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Conserved domains on  [gi|1635308780|gb|TKS04885|]
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ribosomal protein S4 (chloroplast) [Populus alba]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rps4 CHL00113
ribosomal protein S4; Reviewed
 1-181 1.88e-129

ribosomal protein S4; Reviewed


:

Pssm-ID: 177038 [Multi-domain]  Cd Length: 201  Bit Score: 365.69  E-value: 1.88e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   1 MSRYRGPRFKKIRRLGALPGLTSKRPRAGSDLRNQSRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAKAKGSTG 80
Cdd:CHL00113    1 MSRYRGPRLKIIRRLGALPGLTSKTPRPGSDLRNQSRSGKKSQYRIRLEEKQKLRFNYGLTERQLLKYVRIARKAKGSTG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  81 QVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDSFPQEEL 160
Cdd:CHL00113   81 QVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDIPSYRCKPKDIITVKDKQKSKNLIQNNLESSPREEL 160

                         170       180
                  ....*....|....*....|.
gi 1635308780 161 PKHLTLHPFQYKGLVNHIIDK 181
Cdd:CHL00113  161 PNHLTLDKLQYKGLVNQIIDR 181
ycf3 super family cl31773
photosystem I assembly protein Ycf3
 238-290 1.35e-31

photosystem I assembly protein Ycf3


The actual alignment was detected with superfamily member CHL00033:

Pssm-ID: 176974 [Multi-domain]  Cd Length: 168  Bit Score: 115.49  E-value: 1.35e-31
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1635308780 238 YSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 290
Cdd:CHL00033  116 CHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNYIEAQNWLKITGRFE 168
 
Name Accession Description Interval E-value
rps4 CHL00113
ribosomal protein S4; Reviewed
 1-181 1.88e-129

ribosomal protein S4; Reviewed


Pssm-ID: 177038 [Multi-domain]  Cd Length: 201  Bit Score: 365.69  E-value: 1.88e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   1 MSRYRGPRFKKIRRLGALPGLTSKRPRAGSDLRNQSRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAKAKGSTG 80
Cdd:CHL00113    1 MSRYRGPRLKIIRRLGALPGLTSKTPRPGSDLRNQSRSGKKSQYRIRLEEKQKLRFNYGLTERQLLKYVRIARKAKGSTG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  81 QVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDSFPQEEL 160
Cdd:CHL00113   81 QVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDIPSYRCKPKDIITVKDKQKSKNLIQNNLESSPREEL 160

                         170       180
                  ....*....|....*....|.
gi 1635308780 161 PKHLTLHPFQYKGLVNHIIDK 181
Cdd:CHL00113  161 PNHLTLDKLQYKGLVNQIIDR 181
RpsD COG0522
Ribosomal protein S4 or related protein [Translation, ribosomal structure and biogenesis]; ...
 1-178 1.69e-68

Ribosomal protein S4 or related protein [Translation, ribosomal structure and biogenesis]; Ribosomal protein S4 or related protein is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440288 [Multi-domain]  Cd Length: 204  Bit Score: 211.47  E-value: 1.69e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   1 MSRYRGPRFKKIRRLGALPGLTSKRPRAgSDLRNQ------SRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAK 74
Cdd:COG0522     1 MARYTGPKCKLCRREGVKLFLKGERKCA-LERRPYppgqhgQRRKKLSDYGLQLREKQKLRRIYGVLEKQFRRYFEEAAR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  75 AKGSTGQVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDS 154
Cdd:COG0522    80 RKGNTGENLLQLLERRLDNVVYRLGFAPTRAQARQLVSHGHILVNGKKVNIPSYQVKPGDVIEVREKSKKLPRIKEALES 159

                         170       180
                  ....*....|....*....|....
gi 1635308780 155 FPQEELPKHLTLHPFQYKGLVNHI 178
Cdd:COG0522   160 AEQRGVPEWLEVDAEKLSGTVVRL 183
rpsD_bact TIGR01017
ribosomal protein S4, bacterial/organelle type; This model finds organelle (chloroplast and ...
 3-182 1.88e-61

ribosomal protein S4, bacterial/organelle type; This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 200066 [Multi-domain]  Cd Length: 200  Bit Score: 193.29  E-value: 1.88e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   3 RYRGPRFKKIRRLGA-LPG----LTSKRPRAgsDLRNQSRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAKAKG 77
Cdd:TIGR01017   1 RYTGPKFKLSRRLGVnLFGksrkLLLKRKYP--PGQHGQRRKKLSDYGLQLQEKQKLKFMYGITEKQFRKYFKEAKKLKG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  78 STGQVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDSFPQ 157
Cdd:TIGR01017  79 NTGENLLRLLESRLDNVVYRLGFAPTRFAARQLVSHGHILVNGKKVDIPSYQVRPGDIISIKEKSKKIPLVKENLETNGQ 158

                         170       180
                  ....*....|....*....|....*
gi 1635308780 158 EELPKHLTLHPFQYKGLVNHIIDKI 182
Cdd:TIGR01017 159 RNIPSWLEVDKKTLEGKVLRVPERS 183
ycf3 CHL00033
photosystem I assembly protein Ycf3
 238-290 1.35e-31

photosystem I assembly protein Ycf3


Pssm-ID: 176974 [Multi-domain]  Cd Length: 168  Bit Score: 115.49  E-value: 1.35e-31
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1635308780 238 YSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 290
Cdd:CHL00033  116 CHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNYIEAQNWLKITGRFE 168
Ycf3 COG5713
Photosystem I assembly protein Ycf3, contains TPR repeats [Energy production and conversion]; ...
 238-290 1.43e-22

Photosystem I assembly protein Ycf3, contains TPR repeats [Energy production and conversion]; Photosystem I assembly protein Ycf3, contains TPR repeats is part of the Pathway/BioSystem: Photosystem I


Pssm-ID: 444423  Cd Length: 173  Bit Score: 91.70  E-value: 1.43e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1635308780 238 YSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 290
Cdd:COG5713   116 YHYQGEKAKEAGDQDEAEALFDKAAEYWKRAIRLAPNNYIEAQNWLKTTGRSK 168
Ribosomal_S4 pfam00163
Ribosomal protein S4/S9 N-terminal domain; This family includes small ribosomal subunit S9 ...
 3-88 6.34e-20

Ribosomal protein S4/S9 N-terminal domain; This family includes small ribosomal subunit S9 from prokaryotes and S16 from metazoans. This domain is predicted to bind to ribosomal RNA. This domain is composed of four helices in the known structure. However the domain is discontinuous in sequence and the alignment for this family contains only the first three helices.


Pssm-ID: 459696  Cd Length: 96  Bit Score: 82.21  E-value: 6.34e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   3 RYRGPRFKKIRRLGALPGLTSKRPRAGSDLRN---------QSRAGKK-SQYRIRLEEKQKLRFHYGLTERQLLKYVRIA 72
Cdd:pfam00163   1 RYKGPEQKLLRRVGFKLWKKGRCHRELKVAQNrreypkypgQHGKIRKlSEYLLQLREKQKVRRKYGLLEKQLRKLYDMG 80

                          90
                  ....*....|....*.
gi 1635308780  73 AKAKGSTGQVLLQLLE 88
Cdd:pfam00163  81 LKLKGVTGENLLQLLE 96
S4 cd00165
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ...
 89-145 2.81e-18

S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.


Pssm-ID: 238095 [Multi-domain]  Cd Length: 70  Bit Score: 77.29  E-value: 2.81e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1635308780  89 MRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSR 145
Cdd:cd00165     1 MRLDKILARLGLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEE 57
S4 smart00363
S4 RNA-binding domain;
89-146 1.77e-15

S4 RNA-binding domain;


Pssm-ID: 214638 [Multi-domain]  Cd Length: 60  Bit Score: 69.16  E-value: 1.77e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1635308780   89 MRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRV 146
Cdd:smart00363   1 RRLDKFLARLGLAPSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRL 58
 
Name Accession Description Interval E-value
rps4 CHL00113
ribosomal protein S4; Reviewed
 1-181 1.88e-129

ribosomal protein S4; Reviewed


Pssm-ID: 177038 [Multi-domain]  Cd Length: 201  Bit Score: 365.69  E-value: 1.88e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   1 MSRYRGPRFKKIRRLGALPGLTSKRPRAGSDLRNQSRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAKAKGSTG 80
Cdd:CHL00113    1 MSRYRGPRLKIIRRLGALPGLTSKTPRPGSDLRNQSRSGKKSQYRIRLEEKQKLRFNYGLTERQLLKYVRIARKAKGSTG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  81 QVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDSFPQEEL 160
Cdd:CHL00113   81 QVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDIPSYRCKPKDIITVKDKQKSKNLIQNNLESSPREEL 160

                         170       180
                  ....*....|....*....|.
gi 1635308780 161 PKHLTLHPFQYKGLVNHIIDK 181
Cdd:CHL00113  161 PNHLTLDKLQYKGLVNQIIDR 181
rpsD PRK05327
30S ribosomal protein S4; Validated
 1-178 3.32e-72

30S ribosomal protein S4; Validated


Pssm-ID: 235411 [Multi-domain]  Cd Length: 203  Bit Score: 220.75  E-value: 3.32e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   1 MSRYRGPRFKKIRRLG-ALPGLT---SKRPRAGSDLRNQSRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAKAK 76
Cdd:PRK05327    1 MARYTGPKCKLSRRLGvDLFKSGkrcLKRKYPPGQHGQRRRKPKLSDYGLQLREKQKLRRIYGVLEKQFRRYFKEAARRK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  77 GSTGQVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDSFP 156
Cdd:PRK05327   81 GNTGENLLQLLESRLDNVVYRLGFAPTRRQARQLVSHGHILVNGKKVNIPSYRVKPGDVIEVREKSKKLPRIKEALELAE 160

                         170       180
                  ....*....|....*....|..
gi 1635308780 157 QEELPKHLTLHPFQYKGLVNHI 178
Cdd:PRK05327  161 RRGVPDWLEVDAEKLEGTFKRL 182
RpsD COG0522
Ribosomal protein S4 or related protein [Translation, ribosomal structure and biogenesis]; ...
 1-178 1.69e-68

Ribosomal protein S4 or related protein [Translation, ribosomal structure and biogenesis]; Ribosomal protein S4 or related protein is part of the Pathway/BioSystem: Ribosome 30S subunit


Pssm-ID: 440288 [Multi-domain]  Cd Length: 204  Bit Score: 211.47  E-value: 1.69e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   1 MSRYRGPRFKKIRRLGALPGLTSKRPRAgSDLRNQ------SRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAK 74
Cdd:COG0522     1 MARYTGPKCKLCRREGVKLFLKGERKCA-LERRPYppgqhgQRRKKLSDYGLQLREKQKLRRIYGVLEKQFRRYFEEAAR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  75 AKGSTGQVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDS 154
Cdd:COG0522    80 RKGNTGENLLQLLERRLDNVVYRLGFAPTRAQARQLVSHGHILVNGKKVNIPSYQVKPGDVIEVREKSKKLPRIKEALES 159

                         170       180
                  ....*....|....*....|....
gi 1635308780 155 FPQEELPKHLTLHPFQYKGLVNHI 178
Cdd:COG0522   160 AEQRGVPEWLEVDAEKLSGTVVRL 183
rpsD_bact TIGR01017
ribosomal protein S4, bacterial/organelle type; This model finds organelle (chloroplast and ...
 3-182 1.88e-61

ribosomal protein S4, bacterial/organelle type; This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 200066 [Multi-domain]  Cd Length: 200  Bit Score: 193.29  E-value: 1.88e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   3 RYRGPRFKKIRRLGA-LPG----LTSKRPRAgsDLRNQSRAGKKSQYRIRLEEKQKLRFHYGLTERQLLKYVRIAAKAKG 77
Cdd:TIGR01017   1 RYTGPKFKLSRRLGVnLFGksrkLLLKRKYP--PGQHGQRRKKLSDYGLQLQEKQKLKFMYGITEKQFRKYFKEAKKLKG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  78 STGQVLLQLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRVMIQNSLDSFPQ 157
Cdd:TIGR01017  79 NTGENLLRLLESRLDNVVYRLGFAPTRFAARQLVSHGHILVNGKKVDIPSYQVRPGDIISIKEKSKKIPLVKENLETNGQ 158

                         170       180
                  ....*....|....*....|....*
gi 1635308780 158 EELPKHLTLHPFQYKGLVNHIIDKI 182
Cdd:TIGR01017 159 RNIPSWLEVDKKTLEGKVLRVPERS 183
ycf3 CHL00033
photosystem I assembly protein Ycf3
 238-290 1.35e-31

photosystem I assembly protein Ycf3


Pssm-ID: 176974 [Multi-domain]  Cd Length: 168  Bit Score: 115.49  E-value: 1.35e-31
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1635308780 238 YSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 290
Cdd:CHL00033  116 CHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNYIEAQNWLKITGRFE 168
PRK02603 PRK02603
photosystem I assembly protein Ycf3; Provisional
 236-288 3.79e-23

photosystem I assembly protein Ycf3; Provisional


Pssm-ID: 179448 [Multi-domain]  Cd Length: 172  Bit Score: 93.20  E-value: 3.79e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1635308780 236 LAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRR 288
Cdd:PRK02603  114 VIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNNYIEAQNWLKTTGR 166
Ycf3 COG5713
Photosystem I assembly protein Ycf3, contains TPR repeats [Energy production and conversion]; ...
 238-290 1.43e-22

Photosystem I assembly protein Ycf3, contains TPR repeats [Energy production and conversion]; Photosystem I assembly protein Ycf3, contains TPR repeats is part of the Pathway/BioSystem: Photosystem I


Pssm-ID: 444423  Cd Length: 173  Bit Score: 91.70  E-value: 1.43e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1635308780 238 YSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 290
Cdd:COG5713   116 YHYQGEKAKEAGDQDEAEALFDKAAEYWKRAIRLAPNNYIEAQNWLKTTGRSK 168
Ribosomal_S4 pfam00163
Ribosomal protein S4/S9 N-terminal domain; This family includes small ribosomal subunit S9 ...
 3-88 6.34e-20

Ribosomal protein S4/S9 N-terminal domain; This family includes small ribosomal subunit S9 from prokaryotes and S16 from metazoans. This domain is predicted to bind to ribosomal RNA. This domain is composed of four helices in the known structure. However the domain is discontinuous in sequence and the alignment for this family contains only the first three helices.


Pssm-ID: 459696  Cd Length: 96  Bit Score: 82.21  E-value: 6.34e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780   3 RYRGPRFKKIRRLGALPGLTSKRPRAGSDLRN---------QSRAGKK-SQYRIRLEEKQKLRFHYGLTERQLLKYVRIA 72
Cdd:pfam00163   1 RYKGPEQKLLRRVGFKLWKKGRCHRELKVAQNrreypkypgQHGKIRKlSEYLLQLREKQKVRRKYGLLEKQLRKLYDMG 80

                          90
                  ....*....|....*.
gi 1635308780  73 AKAKGSTGQVLLQLLE 88
Cdd:pfam00163  81 LKLKGVTGENLLQLLE 96
S4 cd00165
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ...
 89-145 2.81e-18

S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.


Pssm-ID: 238095 [Multi-domain]  Cd Length: 70  Bit Score: 77.29  E-value: 2.81e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1635308780  89 MRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSR 145
Cdd:cd00165     1 MRLDKILARLGLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEE 57
S4 pfam01479
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ...
 89-136 1.55e-16

S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation. The S4 domain probably mediates binding to RNA.


Pssm-ID: 396182 [Multi-domain]  Cd Length: 48  Bit Score: 71.75  E-value: 1.55e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1635308780  89 MRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDII 136
Cdd:pfam01479   1 RRLDKVLARLGLASSRSQARQLIEHGRVLVNGKVVKDPSYRVKPGDEI 48
S4 smart00363
S4 RNA-binding domain;
89-146 1.77e-15

S4 RNA-binding domain;


Pssm-ID: 214638 [Multi-domain]  Cd Length: 60  Bit Score: 69.16  E-value: 1.77e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1635308780   89 MRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQKSRV 146
Cdd:smart00363   1 RRLDKFLARLGLAPSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRL 58
rps4p PRK04051
30S ribosomal protein S4P; Validated
 85-128 1.24e-11

30S ribosomal protein S4P; Validated


Pssm-ID: 179730 [Multi-domain]  Cd Length: 177  Bit Score: 61.81  E-value: 1.24e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1635308780  85 QLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSY 128
Cdd:PRK04051   99 DILERRLQTIVYRKGLARTPKQARQFIVHGHIAVNGRRVTSPSY 142
uS4_arch TIGR01018
ribosomal protein uS4, eukaryotic/archaeal type; This model finds eukaryotic ribosomal protein ...
 87-143 5.90e-11

ribosomal protein uS4, eukaryotic/archaeal type; This model finds eukaryotic ribosomal protein S9 as well as archaeal ribosomal protein S4. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273397 [Multi-domain]  Cd Length: 162  Bit Score: 59.75  E-value: 5.90e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1635308780  87 LEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYrckprdiITAKDEQK 143
Cdd:TIGR01018 102 LERRLQTQVYKKGLARTIHQARQLIVHGHIAVNGRVVTSPSY-------IVRLEEEK 151
PLN00189 PLN00189
40S ribosomal protein S9; Provisional
 85-128 3.58e-08

40S ribosomal protein S9; Provisional


Pssm-ID: 177783 [Multi-domain]  Cd Length: 194  Bit Score: 52.44  E-value: 3.58e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1635308780  85 QLLEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSY 128
Cdd:PLN00189  105 NFLERRLQTLVFKSGMAKSIHHARVLIRQRHIRVGKQIVNVPSF 148
PTZ00155 PTZ00155
40S ribosomal protein S9; Provisional
 49-128 6.23e-08

40S ribosomal protein S9; Provisional


Pssm-ID: 185484 [Multi-domain]  Cd Length: 181  Bit Score: 51.62  E-value: 6.23e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  49 EEKQKLRFHYGLTERQLLkyvriaakakgstgqvllqllEMRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSY 128
Cdd:PTZ00155   88 EDERKLDYVLGLTVEKLL---------------------ERRLQTKVFKLGLAKSIHHARVLIRQRHIRVGKQIVDIPSF 146
YqxC COG1189
Predicted rRNA methylase YqxC, contains S4 and FtsJ domains [Translation, ribosomal structure ...
 89-145 8.57e-05

Predicted rRNA methylase YqxC, contains S4 and FtsJ domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440802 [Multi-domain]  Cd Length: 248  Bit Score: 43.12  E-value: 8.57e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635308780  89 MRLDNILFRLGMASTIPRARQLVNHRHILVNGRIVDIPSYRCKPRDIITAKDEQK---SR 145
Cdd:COG1189     1 ERLDVLLVERGLAESREKAQRLIMAGRVLVNGQVVDKPGTKVPEDAEIEVKGEELpyvSR 60
 
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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