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Conserved domains on  [gi|1276438885|gb|PIO01518|]
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50S ribosomal protein L7ae [Candidatus Pacearchaeota archaeon CG09_land_8_20_14_0_10_30_9]

Protein Classification

ribosomal L7Ae/L30e/S12e/Gadd45 family protein( domain architecture ID 624)

ribosomal L7Ae/L30e/S12e/Gadd45 family protein may be characterized as a K-turn binding protein; K-turns are RNA motifs comprised of a bulge flanked by canonical and noncanonical helices.

Gene Ontology:  GO:0005840
SCOP:  4001513

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L7Ae super family cl00600
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 4-98 3.72e-39

Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118.


The actual alignment was detected with superfamily member TIGR03677:

Pssm-ID: 469835 [Multi-domain]  Cd Length: 117  Bit Score: 126.41  E-value: 3.72e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885   4 YQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPVSASSI 83
Cdd:TIGR03677  15 LEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKSKEDLGAAAGLEVGAASA 94

                          90
                  ....*....|....*
gi 1276438885  84 AIIDAGDASKDIASI 98
Cdd:TIGR03677  95 AIVDAGKAEELLKEI 109
 
Name Accession Description Interval E-value
eL8_ribo TIGR03677
ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version ...
 4-98 3.72e-39

ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version of the large ribosomal complex protein eL8, previously designated L8 in yeast and L7Ae in the archaea. The family is a narrower version of the pfam01248 model which also recognizes the L30 protein.


Pssm-ID: 188367 [Multi-domain]  Cd Length: 117  Bit Score: 126.41  E-value: 3.72e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885   4 YQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPVSASSI 83
Cdd:TIGR03677  15 LEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKSKEDLGAAAGLEVGAASA 94

                          90
                  ....*....|....*
gi 1276438885  84 AIIDAGDASKDIASI 98
Cdd:TIGR03677  95 AIVDAGKAEELLKEI 109
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 1-91 2.96e-26

Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118.


Pssm-ID: 426153 [Multi-domain]  Cd Length: 95  Bit Score: 92.66  E-value: 2.96e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  1 MDGYQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPVSA 80
Cdd:pfam01248  1 DAIYEVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRPV 80

                         90
                 ....*....|.
gi 1276438885 81 SSIAIIDAGDA 91
Cdd:pfam01248 81 SALAIKDEGDS 91
SNU13 cd21104
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 6-99 7.25e-26

U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, also known as NHP2-like protein 1 or U4/U6.U5 tri-snRNP 15.5 kDa protein, is a component of the spliceosome B complex, involved in pre-mRNA splicing. It binds to the 5'-stem-loop of U4 snRNA.


Pssm-ID: 411046  Cd Length: 122  Bit Score: 92.78  E-value: 7.25e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885   6 IVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGL--PVSASSI 83
Cdd:cd21104    19 LVQQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSKQALGRACGVsrPVIACSV 98

                          90
                  ....*....|....*.
gi 1276438885  84 AIIDAGDASKDIASIK 99
Cdd:cd21104    99 TTNEGSQLKSQIQSLK 114
Rpl7Ae COG1358
Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure ...
 4-99 1.75e-25

Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure and biogenesis]; Ribosomal protein L7Ae or related RNA K-turn-binding protein is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 440969 [Multi-domain]  Cd Length: 98  Bit Score: 90.99  E-value: 1.75e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  4 YQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPkEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLpVSASSI 83
Cdd:COG1358    4 LNLLGLARRAGKLVSGEEQVLKAIRKGKAKLVIIAEDASE-NTKKKLLDLCEEYGVPVVEVGTKEELGKAIGK-VGRAVV 81

                         90
                 ....*....|....*.
gi 1276438885 84 AIIDAGDASKDIASIK 99
Cdd:COG1358   82 AITDEGFAKKLLELLE 97
PTZ00222 PTZ00222
60S ribosomal protein L7a; Provisional
 19-99 4.14e-14

60S ribosomal protein L7a; Provisional


Pssm-ID: 140249  Cd Length: 263  Bit Score: 65.49  E-value: 4.14e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  19 GTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPvSASSIAIIDAGdaSKDIASI 98
Cdd:PTZ00222  136 GLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRK-TATCVAITDVN--AEDEAAL 212


                  .
gi 1276438885  99 K 99
Cdd:PTZ00222  213 K 213
 
Name Accession Description Interval E-value
eL8_ribo TIGR03677
ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version ...
 4-98 3.72e-39

ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version of the large ribosomal complex protein eL8, previously designated L8 in yeast and L7Ae in the archaea. The family is a narrower version of the pfam01248 model which also recognizes the L30 protein.


Pssm-ID: 188367 [Multi-domain]  Cd Length: 117  Bit Score: 126.41  E-value: 3.72e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885   4 YQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPVSASSI 83
Cdd:TIGR03677  15 LEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKSKEDLGAAAGLEVGAASA 94

                          90
                  ....*....|....*
gi 1276438885  84 AIIDAGDASKDIASI 98
Cdd:TIGR03677  95 AIVDAGKAEELLKEI 109
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 1-91 2.96e-26

Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118.


Pssm-ID: 426153 [Multi-domain]  Cd Length: 95  Bit Score: 92.66  E-value: 2.96e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  1 MDGYQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPVSA 80
Cdd:pfam01248  1 DAIYEVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRPV 80

                         90
                 ....*....|.
gi 1276438885 81 SSIAIIDAGDA 91
Cdd:pfam01248 81 SALAIKDEGDS 91
SNU13 cd21104
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 6-99 7.25e-26

U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, also known as NHP2-like protein 1 or U4/U6.U5 tri-snRNP 15.5 kDa protein, is a component of the spliceosome B complex, involved in pre-mRNA splicing. It binds to the 5'-stem-loop of U4 snRNA.


Pssm-ID: 411046  Cd Length: 122  Bit Score: 92.78  E-value: 7.25e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885   6 IVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGL--PVSASSI 83
Cdd:cd21104    19 LVQQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSKQALGRACGVsrPVIACSV 98

                          90
                  ....*....|....*.
gi 1276438885  84 AIIDAGDASKDIASIK 99
Cdd:cd21104    99 TTNEGSQLKSQIQSLK 114
Rpl7Ae COG1358
Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure ...
 4-99 1.75e-25

Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure and biogenesis]; Ribosomal protein L7Ae or related RNA K-turn-binding protein is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 440969 [Multi-domain]  Cd Length: 98  Bit Score: 90.99  E-value: 1.75e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  4 YQIVEKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPkEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLpVSASSI 83
Cdd:COG1358    4 LNLLGLARRAGKLVSGEEQVLKAIRKGKAKLVIIAEDASE-NTKKKLLDLCEEYGVPVVEVGTKEELGKAIGK-VGRAVV 81

                         90
                 ....*....|....*.
gi 1276438885 84 AIIDAGDASKDIASIK 99
Cdd:COG1358   82 AITDEGFAKKLLELLE 97
PTZ00222 PTZ00222
60S ribosomal protein L7a; Provisional
 19-99 4.14e-14

60S ribosomal protein L7a; Provisional


Pssm-ID: 140249  Cd Length: 263  Bit Score: 65.49  E-value: 4.14e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  19 GTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPvSASSIAIIDAGdaSKDIASI 98
Cdd:PTZ00222  136 GLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRK-TATCVAITDVN--AEDEAAL 212


                  .
gi 1276438885  99 K 99
Cdd:PTZ00222  213 K 213
RPL30E COG1911
Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]; Ribosomal protein ...
 9-91 9.14e-12

Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]; Ribosomal protein L30E is part of the Pathway/BioSystem: Archaeal ribosomal proteins


Pssm-ID: 441515 [Multi-domain]  Cd Length: 97  Bit Score: 55.99  E-value: 9.14e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  9 KAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVePKEIVAHLPLLCKAKGIPYLEVD-SKQKLGIAVGLPVSASSIAIID 87
Cdd:COG1911   10 DAVKTGKVVLGSKQTIKAIKLGKAKLVILAANC-PPEIREDIEYYAKLSNVPVYVYPgTSVELGALCGKPFRVSALAIID 88


                 ....
gi 1276438885 88 AGDA 91
Cdd:COG1911   89 PGES 92
PTZ00365 PTZ00365
60S ribosomal protein L7Ae-like; Provisional
 16-85 2.26e-11

60S ribosomal protein L7Ae-like; Provisional


Pssm-ID: 240382  Cd Length: 266  Bit Score: 57.94  E-value: 2.26e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  16 IEKGTNEVTKSIERGVAKLVVYATDVEPKEIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPvSASSIAI 85
Cdd:PTZ00365  133 LKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK-TAAVVAI 201
PRK13602 PRK13602
50S ribosomal protein L7ae-like protein;
8-86 3.11e-10

50S ribosomal protein L7ae-like protein;


Pssm-ID: 184174 [Multi-domain]  Cd Length: 82  Bit Score: 51.70  E-value: 3.11e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1276438885  8 EKAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEPKeIVAHLPLLCKAKGIPYLEVDSKQKLGIAVGLPVSASSIAII 86
Cdd:PRK13602   4 EKVSQAKSIVIGTKQTVKALKRGSVKEVVVAEDADPR-LTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII 81
PRK01018 PRK01018
50S ribosomal protein L30e; Reviewed
 9-90 6.47e-09

50S ribosomal protein L30e; Reviewed


Pssm-ID: 179205 [Multi-domain]  Cd Length: 99  Bit Score: 48.81  E-value: 6.47e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  9 KAKRTGKIEKGTNEVTKSIERGVAKLVVYATDVePKEIVAHLPLLCKAKGIPYLEVD-SKQKLGIAVGLPVSASSIAIID 87
Cdd:PRK01018  10 VAVDTGKVILGSKRTIKAIKLGKAKLVIVASNC-PKDIKEDIEYYAKLSGIPVYEYEgSSVELGTLCGKPFTVSALAIVD 88


                 ...
gi 1276438885 88 AGD 90
Cdd:PRK01018  89 PGE 91
PRK07714 PRK07714
YlxQ family RNA-binding protein;
10-93 5.65e-05

YlxQ family RNA-binding protein;


Pssm-ID: 236077  Cd Length: 100  Bit Score: 38.61  E-value: 5.65e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  10 AKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEP---KEIVAHlpllCKAKGIPYLEVDSKQKLGIAVGLPvSASSIAII 86
Cdd:PRK07714   13 ANRARKVISGEELVLKEVRSGKAKLVLLSEDASVnttKKITDK----CTYYNVPMRKVENRQQLGHAIGKD-ERVVVAVL 87


                  ....*..
gi 1276438885  87 DAGDASK 93
Cdd:PRK07714   88 DEGFAKK 94
PTZ00106 PTZ00106
60S ribosomal protein L30; Provisional
 12-98 6.71e-05

60S ribosomal protein L30; Provisional


Pssm-ID: 185450  Cd Length: 108  Bit Score: 38.52  E-value: 6.71e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885  12 RTGKIEKGTNEVTKSIERGVAKLVVYATDVEP--KEIVAHLPLLCKAkGIpYLEVDSKQKLGIAVGLPVSASSIAIIDAG 89
Cdd:PTZ00106   22 KSGKYTLGTKSTLKALRNGKAKLVIISNNCPPirRSEIEYYAMLSKT-GV-HHYAGNNNDLGTACGRHFRVSVMSITDAG 99


                  ....*....
gi 1276438885  90 DAskDIASI 98
Cdd:PTZ00106  100 DS--DILRA 106
PRK07283 PRK07283
YlxQ-related RNA-binding protein;
10-93 1.65e-03

YlxQ-related RNA-binding protein;


Pssm-ID: 180920  Cd Length: 98  Bit Score: 34.80  E-value: 1.65e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276438885 10 AKRTGKIEKGTNEVTKSIERGVAKLVVYATDVEP---KEIVAHlpllCKAKGIPYLEVDSKQKLGIAVGLPvsASSIAII 86
Cdd:PRK07283  13 AQRAGRIISGEELVVKAIQSGQAKLVFLANDAGPnltKKVTDK----SNYYQVEVSTVFSTLELSAAVGKP--RKVLAVT 86


                 ....*..
gi 1276438885 87 DAGDASK 93
Cdd:PRK07283  87 DAGFSKK 93
 
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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