|
Name |
Accession |
Description |
Interval |
E-value |
| rps4 |
CHL00113 |
ribosomal protein S4; Reviewed |
1-201 |
2.15e-144 |
|
ribosomal protein S4; Reviewed
Pssm-ID: 177038 [Multi-domain] Cd Length: 201 Bit Score: 399.59 E-value: 2.15e-144
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 1 MSRYRGPRFKKLRRLGALPGLTNKRPRAGNDLRNQSRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYVRIAGKAKGSTG 80
Cdd:CHL00113 1 MSRYRGPRLKIIRRLGALPGLTSKTPRPGSDLRNQSRSGKKSQYRIRLEEKQKLRFNYGLTERQLLKYVRIARKAKGSTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 81 QVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQNFLDSSPHEEL 160
Cdd:CHL00113 81 QVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDIPSYRCKPKDIITVKDKQKSKNLIQNNLESSPREEL 160
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 1238819729 161 AKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSRQT 201
Cdd:CHL00113 161 PNHLTLDKLQYKGLVNQIIDRKWVGLKINELLVVEYYSRQT 201
|
|
| RpsD |
COG0522 |
Ribosomal protein S4 or related protein [Translation, ribosomal structure and biogenesis]; ... |
1-199 |
2.93e-75 |
|
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: 224.95 E-value: 2.93e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 1 MSRYRGPRFKKLRRLG-ALPGLT------NKRPRA----GNdlrnqsRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYV 69
Cdd:COG0522 1 MARYTGPKCKLCRREGvKLFLKGerkcalERRPYPpgqhGQ------RRKKLSDYGLQLREKQKLRRIYGVLEKQFRRYF 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 70 RIAGKAKGSTGQVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQ 149
Cdd:COG0522 75 EEAARRKGNTGENLLQLLERRLDNVVYRLGFAPTRAQARQLVSHGHILVNGKKVNIPSYQVKPGDVIEVREKSKKLPRIK 154
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 1238819729 150 NFLDSSPHEELAKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSR 199
Cdd:COG0522 155 EALESAEQRGVPEWLEVDAEKLSGTVVRLPEREEIPVPINEQLIVELYSR 204
|
|
| rpsD_bact |
TIGR01017 |
ribosomal protein S4, bacterial/organelle type; This model finds organelle (chloroplast and ... |
3-199 |
1.49e-70 |
|
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: 212.93 E-value: 1.49e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 3 RYRGPRFKKLRRLGA-LPG----LTNKRPRAgnDLRNQSRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYVRIAGKAKG 77
Cdd:TIGR01017 1 RYTGPKFKLSRRLGVnLFGksrkLLLKRKYP--PGQHGQRRKKLSDYGLQLQEKQKLKFMYGITEKQFRKYFKEAKKLKG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 78 STGQVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQNFLDSSPH 157
Cdd:TIGR01017 79 NTGENLLRLLESRLDNVVYRLGFAPTRFAARQLVSHGHILVNGKKVDIPSYQVRPGDIISIKEKSKKIPLVKENLETNGQ 158
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 1238819729 158 EELAKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSR 199
Cdd:TIGR01017 159 RNIPSWLEVDKKTLEGKVLRVPERSQLPLPINESLVVEYYSR 200
|
|
| Ribosomal_S4 |
pfam00163 |
Ribosomal protein S4/S9 N-terminal domain; This family includes small ribosomal subunit S9 ... |
3-88 |
2.66e-19 |
|
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: 78.74 E-value: 2.66e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 3 RYRGPRFKKLRRLGALPGLTNKRPRAGNDLRN---------QSRSGKK-SQYRIRLEEKQKLRFHYGLTERQLFKYVRIA 72
Cdd:pfam00163 1 RYKGPEQKLLRRVGFKLWKKGRCHRELKVAQNrreypkypgQHGKIRKlSEYLLQLREKQKVRRKYGLLEKQLRKLYDMG 80
|
90
....*....|....*.
gi 1238819729 73 GKAKGSTGQVLLQLLE 88
Cdd:pfam00163 81 LKLKGVTGENLLQLLE 96
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
89-148 |
1.32e-17 |
|
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: 73.44 E-value: 1.32e-17
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 89 MRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALI 148
Cdd:cd00165 1 MRLDKILARLGLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEEDIV 60
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
89-147 |
3.25e-13 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 61.84 E-value: 3.25e-13
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 1238819729 89 MRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRAL 147
Cdd:smart00363 1 RRLDKFLARLGLAPSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRLK 59
|
|
|
|
Name |
Accession |
Description |
Interval |
E-value |
| rps4 |
CHL00113 |
ribosomal protein S4; Reviewed |
1-201 |
2.15e-144 |
|
ribosomal protein S4; Reviewed
Pssm-ID: 177038 [Multi-domain] Cd Length: 201 Bit Score: 399.59 E-value: 2.15e-144
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 1 MSRYRGPRFKKLRRLGALPGLTNKRPRAGNDLRNQSRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYVRIAGKAKGSTG 80
Cdd:CHL00113 1 MSRYRGPRLKIIRRLGALPGLTSKTPRPGSDLRNQSRSGKKSQYRIRLEEKQKLRFNYGLTERQLLKYVRIARKAKGSTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 81 QVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQNFLDSSPHEEL 160
Cdd:CHL00113 81 QVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDIPSYRCKPKDIITVKDKQKSKNLIQNNLESSPREEL 160
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 1238819729 161 AKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSRQT 201
Cdd:CHL00113 161 PNHLTLDKLQYKGLVNQIIDRKWVGLKINELLVVEYYSRQT 201
|
|
| rpsD |
PRK05327 |
30S ribosomal protein S4; Validated |
1-199 |
5.94e-79 |
|
30S ribosomal protein S4; Validated
Pssm-ID: 235411 [Multi-domain] Cd Length: 203 Bit Score: 234.23 E-value: 5.94e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 1 MSRYRGPRFKKLRRLGALPGLTNKRPRAGN----DLRNQSRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYVRIAGKAK 76
Cdd:PRK05327 1 MARYTGPKCKLSRRLGVDLFKSGKRCLKRKyppgQHGQRRRKPKLSDYGLQLREKQKLRRIYGVLEKQFRRYFKEAARRK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 77 GSTGQVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQNFLDSSP 156
Cdd:PRK05327 81 GNTGENLLQLLESRLDNVVYRLGFAPTRRQARQLVSHGHILVNGKKVNIPSYRVKPGDVIEVREKSKKLPRIKEALELAE 160
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 1238819729 157 HEELAKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSR 199
Cdd:PRK05327 161 RRGVPDWLEVDAEKLEGTFKRLPEREEIPVPINEQLIVELYSK 203
|
|
| RpsD |
COG0522 |
Ribosomal protein S4 or related protein [Translation, ribosomal structure and biogenesis]; ... |
1-199 |
2.93e-75 |
|
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: 224.95 E-value: 2.93e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 1 MSRYRGPRFKKLRRLG-ALPGLT------NKRPRA----GNdlrnqsRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYV 69
Cdd:COG0522 1 MARYTGPKCKLCRREGvKLFLKGerkcalERRPYPpgqhGQ------RRKKLSDYGLQLREKQKLRRIYGVLEKQFRRYF 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 70 RIAGKAKGSTGQVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQ 149
Cdd:COG0522 75 EEAARRKGNTGENLLQLLERRLDNVVYRLGFAPTRAQARQLVSHGHILVNGKKVNIPSYQVKPGDVIEVREKSKKLPRIK 154
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 1238819729 150 NFLDSSPHEELAKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSR 199
Cdd:COG0522 155 EALESAEQRGVPEWLEVDAEKLSGTVVRLPEREEIPVPINEQLIVELYSR 204
|
|
| rpsD_bact |
TIGR01017 |
ribosomal protein S4, bacterial/organelle type; This model finds organelle (chloroplast and ... |
3-199 |
1.49e-70 |
|
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: 212.93 E-value: 1.49e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 3 RYRGPRFKKLRRLGA-LPG----LTNKRPRAgnDLRNQSRSGKKSQYRIRLEEKQKLRFHYGLTERQLFKYVRIAGKAKG 77
Cdd:TIGR01017 1 RYTGPKFKLSRRLGVnLFGksrkLLLKRKYP--PGQHGQRRKKLSDYGLQLQEKQKLKFMYGITEKQFRKYFKEAKKLKG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 78 STGQVLLQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALIQNFLDSSPH 157
Cdd:TIGR01017 79 NTGENLLRLLESRLDNVVYRLGFAPTRFAARQLVSHGHILVNGKKVDIPSYQVRPGDIISIKEKSKKIPLVKENLETNGQ 158
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 1238819729 158 EELAKHLTLYPFQYKGLVNQIIDSKWVGLKINELLVVEYYSR 199
Cdd:TIGR01017 159 RNIPSWLEVDKKTLEGKVLRVPERSQLPLPINESLVVEYYSR 200
|
|
| Ribosomal_S4 |
pfam00163 |
Ribosomal protein S4/S9 N-terminal domain; This family includes small ribosomal subunit S9 ... |
3-88 |
2.66e-19 |
|
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: 78.74 E-value: 2.66e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 3 RYRGPRFKKLRRLGALPGLTNKRPRAGNDLRN---------QSRSGKK-SQYRIRLEEKQKLRFHYGLTERQLFKYVRIA 72
Cdd:pfam00163 1 RYKGPEQKLLRRVGFKLWKKGRCHRELKVAQNrreypkypgQHGKIRKlSEYLLQLREKQKVRRKYGLLEKQLRKLYDMG 80
|
90
....*....|....*.
gi 1238819729 73 GKAKGSTGQVLLQLLE 88
Cdd:pfam00163 81 LKLKGVTGENLLQLLE 96
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
89-148 |
1.32e-17 |
|
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: 73.44 E-value: 1.32e-17
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 89 MRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRALI 148
Cdd:cd00165 1 MRLDKILARLGLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEEDIV 60
|
|
| S4 |
pfam01479 |
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ... |
89-136 |
2.30e-15 |
|
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: 67.13 E-value: 2.30e-15
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 1238819729 89 MRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDII 136
Cdd:pfam01479 1 RRLDKVLARLGLASSRSQARQLIEHGRVLVNGKVVKDPSYRVKPGDEI 48
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
89-147 |
3.25e-13 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 61.84 E-value: 3.25e-13
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 1238819729 89 MRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYRCKPQDIITARDEQKSRAL 147
Cdd:smart00363 1 RRLDKFLARLGLAPSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRLK 59
|
|
| rps4p |
PRK04051 |
30S ribosomal protein S4P; Validated |
85-128 |
5.47e-12 |
|
30S ribosomal protein S4P; Validated
Pssm-ID: 179730 [Multi-domain] Cd Length: 177 Bit Score: 61.42 E-value: 5.47e-12
10 20 30 40
....*....|....*....|....*....|....*....|....
gi 1238819729 85 QLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSY 128
Cdd:PRK04051 99 DILERRLQTIVYRKGLARTPKQARQFIVHGHIAVNGRRVTSPSY 142
|
|
| uS4_arch |
TIGR01018 |
ribosomal protein uS4, eukaryotic/archaeal type; This model finds eukaryotic ribosomal protein ... |
87-143 |
5.82e-10 |
|
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: 55.51 E-value: 5.82e-10
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 1238819729 87 LEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSYrckpqdiITARDEQK 143
Cdd:TIGR01018 102 LERRLQTQVYKKGLARTIHQARQLIVHGHIAVNGRVVTSPSY-------IVRLEEEK 151
|
|
| PLN00189 |
PLN00189 |
40S ribosomal protein S9; Provisional |
4-128 |
2.16e-07 |
|
40S ribosomal protein S9; Provisional
Pssm-ID: 177783 [Multi-domain] Cd Length: 194 Bit Score: 48.98 E-value: 2.16e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 4 YRGPR--FKKLR-----RLGALPGLTNKRP-----RAGNDLRNQSR---SGKKSQYRIRLEEKQKLRF--HYGLTERQLF 66
Cdd:PLN00189 14 FKKPRrpYEKERldaelKLVGEYGLRNKRElwrvqYALSRIRNAARmllTLDEKNPRRIFEGEALLRRmnRYGLLDESQN 93
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1238819729 67 K--YVrIAGKAKgstgqvllQLLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSY 128
Cdd:PLN00189 94 KldYV-LALTVE--------NFLERRLQTLVFKSGMAKSIHHARVLIRQRHIRVGKQIVNVPSF 148
|
|
| PTZ00155 |
PTZ00155 |
40S ribosomal protein S9; Provisional |
49-128 |
2.71e-06 |
|
40S ribosomal protein S9; Provisional
Pssm-ID: 185484 [Multi-domain] Cd Length: 181 Bit Score: 45.84 E-value: 2.71e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1238819729 49 EEKQKLRFHYGLTERQLfkyvriagkakgstgqvllqlLEMRLDNILFRLGMASTIPGARQLVNHRHILVNDRRVDIPSY 128
Cdd:PTZ00155 88 EDERKLDYVLGLTVEKL---------------------LERRLQTKVFKLGLAKSIHHARVLIRQRHIRVGKQIVDIPSF 146
|
|
|