NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|488867748|ref|WP_002779987|]
View 

MULTISPECIES: 50S ribosomal protein L3 [Campylobacter]

Protein Classification

50S ribosomal protein L3( domain architecture ID 10022714)

50S ribosomal protein L3 binds near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit

Gene Ontology:  GO:0005840|GO:0019843|GO:0003735

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
L3_bact TIGR03625
50S ribosomal protein uL3, bacterial form; This model describes bacterial (and mitochondrial ...
3-188 1.12e-72

50S ribosomal protein uL3, bacterial form; This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.


:

Pssm-ID: 274684  Cd Length: 202  Bit Score: 218.12  E-value: 1.12e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748    3 YIVEKIGMSRTITNP--SIAVTLLRVVNAKVCEVE----GGKALVAYPKG----KASNKCVAGQQKKYNLSAeYNRFATL 72
Cdd:TIGR03625   2 LLGKKVGMTQIFTEDgkAVPVTVIEVGPNVVTQVKtvekDGYNAVQLGFGekkeKRVNKPEAGHFAKAGVEP-KRHLKEF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   73 EV---ANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHG-SRFHRRHGSIGNREWPGRVQPGMKMA 147
Cdd:TIGR03625  81 RVddaAGYEVGDeITVDIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGsSKSHRAPGSIGQRQTPGRVFKGKKMA 160
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 488867748  148 GHYGNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKIR 188
Cdd:TIGR03625 161 GHMGNERVTVQNlEVVKVDAERNLLLVKGAVPGAKGSLVLVK 202
 
Name Accession Description Interval E-value
L3_bact TIGR03625
50S ribosomal protein uL3, bacterial form; This model describes bacterial (and mitochondrial ...
3-188 1.12e-72

50S ribosomal protein uL3, bacterial form; This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.


Pssm-ID: 274684  Cd Length: 202  Bit Score: 218.12  E-value: 1.12e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748    3 YIVEKIGMSRTITNP--SIAVTLLRVVNAKVCEVE----GGKALVAYPKG----KASNKCVAGQQKKYNLSAeYNRFATL 72
Cdd:TIGR03625   2 LLGKKVGMTQIFTEDgkAVPVTVIEVGPNVVTQVKtvekDGYNAVQLGFGekkeKRVNKPEAGHFAKAGVEP-KRHLKEF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   73 EV---ANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHG-SRFHRRHGSIGNREWPGRVQPGMKMA 147
Cdd:TIGR03625  81 RVddaAGYEVGDeITVDIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGsSKSHRAPGSIGQRQTPGRVFKGKKMA 160
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 488867748  148 GHYGNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKIR 188
Cdd:TIGR03625 161 GHMGNERVTVQNlEVVKVDAERNLLLVKGAVPGAKGSLVLVK 202
RplC COG0087
Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L3 ...
7-191 7.33e-48

Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L3 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439857  Cd Length: 214  Bit Score: 155.21  E-value: 7.33e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   7 KIGMSRTIT--NPSIAVTLL-----RVVNAKVCEVEGGKAL-VAYP--KGKASNKCVAGQQKKYNLSA-----EynrFAT 71
Cdd:COG0087    9 KVGMTQVFDedGVVVPVTVIeagpcVVTQVKTYEKDGYGAVqLGFGekKEKRVTKPLLGHFKKAGVEPkrylrE---FRV 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748  72 LEVANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHGSR-FHRRHGSIGNREWPGRVQPGMKMAGH 149
Cdd:COG0087   86 DDVEEYEVGQeIKVDVFEAGQKVDVTGTSKGKGFQGVIKRHGFKGGPASHGSSkSHRAPGSIGARQTPGRVFKGKKMAGH 165
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 488867748 150 YGNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKIRIAK 191
Cdd:COG0087  166 MGNERVTVQNlEVVKVDAERNLLLVKGAVPGPKGGLVIIRPAV 208
rpl3 CHL00143
ribosomal protein L3; Validated
7-187 2.63e-35

ribosomal protein L3; Validated


Pssm-ID: 177065 [Multi-domain]  Cd Length: 207  Bit Score: 122.81  E-value: 2.63e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   7 KIGMSRTI--TNPSIAVTLLRVvnaKVCEVEGGKAL---------VAY--PKGKASNKCVAGQQKKYNLSAEY--NRFAT 71
Cdd:CHL00143   9 KIGMTQIFdeTGNAIPVTILKV---GPCVITQIKTLttdgynaiqIGYkqVSTKKLTKPQLGHLQKSNVPPLKylKEFRV 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748  72 LEVANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHGSRFHRRHGSIGNREWPGRVQPGMKMAGHY 150
Cdd:CHL00143  86 KSSEEFEVGQpLTVDAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGPMTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRL 165
                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 488867748 151 GNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKI 187
Cdd:CHL00143 166 GNKKVTIKNlKILKVDSENNLLVLKGSVPGKPGNLLSI 203
Ribosomal_L3 pfam00297
Ribosomal protein L3;
99-191 2.48e-10

Ribosomal protein L3;


Pssm-ID: 395233  Cd Length: 369  Bit Score: 58.40  E-value: 2.48e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   99 TKGRGYSGVMKRHNFAGGPASHGsRFHRRHGSIGnrEW-PGRVQPGMKMAGHYG--------------NTKVTVKNEVVS 163
Cdd:pfam00297 224 TKGKGFQGVTKRWGVKKLPRKTH-RGLRKVACIG--AWhPARVWPTVARAGQMGyhhrtelnkkiyriGTGDDGKNASTE 300
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 488867748  164 YDA-----------------ENKILVVKGAVPGYNGAMGKIRIAK 191
Cdd:pfam00297 301 FDLtektitpmggfvhygevKHDFIMVKGSVPGPKKRLVTLRKSL 345
 
Name Accession Description Interval E-value
L3_bact TIGR03625
50S ribosomal protein uL3, bacterial form; This model describes bacterial (and mitochondrial ...
3-188 1.12e-72

50S ribosomal protein uL3, bacterial form; This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.


Pssm-ID: 274684  Cd Length: 202  Bit Score: 218.12  E-value: 1.12e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748    3 YIVEKIGMSRTITNP--SIAVTLLRVVNAKVCEVE----GGKALVAYPKG----KASNKCVAGQQKKYNLSAeYNRFATL 72
Cdd:TIGR03625   2 LLGKKVGMTQIFTEDgkAVPVTVIEVGPNVVTQVKtvekDGYNAVQLGFGekkeKRVNKPEAGHFAKAGVEP-KRHLKEF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   73 EV---ANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHG-SRFHRRHGSIGNREWPGRVQPGMKMA 147
Cdd:TIGR03625  81 RVddaAGYEVGDeITVDIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGsSKSHRAPGSIGQRQTPGRVFKGKKMA 160
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 488867748  148 GHYGNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKIR 188
Cdd:TIGR03625 161 GHMGNERVTVQNlEVVKVDAERNLLLVKGAVPGAKGSLVLVK 202
RplC COG0087
Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L3 ...
7-191 7.33e-48

Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L3 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439857  Cd Length: 214  Bit Score: 155.21  E-value: 7.33e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   7 KIGMSRTIT--NPSIAVTLL-----RVVNAKVCEVEGGKAL-VAYP--KGKASNKCVAGQQKKYNLSA-----EynrFAT 71
Cdd:COG0087    9 KVGMTQVFDedGVVVPVTVIeagpcVVTQVKTYEKDGYGAVqLGFGekKEKRVTKPLLGHFKKAGVEPkrylrE---FRV 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748  72 LEVANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHGSR-FHRRHGSIGNREWPGRVQPGMKMAGH 149
Cdd:COG0087   86 DDVEEYEVGQeIKVDVFEAGQKVDVTGTSKGKGFQGVIKRHGFKGGPASHGSSkSHRAPGSIGARQTPGRVFKGKKMAGH 165
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 488867748 150 YGNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKIRIAK 191
Cdd:COG0087  166 MGNERVTVQNlEVVKVDAERNLLLVKGAVPGPKGGLVIIRPAV 208
rpl3 CHL00143
ribosomal protein L3; Validated
7-187 2.63e-35

ribosomal protein L3; Validated


Pssm-ID: 177065 [Multi-domain]  Cd Length: 207  Bit Score: 122.81  E-value: 2.63e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   7 KIGMSRTI--TNPSIAVTLLRVvnaKVCEVEGGKAL---------VAY--PKGKASNKCVAGQQKKYNLSAEY--NRFAT 71
Cdd:CHL00143   9 KIGMTQIFdeTGNAIPVTILKV---GPCVITQIKTLttdgynaiqIGYkqVSTKKLTKPQLGHLQKSNVPPLKylKEFRV 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748  72 LEVANTEAGD-LDETPLNEAKILKVSFNTKGRGYSGVMKRHNFAGGPASHGSRFHRRHGSIGNREWPGRVQPGMKMAGHY 150
Cdd:CHL00143  86 KSSEEFEVGQpLTVDAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGPMTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRL 165
                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 488867748 151 GNTKVTVKN-EVVSYDAENKILVVKGAVPGYNGAMGKI 187
Cdd:CHL00143 166 GNKKVTIKNlKILKVDSENNLLVLKGSVPGKPGNLLSI 203
Ribosomal_L3 pfam00297
Ribosomal protein L3;
99-191 2.48e-10

Ribosomal protein L3;


Pssm-ID: 395233  Cd Length: 369  Bit Score: 58.40  E-value: 2.48e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488867748   99 TKGRGYSGVMKRHNFAGGPASHGsRFHRRHGSIGnrEW-PGRVQPGMKMAGHYG--------------NTKVTVKNEVVS 163
Cdd:pfam00297 224 TKGKGFQGVTKRWGVKKLPRKTH-RGLRKVACIG--AWhPARVWPTVARAGQMGyhhrtelnkkiyriGTGDDGKNASTE 300
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 488867748  164 YDA-----------------ENKILVVKGAVPGYNGAMGKIRIAK 191
Cdd:pfam00297 301 FDLtektitpmggfvhygevKHDFIMVKGSVPGPKKRLVTLRKSL 345
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH