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Conserved domains on  [gi|22547140|ref|NP_666500|]
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large ribosomal subunit protein uL4m isoform b [Homo sapiens]

Protein Classification

uL4 family ribosomal protein( domain architecture ID 10456777)

uL4 (uL4m and uL4c for mitoribosome and chloroplast) family ribosomal protein is a component of the large ribosomal subunit

Gene Ontology:  GO:0003735|GO:0006412|GO:0019843
PubMed:  24524803

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Ribosomal_L4 pfam00573
Ribosomal protein L4/L1 family; This family includes Ribosomal L4/L1 from eukaryotes and ...
81-247 7.27e-65

Ribosomal protein L4/L1 family; This family includes Ribosomal L4/L1 from eukaryotes and archaebacteria and L4 from eubacteria. L4 from yeast has been shown to bind rRNA.


:

Pssm-ID: 425758  Cd Length: 190  Bit Score: 200.41  E-value: 7.27e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140    81 DLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTS 160
Cdd:pfam00573   2 ELSPAVFGAPVREDLIHRAVVAQLANRRQGTHSTKTRSEVSGGGKKPWRQKGTGRARVGSIRSPQWRGGGVAFGPK-PRD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   161 YYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYRRWGD-SVLLVDLTHEEmpqSIVEATSRLKT 239
Cdd:pfam00573  81 YSYKLNKKVRRLALRSALSAKAAEGLLVVVDHFELESPKTKDLVKLLKKLGLGGkKVLIVTDEEDE---NLFLSARNLPG 157

                  ....*...
gi 22547140   240 FNLIPAVG 247
Cdd:pfam00573 158 VDVVPVNG 165
 
Name Accession Description Interval E-value
Ribosomal_L4 pfam00573
Ribosomal protein L4/L1 family; This family includes Ribosomal L4/L1 from eukaryotes and ...
81-247 7.27e-65

Ribosomal protein L4/L1 family; This family includes Ribosomal L4/L1 from eukaryotes and archaebacteria and L4 from eubacteria. L4 from yeast has been shown to bind rRNA.


Pssm-ID: 425758  Cd Length: 190  Bit Score: 200.41  E-value: 7.27e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140    81 DLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTS 160
Cdd:pfam00573   2 ELSPAVFGAPVREDLIHRAVVAQLANRRQGTHSTKTRSEVSGGGKKPWRQKGTGRARVGSIRSPQWRGGGVAFGPK-PRD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   161 YYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYRRWGD-SVLLVDLTHEEmpqSIVEATSRLKT 239
Cdd:pfam00573  81 YSYKLNKKVRRLALRSALSAKAAEGLLVVVDHFELESPKTKDLVKLLKKLGLGGkKVLIVTDEEDE---NLFLSARNLPG 157

                  ....*...
gi 22547140   240 FNLIPAVG 247
Cdd:pfam00573 158 VDVVPVNG 165
RplD COG0088
Ribosomal protein L4 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L4 ...
75-198 2.16e-54

Ribosomal protein L4 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L4 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439858  Cd Length: 206  Bit Score: 174.45  E-value: 2.16e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140  75 ERVGLADLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHG 154
Cdd:COG0088  11 KKVGEVELSDAVFGIEPNEHLLHQVVVAQLANARQGTHKTKTRSEVSGGGKKPWRQKGTGRARQGSIRSPQWRGGGVVFG 90
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 22547140 155 PRgPTSYYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTG 198
Cdd:COG0088  91 PK-PRDYSQKLNKKMRRLALRSALSAKAREGRLIVVDDFSLDAP 133
rplD_bact TIGR03953
50S ribosomal protein L4, bacterial/organelle; Members of this protein family are ribosomal ...
81-247 8.30e-53

50S ribosomal protein L4, bacterial/organelle; Members of this protein family are ribosomal protein L4. This model recognizes bacterial and most organellar forms, but excludes homologs from the eukaryotic cytoplasm and from archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 274877  Cd Length: 188  Bit Score: 169.60  E-value: 8.30e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140    81 DLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTS 160
Cdd:TIGR03953   2 ELNDAVFGVEPNEHLLHQVVKAQLANRRQGTHKTKTRSEVSGGGKKPWRQKGTGRARQGSIRSPLWRGGGVAFGPK-PRD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   161 YYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTGDP----QYLTELAhyrrWGDSVLLVDlthEEMPQSIVEATSR 236
Cdd:TIGR03953  81 YSYKLNKKVRRLALRSALSEKAREGKLVVVDDFDLEEPKTkdlaKILKNLG----LGKKVLIVT---DEVDENLYLSARN 153
                         170
                  ....*....|.
gi 22547140   237 LKTFNLIPAVG 247
Cdd:TIGR03953 154 LPNVKVLPANG 164
rpl4 CHL00147
ribosomal protein L4; Validated
95-200 5.89e-34

ribosomal protein L4; Validated


Pssm-ID: 214375  Cd Length: 215  Bit Score: 122.04  E-value: 5.89e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   95 ILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTSYYYMLPMKVRALGL 174
Cdd:CHL00147  37 LLHRALVRQNNNQRQGTASTKTRSEVRGGGRKPWKQKGTGRARAGSNRSPLWKGGGVIFGPK-PKTYSNKLNKKERRLAL 115
                         90       100
                 ....*....|....*....|....*.
gi 22547140  175 KVALTVKlaQDDLHIMDSLELPTGDP 200
Cdd:CHL00147 116 RTLLYNK--SNNITVVENFESSITNP 139
 
Name Accession Description Interval E-value
Ribosomal_L4 pfam00573
Ribosomal protein L4/L1 family; This family includes Ribosomal L4/L1 from eukaryotes and ...
81-247 7.27e-65

Ribosomal protein L4/L1 family; This family includes Ribosomal L4/L1 from eukaryotes and archaebacteria and L4 from eubacteria. L4 from yeast has been shown to bind rRNA.


Pssm-ID: 425758  Cd Length: 190  Bit Score: 200.41  E-value: 7.27e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140    81 DLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTS 160
Cdd:pfam00573   2 ELSPAVFGAPVREDLIHRAVVAQLANRRQGTHSTKTRSEVSGGGKKPWRQKGTGRARVGSIRSPQWRGGGVAFGPK-PRD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   161 YYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYRRWGD-SVLLVDLTHEEmpqSIVEATSRLKT 239
Cdd:pfam00573  81 YSYKLNKKVRRLALRSALSAKAAEGLLVVVDHFELESPKTKDLVKLLKKLGLGGkKVLIVTDEEDE---NLFLSARNLPG 157

                  ....*...
gi 22547140   240 FNLIPAVG 247
Cdd:pfam00573 158 VDVVPVNG 165
RplD COG0088
Ribosomal protein L4 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L4 ...
75-198 2.16e-54

Ribosomal protein L4 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L4 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439858  Cd Length: 206  Bit Score: 174.45  E-value: 2.16e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140  75 ERVGLADLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHG 154
Cdd:COG0088  11 KKVGEVELSDAVFGIEPNEHLLHQVVVAQLANARQGTHKTKTRSEVSGGGKKPWRQKGTGRARQGSIRSPQWRGGGVVFG 90
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 22547140 155 PRgPTSYYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTG 198
Cdd:COG0088  91 PK-PRDYSQKLNKKMRRLALRSALSAKAREGRLIVVDDFSLDAP 133
rplD_bact TIGR03953
50S ribosomal protein L4, bacterial/organelle; Members of this protein family are ribosomal ...
81-247 8.30e-53

50S ribosomal protein L4, bacterial/organelle; Members of this protein family are ribosomal protein L4. This model recognizes bacterial and most organellar forms, but excludes homologs from the eukaryotic cytoplasm and from archaea. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 274877  Cd Length: 188  Bit Score: 169.60  E-value: 8.30e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140    81 DLHPDVFATAPRLDILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTS 160
Cdd:TIGR03953   2 ELNDAVFGVEPNEHLLHQVVKAQLANRRQGTHKTKTRSEVSGGGKKPWRQKGTGRARQGSIRSPLWRGGGVAFGPK-PRD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   161 YYYMLPMKVRALGLKVALTVKLAQDDLHIMDSLELPTGDP----QYLTELAhyrrWGDSVLLVDlthEEMPQSIVEATSR 236
Cdd:TIGR03953  81 YSYKLNKKVRRLALRSALSEKAREGKLVVVDDFDLEEPKTkdlaKILKNLG----LGKKVLIVT---DEVDENLYLSARN 153
                         170
                  ....*....|.
gi 22547140   237 LKTFNLIPAVG 247
Cdd:TIGR03953 154 LPNVKVLPANG 164
rpl4 CHL00147
ribosomal protein L4; Validated
95-200 5.89e-34

ribosomal protein L4; Validated


Pssm-ID: 214375  Cd Length: 215  Bit Score: 122.04  E-value: 5.89e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140   95 ILHQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRgPTSYYYMLPMKVRALGL 174
Cdd:CHL00147  37 LLHRALVRQNNNQRQGTASTKTRSEVRGGGRKPWKQKGTGRARAGSNRSPLWKGGGVIFGPK-PKTYSNKLNKKERRLAL 115
                         90       100
                 ....*....|....*....|....*.
gi 22547140  175 KVALTVKlaQDDLHIMDSLELPTGDP 200
Cdd:CHL00147 116 RTLLYNK--SNNITVVENFESSITNP 139
rplD PRK14907
50S ribosomal protein L4; Provisional
107-195 2.34e-25

50S ribosomal protein L4; Provisional


Pssm-ID: 184900 [Multi-domain]  Cd Length: 295  Bit Score: 101.57  E-value: 2.34e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547140  107 KRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRGPTSYYYMLPMKVRALGLKVALTVkLAQDD 186
Cdd:PRK14907 132 RRQGTHKVKTRAEVSGTGKKPWRQKGTGRARAGSTRSPIFVGGGRAFGPTPERNYKLKVNKKVRFNAFVSALTL-LANSK 210

                 ....*....
gi 22547140  187 LHIMDSLEL 195
Cdd:PRK14907 211 AVLVDDFKL 219
 
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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