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Conserved domains on  [gi|84875532|ref|NP_001034173|]
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large ribosomal subunit protein uL1m isoform 2 [Mus musculus]

Protein Classification

uL1 family ribosomal protein( domain architecture ID 291)

uL1 family ribosomal protein similar to Homo sapiens 60S ribosomal protein L10a and Saccharomyces cerevisiae 50S ribosomal protein L1

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L1 super family cl00322
Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of ...
 102-244 3.97e-47

Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.


The actual alignment was detected with superfamily member TIGR01170:

Pssm-ID: 469720  Cd Length: 141  Bit Score: 154.20  E-value: 3.97e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84875532   102 YEVEKAIHLLKKFQVLdFTNPKQGVYLDLTLDMALGKkktvEPFASVIALPHLFSSEVnKVAVFTANASEIKIAEENGAA 181
Cdd:TIGR01170   1 YKVIKAFVYLKTKSIS-MYVPKQSVNLDIGLLMELGK----ESVQGMFSFPHPFGKEP-KIAVFTKGASEVEEAREAGAD 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 84875532   182 FAGGTDLVKKIMDDEVVV-DFYVAVPEIMGELNPLRKKLKKR--FPKATRNSIGRDIPKMLELFKT 244
Cdd:TIGR01170  75 YVGGDDLIKKIEDGEIKPfDYLIAHPDIVPELAQLRRLLGPKglMPSPKRGTVGDNLLSMIETFKK 140
 
Name Accession Description Interval E-value
rplA_mito TIGR01170
ribosomal protein uL1, mitochondrial; This model represents the mitochondrial homolog of ...
 102-244 3.97e-47

ribosomal protein uL1, mitochondrial; This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1 model. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273480  Cd Length: 141  Bit Score: 154.20  E-value: 3.97e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84875532   102 YEVEKAIHLLKKFQVLdFTNPKQGVYLDLTLDMALGKkktvEPFASVIALPHLFSSEVnKVAVFTANASEIKIAEENGAA 181
Cdd:TIGR01170   1 YKVIKAFVYLKTKSIS-MYVPKQSVNLDIGLLMELGK----ESVQGMFSFPHPFGKEP-KIAVFTKGASEVEEAREAGAD 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 84875532   182 FAGGTDLVKKIMDDEVVV-DFYVAVPEIMGELNPLRKKLKKR--FPKATRNSIGRDIPKMLELFKT 244
Cdd:TIGR01170  75 YVGGDDLIKKIEDGEIKPfDYLIAHPDIVPELAQLRRLLGPKglMPSPKRGTVGDNLLSMIETFKK 140
Ribosomal_L1 pfam00687
Ribosomal protein L1p/L10e family; This family includes prokaryotic L1 and eukaryotic L10.
 148-268 1.58e-08

Ribosomal protein L1p/L10e family; This family includes prokaryotic L1 and eukaryotic L10.


Pssm-ID: 459905  Cd Length: 197  Bit Score: 53.28  E-value: 1.58e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84875532   148 VIALPHLFSSEVnKVAVFTANASeIKIAEENGAAFAGGTDLVKKIMDDEVV------VDFYVAVPEIMGEL-NPLRKKLK 220
Cdd:pfam00687  34 TIVLPHGTGKTV-RVCVFAKDPQ-AEEAKEAGADVVGGEDLKEKIKNFEAKrklakdFDLFLADPDIMPLLgKLLGKILG 111

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 84875532   221 KR--FPKATRNSIGRDIPKML-ELFKTAHEIMVDeeRQNFLSTKIATVSYS 268
Cdd:pfam00687 112 PRgkMPNPKKGTVTKDVAKAVeEAKSGTVEFRVD--KGGCIHVKVGKVSFT 160
 
Name Accession Description Interval E-value
rplA_mito TIGR01170
ribosomal protein uL1, mitochondrial; This model represents the mitochondrial homolog of ...
 102-244 3.97e-47

ribosomal protein uL1, mitochondrial; This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1 model. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273480  Cd Length: 141  Bit Score: 154.20  E-value: 3.97e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84875532   102 YEVEKAIHLLKKFQVLdFTNPKQGVYLDLTLDMALGKkktvEPFASVIALPHLFSSEVnKVAVFTANASEIKIAEENGAA 181
Cdd:TIGR01170   1 YKVIKAFVYLKTKSIS-MYVPKQSVNLDIGLLMELGK----ESVQGMFSFPHPFGKEP-KIAVFTKGASEVEEAREAGAD 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 84875532   182 FAGGTDLVKKIMDDEVVV-DFYVAVPEIMGELNPLRKKLKKR--FPKATRNSIGRDIPKMLELFKT 244
Cdd:TIGR01170  75 YVGGDDLIKKIEDGEIKPfDYLIAHPDIVPELAQLRRLLGPKglMPSPKRGTVGDNLLSMIETFKK 140
Ribosomal_L1 pfam00687
Ribosomal protein L1p/L10e family; This family includes prokaryotic L1 and eukaryotic L10.
 148-268 1.58e-08

Ribosomal protein L1p/L10e family; This family includes prokaryotic L1 and eukaryotic L10.


Pssm-ID: 459905  Cd Length: 197  Bit Score: 53.28  E-value: 1.58e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84875532   148 VIALPHLFSSEVnKVAVFTANASeIKIAEENGAAFAGGTDLVKKIMDDEVV------VDFYVAVPEIMGEL-NPLRKKLK 220
Cdd:pfam00687  34 TIVLPHGTGKTV-RVCVFAKDPQ-AEEAKEAGADVVGGEDLKEKIKNFEAKrklakdFDLFLADPDIMPLLgKLLGKILG 111

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 84875532   221 KR--FPKATRNSIGRDIPKML-ELFKTAHEIMVDeeRQNFLSTKIATVSYS 268
Cdd:pfam00687 112 PRgkMPNPKKGTVTKDVAKAVeEAKSGTVEFRVD--KGGCIHVKVGKVSFT 160
 
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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