E-value: 4.19e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1443057514  84 RPFLlNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNACRTIGRLIAERSMDADV 149
Cdd:COG0256    25 RPRL-VVFRSNKHIYAQIIDDTGGKTLASASTLEKELRKKLGSGGNTEAAYLVGKLIAERAKAKGI 89
Ribosomal_L18p pfam00861
Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast; This family includes the large ...
 88-149 8.61e-03

Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast; This family includes the large subunit ribosomal proteins from bacteria, archaea, the mitochondria and the chloroplast. It does not include the 60S L18 or L5 proteins from Metazoa.


Pssm-ID: 395691  Cd Length: 116  Bit Score: 34.65  E-value: 8.61e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1443057514  88 LNVFFSKRFVHAKVVHRGTSKVISVASTNAKDLRTTLPSLVDDNAcrTIGRLIAERSMDADV 149
Cdd:pfam00861  27 LVVFRSNRHIYAQVIDDVKGHTLASASTLEKDLKGLSGGNQDAAK--KVGELIAERAKAKGI 86
 
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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