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Conserved domains on  [gi|1397983756|pdb|6G4W|N]
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Chain N, 40S ribosomal protein S13

Protein Classification

uS15 family ribosomal protein( domain architecture ID 11487971)

uS15 family ribosomal protein binds the central domain of rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association

Gene Ontology:  GO:0006412|GO:0022618|GO:0003735|GO:0070181

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PTZ00072 PTZ00072
40S ribosomal protein S13; Provisional
 4-151 1.48e-100

40S ribosomal protein S13; Provisional


:

Pssm-ID: 185427 [Multi-domain]  Cd Length: 148  Bit Score: 284.63  E-value: 1.48e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6G4W_N         4 MHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGVAQVRFVTGNKILRILKSKGLAPD 83
Cdd:PTZ00072   1 MYGKGKGISSSALPYRRKPPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDSMGIPQVKNVTGSKILRILKKNGLAPE 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
6G4W_N        84 LPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA 151
Cdd:PTZ00072  81 IPEDLYFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIHRLARYYKRTKQLPPNWKYESSTASALVA 148
 
Name Accession Description Interval E-value
PTZ00072 PTZ00072
40S ribosomal protein S13; Provisional
 4-151 1.48e-100

40S ribosomal protein S13; Provisional


Pssm-ID: 185427 [Multi-domain]  Cd Length: 148  Bit Score: 284.63  E-value: 1.48e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6G4W_N         4 MHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGVAQVRFVTGNKILRILKSKGLAPD 83
Cdd:PTZ00072   1 MYGKGKGISSSALPYRRKPPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDSMGIPQVKNVTGSKILRILKKNGLAPE 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
6G4W_N        84 LPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA 151
Cdd:PTZ00072  81 IPEDLYFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIHRLARYYKRTKQLPPNWKYESSTASALVA 148
Ribosomal_S13_N pfam08069
Ribosomal S13/S15 N-terminal domain; This domain is found at the N-terminus of ribosomal S13 ...
 4-60 3.79e-36

Ribosomal S13/S15 N-terminal domain; This domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021.


Pssm-ID: 462354 [Multi-domain]  Cd Length: 57  Bit Score: 118.72  E-value: 3.79e-36
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
6G4W_N          4 MHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60
Cdd:pfam08069   1 MHSRGKGKSGSTRPYRRTPPSWLKTSPEEVEELIVKLAKKGLTPSQIGVILRDQYGV 57
Ribosomal_S15p_S13e cd00353
Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and ...
 70-145 1.19e-25

Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome. S15 also plays an important autoregulatory role by binding and preventing its own mRNA from being translated. S15 has a predominantly alpha-helical fold that is highly structured except for the N-terminal alpha helix.


Pssm-ID: 238213  Cd Length: 80  Bit Score: 92.95  E-value: 1.19e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6G4W_N       70 KILRILKSKGLA----PDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESST 145
Cdd:cd00353   1 KKQEILKEFGLAegdtGSPEVQLALLTERIVNLTEHLEKNKKDKHSKRGLLLLVSKRRRLLKYLKRKDRLRYEWLIEKLG 80
RpsO COG0184
Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 76-146 4.80e-11

Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]; Ribosomal protein S15P/S13E is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 439954  Cd Length: 89  Bit Score: 55.45  E-value: 4.80e-11
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
6G4W_N       76 KSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKrvlpPNWKYESSTA 146
Cdd:COG0184  17 RHEGDTGSPEVQIALLTERINNLTEHLKEHKKDHHSRRGLLKMVGKRRRLLDYLKKK----DIERYRALIA 83
 
Name Accession Description Interval E-value
PTZ00072 PTZ00072
40S ribosomal protein S13; Provisional
 4-151 1.48e-100

40S ribosomal protein S13; Provisional


Pssm-ID: 185427 [Multi-domain]  Cd Length: 148  Bit Score: 284.63  E-value: 1.48e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6G4W_N         4 MHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGVAQVRFVTGNKILRILKSKGLAPD 83
Cdd:PTZ00072   1 MYGKGKGISSSALPYRRKPPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDSMGIPQVKNVTGSKILRILKKNGLAPE 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
6G4W_N        84 LPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA 151
Cdd:PTZ00072  81 IPEDLYFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIHRLARYYKRTKQLPPNWKYESSTASALVA 148
rps15p PRK08561
30S ribosomal protein S15P; Reviewed
 1-151 2.36e-63

30S ribosomal protein S15P; Reviewed


Pssm-ID: 236287 [Multi-domain]  Cd Length: 151  Bit Score: 190.84  E-value: 2.36e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6G4W_N         1 MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGVAQVRFVTGNKILRILKSKGL 80
Cdd:PRK08561   1 MARMHTRRRGKSGSTRPARTEPPEWVDYSPEEIEELVVELAKQGYSPSMIGIILRDQYGIPDVKLITGKKITEILEENGL 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
6G4W_N        81 APDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA 151
Cdd:PRK08561  81 APEIPEDLRNLIKKAVNLRKHLEENPKDLHNKRGLQLIESKIRRLVKYYKRTGVLPADWRYSPETAELLVS 151
Ribosomal_S13_N pfam08069
Ribosomal S13/S15 N-terminal domain; This domain is found at the N-terminus of ribosomal S13 ...
 4-60 3.79e-36

Ribosomal S13/S15 N-terminal domain; This domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021.


Pssm-ID: 462354 [Multi-domain]  Cd Length: 57  Bit Score: 118.72  E-value: 3.79e-36
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
6G4W_N          4 MHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60
Cdd:pfam08069   1 MHSRGKGKSGSTRPYRRTPPSWLKTSPEEVEELIVKLAKKGLTPSQIGVILRDQYGV 57
Ribosomal_S15p_S13e cd00353
Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and ...
 70-145 1.19e-25

Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome. S15 also plays an important autoregulatory role by binding and preventing its own mRNA from being translated. S15 has a predominantly alpha-helical fold that is highly structured except for the N-terminal alpha helix.


Pssm-ID: 238213  Cd Length: 80  Bit Score: 92.95  E-value: 1.19e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6G4W_N       70 KILRILKSKGLA----PDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESST 145
Cdd:cd00353   1 KKQEILKEFGLAegdtGSPEVQLALLTERIVNLTEHLEKNKKDKHSKRGLLLLVSKRRRLLKYLKRKDRLRYEWLIEKLG 80
Ribosomal_S15 pfam00312
Ribosomal protein S15;
73-147 3.37e-15

Ribosomal protein S15;


Pssm-ID: 459756  Cd Length: 81  Bit Score: 65.91  E-value: 3.37e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
6G4W_N         73 RILKSKGLAP----DLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVlpPNWKYESSTAS 147
Cdd:pfam00312   3 EIIKEFGRHPgdtgSPEVQIALLTERINNLTEHLKEHKKDKHSRRGLLKLVGKRRRLLKYLKRKDV--ERYRYLIEKLG 79
S15_NS1_EPRS_RNA-bind cd00677
S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, ...
 85-130 3.90e-11

S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic aminoacyl tRNA synthetases (aaRSs), where it occurs as a single or a repeated unit. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions in the formation of tRNA-synthetases into multienzyme complexes. While this domain lacks significant sequence similarity between the subgroups in which it is found, they share similar electrostatic surface potentials and thus are likely to bind to RNA via the same mechanism.


Pssm-ID: 238361  Cd Length: 46  Bit Score: 54.82  E-value: 3.90e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
6G4W_N       85 PEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYK 130
Cdd:cd00677   1 EVQIALLTERIRNLKEHLAKNKKDKHSKRGLDLLVSKRLRLLKYLK 46
RpsO COG0184
Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 76-146 4.80e-11

Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]; Ribosomal protein S15P/S13E is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 439954  Cd Length: 89  Bit Score: 55.45  E-value: 4.80e-11
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
6G4W_N       76 KSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKrvlpPNWKYESSTA 146
Cdd:COG0184  17 RHEGDTGSPEVQIALLTERINNLTEHLKEHKKDHHSRRGLLKMVGKRRRLLDYLKKK----DIERYRALIA 83
 
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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