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Conserved domains on  [gi|493324489|ref|WP_006281753|]
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MULTISPECIES: 50S ribosomal protein L25/general stress protein Ctc [Segatella]

Protein Classification

50S ribosomal protein L25/general stress protein Ctc( domain architecture ID 11481318)

50S ribosomal protein L25/general stress protein Ctc is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance

CATH:  2.170.120.20|2.40.240.10
Gene Ontology:  GO:0003735|GO:0008097|GO:0006412|GO:0005840
PubMed:  24524803|12432960
SCOP:  4002376

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK05618 PRK05618
50S ribosomal protein L25/general stress protein Ctc; Reviewed
 1-197 3.15e-58

50S ribosomal protein L25/general stress protein Ctc; Reviewed


:

Pssm-ID: 235534 [Multi-domain]  Cd Length: 197  Bit Score: 181.17  E-value: 3.15e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   1 MKEIDVTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengaPVafSFAVSFKELRKIIYTPHVY--VINLIIDGESHTA 78
Cdd:PRK05618   1 METITLEAEVREEFGKGAARRLRRAGKVPAVIYGKGKE----PV--SISVDEKELIKALKKGAFLstLLDLEVGGKKQKV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489  79 IMKEIQFHPTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGV--RDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKI 156
Cdd:PRK05618  75 LVKDVQRHPVKDFILHVDFLRVDAGEKVKVEVPVHFVGEAKGVgvKLGGVLNQVLHELEVECLPEDIPEFIEVDVSGLEI 154

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 493324489 157 GKSIKVGELSF-EGLELATPKEVVVCSIKMTRAAAQAAQTEE 197
Cdd:PRK05618 155 GDSIHVSDLKLpEGVKLLDDPDEVVATVVAPRGEEEEEEEEA 196
 
Name Accession Description Interval E-value
PRK05618 PRK05618
50S ribosomal protein L25/general stress protein Ctc; Reviewed
 1-197 3.15e-58

50S ribosomal protein L25/general stress protein Ctc; Reviewed


Pssm-ID: 235534 [Multi-domain]  Cd Length: 197  Bit Score: 181.17  E-value: 3.15e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   1 MKEIDVTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengaPVafSFAVSFKELRKIIYTPHVY--VINLIIDGESHTA 78
Cdd:PRK05618   1 METITLEAEVREEFGKGAARRLRRAGKVPAVIYGKGKE----PV--SISVDEKELIKALKKGAFLstLLDLEVGGKKQKV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489  79 IMKEIQFHPTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGV--RDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKI 156
Cdd:PRK05618  75 LVKDVQRHPVKDFILHVDFLRVDAGEKVKVEVPVHFVGEAKGVgvKLGGVLNQVLHELEVECLPEDIPEFIEVDVSGLEI 154

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 493324489 157 GKSIKVGELSF-EGLELATPKEVVVCSIKMTRAAAQAAQTEE 197
Cdd:PRK05618 155 GDSIHVSDLKLpEGVKLLDDPDEVVATVVAPRGEEEEEEEEA 196
RplY COG1825
Ribosomal protein L25 (general stress protein Ctc) [Translation, ribosomal structure and ...
 1-187 9.52e-53

Ribosomal protein L25 (general stress protein Ctc) [Translation, ribosomal structure and biogenesis]; Ribosomal protein L25 (general stress protein Ctc) is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 441430 [Multi-domain]  Cd Length: 182  Bit Score: 167.00  E-value: 9.52e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   1 MKEIDVTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengapvAFSFAVSFKELRKIIYT-PHVYVINLIIDGESHTAI 79
Cdd:COG1825    1 MESITLKAEKREETGKGAARRLRREGKVPAVIYGGGKE------PVSISVDAKELRKLLRKeGENTLITLDIDGKKEKVL 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489  80 MKEIQFHPTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGVRDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKIGKS 159
Cdd:COG1825   75 IKDVQRHPVKDEILHVDFLRVSAGEKVTVEVPVHFVGEAAGVKVGGGLVLTLHELEVEALPPDIPEPIEVDVSDLGLGDS 154

                        170       180
                 ....*....|....*....|....*...
gi 493324489 160 IKVGELSFEGLELATPKEVVVCSIKMTR 187
Cdd:COG1825  155 ISVHDLDLPLLVGVVEDPDVVVVVVVTP 182
bL25_bact_ctc TIGR00731
ribosomal protein bL25, Ctc-form; This model models a family of proteins with full-length ...
 7-183 1.14e-34

ribosomal protein bL25, Ctc-form; This model models a family of proteins with full-length homology to the general stress protein Ctc of Bacillus subtilis, a mesophile, and ribosomal protein TL5 of Thermus thermophilus, a thermophile. Ribosomal protein L25 of Escherichia coli and H. influenzae appear to be orthologous but consist only of the N-terminal half of Ctc and TL5. Both short (L25-like) and full-length (CTC-like) members of this family bind the E-loop of bacterial 5S rRNA. This protein appears to be restricted to bacteria and organelles, and consists of at most one copy per prokaryotic genome.Ctc of Bacillus subtilis has now been localized to ribosomes and can be viewed as the long form, or Ctc form, of L25. The C-terminal domain of sll1824, an apparent L25 of Synechocystis PCC6803, matches the N-terminal domain of this family. Examples of L25 and Ctc are not separated by a UPGMA tree built on the region of shared homology. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273237 [Multi-domain]  Cd Length: 176  Bit Score: 120.55  E-value: 1.14e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489    7 TGQKRENLGKKASKALRKEGFVPCNLYGEKKDEngAPVAFSFAVSFKELRKiiYTPHVyVINLIIDGESHTAIMKEIQFH 86
Cdd:TIGR00731   2 EVKSRTSFGKSAARRIRKEGRIPAVVYGKGKEN--VNLELKSKEFIKYLRK--GATST-VLTLEIGGKEFKVLVKDYQYN 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   87 PTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGVRDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKIGKSIKVGELS 166
Cdd:TIGR00731  77 PVTNEVIHVDFLEVVEGVKLKVEVPIKLIGTPIGVKNGGILTQVKRRIEVECKPKDIPDFLELDVSSLGVGESLKLSDLE 156

                         170
                  ....*....|....*...
gi 493324489  167 F-EGLELATPKEVVVCSI 183
Cdd:TIGR00731 157 LpAGVSFITDDDEVVVTV 174
Ribosomal_L25p pfam01386
Ribosomal L25p family; Ribosomal protein L25 is an RNA binding protein, that binds 5S rRNA. ...
 7-97 1.70e-32

Ribosomal L25p family; Ribosomal protein L25 is an RNA binding protein, that binds 5S rRNA. This family includes Ctc from B. subtilis, which is induced by stress.


Pssm-ID: 460185  Cd Length: 87  Bit Score: 112.15  E-value: 1.70e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489    7 TGQKRENLGKKASKALRKEGFVPCNLYGEKKDengapvAFSFAVSFKELRKIIYT-PHVYVINLIIDGESHTAIMKEIQF 85
Cdd:pfam01386   2 KAEKRTEFGKGAARRLRREGKVPAVLYGGGKE------PISISVDAKELRKLLRTeGENTVIELDIDGKKYKVLIKDVQR 75

                          90
                  ....*....|..
gi 493324489   86 HPTTDAPLHVDF 97
Cdd:pfam01386  76 HPVKDEILHVDF 87
Ribosomal_L25_TL5_CTC cd00495
Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; L25 is a single-domain protein, ...
 6-99 4.61e-31

Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC. CTC is a known stress protein, and proteins of this family are believed to have two functions, acting as both ribosomal and stress proteins. In Escherichia coli, cells deleted for L25 were found to be viable; however, these cells grew slowly and had impaired protein synthesis capability. In Bacillus subtilis, CTC is induced under stress conditions and located in the ribosome; it has been proposed that CTC may be necessary for accurate translation under stress conditions. Ribosomal_L25_TL5_CTC is mostly found in bacteria, with a few exceptions such as plants or stramenopiles. Due to its limited taxonomic diversity and the viability of cells deleted for L25, this protein is not believed to be necessary for ribosomal assembly. Eukaryotes contain a protein called L25, which is not homologous to bacterial L25, but rather to bacterial L23.


Pssm-ID: 198379  Cd Length: 90  Bit Score: 108.71  E-value: 4.61e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   6 VTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengapvAFSFAVSFKELRKIIYTPHV-YVINLIIDGESHTAIMKEIQ 84
Cdd:cd00495    2 LKAEKREETGKGAARRLRREGKVPAVIYGKGEE------PIPISVDAKELEKLLRKEGEnTVIELEIDGKKENVLIKDVQ 75

                         90
                 ....*....|....*
gi 493324489  85 FHPTTDAPLHVDFYE 99
Cdd:cd00495   76 RHPVKDEILHVDFLR 90
 
Name Accession Description Interval E-value
PRK05618 PRK05618
50S ribosomal protein L25/general stress protein Ctc; Reviewed
 1-197 3.15e-58

50S ribosomal protein L25/general stress protein Ctc; Reviewed


Pssm-ID: 235534 [Multi-domain]  Cd Length: 197  Bit Score: 181.17  E-value: 3.15e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   1 MKEIDVTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengaPVafSFAVSFKELRKIIYTPHVY--VINLIIDGESHTA 78
Cdd:PRK05618   1 METITLEAEVREEFGKGAARRLRRAGKVPAVIYGKGKE----PV--SISVDEKELIKALKKGAFLstLLDLEVGGKKQKV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489  79 IMKEIQFHPTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGV--RDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKI 156
Cdd:PRK05618  75 LVKDVQRHPVKDFILHVDFLRVDAGEKVKVEVPVHFVGEAKGVgvKLGGVLNQVLHELEVECLPEDIPEFIEVDVSGLEI 154

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 493324489 157 GKSIKVGELSF-EGLELATPKEVVVCSIKMTRAAAQAAQTEE 197
Cdd:PRK05618 155 GDSIHVSDLKLpEGVKLLDDPDEVVATVVAPRGEEEEEEEEA 196
RplY COG1825
Ribosomal protein L25 (general stress protein Ctc) [Translation, ribosomal structure and ...
 1-187 9.52e-53

Ribosomal protein L25 (general stress protein Ctc) [Translation, ribosomal structure and biogenesis]; Ribosomal protein L25 (general stress protein Ctc) is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 441430 [Multi-domain]  Cd Length: 182  Bit Score: 167.00  E-value: 9.52e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   1 MKEIDVTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengapvAFSFAVSFKELRKIIYT-PHVYVINLIIDGESHTAI 79
Cdd:COG1825    1 MESITLKAEKREETGKGAARRLRREGKVPAVIYGGGKE------PVSISVDAKELRKLLRKeGENTLITLDIDGKKEKVL 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489  80 MKEIQFHPTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGVRDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKIGKS 159
Cdd:COG1825   75 IKDVQRHPVKDEILHVDFLRVSAGEKVTVEVPVHFVGEAAGVKVGGGLVLTLHELEVEALPPDIPEPIEVDVSDLGLGDS 154

                        170       180
                 ....*....|....*....|....*...
gi 493324489 160 IKVGELSFEGLELATPKEVVVCSIKMTR 187
Cdd:COG1825  155 ISVHDLDLPLLVGVVEDPDVVVVVVVTP 182
bL25_bact_ctc TIGR00731
ribosomal protein bL25, Ctc-form; This model models a family of proteins with full-length ...
 7-183 1.14e-34

ribosomal protein bL25, Ctc-form; This model models a family of proteins with full-length homology to the general stress protein Ctc of Bacillus subtilis, a mesophile, and ribosomal protein TL5 of Thermus thermophilus, a thermophile. Ribosomal protein L25 of Escherichia coli and H. influenzae appear to be orthologous but consist only of the N-terminal half of Ctc and TL5. Both short (L25-like) and full-length (CTC-like) members of this family bind the E-loop of bacterial 5S rRNA. This protein appears to be restricted to bacteria and organelles, and consists of at most one copy per prokaryotic genome.Ctc of Bacillus subtilis has now been localized to ribosomes and can be viewed as the long form, or Ctc form, of L25. The C-terminal domain of sll1824, an apparent L25 of Synechocystis PCC6803, matches the N-terminal domain of this family. Examples of L25 and Ctc are not separated by a UPGMA tree built on the region of shared homology. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273237 [Multi-domain]  Cd Length: 176  Bit Score: 120.55  E-value: 1.14e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489    7 TGQKRENLGKKASKALRKEGFVPCNLYGEKKDEngAPVAFSFAVSFKELRKiiYTPHVyVINLIIDGESHTAIMKEIQFH 86
Cdd:TIGR00731   2 EVKSRTSFGKSAARRIRKEGRIPAVVYGKGKEN--VNLELKSKEFIKYLRK--GATST-VLTLEIGGKEFKVLVKDYQYN 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   87 PTTDAPLHVDFYEVNDQKPITIGIPVKLNGLAQGVRDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKIGKSIKVGELS 166
Cdd:TIGR00731  77 PVTNEVIHVDFLEVVEGVKLKVEVPIKLIGTPIGVKNGGILTQVKRRIEVECKPKDIPDFLELDVSSLGVGESLKLSDLE 156

                         170
                  ....*....|....*...
gi 493324489  167 F-EGLELATPKEVVVCSI 183
Cdd:TIGR00731 157 LpAGVSFITDDDEVVVTV 174
Ribosomal_L25p pfam01386
Ribosomal L25p family; Ribosomal protein L25 is an RNA binding protein, that binds 5S rRNA. ...
 7-97 1.70e-32

Ribosomal L25p family; Ribosomal protein L25 is an RNA binding protein, that binds 5S rRNA. This family includes Ctc from B. subtilis, which is induced by stress.


Pssm-ID: 460185  Cd Length: 87  Bit Score: 112.15  E-value: 1.70e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489    7 TGQKRENLGKKASKALRKEGFVPCNLYGEKKDengapvAFSFAVSFKELRKIIYT-PHVYVINLIIDGESHTAIMKEIQF 85
Cdd:pfam01386   2 KAEKRTEFGKGAARRLRREGKVPAVLYGGGKE------PISISVDAKELRKLLRTeGENTVIELDIDGKKYKVLIKDVQR 75

                          90
                  ....*....|..
gi 493324489   86 HPTTDAPLHVDF 97
Cdd:pfam01386  76 HPVKDEILHVDF 87
Ribosomal_L25_TL5_CTC cd00495
Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; L25 is a single-domain protein, ...
 6-99 4.61e-31

Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC. CTC is a known stress protein, and proteins of this family are believed to have two functions, acting as both ribosomal and stress proteins. In Escherichia coli, cells deleted for L25 were found to be viable; however, these cells grew slowly and had impaired protein synthesis capability. In Bacillus subtilis, CTC is induced under stress conditions and located in the ribosome; it has been proposed that CTC may be necessary for accurate translation under stress conditions. Ribosomal_L25_TL5_CTC is mostly found in bacteria, with a few exceptions such as plants or stramenopiles. Due to its limited taxonomic diversity and the viability of cells deleted for L25, this protein is not believed to be necessary for ribosomal assembly. Eukaryotes contain a protein called L25, which is not homologous to bacterial L25, but rather to bacterial L23.


Pssm-ID: 198379  Cd Length: 90  Bit Score: 108.71  E-value: 4.61e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   6 VTGQKRENLGKKASKALRKEGFVPCNLYGEKKDengapvAFSFAVSFKELRKIIYTPHV-YVINLIIDGESHTAIMKEIQ 84
Cdd:cd00495    2 LKAEKREETGKGAARRLRREGKVPAVIYGKGEE------PIPISVDAKELEKLLRKEGEnTVIELEIDGKKENVLIKDVQ 75

                         90
                 ....*....|....*
gi 493324489  85 FHPTTDAPLHVDFYE 99
Cdd:cd00495   76 RHPVKDEILHVDFLR 90
Ribosomal_TL5_C pfam14693
Ribosomal protein TL5, C-terminal domain; This family contains the C-terminal domain of ...
 105-187 4.57e-23

Ribosomal protein TL5, C-terminal domain; This family contains the C-terminal domain of ribosomal protein TL5. The N-terminal domain, which binds to 5S rRNA, is contained in family Ribosomal_L25p, pfam01386. Full length (N- and C-terminal domain) homologs of TL5 are also known as CTC proteins. TL5 or CTC are not found in Eukarya or Archaea. In some Bacteria, including E. coli, this ribosomal subunit occurs as a single domain protein (named Ribosomal subunit L25), where the only domain is homologous to TL5 N-terminal domain (hence included in family pfam01386). The function of the C-terminal domain of TLC is at present unknown.


Pssm-ID: 464265  Cd Length: 84  Bit Score: 87.85  E-value: 4.57e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489  105 PITIGIPVKLNGLAQGVRDGGRMNLSIRKINVTAPYQQIPEHLDIDVTALKIGKSIKVGELSF-EGLELATPKEVVVCSI 183
Cdd:pfam14693   1 KVTVEVPVHFVGEAPGVKKGGVLNQVLRELEVECLPKDIPEFIEVDVSGLEIGDSIHVSDLKLpEGVELLTDPDTVVVSV 80


                  ....
gi 493324489  184 KMTR 187
Cdd:pfam14693  81 VAPR 84
PRK05943 PRK05943
50S ribosomal protein L25; Reviewed
 9-97 5.23e-15

50S ribosomal protein L25; Reviewed


Pssm-ID: 180318  Cd Length: 94  Bit Score: 67.23  E-value: 5.23e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493324489   9 QKRENLGKKASKALRKEGFVPCNLYGekkdENGAPVafSFAVSFKELRKIIYTPHVY--VINLIIDGESHTAIMKEIQFH 86
Cdd:PRK05943   7 EVRPEQGKGASRRLRRAGKFPAIIYG----GNEAPV--SIVLDHKDVINLQAKAEFYkeVITLVIDGKEVKVKVQAVQRH 80

                         90
                 ....*....|.
gi 493324489  87 PTTDAPLHVDF 97
Cdd:PRK05943  81 PFKPKLEHIDF 91
 
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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