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Conserved domains on  [gi|25306272|ref|NP_733934|]
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large ribosomal subunit protein uL11m isoform b [Homo sapiens]

Protein Classification

ribosomal L11p family protein( domain architecture ID 10085967)

ribosomal L11p family protein similar to mitochondrial 39S ribosomal protein L11

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L11 cd00349
Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S ...
 16-129 1.86e-46

Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal protein L12, which is distinct from the L12 involved in the formation of the L7/L12 stalk. The C-terminal domain (CTD) of L11 is essential for binding 23S rRNA, while the N-terminal domain (NTD) contains the binding site for the antibiotics thiostrepton and micrococcin. L11 and 23S rRNA form an essential part of the GTPase-associated region (GAR). Based on differences in the relative positions of the L11 NTD and CTD during the translational cycle, L11 is proposed to play a significant role in the binding of initiation factors, elongation factors, and release factors to the ribosome. Several factors, including the class I release factors RF1 and RF2, are known to interact directly with L11. In eukaryotes, L11 has been implicated in regulating the levels of ubiquinated p53 and MDM2 in the MDM2-p53 feedback loop, which is responsible for apoptosis in response to DNA damage. In bacteria, the "stringent response" to harsh conditions allows bacteria to survive, and ribosomes that lack L11 are deficient in stringent factor stimulation.


:

Pssm-ID: 100101  Cd Length: 131  Bit Score: 147.98  E-value: 1.86e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272  16 RGVSINQFCKEFNERTKDIKeGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:cd00349  23 LGVNIMKFCKEFNARTKDYK-GLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEKGSKKPNKEKVGNITLDQVYEIA 101

                        90       100       110
                ....*....|....*....|....*....|....
gi 25306272  96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRV 129
Cdd:cd00349 102 KIKLPD----LNAKTLKSAVKEILGTARSMGITV 131
 
Name Accession Description Interval E-value
Ribosomal_L11 cd00349
Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S ...
 16-129 1.86e-46

Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal protein L12, which is distinct from the L12 involved in the formation of the L7/L12 stalk. The C-terminal domain (CTD) of L11 is essential for binding 23S rRNA, while the N-terminal domain (NTD) contains the binding site for the antibiotics thiostrepton and micrococcin. L11 and 23S rRNA form an essential part of the GTPase-associated region (GAR). Based on differences in the relative positions of the L11 NTD and CTD during the translational cycle, L11 is proposed to play a significant role in the binding of initiation factors, elongation factors, and release factors to the ribosome. Several factors, including the class I release factors RF1 and RF2, are known to interact directly with L11. In eukaryotes, L11 has been implicated in regulating the levels of ubiquinated p53 and MDM2 in the MDM2-p53 feedback loop, which is responsible for apoptosis in response to DNA damage. In bacteria, the "stringent response" to harsh conditions allows bacteria to survive, and ribosomes that lack L11 are deficient in stringent factor stimulation.


Pssm-ID: 100101  Cd Length: 131  Bit Score: 147.98  E-value: 1.86e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272  16 RGVSINQFCKEFNERTKDIKeGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:cd00349  23 LGVNIMKFCKEFNARTKDYK-GLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEKGSKKPNKEKVGNITLDQVYEIA 101

                        90       100       110
                ....*....|....*....|....*....|....
gi 25306272  96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRV 129
Cdd:cd00349 102 KIKLPD----LNAKTLKSAVKEILGTARSMGITV 131
RL11 smart00649
Ribosomal protein L11/L12;
16-130 6.25e-46

Ribosomal protein L11/L12;


Pssm-ID: 197819  Cd Length: 132  Bit Score: 146.52  E-value: 6.25e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272     16 RGVSINQFCKEFNERTKDiKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:smart00649  23 LGINIMEFCKEFNARTKD-KKGLPIPVKITVYNDKSFTFILKTPPASALLKKAAGIEKGSKKPGKKKVGNITLDQVYEIA 101

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 25306272     96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVV 130
Cdd:smart00649 102 KIKRPD----LNAKDLEAAVKEILGTARSMGITVE 132
L11_bact TIGR01632
50S ribosomal protein uL11, bacterial form; This model represents bacterial, chloroplast, and ...
 16-131 7.52e-41

50S ribosomal protein uL11, bacterial form; This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 233500  Cd Length: 140  Bit Score: 134.01  E-value: 7.52e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272    16 RGVSINQFCKEFNERTKDIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:TIGR01632  29 RGVNIMEFCKQFNARTADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKKAAGVEKGSKNPKKEKVGKITRKQVREIA 108

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 25306272    96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVVK 131
Cdd:TIGR01632 109 EIKMSD----LNTKDIEAAMKIIAGTAKSMGIEIVG 140
RplK COG0080
Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L11 ...
 16-131 2.80e-36

Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L11 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439850  Cd Length: 141  Bit Score: 122.50  E-value: 2.80e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272  16 RGVSINQFCKEFNERTKDiKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:COG0080  31 HGVNIMEFCKEFNAKTKD-EKGMIVPVVITVYSDRSFTFIVKTPPASVLLKKAAGIEKGSGEPNKEKVGKITREQVREIA 109

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 25306272  96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVVK 131
Cdd:COG0080 110 EIKMPD----LNAKDLEAAVKIIAGTARSMGITVEG 141
rplK PRK00140
50S ribosomal protein L11; Validated
 16-130 2.30e-32

50S ribosomal protein L11; Validated


Pssm-ID: 234661  Cd Length: 141  Bit Score: 112.54  E-value: 2.30e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272   16 RGVSINQFCKEFNERTKDIKeGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:PRK00140  31 RGVNIMEFCKAFNARTQDQK-GLPIPVVITVYEDRSFTFITKTPPASVLLKKAAGIEKGSGEPNKEKVGKITRAQVREIA 109

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 25306272   96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVV 130
Cdd:PRK00140 110 ETKMPD----LNAADIEAAMRMIAGTARSMGIVVE 140
Ribosomal_L11 pfam00298
Ribosomal protein L11, RNA binding domain;
57-129 7.97e-25

Ribosomal protein L11, RNA binding domain;


Pssm-ID: 459750  Cd Length: 69  Bit Score: 90.86  E-value: 7.97e-25
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25306272    57 GQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFAlqdvPLSSVVRSIIGSARSLGIRV 129
Cdd:pfam00298   1 KTPPASYLLKKAAGIEKGSGKPGKEKVGKITLKQVYEIAKIKMPDLNAA----DLEAAVKSIAGTARSMGITV 69
 
Name Accession Description Interval E-value
Ribosomal_L11 cd00349
Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S ...
 16-129 1.86e-46

Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal protein L12, which is distinct from the L12 involved in the formation of the L7/L12 stalk. The C-terminal domain (CTD) of L11 is essential for binding 23S rRNA, while the N-terminal domain (NTD) contains the binding site for the antibiotics thiostrepton and micrococcin. L11 and 23S rRNA form an essential part of the GTPase-associated region (GAR). Based on differences in the relative positions of the L11 NTD and CTD during the translational cycle, L11 is proposed to play a significant role in the binding of initiation factors, elongation factors, and release factors to the ribosome. Several factors, including the class I release factors RF1 and RF2, are known to interact directly with L11. In eukaryotes, L11 has been implicated in regulating the levels of ubiquinated p53 and MDM2 in the MDM2-p53 feedback loop, which is responsible for apoptosis in response to DNA damage. In bacteria, the "stringent response" to harsh conditions allows bacteria to survive, and ribosomes that lack L11 are deficient in stringent factor stimulation.


Pssm-ID: 100101  Cd Length: 131  Bit Score: 147.98  E-value: 1.86e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272  16 RGVSINQFCKEFNERTKDIKeGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:cd00349  23 LGVNIMKFCKEFNARTKDYK-GLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEKGSKKPNKEKVGNITLDQVYEIA 101

                        90       100       110
                ....*....|....*....|....*....|....
gi 25306272  96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRV 129
Cdd:cd00349 102 KIKLPD----LNAKTLKSAVKEILGTARSMGITV 131
RL11 smart00649
Ribosomal protein L11/L12;
16-130 6.25e-46

Ribosomal protein L11/L12;


Pssm-ID: 197819  Cd Length: 132  Bit Score: 146.52  E-value: 6.25e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272     16 RGVSINQFCKEFNERTKDiKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:smart00649  23 LGINIMEFCKEFNARTKD-KKGLPIPVKITVYNDKSFTFILKTPPASALLKKAAGIEKGSKKPGKKKVGNITLDQVYEIA 101

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 25306272     96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVV 130
Cdd:smart00649 102 KIKRPD----LNAKDLEAAVKEILGTARSMGITVE 132
L11_bact TIGR01632
50S ribosomal protein uL11, bacterial form; This model represents bacterial, chloroplast, and ...
 16-131 7.52e-41

50S ribosomal protein uL11, bacterial form; This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 233500  Cd Length: 140  Bit Score: 134.01  E-value: 7.52e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272    16 RGVSINQFCKEFNERTKDIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:TIGR01632  29 RGVNIMEFCKQFNARTADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKKAAGVEKGSKNPKKEKVGKITRKQVREIA 108

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 25306272    96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVVK 131
Cdd:TIGR01632 109 EIKMSD----LNTKDIEAAMKIIAGTAKSMGIEIVG 140
RplK COG0080
Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L11 ...
 16-131 2.80e-36

Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L11 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439850  Cd Length: 141  Bit Score: 122.50  E-value: 2.80e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272  16 RGVSINQFCKEFNERTKDiKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:COG0080  31 HGVNIMEFCKEFNAKTKD-EKGMIVPVVITVYSDRSFTFIVKTPPASVLLKKAAGIEKGSGEPNKEKVGKITREQVREIA 109

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 25306272  96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVVK 131
Cdd:COG0080 110 EIKMPD----LNAKDLEAAVKIIAGTARSMGITVEG 141
rplK PRK00140
50S ribosomal protein L11; Validated
 16-130 2.30e-32

50S ribosomal protein L11; Validated


Pssm-ID: 234661  Cd Length: 141  Bit Score: 112.54  E-value: 2.30e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272   16 RGVSINQFCKEFNERTKDIKeGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:PRK00140  31 RGVNIMEFCKAFNARTQDQK-GLPIPVVITVYEDRSFTFITKTPPASVLLKKAAGIEKGSGEPNKEKVGKITRAQVREIA 109

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 25306272   96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVV 130
Cdd:PRK00140 110 ETKMPD----LNAADIEAAMRMIAGTARSMGIVVE 140
Ribosomal_L11 pfam00298
Ribosomal protein L11, RNA binding domain;
57-129 7.97e-25

Ribosomal protein L11, RNA binding domain;


Pssm-ID: 459750  Cd Length: 69  Bit Score: 90.86  E-value: 7.97e-25
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25306272    57 GQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFAlqdvPLSSVVRSIIGSARSLGIRV 129
Cdd:pfam00298   1 KTPPASYLLKKAAGIEKGSGKPGKEKVGKITLKQVYEIAKIKMPDLNAA----DLEAAVKSIAGTARSMGITV 69
rpl11 CHL00127
ribosomal protein L11; Validated
 15-130 1.81e-21

ribosomal protein L11; Validated


Pssm-ID: 177049  Cd Length: 140  Bit Score: 84.35  E-value: 1.81e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272   15 ERGVSINQFCKEFNERTKDiKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEI 94
Cdd:CHL00127  30 QHGVNINLFCKEYNARTKD-KIGLIIPVEISVYEDKSYTFILKTPPASVLLAKAAGIKKGSGEPNKKKVGSITIKQLEEI 108

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 25306272   95 ARIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRVV 130
Cdd:CHL00127 109 AQIKLPD----LNTISLSKAIKIIEGTAKNMGISIK 140
rpl11p PRK01143
50S ribosomal protein L11P; Validated
 17-129 6.81e-19

50S ribosomal protein L11P; Validated


Pssm-ID: 234908  Cd Length: 163  Bit Score: 78.40  E-value: 6.81e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272   17 GVSINQFCKEFNERTKDIKeGIPLPTKILVKPD-RTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIA 95
Cdd:PRK01143  28 GLNVKQVVQEINEKTKDFK-GMQVPVKVIVDTDtKKFEIEVGIPPTTALIKKELGIEKGSGEPGHEVVGNLSFEQVVKIA 106

                         90       100       110
                 ....*....|....*....|....*....|....
gi 25306272   96 RIKAQDeafaLQDVPLSSVVRSIIGSARSLGIRV 129
Cdd:PRK01143 107 IMKKDD----LLSYDLKAAVKEVLGTCVSMGVTV 136
PRK14539 PRK14539
50S ribosomal protein L11/unknown domain fusion protein; Provisional
 17-165 3.02e-14

50S ribosomal protein L11/unknown domain fusion protein; Provisional


Pssm-ID: 184732  Cd Length: 196  Bit Score: 66.89  E-value: 3.02e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272   17 GVSINQFCKEFNERTKDiKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIAR 96
Cdd:PRK14539  29 GINMPEFTKQFNDATRD-RGGEPVPVQITVYKDKSFDFKLFTAPASFKIKQAAKIKSGSANSKTTIVGTITLSQLEEIAK 107

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 25306272   97 IKAQDeafaLQDVPLSSVVRSIIGSARSLGIRV--VKDLSSEELAAFQKERAIFLAAQKEADLAAQEEAAK 165
Cdd:PRK14539 108 YKLPD----LNTDDVEEAMHTIAGTAKNMGVLVegYDDVVKAKEEAKAAAKAAALAKAKEASLKSAEAELK 174
Ribosomal_L11_N pfam03946
Ribosomal protein L11, N-terminal domain; The N-terminal domain of Ribosomal protein L11 ...
 16-52 1.01e-12

Ribosomal protein L11, N-terminal domain; The N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.


Pssm-ID: 461103  Cd Length: 58  Bit Score: 59.34  E-value: 1.01e-12
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 25306272    16 RGVSINQFCKEFNERTKDIKeGIPLPTKILVKPDRTF 52
Cdd:pfam03946  23 LGVNIMKFCKDFNAATKDYK-GLPVPVKITVYQDRSF 58
PTZ00321 PTZ00321
ribosomal protein L11; Provisional
 3-164 3.91e-10

ribosomal protein L11; Provisional


Pssm-ID: 240358 [Multi-domain]  Cd Length: 342  Bit Score: 56.91  E-value: 3.91e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272    3 KLGRAARG----LRKPERGVSINQFCKEFNERTK-DIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAagIEKGARQ 77
Cdd:PTZ00321  58 KAGKAATGppvgQEFSKLGLKAMDFAKSFNDRTKpHFKDDVELIVRIQVYFDKSYLFTIEPPPTAWFILRA--LRKKRRE 135

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25306272   78 TGKEV-----AGLVTLKHVYEIARIKAQdeAFALQDVPLSSV-VRSIIGSARSLGIRV----------VKDLSSEE-LAA 140
Cdd:PTZ00321 136 TGPVPlrghyCALMTLEMAYEIAKMKPR--SWGRPEYPLIETrVRRVVGQARRMGVCFigvdtphsspVKGMTEKQyAEE 213

                        170       180
                 ....*....|....*....|....
gi 25306272  141 FQKERAIFLaAQKEADLAAQEEAA 164
Cdd:PTZ00321 214 SERYRAMHM-EQYEALRQRELEEA 236
 
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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