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Conserved domains on  [gi|498169820|ref|WP_010483976|]
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MULTISPECIES: 50S ribosomal protein L18 [Stenotrophomonas]

Protein Classification

50S ribosomal protein L18( domain architecture ID 17565799)

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|GO:0006412
PubMed:  24362565|11470155|24524803

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RplR COG0256
Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 ...
 1-117 2.67e-49

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: 152.56  E-value: 2.67e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820   1 MNKNIARLRRAKSTRAHIR-ELGVARLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVA 79
Cdd:COG0256    2 RYKKKARRRRHYRVRKKISgTSERPRLVVFRSNKHIYAQIIDDTGGKTLASASTLEKELRKKLGSGGNTEAAYLVGKLIA 81

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 498169820  80 ERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:COG0256   82 ERAKAKGIEEVVFDRGGYLYHGRVKALADGAREAGLKF 119
 
Name Accession Description Interval E-value
RplR COG0256
Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 ...
 1-117 2.67e-49

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: 152.56  E-value: 2.67e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820   1 MNKNIARLRRAKSTRAHIR-ELGVARLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVA 79
Cdd:COG0256    2 RYKKKARRRRHYRVRKKISgTSERPRLVVFRSNKHIYAQIIDDTGGKTLASASTLEKELRKKLGSGGNTEAAYLVGKLIA 81

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 498169820  80 ERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:COG0256   82 ERAKAKGIEEVVFDRGGYLYHGRVKALADGAREAGLKF 119
Ribosomal_L18p pfam00861
Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast; This family includes the large ...
 1-117 1.76e-33

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: 112.46  E-value: 1.76e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820    1 MNKNIARLRRAKSTRAHIRelGVA---RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVmeGLKNGKNADAAAKVGRI 77
Cdd:pfam00861   1 KTKKAARLRRHKRIRKKIS--GTAerpRLVVFRSNRHIYAQVIDDVKGHTLASASTLEKDL--KGLSGGNQDAAKKVGEL 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 498169820   78 VAERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:pfam00861  77 IAERAKAKGITAVVFDRGGYKYHGRVAALADAAREAGLNF 116
rpl18 CHL00139
ribosomal protein L18; Validated
 25-117 5.91e-32

ribosomal protein L18; Validated


Pssm-ID: 214373  Cd Length: 109  Bit Score: 108.57  E-value: 5.91e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820  25 RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVAERAKAAGIEKVAFDRSGYRYHGRIK 104
Cdd:CHL00139  17 RLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKVVFDRGGKLYHGRIK 96

                         90
                 ....*....|...
gi 498169820 105 ALAEAAREAGLQF 117
Cdd:CHL00139  97 ALAEAAREAGLQF 109
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 25-115 8.24e-32

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: 108.01  E-value: 8.24e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820  25 RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVAERAKAAGIEKVAFDRSGYRYHGRIK 104
Cdd:cd00432   13 RLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFDRGGYRYHGRVK 92

                         90
                 ....*....|.
gi 498169820 105 ALAEAAREAGL 115
Cdd:cd00432   93 ALAKGAREGGL 103
L18_bact TIGR00060
ribosomal protein L18, bacterial type; The archaeal and eukaryotic type rpL18 is not ...
 3-117 1.03e-31

ribosomal protein L18, bacterial type; The archaeal and eukaryotic type rpL18 is not detectable under this model. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 272881  Cd Length: 114  Bit Score: 107.99  E-value: 1.03e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820    3 KNIARLRRAKSTRAHIRELGVA---RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDvmegLKNGKNADAAAKVGRIVA 79
Cdd:TIGR00060   1 KKSARLRRHKRIRRKLRGTGEAnrpRLVVFRSNRHIYAQVIDDVKGVTLASASTLEKK----LKSTGNKDAAKKVGKLVA 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 498169820   80 ERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:TIGR00060  77 ERLKEKGIKDVVFDRGGYKYHGRVAALAEAAREAGLNF 114
 
Name Accession Description Interval E-value
RplR COG0256
Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L18 ...
 1-117 2.67e-49

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: 152.56  E-value: 2.67e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820   1 MNKNIARLRRAKSTRAHIR-ELGVARLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVA 79
Cdd:COG0256    2 RYKKKARRRRHYRVRKKISgTSERPRLVVFRSNKHIYAQIIDDTGGKTLASASTLEKELRKKLGSGGNTEAAYLVGKLIA 81

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 498169820  80 ERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:COG0256   82 ERAKAKGIEEVVFDRGGYLYHGRVKALADGAREAGLKF 119
Ribosomal_L18p pfam00861
Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast; This family includes the large ...
 1-117 1.76e-33

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: 112.46  E-value: 1.76e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820    1 MNKNIARLRRAKSTRAHIRelGVA---RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVmeGLKNGKNADAAAKVGRI 77
Cdd:pfam00861   1 KTKKAARLRRHKRIRKKIS--GTAerpRLVVFRSNRHIYAQVIDDVKGHTLASASTLEKDL--KGLSGGNQDAAKKVGEL 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 498169820   78 VAERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:pfam00861  77 IAERAKAKGITAVVFDRGGYKYHGRVAALADAAREAGLNF 116
rpl18 CHL00139
ribosomal protein L18; Validated
 25-117 5.91e-32

ribosomal protein L18; Validated


Pssm-ID: 214373  Cd Length: 109  Bit Score: 108.57  E-value: 5.91e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820  25 RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVAERAKAAGIEKVAFDRSGYRYHGRIK 104
Cdd:CHL00139  17 RLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKVVFDRGGKLYHGRIK 96

                         90
                 ....*....|...
gi 498169820 105 ALAEAAREAGLQF 117
Cdd:CHL00139  97 ALAEAAREAGLQF 109
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 25-115 8.24e-32

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: 108.01  E-value: 8.24e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820  25 RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDVMEGLKNGKNADAAAKVGRIVAERAKAAGIEKVAFDRSGYRYHGRIK 104
Cdd:cd00432   13 RLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFDRGGYRYHGRVK 92

                         90
                 ....*....|.
gi 498169820 105 ALAEAAREAGL 115
Cdd:cd00432   93 ALAKGAREGGL 103
L18_bact TIGR00060
ribosomal protein L18, bacterial type; The archaeal and eukaryotic type rpL18 is not ...
 3-117 1.03e-31

ribosomal protein L18, bacterial type; The archaeal and eukaryotic type rpL18 is not detectable under this model. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 272881  Cd Length: 114  Bit Score: 107.99  E-value: 1.03e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820    3 KNIARLRRAKSTRAHIRELGVA---RLSVLRTGQHLYAQVFTADGSKVLAAANTTQTDvmegLKNGKNADAAAKVGRIVA 79
Cdd:TIGR00060   1 KKSARLRRHKRIRRKLRGTGEAnrpRLVVFRSNRHIYAQVIDDVKGVTLASASTLEKK----LKSTGNKDAAKKVGKLVA 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 498169820   80 ERAKAAGIEKVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:TIGR00060  77 ERLKEKGIKDVVFDRGGYKYHGRVAALAEAAREAGLNF 114
PTZ00032 PTZ00032
60S ribosomal protein L18; Provisional
 23-117 5.57e-17

60S ribosomal protein L18; Provisional


Pssm-ID: 240235  Cd Length: 211  Bit Score: 72.97  E-value: 5.57e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498169820  23 VARLSVLRTGQHLYAQV----------FTADG----SKVLAAANTTQTDVMegLKNGKNADAAAKVGRIVAERAKAAGIE 88
Cdd:PTZ00032 105 RPRLTLKNTNNQMYATIvddytrhvlcFSCTNfkylSHIFGTYPTKTTNRV--RNNGGTIKAAYELGKLIGRKALSKGIS 182

                         90       100
                 ....*....|....*....|....*....
gi 498169820  89 KVAFDRSGYRYHGRIKALAEAAREAGLQF 117
Cdd:PTZ00032 183 KVRFDRAHYKYAGKVEALAEGARAVGLQF 211
 
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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