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Conserved domains on  [gi|17506617|ref|NP_492067|]
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Ribosomal protein L13 [Caenorhabditis elegans]

Protein Classification

uL13 family ribosomal protein( domain architecture ID 10086913)

uL13 family ribosomal protein such as mitochondrial 39S ribosomal protein L13 and bacterial 50S ribosomal protein L13 that is important during the early stages of 50S assembly

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L13 cd00392
Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five ...
 23-136 2.55e-40

Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.


:

Pssm-ID: 238230  Cd Length: 114  Bit Score: 133.40  E-value: 2.55e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617  23 WHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQIHD 102
Cdd:cd00392   1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 17506617 103 YDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDE 136
Cdd:cd00392  81 RAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114
 
Name Accession Description Interval E-value
Ribosomal_L13 cd00392
Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five ...
 23-136 2.55e-40

Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.


Pssm-ID: 238230  Cd Length: 114  Bit Score: 133.40  E-value: 2.55e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617  23 WHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQIHD 102
Cdd:cd00392   1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 17506617 103 YDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDE 136
Cdd:cd00392  81 RAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114
Ribosomal_L13 pfam00572
Ribosomal protein L13;
21-138 1.26e-34

Ribosomal protein L13;


Pssm-ID: 459856  Cd Length: 119  Bit Score: 118.83  E-value: 1.26e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617    21 RQWHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQI 100
Cdd:pfam00572   1 RKWHVVDAKGQILGRLASKIAKLLRGKHKPIYHPHVDCGDYVVVVNAEKIALTGKKWRQKVYYRHTGYPGGLKEITAKKL 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 17506617   101 HDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEEM 138
Cdd:pfam00572  81 HERKPERVIRRAVRGMLPKNKLRRERLKRLKVYAGSEH 118
rplM_bact TIGR01066
ribosomal protein L13, bacterial type; This model distinguishes ribosomal protein L13 of ...
 19-137 1.38e-19

ribosomal protein L13, bacterial type; This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 162186  Cd Length: 140  Bit Score: 80.81  E-value: 1.38e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617    19 FSRQWHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAW 98
Cdd:TIGR01066   9 KERKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPGGLKSRTFE 88

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 17506617    99 QIHDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEE 137
Cdd:TIGR01066  89 EMIARKPEKVLELAVKGMLPKNRLGRQLFKKLKVYAGSE 127
RplM COG0102
Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 ...
 21-137 7.94e-16

Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439872  Cd Length: 140  Bit Score: 70.81  E-value: 7.94e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617  21 RQWHVIDAnqQDAEL--LGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAW 98
Cdd:COG0102   9 RKWYVIDA--EGKVLgrLASEIAKILRGKHKPTYTPHVDTGDFVIVINAEKVKLTGNKLEQKVYYRHSGYPGGLKETTAR 86

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 17506617  99 QIHDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEE 137
Cdd:COG0102  87 ELLAKKPERVIEKAVKGMLPKNKLGRKMLKKLKVYAGAE 125
rpl13 CHL00159
ribosomal protein L13; Validated
 20-137 1.05e-13

ribosomal protein L13; Validated


Pssm-ID: 177072  Cd Length: 143  Bit Score: 65.39  E-value: 1.05e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617   20 SRQWHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQ 99
Cdd:CHL00159  13 NRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVRHSGRPGGLKIETFEE 92

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 17506617  100 IHDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEE 137
Cdd:CHL00159  93 LQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGES 130
 
Name Accession Description Interval E-value
Ribosomal_L13 cd00392
Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five ...
 23-136 2.55e-40

Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.


Pssm-ID: 238230  Cd Length: 114  Bit Score: 133.40  E-value: 2.55e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617  23 WHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQIHD 102
Cdd:cd00392   1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 17506617 103 YDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDE 136
Cdd:cd00392  81 RAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114
Ribosomal_L13 pfam00572
Ribosomal protein L13;
21-138 1.26e-34

Ribosomal protein L13;


Pssm-ID: 459856  Cd Length: 119  Bit Score: 118.83  E-value: 1.26e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617    21 RQWHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQI 100
Cdd:pfam00572   1 RKWHVVDAKGQILGRLASKIAKLLRGKHKPIYHPHVDCGDYVVVVNAEKIALTGKKWRQKVYYRHTGYPGGLKEITAKKL 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 17506617   101 HDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEEM 138
Cdd:pfam00572  81 HERKPERVIRRAVRGMLPKNKLRRERLKRLKVYAGSEH 118
rplM_bact TIGR01066
ribosomal protein L13, bacterial type; This model distinguishes ribosomal protein L13 of ...
 19-137 1.38e-19

ribosomal protein L13, bacterial type; This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 162186  Cd Length: 140  Bit Score: 80.81  E-value: 1.38e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617    19 FSRQWHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAW 98
Cdd:TIGR01066   9 KERKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPGGLKSRTFE 88

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 17506617    99 QIHDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEE 137
Cdd:TIGR01066  89 EMIARKPEKVLELAVKGMLPKNRLGRQLFKKLKVYAGSE 127
RplM COG0102
Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 ...
 21-137 7.94e-16

Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439872  Cd Length: 140  Bit Score: 70.81  E-value: 7.94e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617  21 RQWHVIDAnqQDAEL--LGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAW 98
Cdd:COG0102   9 RKWYVIDA--EGKVLgrLASEIAKILRGKHKPTYTPHVDTGDFVIVINAEKVKLTGNKLEQKVYYRHSGYPGGLKETTAR 86

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 17506617  99 QIHDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEE 137
Cdd:COG0102  87 ELLAKKPERVIEKAVKGMLPKNKLGRKMLKKLKVYAGAE 125
rpl13 CHL00159
ribosomal protein L13; Validated
 20-137 1.05e-13

ribosomal protein L13; Validated


Pssm-ID: 177072  Cd Length: 143  Bit Score: 65.39  E-value: 1.05e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17506617   20 SRQWHVIDANQQDAELLGDKVARYLAGKHKPIFHPETDCGDHVVVTNCKDIAMHAFDWKHTIYKFNMEYPKSKADIPAWQ 99
Cdd:CHL00159  13 NRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVRHSGRPGGLKIETFEE 92

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 17506617  100 IHDYDQCRIAFLSVYRSLGNNLLRRRHIQRLHLFPDEE 137
Cdd:CHL00159  93 LQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGES 130
 
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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