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Conserved domains on  [gi|500143145|ref|WP_011819148|]
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50S ribosomal protein L13 [Prochlorococcus marinus]

Protein Classification

large ribosomal subunit protein uL13( domain architecture ID 15176728)

large ribosomal subunit protein uL13, also called 50S ribosomal protein L13, is important during the early stages of 50S assembly

PubMed:  24524803|11909526
SCOP:  4003623

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
RplM COG0102
Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 ...
10-142 4.71e-95

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: 270.35  E-value: 4.71e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  10 ETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEK 89
Cdd:COG0102    5 AEVERKWYVIDAEGKVLGRLASEIAKILRGKHKPTYTPHVDTGDFVIVINAEKVKLTGNKLEQKVYYRHSGYPGGLKETT 84
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 500143145  90 FESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:COG0102   85 ARELLAKKPERVIEKAVKGMLPKNKLGRKMLKKLKVYAGAEHPHAAQKPEVLE 137
 
Name Accession Description Interval E-value
RplM COG0102
Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 ...
10-142 4.71e-95

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: 270.35  E-value: 4.71e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  10 ETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEK 89
Cdd:COG0102    5 AEVERKWYVIDAEGKVLGRLASEIAKILRGKHKPTYTPHVDTGDFVIVINAEKVKLTGNKLEQKVYYRHSGYPGGLKETT 84
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 500143145  90 FESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:COG0102   85 ARELLAKKPERVIEKAVKGMLPKNKLGRKMLKKLKVYAGAEHPHAAQKPEVLE 137
rpl13 CHL00159
ribosomal protein L13; Validated
1-142 6.56e-84

ribosomal protein L13; Validated


Pssm-ID: 177072  Cd Length: 143  Bit Score: 242.20  E-value: 6.56e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145   1 MNKTITPSLETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSG 80
Cdd:CHL00159   1 MNKTFIPSKDYKNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVRHSG 80
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 500143145  81 RPGGMKIEKFESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:CHL00159  81 RPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGESHPHVAQKPIKIN 142
rplM_bact TIGR01066
ribosomal protein L13, bacterial type; This model distinguishes ribosomal protein L13 of ...
4-142 2.00e-78

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: 228.35  E-value: 2.00e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145    4 TITPSLETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPG 83
Cdd:TIGR01066   1 TLAKSSDDKERKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPG 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 500143145   84 GMKIEKFESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:TIGR01066  81 GLKSRTFEEMIARKPEKVLELAVKGMLPKNRLGRQLFKKLKVYAGSEHPHEAQKPIVLD 139
Ribosomal_L13 cd00392
Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five ...
16-129 1.01e-64

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: 192.72  E-value: 1.01e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  16 WFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEKFESLQE 95
Cdd:cd00392    1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80
                         90       100       110
                 ....*....|....*....|....*....|....
gi 500143145  96 RIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGA 129
Cdd:cd00392   81 RAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114
Ribosomal_L13 pfam00572
Ribosomal protein L13;
14-132 7.45e-64

Ribosomal protein L13;


Pssm-ID: 459856  Cd Length: 119  Bit Score: 190.47  E-value: 7.45e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145   14 RNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEKFESL 93
Cdd:pfam00572   1 RKWHVVDAKGQILGRLASKIAKLLRGKHKPIYHPHVDCGDYVVVVNAEKIALTGKKWRQKVYYRHTGYPGGLKEITAKKL 80
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 500143145   94 QERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHP 132
Cdd:pfam00572  81 HERKPERVIRRAVRGMLPKNKLRRERLKRLKVYAGSEHP 119
 
Name Accession Description Interval E-value
RplM COG0102
Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L13 ...
10-142 4.71e-95

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: 270.35  E-value: 4.71e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  10 ETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEK 89
Cdd:COG0102    5 AEVERKWYVIDAEGKVLGRLASEIAKILRGKHKPTYTPHVDTGDFVIVINAEKVKLTGNKLEQKVYYRHSGYPGGLKETT 84
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 500143145  90 FESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:COG0102   85 ARELLAKKPERVIEKAVKGMLPKNKLGRKMLKKLKVYAGAEHPHAAQKPEVLE 137
rpl13 CHL00159
ribosomal protein L13; Validated
1-142 6.56e-84

ribosomal protein L13; Validated


Pssm-ID: 177072  Cd Length: 143  Bit Score: 242.20  E-value: 6.56e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145   1 MNKTITPSLETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSG 80
Cdd:CHL00159   1 MNKTFIPSKDYKNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVRHSG 80
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 500143145  81 RPGGMKIEKFESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:CHL00159  81 RPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGESHPHVAQKPIKIN 142
rplM_bact TIGR01066
ribosomal protein L13, bacterial type; This model distinguishes ribosomal protein L13 of ...
4-142 2.00e-78

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: 228.35  E-value: 2.00e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145    4 TITPSLETIERNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPG 83
Cdd:TIGR01066   1 TLAKSSDDKERKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPG 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 500143145   84 GMKIEKFESLQERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHPHAAQNPVLLN 142
Cdd:TIGR01066  81 GLKSRTFEEMIARKPEKVLELAVKGMLPKNRLGRQLFKKLKVYAGSEHPHEAQKPIVLD 139
Ribosomal_L13 cd00392
Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five ...
16-129 1.01e-64

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: 192.72  E-value: 1.01e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  16 WFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEKFESLQE 95
Cdd:cd00392    1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80
                         90       100       110
                 ....*....|....*....|....*....|....
gi 500143145  96 RIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGA 129
Cdd:cd00392   81 RAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114
Ribosomal_L13 pfam00572
Ribosomal protein L13;
14-132 7.45e-64

Ribosomal protein L13;


Pssm-ID: 459856  Cd Length: 119  Bit Score: 190.47  E-value: 7.45e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145   14 RNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEKFESL 93
Cdd:pfam00572   1 RKWHVVDAKGQILGRLASKIAKLLRGKHKPIYHPHVDCGDYVVVVNAEKIALTGKKWRQKVYYRHTGYPGGLKEITAKKL 80
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 500143145   94 QERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHP 132
Cdd:pfam00572  81 HERKPERVIRRAVRGMLPKNKLRRERLKRLKVYAGSEHP 119
PLN00205 PLN00205
ribisomal protein L13 family protein; Provisional
14-132 9.19e-36

ribisomal protein L13 family protein; Provisional


Pssm-ID: 177795  Cd Length: 191  Bit Score: 121.88  E-value: 9.19e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  14 RNWFLVDAKDKTLGRLATEIATVLRGKNKPTYTPHLDTGDFVIVVNAEKVEVTGKKASQKLYRRHSGRPGGMKIEKFESL 93
Cdd:PLN00205  15 LRWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKFYRWHTGYIGHLKERSLKDQ 94
                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 500143145  94 QERIPERIIEQAVKGMLPHNSLGRQQFKKLKVYKGADHP 132
Cdd:PLN00205  95 MAKDPTEVIRKAVLRMLPRNRLRDDRDRKLRIFAGSEHP 133
rpl13p PRK06394
50S ribosomal protein L13P; Reviewed
19-128 4.07e-15

50S ribosomal protein L13P; Reviewed


Pssm-ID: 235793  Cd Length: 146  Bit Score: 67.59  E-value: 4.07e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  19 VDAKDKTLGRLATEIATVLrgknkptytphLDtGDFVIVVNAEKVEVTGKKA------SQKLYRRHSGRPGGMKIeKFes 92
Cdd:PRK06394   7 IDAEGQILGRLASYVAKRL-----------LE-GEEVVIVNAEKAVITGNRErviekyKQRRERGSHYNPYRNGP-KY-- 71
                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 500143145  93 lqERIPERIIEQAVKGMLPH-NSLGRQQFKKLKVYKG 128
Cdd:PRK06394  72 --PRRPDRIFKRTIRGMLPYkKPRGREALKRLKVYVG 106
PTZ00068 PTZ00068
60S ribosomal protein L13a; Provisional
19-134 4.28e-07

60S ribosomal protein L13a; Provisional


Pssm-ID: 240253  Cd Length: 202  Bit Score: 46.97  E-value: 4.28e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500143145  19 VDAKDKTLGRLATEIA-TVLRGKNkptytphldtgdfVIVVNAEKVEVTGKkasqkLYRRHsgrpggMKIEKFESLQE-- 95
Cdd:PTZ00068   8 IDCKGHLLGRLASVVAkELLLGQK-------------IVVVRCEDLNISGS-----LFRNK------VKYEEFLRKRMnt 63
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 500143145  96 ---------RIPERIIEQAVKGMLPHNSL-GRQQFKKLKVYKGADHPHA 134
Cdd:PTZ00068  64 nprrgpfhhRAPSDIFWRTVRGMLPHKTKrGAAALKRLKVFEGVPAPYD 112
 
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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