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Conserved domains on  [gi|145326692|ref|NP_001077793|]
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Ribosomal protein PSRP-3/Ycf65 [Arabidopsis thaliana]

Protein Classification

small ribosomal subunit protein cS23( domain architecture ID 10388)

small ribosomal subunit protein cS23 is a plastid- and cyanobacterial-specific ribosomal protein that may mediate the effects of nuclear factors in translation

Gene Ontology:  GO:0003735|GO:0006412|GO:0005840
SCOP:  4005134

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PSRP-3_Ycf65 super family cl04793
Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); This small acidic protein is ...
 73-159 1.89e-33

Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); This small acidic protein is found in 30S ribosomal subunit of cyanobacteria and plant plastids. In plants it has been named plastid-specific ribosomal protein 3 (PSRP-3), and in cyanobacteria it is named Ycf65. Plastid-specific ribosomal proteins may mediate the effects of nuclear factors on plastid translation. The acidic PSRPs are thought to contribute to protein-protein interactions in the 30S subunit, and are not thought to bind RNA.


The actual alignment was detected with superfamily member PRK02724:

Pssm-ID: 414182  Cd Length: 104  Bit Score: 114.07  E-value: 1.89e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145326692  73 TIKPDEkSRVVLKFVWMEKNIGLGLDQHVpGHGTIPLSPYFFWPRKDAWEELKSTLEAKPWISQKKMIILLNQATDIINL 152
Cdd:PRK02724   1 TPKADE-GRFILKVLWLDDNVALAVDQIV-GKGTSPLTAYFFWPRNDAWEQLKTELESKHWITENERVEVLNKATEVINY 78


                 ....*..
gi 145326692 153 WQQSGGN 159
Cdd:PRK02724  79 WQEEGKG 85
 
Name Accession Description Interval E-value
PRK02724 PRK02724
30S ribosomal protein PSRP-3;
73-159 1.89e-33

30S ribosomal protein PSRP-3;


Pssm-ID: 235062  Cd Length: 104  Bit Score: 114.07  E-value: 1.89e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145326692  73 TIKPDEkSRVVLKFVWMEKNIGLGLDQHVpGHGTIPLSPYFFWPRKDAWEELKSTLEAKPWISQKKMIILLNQATDIINL 152
Cdd:PRK02724   1 TPKADE-GRFILKVLWLDDNVALAVDQIV-GKGTSPLTAYFFWPRNDAWEQLKTELESKHWITENERVEVLNKATEVINY 78


                 ....*..
gi 145326692 153 WQQSGGN 159
Cdd:PRK02724  79 WQEEGKG 85
PSRP-3_Ycf65 pfam04839
Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); This small acidic protein is ...
 109-155 2.80e-27

Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); This small acidic protein is found in 30S ribosomal subunit of cyanobacteria and plant plastids. In plants it has been named plastid-specific ribosomal protein 3 (PSRP-3), and in cyanobacteria it is named Ycf65. Plastid-specific ribosomal proteins may mediate the effects of nuclear factors on plastid translation. The acidic PSRPs are thought to contribute to protein-protein interactions in the 30S subunit, and are not thought to bind RNA.


Pssm-ID: 398487  Cd Length: 47  Bit Score: 96.66  E-value: 2.80e-27
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 145326692  109 LSPYFFWPRKDAWEELKSTLEAKPWISQKKMIILLNQATDIINLWQQ 155
Cdd:pfam04839   1 LTPYFFWPRKDAWEELKAELESKPWISERDRIELLNQATEIINYWQE 47
 
Name Accession Description Interval E-value
PRK02724 PRK02724
30S ribosomal protein PSRP-3;
73-159 1.89e-33

30S ribosomal protein PSRP-3;


Pssm-ID: 235062  Cd Length: 104  Bit Score: 114.07  E-value: 1.89e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145326692  73 TIKPDEkSRVVLKFVWMEKNIGLGLDQHVpGHGTIPLSPYFFWPRKDAWEELKSTLEAKPWISQKKMIILLNQATDIINL 152
Cdd:PRK02724   1 TPKADE-GRFILKVLWLDDNVALAVDQIV-GKGTSPLTAYFFWPRNDAWEQLKTELESKHWITENERVEVLNKATEVINY 78


                 ....*..
gi 145326692 153 WQQSGGN 159
Cdd:PRK02724  79 WQEEGKG 85
ycf65 CHL00163
putative ribosomal protein 3; Validated
 80-160 5.38e-33

putative ribosomal protein 3; Validated


Pssm-ID: 214381  Cd Length: 99  Bit Score: 112.46  E-value: 5.38e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145326692  80 SRVVLKFVWMEKNIGLGLDQHVpGHGTIPLSPYFFWPRKDAWEELKSTLEAKPWISQKKMIILLNQATDIINLWQQSGGN 159
Cdd:CHL00163   2 QKFTLKVLWLENNIGIAVDQIV-GNGTSPLTSYFFWPRTDAWELLKLELESKPWISEDERIEILNKTTEIINYWQENKKK 80


                 .
gi 145326692 160 L 160
Cdd:CHL00163  81 Y 81
PSRP-3_Ycf65 pfam04839
Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); This small acidic protein is ...
 109-155 2.80e-27

Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); This small acidic protein is found in 30S ribosomal subunit of cyanobacteria and plant plastids. In plants it has been named plastid-specific ribosomal protein 3 (PSRP-3), and in cyanobacteria it is named Ycf65. Plastid-specific ribosomal proteins may mediate the effects of nuclear factors on plastid translation. The acidic PSRPs are thought to contribute to protein-protein interactions in the 30S subunit, and are not thought to bind RNA.


Pssm-ID: 398487  Cd Length: 47  Bit Score: 96.66  E-value: 2.80e-27
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 145326692  109 LSPYFFWPRKDAWEELKSTLEAKPWISQKKMIILLNQATDIINLWQQ 155
Cdd:pfam04839   1 LTPYFFWPRKDAWEELKAELESKPWISERDRIELLNQATEIINYWQE 47
 
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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