| Identifier | TRNASYNTHARG [View Relations] [View Alignment]
|
| Accession | PR01038 |
| No. of Motifs | 4 |
| Creation Date | 21-DEC-1998 (UPDATE 10-JUN-1999) |
| Title | Arginyl-tRNA synthetase signature |
| Database References | PRINTS; PR90000 TRNASYNTH; PR90001 TRNASYNTHCLI
PROSITE; PS00178 AA_TRNA_LIGASE_I
BLOCKS; BL00178
PFAM; PF00750 tRNA-synt_1d
INTERPRO; IPR001278 |
| Literature References | 1. LODISH, H., BALTIMORE, D., BERK, A., ZIPURSKY, S.L., MATSUDAIRA, P.
AND DARNELL, J.
Nucleic Acids, the Genetic Code, and Protein Synthesis.
IN MOLECULAR CELL BIOLOGY, SCIENTIFIC AMERICAN BOOKS (NEW YORK), 1995,
PP.126-128.
2. DELARUE, M.
Aminoacyl-tRNA synthetases.
CURR.OPIN.STRUCT.BIOL. 5 48-55 (1995).
3. PERONA, J.J., ROULD, M. AND STEITZ, T.A.
Structural Basis for Transfer RNA Aminoacylation by Escherichia coli
Glutaminyl-tRNA Synthetase.
BIOCHEMISTRY 32 8758-8771 (1993).
|
| Documentation | Appropriate attachment of an amino acid to its cognate tRNA is the key to
faithful translation of the genetic code. The family of enzymes responsible
for this is the aminoacyl-tRNA synthetases (AATRSs) (EC 6.1.1.-).
AATRSs catalyse a two-step reaction:
(1) Enzyme + amino acid + ATP ---> Enzyme(aminoacyl-AMP) + PPi
(2) tRNA + Enzyme(aminoacyl-AMP) ---> aminoacyl-tRNA + AMP + Enzyme
In the first step, they form an aminoacyl-adenylate, in which the carboxyl
of the amino acid is linked to the alpha-phosphate of ATP, by displacing
the pyrophosphate. When the correct tRNA is bound, the aminoacyl group is
transferred to the 2'- or 3'-terminal OH of the tRNA at the expense of AMP
[1].
Based on structural and sequence comparisons, this group of at least 20
proteins (in prokaryotes there are approximately 20, but in eukaryotes
there are usually 2 forms for each amino acid; namely, the cytosolic and
mitochondrial forms) can be divided into two classes.
Class I AATRSs contain a characteristic Rossman fold and are mostly
monomeric. At the primary structure level, two highly-conserved motifs
are observed, `HIGH' and `KMSKS' [2,3]; these are associated with the ATP-
binding site.
Class II AATRSs share an anti-parallel beta-sheet formation, flanked by
alpha-helices [3], and are mostly dimeric or multimeric.
Further distinction between the two classes is evident when the reaction
mechanisms are investigated. In reactions catalysed by the class I AATRSs,
the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in
class II reactions, the 3'-hydroxyl site is preferred.
Arginyl-tRNA synthetase (EC 6.1.1.19) is specific to arginine and belongs to
class I.
TRNASYNTHARG is a 4-element fingerprint that provides a signature for the
arginyl-tRNA synthetase. The fingerprint was derived from an initial
alignment of 17 sequences: the motifs were drawn from conserved regions
mostly confined to the N-terminal portion of the alignment - motifs 1 and 2
hinge on the initial histidine in the conserved 'HIGH' region, spanning the
region encoded by PROSITE pattern AA_TRNA_LIGASE_I (PS00178). Two iterations
on OWL31.1 were required to reach convergence, at which point a true set
comprising 28 sequences was identified. Several partial matches were also
found, all of which are arginyl-tRNA synthetase fragments.
An update on SPTR37_9f identified a true set of 27 sequences, and 1
partial match.
|
| Summary Information | 27 codes involving 4 elements
0 codes involving 3 elements
1 codes involving 2 elements
|
| Composite Feature Index | |
| True Positives | O23246 O23247 O59147 O67068
O74781 O84460 SYRC_YEAST SYRM_YEAST
SYR_ARCFU SYR_BACSU SYR_BORBU SYR_BRELA
SYR_CAEEL SYR_CORGL SYR_CRILO SYR_ECOLI
SYR_HAEIN SYR_HELPY SYR_HUMAN SYR_METJA
SYR_METTH SYR_MYCGE SYR_MYCLE SYR_MYCPN
SYR_MYCTU SYR_SYNY3 SYR_TREPA |
| True Positive Partials | Codes involving 2 elements
Q18316 |
|
| Sequence Titles | O23246 ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O23247 ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O59147 629AA LONG HYPOTHETICAL ARGINYL-TRNA SYNTHETASE - PYROCOCCUS HORIKOSHII.
O67068 ARGINYL-TRNA SYNTHETASE - AQUIFEX AEOLICUS.
O74781 PUTATIVE ARGINYL-TRNA SYNTHETASE, CYTOPLASMIC - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
O84460 ARGINYL TRNA TRANSFERASE - CHLAMYDIA TRACHOMATIS.
SYRC_YEAST PROBABLE ARGINYL-TRNA SYNTHETASE, CYTOPLASMIC (EC 6.1.1.19) (ARGININE- -TRNA LIGASE) (ARGRS) - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
SYRM_YEAST ARGINYL-TRNA SYNTHETASE, MITOCHONDRIAL PRECURSOR (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
SYR_ARCFU ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - ARCHAEOGLOBUS FULGIDUS.
SYR_BACSU ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - BACILLUS SUBTILIS.
SYR_BORBU ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - BORRELIA BURGDORFERI (LYME DISEASE SPIROCHETE).
SYR_BRELA ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - BREVIBACTERIUM LACTOFERMENTUM.
SYR_CAEEL PROBABLE ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - CAENORHABDITIS ELEGANS.
SYR_CORGL POSSIBLE ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - CORYNEBACTERIUM GLUTAMICUM (BREVIBACTERIUM FLAVUM).
SYR_CRILO ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - CRICETULUS LONGICAUDATUS (LONG-TAILED HAMSTER) (CHINESE HAMSTER).
SYR_ECOLI ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - ESCHERICHIA COLI.
SYR_HAEIN ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - HAEMOPHILUS INFLUENZAE.
SYR_HELPY ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
SYR_HUMAN ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - HOMO SAPIENS (HUMAN).
SYR_METJA ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - METHANOCOCCUS JANNASCHII.
SYR_METTH ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - METHANOBACTERIUM THERMOAUTOTROPHICUM.
SYR_MYCGE ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - MYCOPLASMA GENITALIUM.
SYR_MYCLE ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - MYCOBACTERIUM LEPRAE.
SYR_MYCPN ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - MYCOPLASMA PNEUMONIAE.
SYR_MYCTU ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - MYCOBACTERIUM TUBERCULOSIS.
SYR_SYNY3 ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - SYNECHOCYSTIS SP. (STRAIN PCC 6803).
SYR_TREPA ARGINYL-TRNA SYNTHETASE (EC 6.1.1.19) (ARGININE--TRNA LIGASE) (ARGRS) - TREPONEMA PALLIDUM.
Q18316 SIMILAR TO ARGINYL-TRNA SYNTHETASE - CAENORHABDITIS ELEGANS.
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| Scan History | OWL31_1 2 100 NSINGLE
SPTR37_9f 2 30 NSINGLE
|
| Initial Motifs | Motif 1 width=16
Element Seqn Id St Int Rpt
RVQVEFVSANPTGDLH SYR_BACSU 124 124 -
QINLEFVSANPTGPIH SYR_MYCLE 122 122 -
KIILEHTSANPNGPLH SYR_METJA 116 116 -
RIMVEFSSPNTNKPLH A71277 124 124 -
KIILEFSSPNTNKPLH A70174 125 125 -
KVLIEWVSANPTGELH SYR_MYCPN 105 105 -
KIFLEFVSANPTGPLH SYR_HELPY 111 111 -
TIVVDYSAPNVAKEMH SYR_ECOLI 114 114 -
RIVVDFSSPNIAKEMH SYR_SYNY3 118 118 -
RVLVDFSSPNIAKEMH SYR_CAEEL 245 245 -
KVIVDFSSPNIAKEMH SYR_HUMAN 193 193 -
KVIVDFSSPNIAKEMH SYR_CRILO 194 194 -
KVVVEFSSPNIAKPFH SYRM_YEAST 180 180 -
TVVIDYSSPNVAKEMH SYR_HAEIN 114 114 -
KVNLEFVSANPTGPIH SYR_MYCTU 122 122 -
DVNLEFVSANPTGPIH SYR_BRELA 122 122 -
DVNLEFVSANPTGPIH SYR_CORGL 122 122 -
Motif 2 width=17
Element Seqn Id St Int Rpt
HVGHLRSTIIGESMSRL SYR_CRILO 209 -1 -
HVGHLRNDVIGESLSRI A70174 140 -1 -
HVGHLRNNAIGESLSRI A71277 139 -1 -
HVGHLRSTIIGDCLARV SYR_SYNY3 133 -1 -
HVGHLRSTIIGDSICRL SYR_CAEEL 260 -1 -
HVGHLRSTIIGESISRL SYR_HUMAN 208 -1 -
HAGHLRSTIIGGFLSNL SYRM_YEAST 195 -1 -
HVGHLRSTIIGDAVART SYR_HAEIN 129 -1 -
HIGGTRWAAVGDALGRL SYR_MYCTU 137 -1 -
HLGGTRWAAVGDSLGRV SYR_BRELA 137 -1 -
HLGGTRWAAVGDSLGRV SYR_CORGL 137 -1 -
HLGHARGAAVGDSLCNV SYR_BACSU 139 -1 -
HIGGTRWAAVGDALGRL SYR_MYCLE 137 -1 -
HIGHLRNAIIGDCLKRI SYR_METJA 131 -1 -
HVGHLRSTIIGDAAVRT SYR_ECOLI 129 -1 -
HIGHARGAVFGDSLAKI SYR_HELPY 126 -1 -
HLGHVRNAFFGHVLNNL SYR_MYCPN 120 -1 -
Motif 3 width=14
Element Seqn Id St Int Rpt
VLCEYYVNDMGSQI SYR_HELPY 150 7 -
TVREYWVNDYGQQA SYR_MYCPN 144 7 -
VLRLNHVGDWGTQF SYR_SYNY3 157 7 -
VLRVNHIGDWGTQF SYR_CAEEL 280 3 -
VLRLNHVGDWGTQF SYR_HUMAN 232 7 -
VFKVNIINDRGVHI A71277 163 7 -
VLRLNHVGDWGTQF SYR_CRILO 233 7 -
VTRMNYLGDWGRQF SYRM_YEAST 219 7 -
VIRANHVGDWGTQF SYR_HAEIN 153 7 -
ITKINLINDRGVHI A70174 164 7 -
VVREYYFNDHGAQI SYR_MYCTU 161 7 -
VTREYYFNDHGRQI SYR_BRELA 161 7 -
VTREYYFNDHGRQI SYR_CORGL 161 7 -
VSREYYINDAGNQI SYR_BACSU 163 7 -
VVREYYFNDHGAQV SYR_MYCLE 161 7 -
VETHYYVNDMGRQM SYR_METJA 155 7 -
VIRANHVGDWGTQF SYR_ECOLI 153 7 -
Motif 4 width=22
Element Seqn Id St Int Rpt
VVIKSDGKPAYIAGDLAYYLDK SYR_MYCLE 298 123 -
IIQKKDGGYLYTTTDIACAKYR SYR_ECOLI 303 136 -
VLIKEDKSYTYLAGDIVYHDEK SYR_HELPY 292 128 -
VLVRQDNRPSYFGTDVAYHLDK SYR_MYCPN 288 130 -
IVQKSDGGYNYATTDLAALNYR SYR_SYNY3 307 136 -
ALLRSDGTTMYITQDIGTAIFR A71277 312 135 -
VLIRSNGTSIYLTQDLGNIAVR A70174 319 141 -
TVVKSDGGFTYDTSDLAALKYR SYR_CAEEL 424 130 -
TIVKSDGGYTYDTSDLAAIKQR SYR_HUMAN 374 128 -
TIVKSDGGFTYDTSDLAAIKQR SYR_CRILO 375 128 -
VVQKSDGTTLYLTRDVGAAIER SYRM_YEAST 373 140 -
IVQKKDGGFLYTTTDIAAAKYR SYR_HAEIN 303 136 -
VVIKSDGKPAYIAGDLAYYLDK SYR_MYCTU 298 123 -
VVIKSDGDAAYIAGDIAYVADK SYR_BRELA 298 123 -
VVIKSDGDAAYIAGDIAYVADK SYR_CORGL 298 123 -
VLIKKDGTYTYLLPDIAYHKDK SYR_BACSU 306 129 -
VLARANGTSLYSTRDIAYHLDK SYR_METJA 304 135 -
|
| Final Motifs | Motif 1 width=16
Element Seqn Id St Int Rpt
RIVVDFSSPNIAKEMH SYR_SYNY3 118 118 -
RVLVDFSSPNIAKEMH SYR_CAEEL 245 245 -
KVIVDFSSPNIAKEMH SYR_HUMAN 193 193 -
KVIVDFSSPNIAKEMH SYR_CRILO 194 194 -
KVVVEFSSPNIAKPFH SYRM_YEAST 180 180 -
RAVVDFSSPNIAKEMH O23246 130 130 -
RAVVDFSSPNIAKEMH O23247 182 182 -
KVIIEFSSPNIAKPFH SYRC_YEAST 144 144 -
KVIIDFSSPNIAKDMH O84460 115 115 -
TVVIDYSSPNVAKEMH SYR_HAEIN 114 114 -
RVILEHTSANPNGPLH SYR_METTH 114 114 -
KVQLEYVSANPTGPLH O67068 113 113 -
KVNLEFVSANPTGPIH SYR_MYCTU 122 122 -
DVNLEFVSANPTGPIH SYR_BRELA 122 122 -
DVNLEFVSANPTGPIH SYR_CORGL 122 122 -
VAVIEFSSPNIAKPFH O74781 142 142 -
RVQVEFVSANPTGDLH SYR_BACSU 124 124 -
QINLEFVSANPTGPIH SYR_MYCLE 122 122 -
KIILEHTSANPNGPLH SYR_METJA 116 116 -
TIVVDYSAPNVAKEMH SYR_ECOLI 114 114 -
KIFLEFVSANPTGPLH SYR_HELPY 111 111 -
KVIVEHTSVNPTKPLH O59147 120 120 -
EILIEHTSANPDGPLH SYR_ARCFU 105 105 -
RIMVEFSSPNTNKPLH SYR_TREPA 124 124 -
KIILEFSSPNTNKPLH SYR_BORBU 125 125 -
KVLIEWVSANPTGELH SYR_MYCPN 105 105 -
KILIESVSANPTGRIH SYR_MYCGE 105 105 -
Motif 2 width=17
Element Seqn Id St Int Rpt
HVGHLRSTIIGDCLARV SYR_SYNY3 133 -1 -
HVGHLRSTIIGDSICRL SYR_CAEEL 260 -1 -
HVGHLRSTIIGESISRL SYR_HUMAN 208 -1 -
HVGHLRSTIIGESMSRL SYR_CRILO 209 -1 -
HAGHLRSTIIGGFLSNL SYRM_YEAST 195 -1 -
HVGHLRSTIIGDTLARM O23246 145 -1 -
HVGHLRSTIIGDTLARM O23247 197 -1 -
HAGHLRSTIIGGFLANL SYRC_YEAST 159 -1 -
HVGHLRSTIIGDCLARC O84460 130 -1 -
HVGHLRSTIIGDAVART SYR_HAEIN 129 -1 -
HIGHIRNAIIGDSLARI SYR_METTH 129 -1 -
HLGHGRGAVVGDTLARL O67068 128 -1 -
HIGGTRWAAVGDALGRL SYR_MYCTU 137 -1 -
HLGGTRWAAVGDSLGRV SYR_BRELA 137 -1 -
HLGGTRWAAVGDSLGRV SYR_CORGL 137 -1 -
HAGHLRSTIIGSFLANL O74781 157 -1 -
HLGHARGAAVGDSLCNV SYR_BACSU 139 -1 -
HIGGTRWAAVGDALGRL SYR_MYCLE 137 -1 -
HIGHLRNAIIGDCLKRI SYR_METJA 131 -1 -
HVGHLRSTIIGDAAVRT SYR_ECOLI 129 -1 -
HIGHARGAVFGDSLAKI SYR_HELPY 126 -1 -
HMGHARNAILGDVMARI O59147 135 -1 -
HIGHIRNSIIGDTIARI SYR_ARCFU 120 -1 -
HVGHLRNNAIGESLSRI SYR_TREPA 139 -1 -
HVGHLRNDVIGESLSRI SYR_BORBU 140 -1 -
HLGHVRNAFFGHVLNNL SYR_MYCPN 120 -1 -
HLGHVRIAFFGDVLNNL SYR_MYCGE 120 -1 -
Motif 3 width=14
Element Seqn Id St Int Rpt
VLRLNHVGDWGTQF SYR_SYNY3 157 7 -
VLRVNHIGDWGTQF SYR_CAEEL 280 3 -
VLRLNHVGDWGTQF SYR_HUMAN 232 7 -
VLRLNHVGDWGTQF SYR_CRILO 233 7 -
VTRMNYLGDWGRQF SYRM_YEAST 219 7 -
VLRRNHVGDWGTQF O23246 169 7 -
VLRRNHVGDWGTQF O23247 221 7 -
VIRMNYLGDWGKQF SYRC_YEAST 183 7 -
VLRLNHIGDWGTAF O84460 154 7 -
VIRANHVGDWGTQF SYR_HAEIN 153 7 -
VETQYYVNDMGRQI SYR_METTH 153 7 -
VTREYYINDAGRQV O67068 152 7 -
VVREYYFNDHGAQI SYR_MYCTU 161 7 -
VTREYYFNDHGRQI SYR_BRELA 161 7 -
VTREYYFNDHGRQI SYR_CORGL 161 7 -
VHRVNYLGDWGKQF O74781 181 7 -
VSREYYINDAGNQI SYR_BACSU 163 7 -
VVREYYFNDHGAQV SYR_MYCLE 161 7 -
VETHYYVNDMGRQM SYR_METJA 155 7 -
VIRANHVGDWGTQF SYR_ECOLI 153 7 -
VLCEYYVNDMGSQI SYR_HELPY 150 7 -
VEVQNYIDDLGIQF O59147 159 7 -
VKTHYYVNDMGRQT SYR_ARCFU 144 7 -
VFKVNIINDRGVHI SYR_TREPA 163 7 -
ITKINLINDRGVHI SYR_BORBU 164 7 -
TVREYWVNDYGQQA SYR_MYCPN 144 7 -
TVCEYWVNDYGQQA SYR_MYCGE 144 7 -
Motif 4 width=22
Element Seqn Id St Int Rpt
IVQKSDGGYNYATTDLAALNYR SYR_SYNY3 307 136 -
TVVKSDGGFTYDTSDLAALKYR SYR_CAEEL 424 130 -
TIVKSDGGYTYDTSDLAAIKQR SYR_HUMAN 374 128 -
TIVKSDGGFTYDTSDLAAIKQR SYR_CRILO 375 128 -
VVQKSDGTTLYLTRDVGAAIER SYRM_YEAST 373 140 -
IVVKSDGGFNYASTDLTALWYR O23246 312 129 -
MVVKSDGGFNYASTDLTALWYR O23247 364 129 -
IVQKSDGTTLYLTRDVGAAMDR SYRC_YEAST 337 140 -
MIQKSDGGYNYATTDVAAMRYR O84460 293 125 -
IVQKKDGGFLYTTTDIAAAKYR SYR_HAEIN 303 136 -
VLTRSDGTSLYSTRDIAYHLQK SYR_METTH 299 132 -
VVKRSDGTYTYFASDIAYHYNK O67068 330 164 -
VVIKSDGKPAYIAGDLAYYLDK SYR_MYCTU 298 123 -
VVIKSDGDAAYIAGDIAYVADK SYR_BRELA 298 123 -
VVIKSDGDAAYIAGDIAYVADK SYR_CORGL 298 123 -
IVQKRDGTTLYLTRDIGTAYKR O74781 349 154 -
VLIKKDGTYTYLLPDIAYHKDK SYR_BACSU 306 129 -
VVIKSDGKPAYIAGDLAYYLDK SYR_MYCLE 298 123 -
VLARANGTSLYSTRDIAYHLDK SYR_METJA 304 135 -
IIQKKDGGYLYTTTDIACAKYR SYR_ECOLI 303 136 -
VLIKEDKSYTYLAGDIVYHDEK SYR_HELPY 292 128 -
VLRRSDGTATYTGKDIAYHLWK O59147 321 148 -
VLRRENGTTLYITRDLAYHMWK SYR_ARCFU 285 127 -
ALLRSDGTTMYITQDIGTAIFR SYR_TREPA 312 135 -
VLIRSNGTSIYLTQDLGNIAVR SYR_BORBU 319 141 -
VLVRQDNRPSYFGTDVAYHLDK SYR_MYCPN 288 130 -
VLIRSDKRASYFGTDVAYHLEK SYR_MYCGE 288 130 -
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