Citrus Sinensis ID: 036777

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60------
Protein Sequence
METSKETTAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Secondary Structure (PSIPRED)
ccccccccccccccEEEEEEccccccccEEEccccEEEEEEEccEEcccccccccccEEEEEEEEc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEEEEccccccccccccccccEEEEEEccEEEEEEEcccccEEEEEEEEEc
Coil and Loop (DISEMBL)
metskettaaapkMDLIIYNSMTqqkelftpivpgkvgmyVCGVTAYDLSHLGHARAAISFYILYS
Flexible Loop (DISEMBL)
metskettaaapkmDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Low Complexity Region (SEG)
METSKETTAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Disordered region (IsUnstruct)
**************DLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY*
Disordered Region (DISOPRED)
****************IIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Disordered Region (DISEMBL)
*********AAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Disordered Region (DISPRO)
************KMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
METSKETTAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	66	2.2.26 [Sep-21-2011]
A1VDQ5	485	Cysteine--tRNA ligase OS=	yes	no	0.712	0.096	0.702	1e-15
Q72BQ5	485	Cysteine--tRNA ligase OS=	yes	no	0.712	0.096	0.702	1e-15
Q3A8C9	481	Cysteine--tRNA ligase OS=	yes	no	0.787	0.108	0.634	2e-14
Q6LT67	464	Cysteine--tRNA ligase 1 O	yes	no	0.772	0.109	0.625	3e-14
Q0HTK4	461	Cysteine--tRNA ligase OS=	yes	no	0.696	0.099	0.695	4e-14
Q0HH98	461	Cysteine--tRNA ligase OS=	yes	no	0.696	0.099	0.695	4e-14
A0KYM2	461	Cysteine--tRNA ligase OS=	yes	no	0.696	0.099	0.695	4e-14
C3LNF1	459	Cysteine--tRNA ligase OS=	yes	no	0.742	0.106	0.673	6e-14
Q9KQZ9	459	Cysteine--tRNA ligase OS=	yes	no	0.742	0.106	0.673	6e-14
A5F763	459	Cysteine--tRNA ligase OS=	yes	no	0.742	0.106	0.673	6e-14

>sp|A1VDQ5|SYC_DESVV Cysteine--tRNA ligase OS=Desulfovibrio vulgaris subsp. vulgaris (strain DP4) GN=cysS PE=3 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 33/47 (70%), Positives = 42/47 (89%)

Query: 18 IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          IYNS++++KELFTP VPGKV MYVCG+TAYDL H+GHAR+A+ F +L
Sbjct: 3  IYNSLSRRKELFTPAVPGKVNMYVCGITAYDLCHIGHARSAVVFDVL 49

Desulfovibrio vulgaris subsp. vulgaris (strain DP4) (taxid: 391774)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 6

>sp|Q72BQ5|SYC_DESVH Cysteine--tRNA ligase OS=Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303) GN=cysS PE=3 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 33/47 (70%), Positives = 42/47 (89%)

Query: 18 IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          IYNS++++KELFTP VPGKV MYVCG+TAYDL H+GHAR+A+ F +L
Sbjct: 3  IYNSLSRRKELFTPAVPGKVNMYVCGITAYDLCHIGHARSAVVFDVL 49

Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303) (taxid: 882)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|Q3A8C9|SYC_PELCD Cysteine--tRNA ligase OS=Pelobacter carbinolicus (strain DSM 2380 / Gra Bd 1) GN=cysS PE=3 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 33/52 (63%), Positives = 40/52 (76%)

Query: 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          M L +YN+MT +KE F P+ PGKVGMYVCGVT YD  H+GHARA + F I+Y
Sbjct: 1  MSLRVYNTMTGRKEEFEPLQPGKVGMYVCGVTVYDYCHIGHARANVVFDIIY 52

Pelobacter carbinolicus (strain DSM 2380 / Gra Bd 1) (taxid: 338963)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|Q6LT67|SYC1_PHOPR Cysteine--tRNA ligase 1 OS=Photobacterium profundum GN=cysS1 PE=3 SV=1

 Score = 77.4 bits (189), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 35/56 (62%), Positives = 41/56 (73%), Gaps = 5/56 (8%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF-----YILYS 66
          L IYNS+T+QKE F PI PGK+GMYVCGVT YDL H+GH R  +SF     Y+ YS
Sbjct: 2  LKIYNSLTKQKEEFKPIQPGKIGMYVCGVTIYDLCHIGHGRTFVSFDVVSRYLRYS 57

Photobacterium profundum (taxid: 74109)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|Q0HTK4|SYC_SHESR Cysteine--tRNA ligase OS=Shewanella sp. (strain MR-7) GN=cysS PE=3 SV=1

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 32/46 (69%), Positives = 37/46 (80%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
          L IYNS+T+QK+ F PI PGKVGMYVCGVT YDL H+GH R  +SF
Sbjct: 4  LKIYNSITRQKQEFKPITPGKVGMYVCGVTVYDLCHIGHGRTFVSF 49

Shewanella sp. (strain MR-7) (taxid: 60481)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|Q0HH98|SYC_SHESM Cysteine--tRNA ligase OS=Shewanella sp. (strain MR-4) GN=cysS PE=3 SV=1

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 32/46 (69%), Positives = 37/46 (80%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
          L IYNS+T+QK+ F PI PGKVGMYVCGVT YDL H+GH R  +SF
Sbjct: 4  LKIYNSITRQKQEFKPITPGKVGMYVCGVTVYDLCHIGHGRTFVSF 49

Shewanella sp. (strain MR-4) (taxid: 60480)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|A0KYM2|SYC_SHESA Cysteine--tRNA ligase OS=Shewanella sp. (strain ANA-3) GN=cysS PE=3 SV=1

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 32/46 (69%), Positives = 37/46 (80%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
          L IYNS+T+QK+ F PI PGKVGMYVCGVT YDL H+GH R  +SF
Sbjct: 4  LKIYNSITRQKQEFKPITPGKVGMYVCGVTVYDLCHIGHGRTFVSF 49

Shewanella sp. (strain ANA-3) (taxid: 94122)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|C3LNF1|SYC_VIBCM Cysteine--tRNA ligase OS=Vibrio cholerae serotype O1 (strain M66-2) GN=cysS PE=3 SV=1

 Score = 76.3 bits (186), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 33/49 (67%), Positives = 39/49 (79%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          L IYNS+T+QKE F PIV GKVGMYVCGVT YDL H+GH R  +SF ++
Sbjct: 2  LKIYNSLTRQKEEFKPIVAGKVGMYVCGVTIYDLCHIGHGRTFVSFDVV 50

Vibrio cholerae serotype O1 (strain M66-2) (taxid: 579112)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|Q9KQZ9|SYC_VIBCH Cysteine--tRNA ligase OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=cysS PE=3 SV=1

 Score = 76.3 bits (186), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 33/49 (67%), Positives = 39/49 (79%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          L IYNS+T+QKE F PIV GKVGMYVCGVT YDL H+GH R  +SF ++
Sbjct: 2  LKIYNSLTRQKEEFKPIVAGKVGMYVCGVTIYDLCHIGHGRTFVSFDVV 50

Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) (taxid: 243277)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

>sp|A5F763|SYC_VIBC3 Cysteine--tRNA ligase OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Ogawa 395 / O395) GN=cysS PE=3 SV=1

 Score = 76.3 bits (186), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 33/49 (67%), Positives = 39/49 (79%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          L IYNS+T+QKE F PIV GKVGMYVCGVT YDL H+GH R  +SF ++
Sbjct: 2  LKIYNSLTRQKEEFKPIVAGKVGMYVCGVTIYDLCHIGHGRTFVSFDVV 50

Vibrio cholerae serotype O1 (strain ATCC 39541 / Ogawa 395 / O395) (taxid: 345073)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 6

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	66
297801734	511	tRNA synthetase class I (C) family prote	0.833	0.107	0.690	1e-17
9758060	500	cysteine-tRNA ligase [Arabidopsis thalia	0.833	0.11	0.690	1e-17
15241557	511	cysteinyl-tRNA synthetase [Arabidopsis t	0.833	0.107	0.690	1e-17
359475690	513	PREDICTED: cysteinyl-tRNA synthetase-lik	0.833	0.107	0.709	2e-16
359475775	106	PREDICTED: LOW QUALITY PROTEIN: cysteiny	0.833	0.518	0.709	3e-16
388517933	96	unknown [Lotus japonicus]	0.863	0.593	0.666	3e-16
297816954	485	predicted protein [Arabidopsis lyrata su	0.803	0.109	0.698	4e-16
356536300	548	PREDICTED: cysteinyl-tRNA synthetase-lik	0.727	0.087	0.812	6e-16
359496172	513	PREDICTED: cysteinyl-tRNA synthetase-lik	0.833	0.107	0.690	9e-16
356575566	553	PREDICTED: cysteinyl-tRNA synthetase-lik	0.848	0.101	0.696	1e-15

>gi|297801734|ref|XP_002868751.1| tRNA synthetase class I (C) family protein [Arabidopsis lyrata subsp. lyrata] gi|297314587|gb|EFH45010.1| tRNA synthetase class I (C) family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 38/55 (69%), Positives = 48/55 (87%)

Query: 11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A KM+L +YN+MTQQKE+  PI PGK+G+YVCG+TAYD SH+GHARAA+SF +LY
Sbjct: 3  AEKMELKLYNTMTQQKEVLIPITPGKIGLYVCGITAYDFSHIGHARAAVSFDVLY 57

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9758060|dbj|BAB08639.1| cysteine-tRNA ligase [Arabidopsis thaliana]

 Score = 93.6 bits (231), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 38/55 (69%), Positives = 48/55 (87%)

Query: 11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A KM+L +YN+MTQQKE+  PI PGK+G+YVCG+TAYD SH+GHARAA+SF +LY
Sbjct: 3  AEKMELKLYNTMTQQKEVLIPITPGKIGLYVCGITAYDFSHIGHARAAVSFDVLY 57

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15241557|ref|NP_198699.1| cysteinyl-tRNA synthetase [Arabidopsis thaliana] gi|192807340|gb|ACF06122.1| At5g38830 [Arabidopsis thaliana] gi|332006981|gb|AED94364.1| cysteinyl-tRNA synthetase [Arabidopsis thaliana]

 Score = 93.6 bits (231), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 38/55 (69%), Positives = 48/55 (87%)

Query: 11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A KM+L +YN+MTQQKE+  PI PGK+G+YVCG+TAYD SH+GHARAA+SF +LY
Sbjct: 3  AEKMELKLYNTMTQQKEVLIPITPGKIGLYVCGITAYDFSHIGHARAAVSFDVLY 57

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475690|ref|XP_003631732.1| PREDICTED: cysteinyl-tRNA synthetase-like [Vitis vinifera] gi|296087508|emb|CBI34097.3| unnamed protein product [Vitis vinifera]

 Score = 90.1 bits (222), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 39/55 (70%), Positives = 46/55 (83%)

Query: 11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A   +L +YN+MTQQKE+F P+V GKV MYVCGVTAYDLSHLGHARAA+ F +LY
Sbjct: 2  AETTELRVYNTMTQQKEIFKPVVDGKVSMYVCGVTAYDLSHLGHARAAVCFDVLY 56

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475775|ref|XP_002265714.2| PREDICTED: LOW QUALITY PROTEIN: cysteinyl-tRNA synthetase-like [Vitis vinifera]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 39/55 (70%), Positives = 46/55 (83%)

Query: 11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A   +L +YN+MTQQKE+F P+V GKV MYVCGVTAYDLSHLGHARAA+ F +LY
Sbjct: 2  AETTELRVYNTMTQQKEIFKPVVDGKVSMYVCGVTAYDLSHLGHARAAVCFDVLY 56

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388517933|gb|AFK47028.1| unknown [Lotus japonicus]

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 38/57 (66%), Positives = 46/57 (80%)

Query: 9  AAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          AA  +++  +YNSMT +KE+F P VPGK  MYVCGVTAYD SHLGHARAA+SF IL+
Sbjct: 2  AAEEQIEFRVYNSMTHEKEIFKPKVPGKASMYVCGVTAYDFSHLGHARAAVSFDILF 58

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297816954|ref|XP_002876360.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297322198|gb|EFH52619.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 37/53 (69%), Positives = 46/53 (86%)

Query: 13 KMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          K +L +YN+MTQ KE+F PI PGK+GMYVCG+TAYD SH+GHARAA+SF +LY
Sbjct: 5  KPELTLYNTMTQLKEVFKPINPGKIGMYVCGITAYDYSHIGHARAAVSFDLLY 57

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536300|ref|XP_003536677.1| PREDICTED: cysteinyl-tRNA synthetase-like [Glycine max]

 Score = 88.2 bits (217), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 39/48 (81%), Positives = 42/48 (87%)

Query: 18 IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          IYNSMTQQKE+F   VPGKV MYVCGVTAYD SHLGHARAA+SF IL+
Sbjct: 10 IYNSMTQQKEIFKTKVPGKVSMYVCGVTAYDFSHLGHARAAVSFDILF 57

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496172|ref|XP_002262997.2| PREDICTED: cysteinyl-tRNA synthetase-like [Vitis vinifera] gi|297735988|emb|CBI23962.3| unnamed protein product [Vitis vinifera]

 Score = 87.4 bits (215), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 38/55 (69%), Positives = 45/55 (81%)

Query: 11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A   +L +YN+MTQQKE+  P+V GKV MYVCGVTAYDLSHLGH RAA+SF +LY
Sbjct: 2  AEMTELRVYNTMTQQKEILKPVVDGKVSMYVCGVTAYDLSHLGHGRAAVSFDVLY 56

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575566|ref|XP_003555910.1| PREDICTED: cysteinyl-tRNA synthetase-like [Glycine max]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 39/56 (69%), Positives = 45/56 (80%)

Query: 10 AAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          A  + +  IYNSM+QQKE+F   VPGKV MYVCGVTAYD SHLGHARAA+SF IL+
Sbjct: 2  AEEQAEFRIYNSMSQQKEIFKTKVPGKVSMYVCGVTAYDFSHLGHARAAVSFDILF 57

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	66
TAIR|locus:2152237	511	AT5G38830 "AT5G38830" [Arabido	0.833	0.107	0.690	1.4e-17
TAIR|locus:2078406	489	AT3G56300 "AT3G56300" [Arabido	0.803	0.108	0.660	8.8e-16
UNIPROTKB|Q9KQZ9	459	cysS "Cysteine--tRNA ligase" [	0.742	0.106	0.673	6.6e-13
TIGR_CMR|VC_1848	459	VC_1848 "cysteinyl-tRNA synthe	0.742	0.106	0.673	6.6e-13
TAIR|locus:2042521	563	SYCO ARATH "cysteinyl t-RNA sy	0.757	0.088	0.64	7.6e-13
TIGR_CMR|SO_1791	459	SO_1791 "cysteinyl-tRNA synthe	0.696	0.100	0.695	1.4e-12
UNIPROTKB|Q0IZQ2	569	Os09g0556500 "Os09g0556500 pro	0.772	0.089	0.615	5.6e-12
TIGR_CMR|CPS_3792	469	CPS_3792 "cysteinyl-tRNA synth	0.696	0.098	0.652	1.8e-11
UNIPROTKB|P21888	461	cysS [Escherichia coli K-12 (t	0.742	0.106	0.551	1.3e-10
TIGR_CMR|CBU_1487	460	CBU_1487 "cysteinyl-tRNA synth	0.727	0.104	0.562	5.6e-10

TAIR|locus:2152237 AT5G38830 "AT5G38830" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 1.4e-17, P = 1.4e-17
 Identities = 38/55 (69%), Positives = 48/55 (87%)

Query:    11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
             A KM+L +YN+MTQQKE+  PI PGK+G+YVCG+TAYD SH+GHARAA+SF +LY
Sbjct:     3 AEKMELKLYNTMTQQKEVLIPITPGKIGLYVCGITAYDFSHIGHARAAVSFDVLY 57

GO:0004817 "cysteine-tRNA ligase activity" evidence=IEA;ISS;IBA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0005739 "mitochondrion" evidence=IBA

GO:0005829 "cytosol" evidence=IDA;IBA

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=IEA;ISS;IBA

GO:0009507 "chloroplast" evidence=IBA

GO:0046686 "response to cadmium ion" evidence=IEP

TAIR|locus:2078406 AT3G56300 "AT3G56300" [Arabidopsis thaliana (taxid:3702)]

 Score = 205 (77.2 bits), Expect = 8.8e-16, P = 8.8e-16
 Identities = 35/53 (66%), Positives = 46/53 (86%)

Query:    13 KMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
             K DL +YN+MTQ KE++ P+ PGK+G+YVCG+TAYD SH+GHARAA+SF +LY
Sbjct:     8 KPDLTLYNTMTQLKEVYKPMNPGKIGIYVCGITAYDYSHIGHARAAVSFDLLY 60

GO:0004817 "cysteine-tRNA ligase activity" evidence=IEA;ISS;IBA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0005739 "mitochondrion" evidence=IBA

GO:0005829 "cytosol" evidence=IBA

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=IEA;ISS;IBA

GO:0009507 "chloroplast" evidence=IBA

UNIPROTKB|Q9KQZ9 cysS "Cysteine--tRNA ligase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 178 (67.7 bits), Expect = 6.6e-13, P = 6.6e-13
 Identities = 33/49 (67%), Positives = 39/49 (79%)

Query:    16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
             L IYNS+T+QKE F PIV GKVGMYVCGVT YDL H+GH R  +SF ++
Sbjct:     2 LKIYNSLTRQKEEFKPIVAGKVGMYVCGVTIYDLCHIGHGRTFVSFDVV 50

GO:0004817 "cysteine-tRNA ligase activity" evidence=ISS

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=ISS

TIGR_CMR|VC_1848 VC_1848 "cysteinyl-tRNA synthetase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 178 (67.7 bits), Expect = 6.6e-13, P = 6.6e-13
 Identities = 33/49 (67%), Positives = 39/49 (79%)

Query:    16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
             L IYNS+T+QKE F PIV GKVGMYVCGVT YDL H+GH R  +SF ++
Sbjct:     2 LKIYNSLTRQKEEFKPIVAGKVGMYVCGVTIYDLCHIGHGRTFVSFDVV 50

GO:0004817 "cysteine-tRNA ligase activity" evidence=ISS

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=ISS

TAIR|locus:2042521 SYCO ARATH "cysteinyl t-RNA synthetase" [Arabidopsis thaliana (taxid:3702)]

 Score = 179 (68.1 bits), Expect = 7.6e-13, P = 7.6e-13
 Identities = 32/50 (64%), Positives = 43/50 (86%)

Query:    15 DLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
             +L ++N+M+++KELF P V GKVGMYVCGVTAYDLSH+GHAR  ++F +L
Sbjct:    64 ELWLHNTMSRKKELFKPKVEGKVGMYVCGVTAYDLSHIGHARVYVTFDVL 113

GO:0000166 "nucleotide binding" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0004817 "cysteine-tRNA ligase activity" evidence=IEA;ISS;IBA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM;IEA

GO:0005829 "cytosol" evidence=IBA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=IEA;ISS;IBA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0005739 "mitochondrion" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0010197 "polar nucleus fusion" evidence=IMP

GO:0042407 "cristae formation" evidence=IMP

GO:0043067 "regulation of programmed cell death" evidence=IMP

GO:0009658 "chloroplast organization" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TIGR_CMR|SO_1791 SO_1791 "cysteinyl-tRNA synthetase" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 175 (66.7 bits), Expect = 1.4e-12, P = 1.4e-12
 Identities = 32/46 (69%), Positives = 37/46 (80%)

Query:    16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
             L IYNS+T+QK+ F PI PGKVGMYVCGVT YDL H+GH R  +SF
Sbjct:     2 LKIYNSITRQKQEFKPINPGKVGMYVCGVTVYDLCHIGHGRTFVSF 47

GO:0004817 "cysteine-tRNA ligase activity" evidence=ISS

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=ISS

UNIPROTKB|Q0IZQ2 Os09g0556500 "Os09g0556500 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 171 (65.3 bits), Expect = 5.6e-12, P = 5.6e-12
 Identities = 32/52 (61%), Positives = 43/52 (82%)

Query:    15 DLIIYNSMTQQKELFTPIVPG-KVGMYVCGVTAYDLSHLGHARAAISFYILY 65
             +L +YN+ +++KELF P VPG +VGMYVCGVT YD SH+GHARA ++F +LY
Sbjct:    71 ELHLYNTKSRRKELFQPRVPGGEVGMYVCGVTPYDDSHIGHARAYVAFDVLY 122

GO:0004817 "cysteine-tRNA ligase activity" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISS

TIGR_CMR|CPS_3792 CPS_3792 "cysteinyl-tRNA synthetase" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 165 (63.1 bits), Expect = 1.8e-11, P = 1.8e-11
 Identities = 30/46 (65%), Positives = 36/46 (78%)

Query:    16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
             L IYN++++QKE FTPI  GKVG+YVCG T YDL H+GH R  ISF
Sbjct:     2 LQIYNTLSRQKETFTPINAGKVGLYVCGCTVYDLCHIGHGRTYISF 47

GO:0004817 "cysteine-tRNA ligase activity" evidence=ISS

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=ISS

UNIPROTKB|P21888 cysS [Escherichia coli K-12 (taxid:83333)]

 Score = 157 (60.3 bits), Expect = 1.3e-10, P = 1.3e-10
 Identities = 27/49 (55%), Positives = 38/49 (77%)

Query:    16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
             L I+N++T+QKE F PI  G+VGMYVCG+T YDL H+GH R  ++F ++
Sbjct:     2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVV 50

GO:0008270 "zinc ion binding" evidence=IDA;IPI

GO:0046872 "metal ion binding" evidence=IEA;IPI

GO:0005524 "ATP binding" evidence=IEA;IPI

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IDA

GO:0016874 "ligase activity" evidence=IDA

GO:0004817 "cysteine-tRNA ligase activity" evidence=IEA;IDA

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=IEA;IDA

GO:0005829 "cytosol" evidence=IBA

GO:0006412 "translation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

TIGR_CMR|CBU_1487 CBU_1487 "cysteinyl-tRNA synthetase" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 151 (58.2 bits), Expect = 5.6e-10, P = 5.6e-10
 Identities = 27/48 (56%), Positives = 36/48 (75%)

Query:    14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
             M + I+NS+T+QKE+F PI  GKV +YVCG+T YD  H+GH R+ I F
Sbjct:     1 MSVKIFNSLTKQKEIFKPIESGKVKLYVCGMTVYDYMHIGHGRSWIIF 48

GO:0004817 "cysteine-tRNA ligase activity" evidence=ISS

GO:0006423 "cysteinyl-tRNA aminoacylation" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q72BQ5	SYC_DESVH	6, ., 1, ., 1, ., 1, 6	0.7021	0.7121	0.0969	yes	no
A1VDQ5	SYC_DESVV	6, ., 1, ., 1, ., 1, 6	0.7021	0.7121	0.0969	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh2_kg.7__3525__AT5G38830.1	annotation not avaliable (511 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
	fgenesh2_kg.8__2416__AT5G64050.1	annotation not avaliable (570 aa)	•						•		0.892
	fgenesh2_kg.6__3223__AT4G04350.1	At4g04350-like protein (972 aa)							•		0.785
	fgenesh1_pm.C_scaffold_2000068	annotation not avaliable (231 aa)	•						•		0.747
	scaffold_602894.1	annotation not avaliable (434 aa)			•				•		0.722
	Al_scaffold_0005_156	annotation not avaliable (300 aa)	•						•		0.702
	fgenesh2_kg.6__2713__AT5G27470.1	annotation not avaliable (451 aa)			•				•		0.697
	fgenesh1_pm.C_scaffold_1002832	annotation not avaliable (441 aa)			•				•		0.689
	Al_scaffold_0004_707	annotation not avaliable (411 aa)							•		0.680
	fgenesh2_kg.8__1136__AT5G52520.1	annotation not avaliable (542 aa)							•		0.670
	fgenesh2_kg.3__208__AT3G02660.1	annotation not avaliable (511 aa)	•						•		0.667

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	66
PRK00260	463	PRK00260, cysS, cysteinyl-tRNA synthetase; Validat	1e-26
PLN02946	557	PLN02946, PLN02946, cysteine-tRNA ligase	3e-24
COG0215	464	COG0215, CysS, Cysteinyl-tRNA synthetase [Translat	5e-22
cd00672	213	cd00672, CysRS_core, catalytic core domain of cyst	4e-21
TIGR00435	464	TIGR00435, cysS, cysteinyl-tRNA synthetase	6e-21
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	2e-15
pfam01406	301	pfam01406, tRNA-synt_1e, tRNA synthetases class I	6e-15
PRK14535	699	PRK14535, cysS, cysteinyl-tRNA synthetase; Provisi	1e-14
PRK14536	490	PRK14536, cysS, cysteinyl-tRNA synthetase; Provisi	4e-12
TIGR03447	411	TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosi	1e-09
PRK12418	384	PRK12418, PRK12418, cysteinyl-tRNA synthetase; Pro	3e-08

>gnl|CDD|234705 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated

 Score = 99.4 bits (249), Expect = 1e-26
 Identities = 30/52 (57%), Positives = 39/52 (75%)

Query: 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          M L IYN++T+QKE F P+ PGKV MYVCG T YD +H+GHAR+ + F +L 
Sbjct: 1  MMLKIYNTLTRQKEEFKPLEPGKVKMYVCGPTVYDYAHIGHARSFVVFDVLR 52

Length = 463

>gnl|CDD|178532 PLN02946, PLN02946, cysteine-tRNA ligase

 Score = 92.7 bits (230), Expect = 3e-24
 Identities = 35/58 (60%), Positives = 46/58 (79%)

Query: 8   TAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
             A+   +L +YN+M+++KELF P V GKVGMYVCGVTAYDLSH+GHAR  ++F +LY
Sbjct: 52  APASRGRELHLYNTMSRKKELFKPKVEGKVGMYVCGVTAYDLSHIGHARVYVTFDVLY 109

Length = 557

>gnl|CDD|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

 Score = 86.5 bits (215), Expect = 5e-22
 Identities = 28/48 (58%), Positives = 36/48 (75%)

Query: 18 IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          +YN++T+QKE F PI PGKV MYVCG T YD +H+GHAR  + F +L 
Sbjct: 4  LYNTLTRQKEEFVPIDPGKVKMYVCGPTVYDYAHIGHARTYVVFDVLR 51

Length = 464

>gnl|CDD|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA synthetase

 Score = 81.1 bits (201), Expect = 4e-21
 Identities = 26/48 (54%), Positives = 35/48 (72%)

Query: 18 IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          +YN++T+QKE F P+ PG V MYVCG T YD +H+GHAR  + F +L 
Sbjct: 2  LYNTLTRQKEEFVPLNPGLVTMYVCGPTVYDYAHIGHARTYVVFDVLR 49

Cysteinyl tRNA synthetase (CysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Length = 213

>gnl|CDD|232974 TIGR00435, cysS, cysteinyl-tRNA synthetase

 Score = 83.6 bits (207), Expect = 6e-21
 Identities = 30/49 (61%), Positives = 37/49 (75%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          L +YN++T+QKE F P+V GKV MYVCG T YD  H+GHAR AI F +L
Sbjct: 1  LKLYNTLTRQKEEFEPLVQGKVKMYVCGPTVYDYCHIGHARTAIVFDVL 49

This model finds the cysteinyl-tRNA synthetase from most but not from all species. The enzyme from one archaeal species, Archaeoglobus fulgidus, is found but the equivalent enzymes from some other Archaea, including Methanococcus jannaschii, are not found, although biochemical evidence suggests that tRNA(Cys) in these species are charged directly with Cys rather than through a misacylation and correction pathway as for tRNA(Gln) [Protein synthesis, tRNA aminoacylation]. Length = 464

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 68.1 bits (167), Expect = 2e-15
 Identities = 23/51 (45%), Positives = 29/51 (56%)

Query: 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
            L + NS+T  K  F P    +V  Y CG T YD SHLGHAR  ++F I+
Sbjct: 38 TGLKVNNSLTGGKVEFVPQNGRQVRWYTCGPTVYDSSHLGHARTYVTFDII 88

Length = 651

>gnl|CDD|216482 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic domain

 Score = 66.2 bits (162), Expect = 6e-15
 Identities = 22/36 (61%), Positives = 28/36 (77%)

Query: 29 FTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          F P+  GKV MYVCG T YD SH+GHAR+A++F +L
Sbjct: 2  FVPLHQGKVNMYVCGPTVYDDSHIGHARSAVAFDVL 37

This family includes only cysteinyl tRNA synthetases. Length = 301

>gnl|CDD|173001 PRK14535, cysS, cysteinyl-tRNA synthetase; Provisional

 Score = 65.9 bits (160), Expect = 1e-14
 Identities = 27/44 (61%), Positives = 32/44 (72%)

Query: 18  IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
           IYN++T+QKE F PI P  V MYVCG+T YD  HLGHAR  + F
Sbjct: 230 IYNTLTRQKEPFAPIDPENVRMYVCGMTVYDYCHLGHARVMVVF 273

Length = 699

>gnl|CDD|184731 PRK14536, cysS, cysteinyl-tRNA synthetase; Provisional

 Score = 58.8 bits (142), Expect = 4e-12
 Identities = 19/44 (43%), Positives = 29/44 (65%)

Query: 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARA 57
          M L +YN++ +Q+E F PI  G V +Y CG T Y+ +H+G+ R 
Sbjct: 1  MALRLYNTLGRQQEEFQPIEHGHVRLYGCGPTVYNYAHIGNLRT 44

Length = 490

>gnl|CDD|132488 TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase

 Score = 51.6 bits (124), Expect = 1e-09
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 2/51 (3%)

Query: 15 DLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
           L ++++   Q     P    + GMYVCG+T YD +HLGHA   ++F ++ 
Sbjct: 17 PLRLFDTADGQVRPVEP--GPEAGMYVCGITPYDATHLGHAATYLTFDLVN 65

Members of this protein family are MshC, l-cysteine:1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an enzyme that uses ATP to ligate a Cys residue to a mycothiol precursor molecule, in the second to last step in mycothiol biosynthesis. This enzyme shows considerable homology to Cys--tRNA ligases, and many instances are misannotated as such. Mycothiol is found in Mycobacterium tuberculosis, Corynebacterium glutamicum, Streptomyces coelicolor, and various other members of the Actinobacteria. Mycothiol is an analog to glutathione [Biosynthesis of cofactors, prosthetic groups, and carriers, Glutathione and analogs]. Length = 411

>gnl|CDD|183518 PRK12418, PRK12418, cysteinyl-tRNA synthetase; Provisional

 Score = 47.6 bits (114), Expect = 3e-08
 Identities = 17/32 (53%), Positives = 22/32 (68%), Gaps = 1/32 (3%)

Query: 31 PIVPG-KVGMYVCGVTAYDLSHLGHARAAISF 61
          P+ PG    MYVCG+T YD +HLGHA   ++F
Sbjct: 3  PVAPGGTATMYVCGITPYDATHLGHAATYLAF 34

Length = 384

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	66
KOG2007	586	consensus Cysteinyl-tRNA synthetase [Translation,	99.95
COG0215	464	CysS Cysteinyl-tRNA synthetase [Translation, ribos	99.94
PTZ00399	651	cysteinyl-tRNA-synthetase; Provisional	99.93
PLN02946	557	cysteine-tRNA ligase	99.93
PRK14536	490	cysS cysteinyl-tRNA synthetase; Provisional	99.92
PRK14535	699	cysS cysteinyl-tRNA synthetase; Provisional	99.91
PRK14534	481	cysS cysteinyl-tRNA synthetase; Provisional	99.91
TIGR03447	411	mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-	99.9
TIGR00435	465	cysS cysteinyl-tRNA synthetase. This model finds t	99.87
PRK00260	463	cysS cysteinyl-tRNA synthetase; Validated	99.87
cd00672	213	CysRS_core catalytic core domain of cysteinyl tRNA	99.83
PF01406	300	tRNA-synt_1e: tRNA synthetases class I (C) catalyt	99.77
PRK12418	384	cysteinyl-tRNA synthetase; Provisional	99.63
cd00802	143	class_I_aaRS_core catalytic core domain of class I	98.38
PRK01611	507	argS arginyl-tRNA synthetase; Reviewed	98.23
PRK11893	511	methionyl-tRNA synthetase; Reviewed	98.09
TIGR00456	566	argS arginyl-tRNA synthetase. This model recognize	98.05
cd00671	212	ArgRS_core catalytic core domain of arginyl-tRNA s	97.76
cd09287	240	GluRS_non_core catalytic core domain of non-discri	97.58
cd00668	312	Ile_Leu_Val_MetRS_core catalytic core domain of is	97.55
PRK12268	556	methionyl-tRNA synthetase; Reviewed	97.53
cd00818	338	IleRS_core catalytic core domain of isoleucyl-tRNA	97.5
cd00814	319	MetRS_core catalytic core domain of methioninyl-tR	97.45
TIGR00398	530	metG methionyl-tRNA synthetase. The methionyl-tRNA	97.41
PRK04156	567	gltX glutamyl-tRNA synthetase; Provisional	97.22
PRK12267	648	methionyl-tRNA synthetase; Reviewed	97.06
PRK00133	673	metG methionyl-tRNA synthetase; Reviewed	96.85
cd00812	314	LeuRS_core catalytic core domain of leucyl-tRNA sy	96.83
cd00674	353	LysRS_core_class_I catalytic core domain of class	96.82
cd00817	382	ValRS_core catalytic core domain of valyl-tRNA syn	96.77
PLN02224	616	methionine-tRNA ligase	96.24
PRK00390	805	leuS leucyl-tRNA synthetase; Validated	96.16
PRK00750	510	lysK lysyl-tRNA synthetase; Reviewed	96.07
TIGR00396	842	leuS_bact leucyl-tRNA synthetase, eubacterial and	95.62
PRK13208	800	valS valyl-tRNA synthetase; Reviewed	94.35
COG0143	558	MetG Methionyl-tRNA synthetase [Translation, ribos	93.51
PF09334	391	tRNA-synt_1g: tRNA synthetases class I (M); InterP	92.48
PLN02610	801	probable methionyl-tRNA synthetase	90.3
TIGR00395	938	leuS_arch leucyl-tRNA synthetase, archaeal and cyt	89.76
PLN02563	963	aminoacyl-tRNA ligase	89.28
TIGR00422	861	valS valyl-tRNA synthetase. The valyl-tRNA synthet	88.33
TIGR00463	560	gltX_arch glutamyl-tRNA synthetase, archaeal and e	88.08
TIGR00467	515	lysS_arch lysyl-tRNA synthetase, archaeal and spir	87.75
PLN02943	958	aminoacyl-tRNA ligase	86.85
PTZ00419	995	valyl-tRNA synthetase-like protein; Provisional	86.4
TIGR00392	861	ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA	86.39
PLN02381	1066	valyl-tRNA synthetase	86.39
PRK14900	1052	valS valyl-tRNA synthetase; Provisional	85.71
COG0495	814	LeuS Leucyl-tRNA synthetase [Translation, ribosoma	85.39
PRK05729	874	valS valyl-tRNA synthetase; Reviewed	84.56
PLN02959	1084	aminoacyl-tRNA ligase	84.19
PLN02882	1159	aminoacyl-tRNA ligase	83.51
PRK05743	912	ileS isoleucyl-tRNA synthetase; Reviewed	83.25
KOG2804	348	consensus Phosphorylcholine transferase/cholinepho	82.1
PRK06039	975	ileS isoleucyl-tRNA synthetase; Reviewed	82.01
PTZ00427	1205	isoleucine-tRNA ligase, putative; Provisional	81.97
PRK13804	961	ileS isoleucyl-tRNA synthetase; Provisional	81.89
PLN02843	974	isoleucyl-tRNA synthetase	80.91

>KOG2007 consensus Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=99.95  E-value=1.6e-29  Score=194.54  Aligned_cols=63  Identities=46%  Similarity=0.716  Sum_probs=60.4

Q ss_pred             cccccc-cCCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777            4 SKETTA-AAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus         4 ~~~~~~-~~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+|..| +|.+++|+||||+||+||+|.|.++++|+||+|||||||.+||||||+||.||||+|
T Consensus        22 ~~w~~p~~~~~~~L~lYNslTr~Ke~fip~~~~~v~wY~CGpTvYD~SHmGHArsYVsfDIlrR   85 (586)
T KOG2007|consen   22 PHWDQPNAGQPTELKLYNSLTRQKEVFIPNNGNKVTWYICGPTVYDSSHMGHARSYVSFDILRR   85 (586)
T ss_pred             cccCCCCCCCCCeEEEeeccccccceeeeCCCCeEEEEEecCcccchhhhhhhhhhhhHHHHHH
Confidence            578888 888899999999999999999999999999999999999999999999999999997

>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=99.94  E-value=2.1e-28  Score=185.99  Aligned_cols=52  Identities=56%  Similarity=0.961  Sum_probs=50.6

Q ss_pred             ceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           15 DLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        15 ~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|+||||+||+||+|.|.++++|+||+|||||||++||||||+||+||+|+|
T Consensus         1 ~l~iyNTltr~ke~F~P~~~~~V~mYvCGpTVYd~~HIGhaRt~V~fDvl~R   52 (464)
T COG0215           1 MLKLYNTLTRQKEEFVPIDPGKVKMYVCGPTVYDYAHIGHARTYVVFDVLRR   52 (464)
T ss_pred             CcEEEecCccceecccCCCCCeEEEEecCCccCCccccccCcceehHHHHHH
Confidence            4899999999999999999999999999999999999999999999999987

>PTZ00399 cysteinyl-tRNA-synthetase; Provisional

Probab=99.93  E-value=1e-27  Score=186.70  Aligned_cols=62  Identities=37%  Similarity=0.515  Sum_probs=57.2

Q ss_pred             ccccccC---CCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777            5 KETTAAA---PKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus         5 ~~~~~~~---~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|..|..   ..++|+|||||||+||+|.|.+++.|+||+|||||||.+||||||+||+||+|+|
T Consensus        26 ~w~~p~~~~~~~~~l~lyNtlt~~k~~f~p~~~~~v~~Y~CGPTvYd~~HiGhart~v~~Dil~R   90 (651)
T PTZ00399         26 EWKKPSKEGKYLTGLKVNNSLTGGKVEFVPQNGRQVRWYTCGPTVYDSSHLGHARTYVTFDIIRR   90 (651)
T ss_pred             CCCCCCccCCCCCceEEEECCCCCccccccCCCCeeEEEEeCCCccCCcccccchHHHHHHHHHH
Confidence            5777764   2378999999999999999999999999999999999999999999999999987

>PLN02946 cysteine-tRNA ligase

Probab=99.93  E-value=3.4e-27  Score=182.02  Aligned_cols=59  Identities=59%  Similarity=1.053  Sum_probs=56.0

Q ss_pred             cccCCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777            8 TAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus         8 ~~~~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|.+..|+|+||||+||+||+|.|.++++|+||+|||||||.+||||+|+||+||+|+|
T Consensus        52 ~~~~~~~~l~lyNTltr~ke~f~P~~~~~v~~Y~CGpTvYd~~HIGhaR~~V~~Dvl~R  110 (557)
T PLN02946         52 APASRGRELHLYNTMSRKKELFKPKVEGKVGMYVCGVTAYDLSHIGHARVYVTFDVLYR  110 (557)
T ss_pred             CcCCCCCceEEEECCCCCeeccccCCCCceeEEEeCCccCCCCccccchhhHHHHHHHH
Confidence            45667789999999999999999999999999999999999999999999999999987

>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional

Probab=99.92  E-value=7.2e-27  Score=177.89  Aligned_cols=53  Identities=38%  Similarity=0.673  Sum_probs=51.3

Q ss_pred             cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |+|+||||+||+||+|.|+++++|+||+|||||||++||||+|+||+||+|+|
T Consensus         1 m~l~lyntlt~~ke~f~p~~~~~v~mYvCGpTvy~~~HiGhar~~v~~Dvl~R   53 (490)
T PRK14536          1 MALRLYNTLGRQQEEFQPIEHGHVRLYGCGPTVYNYAHIGNLRTYVFQDTLRR   53 (490)
T ss_pred             CceEEEecCCCCeeccccCCCCceEEEeeCCccCCCcccchhHHHHHHHHHHH
Confidence            46999999999999999999999999999999999999999999999999987

>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional

Probab=99.91  E-value=8.9e-26  Score=177.70  Aligned_cols=53  Identities=51%  Similarity=0.872  Sum_probs=51.5

Q ss_pred             cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      ++|+||||+||++|+|.|++++.|+||+|||||||++||||||+||+||+|+|
T Consensus       226 ~~l~lyNTltr~ke~f~P~~~~~V~mYvCGPTVYd~~HIGHaRt~V~~DVL~R  278 (699)
T PRK14535        226 PMTTIYNTLTRQKEPFAPIDPENVRMYVCGMTVYDYCHLGHARVMVVFDMIAR  278 (699)
T ss_pred             CceEEEECCCCCeeccccCCCCceEEEecCCcCCCCCcccchhHHHHHHHHHH
Confidence            56999999999999999999999999999999999999999999999999987

>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional

Probab=99.91  E-value=1e-25  Score=171.53  Aligned_cols=51  Identities=31%  Similarity=0.523  Sum_probs=48.8

Q ss_pred             cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |+|+||||+||++|+|+|.  ++|+||+|||||||++||||+|+||+||+|+|
T Consensus         1 ~~l~lynTltr~ke~f~p~--~~v~mY~CGpTVYd~~HiGh~r~~v~~Dvl~R   51 (481)
T PRK14534          1 MLLKLYNTKTKDLSELKNF--SDVKVYACGPTVYNYAHIGNFRTYIFEDLLIK   51 (481)
T ss_pred             CceEEEEcCCCCeeecccC--CceEEEeCCCCCCCCCCccchhHHHHHHHHHH
Confidence            5799999999999999995  79999999999999999999999999999987

>TIGR03447 mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase

Probab=99.90  E-value=3e-25  Score=166.43  Aligned_cols=56  Identities=32%  Similarity=0.625  Sum_probs=53.1

Q ss_pred             ccCCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777            9 AAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus         9 ~~~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +++.+++|+||||+||+||+|+|  +++|+||+||||||+.+||||+|+||++|+|+|
T Consensus        11 ~~~~~~~l~lyntlt~~~~~f~p--~~~v~~YvCGpTvY~~~HIGhart~V~~Dvl~R   66 (411)
T TIGR03447        11 LPGTGPPLRLFDTADGQVRPVEP--GPEAGMYVCGITPYDATHLGHAATYLTFDLVNR   66 (411)
T ss_pred             CCCCCCceEEEECCCCCeeeccC--CCcceEEEeCCccCCCcccccchHHHHHHHHHH
Confidence            45677899999999999999999  789999999999999999999999999999987

Members of this protein family are MshC, l-cysteine:1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an enzyme that uses ATP to ligate a Cys residue to a mycothiol precursor molecule, in the second to last step in mycothiol biosynthesis. This enzyme shows considerable homology to Cys--tRNA ligases, and many instances are misannotated as such. Mycothiol is found in Mycobacterium tuberculosis, Corynebacterium glutamicum, Streptomyces coelicolor, and various other members of the Actinobacteria. Mycothiol is an analog to glutathione.

>TIGR00435 cysS cysteinyl-tRNA synthetase

Probab=99.87  E-value=6.2e-24  Score=159.72  Aligned_cols=51  Identities=59%  Similarity=1.010  Sum_probs=49.8

Q ss_pred             eEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        16 l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |+||||+||+||+|.|.++++|+||+||||||+++||||+|+||++|+++|
T Consensus         1 l~lyntlt~~~e~f~p~~~~~v~~yvcgptvy~~~HiGhar~~v~~Dvl~R   51 (465)
T TIGR00435         1 LKLYNTLTRQKEEFEPLVQGKVKMYVCGPTVYDYCHIGHARTAIVFDVLRR   51 (465)
T ss_pred             CeeEeCCCCCeeccccCCCCcceEEEecCccCCCcccccchHHHHHHHHHH
Confidence            689999999999999999999999999999999999999999999999987

This model finds the cysteinyl-tRNA synthetase from most but not from all species. The enzyme from one archaeal species, Archaeoglobus fulgidus, is found but the equivalent enzymes from some other Archaea, including Methanococcus jannaschii, are not found, although biochemical evidence suggests that tRNA(Cys) in these species are charged directly with Cys rather than through a misacylation and correction pathway as for tRNA(Gln).

>PRK00260 cysS cysteinyl-tRNA synthetase; Validated

Probab=99.87  E-value=1.3e-23  Score=157.49  Aligned_cols=53  Identities=57%  Similarity=0.979  Sum_probs=51.4

Q ss_pred             cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |.|+||||+||++|+|.|.+++.++||+||||||+.+||||+|+||.+|+|+|
T Consensus         1 ~~l~~~ntl~~~~~~f~p~~~~~v~~yvcgPtvy~~~HiGHar~~v~~Dvl~R   53 (463)
T PRK00260          1 MMLKIYNTLTRQKEEFKPLEPGKVKMYVCGPTVYDYAHIGHARSFVVFDVLRR   53 (463)
T ss_pred             CceEEEECCCCceeecccCCCCcceEEEeCCccCCCcccccchhHHHHHHHHH
Confidence            57999999999999999999999999999999999999999999999999987

>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase

Probab=99.83  E-value=3.4e-22  Score=138.15  Aligned_cols=50  Identities=52%  Similarity=0.952  Sum_probs=48.5

Q ss_pred             EEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           17 IIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        17 ~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +||||+||++++|+|..++++++|+||||||+.+||||+|+||.+|+++|
T Consensus         1 ~~~~t~~~~~~~~~p~~~~~~~~y~~gpt~y~~~HiGH~r~~v~~Dvl~R   50 (213)
T cd00672           1 RLYNTLTRQKEEFVPLNPGLVTMYVCGPTVYDYAHIGHARTYVVFDVLRR   50 (213)
T ss_pred             CcccCCCCceeeeecCCCCCceEEEeCCccCCCcccccchhHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999987

Cysteinyl tRNA synthetase (CysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.

>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 The aminoacyl-tRNA synthetases (6

Probab=99.77  E-value=4.5e-21  Score=139.72  Aligned_cols=38  Identities=55%  Similarity=1.048  Sum_probs=32.4

Q ss_pred             eeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           29 FTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        29 f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |+|+++++|+||+|||||||++||||||+||+||+|+|
T Consensus         1 F~p~~~~~v~~Y~CGPTVYd~~HiGhaR~~v~~D~l~R   38 (300)
T PF01406_consen    1 FKPLNPGKVRMYVCGPTVYDYAHIGHARTYVFFDVLRR   38 (300)
T ss_dssp             ---SCTTEEEEEEEEEBTTS--BHHHHHHHHHHHHHHH
T ss_pred             CcCCCCCeEEEEcCCCCCCCCCCCcceeeeeeHHHHHH
Confidence            78999999999999999999999999999999999987

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.

>PRK12418 cysteinyl-tRNA synthetase; Provisional

Probab=99.63  E-value=2e-17  Score=123.28  Aligned_cols=37  Identities=46%  Similarity=0.991  Sum_probs=34.8

Q ss_pred             eecCCC-eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           30 TPIVPG-KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        30 ~p~~~~-~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|+.|| +|+||+||||||+++||||+|+||+||+|+|
T Consensus         2 ~p~~~~~~v~~YvCGpTvY~~~HIGh~r~~V~~Dvl~R   39 (384)
T PRK12418          2 RPVAPGGTATMYVCGITPYDATHLGHAATYLAFDLVNR   39 (384)
T ss_pred             cCCCCCCeeEEEecCCCCCCCCccchhHHHHHHHHHHH
Confidence            467778 9999999999999999999999999999987

>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase

Probab=98.38  E-value=1.3e-08  Score=65.09  Aligned_cols=28  Identities=29%  Similarity=0.516  Sum_probs=26.4

Q ss_pred             eEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           39 MYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        39 ~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +|.|||++.+..||||+|+++..|+++|
T Consensus         1 ~~~~~p~~~~~~HlGh~~~~~~~d~~~r   28 (143)
T cd00802           1 TTFSGITPNGYLHIGHLRTIVTFDFLAQ   28 (143)
T ss_pred             CEecCCCCCCCccHhHHHHHHHHHHHHH
Confidence            5899999999999999999999999876

Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.

>PRK01611 argS arginyl-tRNA synthetase; Reviewed

Probab=98.23  E-value=1.3e-07  Score=71.87  Aligned_cols=34  Identities=24%  Similarity=0.132  Sum_probs=31.7

Q ss_pred             CCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           33 VPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        33 ~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+++|.+|.|||+++...||||+|+++..|+|.|
T Consensus       109 ~~~~v~Ie~~spnp~g~lHiGH~R~~iigD~laR  142 (507)
T PRK01611        109 KGKKVVVEYVSANPTGPLHVGHLRSAVIGDALAR  142 (507)
T ss_pred             CCCEEEEEecCCCCCCCCcCCchHHHHHHHHHHH
Confidence            4578999999999999999999999999999876

>PRK11893 methionyl-tRNA synthetase; Reviewed

Probab=98.09  E-value=2.4e-07  Score=69.09  Aligned_cols=30  Identities=17%  Similarity=0.114  Sum_probs=27.7

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-+.+++|||++.+||||+|+||.+|+++|
T Consensus         3 ~~i~~~~P~~~g~~HiGh~~~~~~~Dv~~R   32 (511)
T PRK11893          3 FYITTPIYYPNGKPHIGHAYTTLAADVLAR   32 (511)
T ss_pred             EEEecCCCCCCCCcccchhHHHHHHHHHHH
Confidence            457789999999999999999999999987

>TIGR00456 argS arginyl-tRNA synthetase

Probab=98.05  E-value=2.7e-07  Score=71.12  Aligned_cols=42  Identities=26%  Similarity=0.174  Sum_probs=34.4

Q ss_pred             ceEEeeecC--CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           25 QKELFTPIV--PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        25 ~ke~f~p~~--~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.+.|-+..  +.+|.++.|+|+++.+.||||+|+++..|+|+|
T Consensus       100 ~~~~~g~~~~~~~~v~ve~~spn~~~~~hiGh~r~~~~gd~l~r  143 (566)
T TIGR00456       100 QKEDYGSKKLKNKKIIIEFSSANPAGPLHIGHLRNAIIGDSLAR  143 (566)
T ss_pred             cccccCCCCCCCCeEEEEecCCCCCCCCchhhhHHHHHHHHHHH
Confidence            344554333  348999999999999999999999999999876

This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.

>cd00671 ArgRS_core catalytic core domain of arginyl-tRNA synthetases

Probab=97.76  E-value=1.6e-06  Score=59.20  Aligned_cols=26  Identities=27%  Similarity=0.197  Sum_probs=24.3

Q ss_pred             EeCCccCCCCCCCccceEEEEEeeeC
Q 036777           41 VCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .++|++.+.+||||+|++|.+|+|+|
T Consensus         6 ~~spN~~~~~HiGH~R~~vigD~l~R   31 (212)
T cd00671           6 FVSANPTGPLHVGHLRNAIIGDSLAR   31 (212)
T ss_pred             ecCCCCCCCccccccHHHHHHHHHHH
Confidence            57899999999999999999999986

Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine.

>cd09287 GluRS_non_core catalytic core domain of non-discriminating glutamyl-tRNA synthetase

Probab=97.58  E-value=2.5e-06  Score=60.82  Aligned_cols=26  Identities=35%  Similarity=0.201  Sum_probs=23.9

Q ss_pred             EeCCccCCCCCCCccceEEEEEeeeC
Q 036777           41 VCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -||||++.+.||||+|+++++++++|
T Consensus         5 RfaPsPtG~lHiG~~rtal~~~l~Ar   30 (240)
T cd09287           5 RFAPNPNGPLHLGHARAAILNGEYAK   30 (240)
T ss_pred             eCCCCCCCCccHHHHHHHHHHHHHHH
Confidence            59999999999999999999988765

Non-discriminating Glutamyl-tRNA synthetase (GluRS) cataytic core domain. These enzymes attach Glu to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.

>cd00668 Ile_Leu_Val_MetRS_core catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases

Probab=97.55  E-value=3.9e-06  Score=59.72  Aligned_cols=29  Identities=24%  Similarity=0.063  Sum_probs=25.8

Q ss_pred             eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -+..-.|||++.+||||+|+++.+|+++|
T Consensus         3 ~i~~~pP~~~g~~HiGH~~~~i~~D~i~R   31 (312)
T cd00668           3 YVTTPPPYANGSLHLGHALTHIIADFIAR   31 (312)
T ss_pred             EEecCCCCCCCCcchhHHHHHHHHHHHHH
Confidence            35567899999999999999999999986

Catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. These class I enzymes are all monomers. However, in some species, MetRS functions as a homodimer, as a result of an additional C-terminal domain. These enzymes aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Enzymes in this subfamily share an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids. MetRS has a significantly shorter insertion, which lacks the editing function.

>PRK12268 methionyl-tRNA synthetase; Reviewed

Probab=97.53  E-value=1.2e-05  Score=61.06  Aligned_cols=28  Identities=18%  Similarity=0.282  Sum_probs=23.3

Q ss_pred             eEEeCC--ccCCCCCCCccceE-EEEEeeeC
Q 036777           39 MYVCGV--TAYDLSHLGHARAA-ISFYILYS   66 (66)
Q Consensus        39 ~Y~CGP--TvYd~~HiGhaR~~-V~~Dvl~R   66 (66)
                      +|+|.|  +|++.+||||++++ |.+|+++|
T Consensus         5 ~~i~~~~py~ng~~HiGH~~~~~~~~D~~~R   35 (556)
T PRK12268          5 ILITSAWPYANGPLHLGHLAGSGLPADVFAR   35 (556)
T ss_pred             EEEecCCCCCCCCccccccccchhHHHHHHH
Confidence            566665  45599999999998 99999987

>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases

Probab=97.50  E-value=4.5e-06  Score=60.65  Aligned_cols=27  Identities=30%  Similarity=0.153  Sum_probs=24.0

Q ss_pred             EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           40 YVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -.--|||++.+||||+|+++.+|+++|
T Consensus         6 ~~~pP~vnG~lHiGHa~~~~~~Dvl~R   32 (338)
T cd00818           6 HDGPPYANGLPHYGHALNKILKDIINR   32 (338)
T ss_pred             ecCCCCCCCCchHHHHHHHHHHHHHHH
Confidence            344689999999999999999999987

Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.

>cd00814 MetRS_core catalytic core domain of methioninyl-tRNA synthetases

Probab=97.45  E-value=9.5e-06  Score=58.20  Aligned_cols=27  Identities=15%  Similarity=0.135  Sum_probs=24.1

Q ss_pred             EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           40 YVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      =+..|+|++.+||||+|+++.+|+++|
T Consensus         5 t~~~Py~ng~~HlGH~~~~~~~Dv~~R   31 (319)
T cd00814           5 TTALPYVNGVPHLGHLYGTVLADVFAR   31 (319)
T ss_pred             EeCCCCCCCCcchhhHHHHHHHHHHHH
Confidence            356788899999999999999999987

Methionine tRNA synthetase (MetRS) catalytic core domain. This class I enzyme aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. MetRS, which consists of the core domain and an anti-codon binding domain, functions as a monomer. However, in some species the anti-codon binding domain is followed by an EMAP domain. In this case, MetRS functions as a homodimer. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. As a result of a deletion event, MetRS has a significantly shorter core domain insertion than IleRS, ValRS, and LeuR. Consequently, the MetRS insertion lacks the editing function.

>TIGR00398 metG methionyl-tRNA synthetase

Probab=97.41  E-value=1e-05  Score=61.20  Aligned_cols=27  Identities=26%  Similarity=0.148  Sum_probs=24.8

Q ss_pred             EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           40 YVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      =+..|++.+.+||||+|+||.+|+|+|
T Consensus         4 t~~~P~~ng~lHiGH~~~~~~aDvl~R   30 (530)
T TIGR00398         4 TTALPYANGKPHLGHAYTTILADVYAR   30 (530)
T ss_pred             ecCCCCCCCCcccchhHHHHHHHHHHH
Confidence            357899999999999999999999987

The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model appears to recognize the methionyl-tRNA synthetase of every species, including eukaryotic cytosolic and mitochondrial forms. The UPGMA difference tree calculated after search and alignment according to this model shows an unusual deep split between two families of MetG. One family contains forms from the Archaea, yeast cytosol, spirochetes, and E. coli, among others. The other family includes forms from yeast mitochondrion, Synechocystis sp., Bacillus subtilis, the Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori. The E. coli enzyme is homodimeric, although monomeric forms can be prepared that are fully active. Activity of this enzyme in bacteria includes aminoacylation of fMet-tRNA with Met; subsequent formylation of the Met to fMet is catalyzed by a separate enzyme. Note that the protein from Aquifex aeolicus is split into an alpha (large) and beta (sma

>PRK04156 gltX glutamyl-tRNA synthetase; Provisional

Probab=97.22  E-value=2.6e-05  Score=61.32  Aligned_cols=32  Identities=41%  Similarity=0.314  Sum_probs=28.1

Q ss_pred             CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           34 PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +|+|.++ |+|+++.+.||||||++++.+.++|
T Consensus        99 ~g~V~tR-FaPsPtG~LHIGharaalln~~~Ar  130 (567)
T PRK04156         99 KGKVVMR-FAPNPSGPLHLGHARAAILNDEYAK  130 (567)
T ss_pred             CCeEEEE-eCCCCCCCccHHHHHHHHHHHHHHH
Confidence            5679998 9999999999999999988776654

>PRK12267 methionyl-tRNA synthetase; Reviewed

Probab=97.06  E-value=5.8e-05  Score=58.85  Aligned_cols=29  Identities=28%  Similarity=0.408  Sum_probs=25.4

Q ss_pred             eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+|++-|-.|  +.+||||+|+|+.+|+++|
T Consensus         5 ~~~it~~~py~ng~~HiGH~~~~~~aDv~~R   35 (648)
T PRK12267          5 TFYITTPIYYPNGKPHIGHAYTTIAADALAR   35 (648)
T ss_pred             CEEEeeCCCCCCCCcccccchHHHHHHHHHH
Confidence            4677777777  9999999999999999987

>PRK00133 metG methionyl-tRNA synthetase; Reviewed

Probab=96.85  E-value=7.5e-05  Score=58.68  Aligned_cols=23  Identities=30%  Similarity=0.170  Sum_probs=21.6

Q ss_pred             CccCCCCCCCccceEEEEEeeeC
Q 036777           44 VTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        44 PTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |++.+.+||||+|+|+.+|+++|
T Consensus        11 py~ng~~HiGH~~~~l~aDv~aR   33 (673)
T PRK00133         11 PYANGPIHLGHLVEYIQADIWVR   33 (673)
T ss_pred             CCCCCcccccchHHHHHHHHHHH
Confidence            48999999999999999999987

>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases

Probab=96.83  E-value=7.9e-05  Score=53.53  Aligned_cols=26  Identities=23%  Similarity=0.084  Sum_probs=23.1

Q ss_pred             EeCCccCCCCCCCccceEEEEEeeeC
Q 036777           41 VCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +-=|++.+.+||||+|++|..|+++|
T Consensus         6 ~~~Py~ng~~HiGH~~~~v~~Dv~~R   31 (314)
T cd00812           6 VMFPYPSGALHVGHVRTYTIGDIIAR   31 (314)
T ss_pred             cCCCCCCCCccccchHHHHHHHHHHH
Confidence            34589999999999999999999987

Leucyl tRNA synthetase (LeuRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. In Aquifex aeolicus, the gene encoding LeuRS is split in two, just before the KMSKS motif. Consequently, LeuRS is a heterodimer, which likely superimposes with the LeuRS monomer found in most other organisms. LeuRS has an insertion in the core domain, which is subject to both deletions and rearrangements and thus differs between prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.

>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase

Probab=96.82  E-value=0.00012  Score=54.58  Aligned_cols=29  Identities=17%  Similarity=0.282  Sum_probs=25.9

Q ss_pred             eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -+..+|++++..+||||+|.++..|+++|
T Consensus        21 ~~v~tgi~psG~~HIG~~~e~i~~D~i~R   49 (353)
T cd00674          21 YVVASGISPSGHIHIGNFREVITADLVAR   49 (353)
T ss_pred             EEEecCCCCCCCcccCccHHHHHHHHHHH
Confidence            34567999999999999999999999876

Class I lysyl tRNA synthetase (LysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The class I LysRS is found only in archaea and some bacteria and has evolved separately from class II LysRS, as the two do not share structural or sequence similarity.

>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases

Probab=96.77  E-value=5.8e-05  Score=55.70  Aligned_cols=27  Identities=19%  Similarity=0.038  Sum_probs=24.0

Q ss_pred             EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           40 YVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -+--|+|.+.+||||+++++..|+++|
T Consensus         6 ~~~pPy~nG~lHiGH~~~~~~~Dv~~R   32 (382)
T cd00817           6 DTPPPNVTGSLHMGHALNNTIQDIIAR   32 (382)
T ss_pred             ecCCCCCCCcchHHHHHHHHHHHHHHH
Confidence            344589999999999999999999987

Valine amino-acyl tRNA synthetase (ValRS) catalytic core domain. This enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. ValRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.

>PLN02224 methionine-tRNA ligase

Probab=96.24  E-value=0.00078  Score=53.25  Aligned_cols=45  Identities=11%  Similarity=0.096  Sum_probs=31.0

Q ss_pred             CCCceEEeeecC--CCe-----eeeEEeC-CccCCCCCCCccceEEEEEeeeC
Q 036777           22 MTQQKELFTPIV--PGK-----VGMYVCG-VTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        22 ltr~ke~f~p~~--~~~-----v~~Y~CG-PTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -+++++.|.|..  +++     .-+-+++ |+|-+.+||||+++++..|++.|
T Consensus        48 ~~~~~~~~~~~~~~~~~~~~~~~~~ittp~pY~NG~~HiGHa~~~~~aDviaR  100 (616)
T PLN02224         48 SSGKRALYCTSSSQESTVDEADTFVLTTPLYYVNAPPHMGSAYTTIAADSIAR  100 (616)
T ss_pred             ccccceeeccCCCcccCCCCCCeEEEeCCCCCCCCCCchhccHHHHHHHHHHH
Confidence            445666776632  122     2233344 48889999999999999999987

>PRK00390 leuS leucyl-tRNA synthetase; Validated

Probab=96.16  E-value=0.00055  Score=55.11  Aligned_cols=29  Identities=24%  Similarity=0.305  Sum_probs=26.1

Q ss_pred             eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.|+|.+.+|  ...||||+++|+..|++.|
T Consensus        33 ~~~i~~~pPy~nG~lHiGH~~~~~~~Dii~R   63 (805)
T PRK00390         33 KYYVLDMFPYPSGGLHMGHVRNYTIGDVIAR   63 (805)
T ss_pred             CEEEEccCCCCCCCcchhhhHHHHHHHHHHH
Confidence            6888887777  9999999999999999987

>PRK00750 lysK lysyl-tRNA synthetase; Reviewed

Probab=96.07  E-value=0.0012  Score=50.91  Aligned_cols=29  Identities=17%  Similarity=0.251  Sum_probs=27.0

Q ss_pred             eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -+..||+++...+||||+|.++..|+++|
T Consensus        25 ~~~~~g~~psG~~HiG~~~e~~~~d~v~r   53 (510)
T PRK00750         25 VVVETGIGPSGLPHIGNFREVARTDMVRR   53 (510)
T ss_pred             EEEEeCCCCCCCcccccccchhhHHHHHH
Confidence            67899999999999999999999999876

>TIGR00396 leuS_bact leucyl-tRNA synthetase, eubacterial and mitochondrial family

Probab=95.62  E-value=0.0015  Score=53.07  Aligned_cols=32  Identities=25%  Similarity=0.372  Sum_probs=27.1

Q ss_pred             CeeeeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           35 GKVGMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        35 ~~v~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      ++-+.|++.+.+|  ...||||+++|+..|++.|
T Consensus        27 ~k~k~~v~~~pPy~nG~lHiGH~~~~~~~Dvi~R   60 (842)
T TIGR00396        27 NKPKYYILDMFPYPSGALHMGHVRNYTITDVLSR   60 (842)
T ss_pred             CCCCEEEEcCCCCCCCccccchhHHHHHHHHHHH
Confidence            4556888876666  8999999999999999987

The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both eubacterial and mitochondrial leucyl-tRNA synthetases. It generates higher scores for some valyl-tRNA synthetases than for any archaeal or eukaryotic cytosolic leucyl-tRNA synthetase. Note that the enzyme from Aquifex aeolicus is split into alpha and beta chains; neither chain is long enough to score above the trusted cutoff, but the alpha chain scores well above the noise cutoff. The beta chain must be found by a model and search designed for partial length matches.

>PRK13208 valS valyl-tRNA synthetase; Reviewed

Probab=94.35  E-value=0.0046  Score=49.53  Aligned_cols=31  Identities=13%  Similarity=0.005  Sum_probs=27.3

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.-+..-.|++....||||+++++..|++.|
T Consensus        39 ~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~R   69 (800)
T PRK13208         39 VYSIDTPPPTVSGSLHIGHVFSYTHTDFIAR   69 (800)
T ss_pred             cEEEecCcCCCCCCccHHHHHhHHHHHHHHH
Confidence            4566677899999999999999999999876

>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=93.51  E-value=0.0065  Score=47.95  Aligned_cols=24  Identities=17%  Similarity=0.092  Sum_probs=22.0

Q ss_pred             CCccCCCCCCCccceEEEEEeeeC
Q 036777           43 GVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        43 GPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      =|.+-+.+||||+.++|..|+++|
T Consensus        13 lpY~Ng~~HlGH~~~~l~ADv~aR   36 (558)
T COG0143          13 LPYPNGPPHLGHLYTYLAADVYAR   36 (558)
T ss_pred             CCCCCCCcchhhHHHHHHHHHHHH
Confidence            468889999999999999999987

>PF09334 tRNA-synt_1g: tRNA synthetases class I (M); InterPro: IPR015413 The aminoacyl-tRNA synthetases (6

Probab=92.48  E-value=0.0034  Score=46.84  Aligned_cols=24  Identities=21%  Similarity=0.084  Sum_probs=20.7

Q ss_pred             CCccCCCCCCCccceEEEEEeeeC
Q 036777           43 GVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        43 GPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -|++-..+||||+.+|+..|+++|
T Consensus         7 ~pY~Ng~lHlGH~~~~l~ADv~aR   30 (391)
T PF09334_consen    7 IPYPNGDLHLGHLYPYLAADVLAR   30 (391)
T ss_dssp             EEETSSS-BHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCChhHHHHHHHHHHH
Confidence            468889999999999999999876

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found in methionyl and leucyl tRNA synthetases. ; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 2D5B_A 1A8H_A 1WOY_A 2D54_A 4DLP_A 2CT8_B 2CSX_A 1MED_A 1PFU_A 1PFW_A ....

>PLN02610 probable methionyl-tRNA synthetase

Probab=90.30  E-value=0.028  Score=45.81  Aligned_cols=25  Identities=16%  Similarity=0.179  Sum_probs=20.9

Q ss_pred             eCCccCCCCCCCccc-eEEEEEeeeC
Q 036777           42 CGVTAYDLSHLGHAR-AAISFYILYS   66 (66)
Q Consensus        42 CGPTvYd~~HiGhaR-~~V~~Dvl~R   66 (66)
                      -=|++-+.+||||+. +|+..|++.|
T Consensus        24 ~~pY~Ng~~HlGH~~~~~l~aDv~aR   49 (801)
T PLN02610         24 ALPYVNNVPHLGNIIGCVLSADVFAR   49 (801)
T ss_pred             CCCCCCCCcccchhhhhHHHHHHHHH
Confidence            346788899999999 5788999887

>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family

Probab=89.76  E-value=0.039  Score=45.39  Aligned_cols=30  Identities=13%  Similarity=-0.012  Sum_probs=24.6

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-+..-=|.+-...||||+++++..|++.|
T Consensus        27 f~i~~ppPy~nG~lH~GH~~~~~~~D~~aR   56 (938)
T TIGR00395        27 FFLTMAYPYLNGVMHAGHCRTFTIPEVSAR   56 (938)
T ss_pred             eEEecCCCCCCCCcccchhhhhhHHHHHHH
Confidence            345555677779999999999999999876

The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS.

>PLN02563 aminoacyl-tRNA ligase

Probab=89.28  E-value=0.046  Score=45.49  Aligned_cols=32  Identities=25%  Similarity=0.198  Sum_probs=23.9

Q ss_pred             CeeeeEE-eC-CccCCC-CCCCccceEEEEEeeeC
Q 036777           35 GKVGMYV-CG-VTAYDL-SHLGHARAAISFYILYS   66 (66)
Q Consensus        35 ~~v~~Y~-CG-PTvYd~-~HiGhaR~~V~~Dvl~R   66 (66)
                      ++-+.|+ +| |.+-.. .||||+++|+.-|++.|
T Consensus       108 ~k~k~~v~~~~PYpnG~~lHiGH~~~y~~~DviaR  142 (963)
T PLN02563        108 SKPKFYVLDMFPYPSGAGLHVGHPEGYTATDILAR  142 (963)
T ss_pred             CCCCEEEEeCCCCCCCcccchhhHHHHHHHHHHHH
Confidence            3445554 34 666665 89999999999999876

>TIGR00422 valS valyl-tRNA synthetase

Probab=88.33  E-value=0.062  Score=43.49  Aligned_cols=31  Identities=16%  Similarity=0.019  Sum_probs=26.9

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +..++.--|++-...||||+++++..|++.|
T Consensus        34 ~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~R   64 (861)
T TIGR00422        34 PFCIDIPPPNVTGSLHIGHALNWSIQDIIAR   64 (861)
T ss_pred             eEEEEeCCCCCCCCCcHHHhHHHHHHHHHHH
Confidence            4567777788889999999999999999876

The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.

>TIGR00463 gltX_arch glutamyl-tRNA synthetase, archaeal and eukaryotic family

Probab=88.08  E-value=0.03  Score=44.33  Aligned_cols=25  Identities=32%  Similarity=0.268  Sum_probs=20.5

Q ss_pred             EeCCccCCCCCCCccceEEEEEeee
Q 036777           41 VCGVTAYDLSHLGHARAAISFYILY   65 (66)
Q Consensus        41 ~CGPTvYd~~HiGhaR~~V~~Dvl~   65 (66)
                      -.-|++..+.||||||++++.+.++
T Consensus        97 RFaPsPtG~LHiGharaalln~~~A  121 (560)
T TIGR00463        97 RFAPNPSGPLHIGHARAAILNQYFA  121 (560)
T ss_pred             EeCCCCCCCccHHHHHHHHHHHHHH
Confidence            4579999999999999988766543

The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the eukaryotic cytosolic and archaeal forms of the enzyme. In some eukaryotes, the glutamyl-tRNA synthetase is part of a longer, multifunctional aminoacyl-tRNA ligase. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu).

>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete

Probab=87.75  E-value=0.097  Score=40.90  Aligned_cols=30  Identities=20%  Similarity=0.251  Sum_probs=26.4

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-+..+|.++-..+||||+|-.+..|+++|
T Consensus        19 ~~~~~tg~~psG~~HiG~~~e~~~~d~v~r   48 (515)
T TIGR00467        19 LYTVASGITPSGHIHIGNFREVITADAIAR   48 (515)
T ss_pred             eEEEecCCCCCCCccccchhhhhHHHHHHH
Confidence            356789999999999999999999988765

This model represents the lysyl-tRNA synthetases that are class I amino-acyl tRNA synthetases. It includes archaeal and spirochete examples of the enzyme. All other known examples are class IIc amino-acyl tRNA synthetases and seem to form a separate orthologous set.

>PLN02943 aminoacyl-tRNA ligase

Probab=86.85  E-value=0.054  Score=44.74  Aligned_cols=30  Identities=17%  Similarity=0.023  Sum_probs=26.1

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -.+...-|.|-...|||||++++.-|++.|
T Consensus        90 f~i~~pPP~~tG~lHiGHa~~~~~~D~~~R  119 (958)
T PLN02943         90 FVIPMPPPNVTGSLHMGHAMFVTLEDIMVR  119 (958)
T ss_pred             EEEecCCCCCCCchhHHHHHHHHHHHHHHH
Confidence            456666799999999999999999999876

>PTZ00419 valyl-tRNA synthetase-like protein; Provisional

Probab=86.40  E-value=0.095  Score=43.27  Aligned_cols=31  Identities=19%  Similarity=0.103  Sum_probs=26.7

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      ..-+...-|++-...||||+++++..|++.|
T Consensus        61 ~f~i~~ppP~~~G~lHiGHa~~~~~~D~~~R   91 (995)
T PTZ00419         61 KFVIVLPPPNVTGYLHIGHALTGAIQDSLIR   91 (995)
T ss_pred             eEEEEeCCCCCCCCCcHHHHHHHHHHHHHHH
Confidence            4566677788999999999999999999876

>TIGR00392 ileS isoleucyl-tRNA synthetase

Probab=86.39  E-value=0.045  Score=44.22  Aligned_cols=30  Identities=27%  Similarity=0.074  Sum_probs=24.0

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      --++.--|.+-...||||+++++.-|++.|
T Consensus        38 f~i~~~pPy~nG~lH~GH~~~~~~~D~~~R   67 (861)
T TIGR00392        38 FIFHDGPPYANGSIHLGHALNKILKDIILR   67 (861)
T ss_pred             eEEecCCCCCCCCccHHHHHHHHHHHHHHH
Confidence            344455567779999999999999999876

The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.

>PLN02381 valyl-tRNA synthetase

Probab=86.39  E-value=0.088  Score=44.13  Aligned_cols=30  Identities=17%  Similarity=0.064  Sum_probs=26.2

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-+...-|.+-...||||+++++.-|++.|
T Consensus       130 f~i~~ppPy~nG~lHiGHa~~~ti~Dii~R  159 (1066)
T PLN02381        130 FVIVLPPPNVTGALHIGHALTAAIEDTIIR  159 (1066)
T ss_pred             EEEEeCCCCCCCCccHHHHHHHHHHHHHHH
Confidence            566777788889999999999999999876

>PRK14900 valS valyl-tRNA synthetase; Provisional

Probab=85.71  E-value=0.092  Score=43.87  Aligned_cols=31  Identities=23%  Similarity=0.164  Sum_probs=27.1

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-.+...-|++-...||||+++++.-|++.|
T Consensus        49 ~f~i~~pPP~~nG~lHiGH~~~~~~~Di~~R   79 (1052)
T PRK14900         49 PFSIVLPPPNVTGSLHLGHALTATLQDVLIR   79 (1052)
T ss_pred             CEEEecCCCCCCCcchHHHHHhhHHHHHHHH
Confidence            3567777889999999999999999999876

>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=85.39  E-value=0.15  Score=42.19  Aligned_cols=29  Identities=24%  Similarity=0.312  Sum_probs=23.8

Q ss_pred             eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.|+.=+=+|  ...|+||.|+|..-|++.|
T Consensus        35 Kfyvl~mfPYpSG~LHvGH~r~Yti~Dv~aR   65 (814)
T COG0495          35 KFYVLVMFPYPSGALHVGHVRNYTIGDVIAR   65 (814)
T ss_pred             ceEEEeCCCCCCCCcccCccccccHHHHHHH
Confidence            7777666666  4589999999999999876

>PRK05729 valS valyl-tRNA synthetase; Reviewed

Probab=84.56  E-value=0.061  Score=43.73  Aligned_cols=30  Identities=20%  Similarity=0.148  Sum_probs=25.4

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      ..+...-|.|-...|||||.+++.-|++.|
T Consensus        38 f~i~~ppP~~~G~lHiGHa~~~~~~D~~~R   67 (874)
T PRK05729         38 FSIVIPPPNVTGSLHMGHALNNTLQDILIR   67 (874)
T ss_pred             EEEecCCCCCCCcchHHHHHHHHHHHHHHH
Confidence            455566788889999999999999999876

>PLN02959 aminoacyl-tRNA ligase

Probab=84.19  E-value=0.11  Score=43.63  Aligned_cols=29  Identities=21%  Similarity=0.111  Sum_probs=23.5

Q ss_pred             eeEEeC--CccCCCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCG--VTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CG--PTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      ..++.+  |.+-...||||+++++.-|++.|
T Consensus        46 kf~i~~ppPY~NG~lHiGHa~t~t~~D~i~R   76 (1084)
T PLN02959         46 KFFGNFPYPYMNGLLHLGHAFSLSKLEFAAA   76 (1084)
T ss_pred             cEEEeCCCCCCCCCcchhhHHHHHHHHHHHH
Confidence            344444  77888999999999999999876

>PLN02882 aminoacyl-tRNA ligase

Probab=83.51  E-value=0.1  Score=44.10  Aligned_cols=31  Identities=26%  Similarity=0.144  Sum_probs=27.4

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-.+|.--|++-..+|+||+++++.-|++.|
T Consensus        39 ~f~~~dgPPyanG~~HiGH~~~~~ikDii~R   69 (1159)
T PLN02882         39 EYIFYDGPPFATGLPHYGHILAGTIKDIVTR   69 (1159)
T ss_pred             CEEEeCCCCCCCCcchhhHHHHHHHHHHHHH
Confidence            3577888899999999999999999999876

>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed

Probab=83.25  E-value=0.095  Score=43.05  Aligned_cols=30  Identities=23%  Similarity=0.045  Sum_probs=24.4

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-+..--|.+-...|||||++++.-|++.|
T Consensus        51 f~i~~~pPyanG~lHiGHa~~~~~~Dii~R   80 (912)
T PRK05743         51 FILHDGPPYANGDIHIGHALNKILKDIIVK   80 (912)
T ss_pred             EEEeCCCCCCCCCccHHHHHHHHHHHHHHH
Confidence            344455677888999999999999999876

>KOG2804 consensus Phosphorylcholine transferase/cholinephosphate cytidylyltransferase [Lipid transport and metabolism]

Probab=82.10  E-value=0.37  Score=36.49  Aligned_cols=24  Identities=46%  Similarity=0.697  Sum_probs=20.3

Q ss_pred             CCCeeeeEEeCCccCCCCCCCccceE
Q 036777           33 VPGKVGMYVCGVTAYDLSHLGHARAA   58 (66)
Q Consensus        33 ~~~~v~~Y~CGPTvYd~~HiGhaR~~   58 (66)
                      .+..|++|.-|  +||.-|.||||..
T Consensus        60 ~~RPVRVYADG--IyDLFH~GHarqL   83 (348)
T KOG2804|consen   60 TDRPVRVYADG--IYDLFHYGHARQL   83 (348)
T ss_pred             CCCceEEEccc--hHHHhhhhHHHHH
Confidence            34679999988  7999999999963

>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed

Probab=82.01  E-value=0.14  Score=42.28  Aligned_cols=31  Identities=23%  Similarity=0.168  Sum_probs=26.3

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +-.++.--|++-...|+||+++++.-|++.|
T Consensus        42 ~f~i~~~PPy~nG~lH~GH~l~~t~kD~i~R   72 (975)
T PRK06039         42 EFVFYDGPPTANGLPHYGHLLTRTIKDVVPR   72 (975)
T ss_pred             CEEEeCCCCCCCCCccHhhhHhhHHHHHHHH
Confidence            3456677788889999999999999999876

>PTZ00427 isoleucine-tRNA ligase, putative; Provisional

Probab=81.97  E-value=0.17  Score=43.18  Aligned_cols=31  Identities=26%  Similarity=0.117  Sum_probs=27.5

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-.+|.--|++-..+|+||+.+++.-|++.|
T Consensus       103 ~Fv~~~gPPyanG~lHiGHal~~tikDii~R  133 (1205)
T PTZ00427        103 AYIFYDGPPFATGLPHYGHLLAGIIKDCVTR  133 (1205)
T ss_pred             cEEEecCCCCCCCCcchhHHHHHHHHHHHHH
Confidence            3667888899999999999999999999876

>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional

Probab=81.89  E-value=0.11  Score=42.99  Aligned_cols=29  Identities=21%  Similarity=0.056  Sum_probs=23.0

Q ss_pred             eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -+..--|.+-...|||||++++.-|++.|
T Consensus        57 ~l~dgPPyanG~lHiGHaln~~lkDii~R   85 (961)
T PRK13804         57 VLHDGPPYANGNIHIGHALNKILKDVIVR   85 (961)
T ss_pred             EEeCCCCCCCCCccHHHHHHHHHHHHHHH
Confidence            34444566679999999999999999876

>PLN02843 isoleucyl-tRNA synthetase

Probab=80.91  E-value=0.14  Score=42.53  Aligned_cols=30  Identities=20%  Similarity=0.039  Sum_probs=25.0

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      --+..--|.+-...|||||.+++.-|++.|
T Consensus        34 f~i~~~PPy~nG~lHiGHa~~~~lkDii~R   63 (974)
T PLN02843         34 FTLHDGPPYANGDLHIGHALNKILKDFINR   63 (974)
T ss_pred             EEEeCCCCCCCCCcchhHHHHHHHHHHHHH
Confidence            445556688889999999999999999876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	66
1li5_A	461	Crystal Structure Of Cysteinyl-Trna Synthetase Leng		1e-12
3tqo_A	462	Structure Of The Cysteinyl-Trna Synthetase (Cyss) F		2e-11
3c8z_A	414	The 1.6 A Crystal Structure Of Mshc: The Rate Limit		2e-05

>pdb|1LI5|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase Length = 461

Iteration: 1
 Score = 67.8 bits (164), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 27/49 (55%), Positives = 38/49 (77%)
Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYIL 64
          L I+N++T+QKE F PI  G+VGMYVCG+T YDL H+GH R  ++F ++
Sbjct: 2  LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVV 50

>pdb|3TQO|A Chain A, Structure Of The Cysteinyl-Trna Synthetase (Cyss) From Coxiella Burnetii Length = 462

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 26/44 (59%), Positives = 33/44 (75%)
Query: 18 IYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
          I+NS+T+QKE+F PI  GKV +YVCG T YD  H+GH R+ I F
Sbjct: 7  IFNSLTKQKEIFKPIESGKVKLYVCGXTVYDYXHIGHGRSWIIF 50

>pdb|3C8Z|A Chain A, The 1.6 A Crystal Structure Of Mshc: The Rate Limiting Enzyme In The Mycothiol Biosynthetic Pathway Length = 414

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/36 (47%), Positives = 25/36 (69%), Gaps = 1/36 (2%)
Query: 31 PIVPGKVG-MYVCGVTAYDLSHLGHARAAISFYILY 65
          P+ PG    MYVCG+T YD +HLGHA   ++F +++
Sbjct: 33 PVTPGPTATMYVCGITPYDATHLGHAATYLTFDLVH 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	66
3tqo_A	462	Cysteinyl-tRNA synthetase; protein synthesis, liga	4e-28
1li5_A	461	Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys	1e-26
3sp1_A	501	Cysteinyl-tRNA synthetase; structural genomics, se	2e-26
3c8z_A	414	Cysteinyl-tRNA synthetase; cysteine ligase, rossma	2e-22

>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A {Coxiella burnetii} Length = 462

 Score =  102 bits (257), Expect = 4e-28
 Identities = 27/52 (51%), Positives = 38/52 (73%)

Query: 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          M + I+NS+T+QKE+F PI  GKV +YVCG+T YD  H+GH R+ I F ++ 
Sbjct: 3  MSVKIFNSLTKQKEIFKPIESGKVKLYVCGMTVYDYMHIGHGRSWIIFDMVV 54

>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine, E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1 c.26.1.1 PDB: 1li7_A 1u0b_B Length = 461

 Score = 98.8 bits (247), Expect = 1e-26
 Identities = 27/46 (58%), Positives = 36/46 (78%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
          L I+N++T+QKE F PI  G+VGMYVCG+T YDL H+GH R  ++F
Sbjct: 2  LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAF 47

>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, LYME disease; HET: AMP; 2.55A {Borrelia burgdorferi} Length = 501

 Score = 98.5 bits (246), Expect = 2e-26
 Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 1  METSKETTAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAIS 60
          M T +  T     M L +YN+ T+     T      V +Y CG T Y+ +H+G+ R  I 
Sbjct: 9  MGTLEAQTQGPGSMILKLYNTRTKDFSELTNF--ENVKVYACGPTVYNYAHIGNFRTYIF 66

Query: 61 FYILY 65
            +L 
Sbjct: 67 GDLLI 71

>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium smegmatis} Length = 414

 Score = 86.9 bits (216), Expect = 2e-22
 Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61
            L +++S  +Q    TP       MYVCG+T YD +HLGHA   ++F
Sbjct: 19 PALRLFDSADRQVRPVTP--GPTATMYVCGITPYDATHLGHAATYLTF 64

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	66
3tqo_A	462	Cysteinyl-tRNA synthetase; protein synthesis, liga	99.89
3sp1_A	501	Cysteinyl-tRNA synthetase; structural genomics, se	99.87
1li5_A	461	Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys	99.86
3c8z_A	414	Cysteinyl-tRNA synthetase; cysteine ligase, rossma	99.8
3h99_A	560	Methionyl-tRNA synthetase; rossmann fold, aminoacy	98.65
4dlp_A	536	Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA	98.59
1f7u_A	607	Arginyl-tRNA synthetase; RNA-protein complex, amin	98.36
2d5b_A	500	Methionyl-tRNA synthetase; rossmann fold, class 1A	98.34
2csx_A	497	Methionyl-tRNA synthetase; ligase, riken structura	98.33
2zue_A	629	Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase	98.26
1iq0_A	592	Arginyl-tRNA synthetase; riken structural genomics	98.23
1irx_A	523	Lysyl-tRNA synthetase; beta sandwitch, zinc-bindin	98.21
3kfl_A	564	Methionyl-tRNA synthetase; parasite, aminoacyl-tRN	98.15
2x1l_A	524	Methionyl-tRNA synthetase; nucleotide-binding, pro	97.73
2v0c_A	878	Aminoacyl-tRNA synthetase; ligase, nucleotide-bind	96.97
3u1f_A	542	Methionyl-tRNA synthetase; aminoacyl-tRNA syntheta	96.83
1rqg_A	722	Methionyl-tRNA synthetase; translation, dimerizati	96.63
2hz7_A	851	Glutaminyl-tRNA synthetase; rossmann fold, GLNRS c	96.49
4arc_A	880	Leucine--tRNA ligase; ligase-RNA complex, nucleoti	96.48
1qtq_A	553	GLNRS, protein (glutaminyl-tRNA synthetase); gluta	95.25
3aii_A	553	Glutamyl-tRNA synthetase; amino-acyl tRNA syntheta	94.59
1nzj_A	298	Hypothetical protein YADB; Zn cluster, glutamyl T-	92.01
1wkb_A	810	Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, e	91.25
1gax_A	862	Valrs, valyl-tRNA synthetase; protein-RNA complex,	90.85
2o5r_A	481	Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, g	90.79
2cfo_A	492	Glutamyl-tRNA synthetase; ligase, aminoacyl-tRNA s	90.38
1ile_A	821	Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA s	90.14
4g6z_A	490	Glutamate-tRNA ligase; aminoacyl-tRNA synthetase,	85.53
1ffy_A	917	Isoleucyl-tRNA synthetase; protein-RNA complex, me	84.97
1wz2_A	967	Leucyl-tRNA synthetase; ligase, riken structural g	84.08

>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A {Coxiella burnetii}

Probab=99.89  E-value=4.7e-25  Score=165.32  Aligned_cols=54  Identities=50%  Similarity=0.916  Sum_probs=52.1

Q ss_pred             CcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           13 KMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        13 ~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|.|+||||+||+||+|+|.++++|+||+||||||+.+||||+|++|++|+|+|
T Consensus         2 ~m~l~~yntlt~~ke~f~p~~~~~v~~YvcGPtvy~~~HIGHaR~~v~~Dvl~R   55 (462)
T 3tqo_A            2 AMSVKIFNSLTKQKEIFKPIESGKVKLYVCGMTVYDYMHIGHGRSWIIFDMVVR   55 (462)
T ss_dssp             CCCCEEEETTTTEEEECCCSSTTEEEEEECCCBTTSCCBHHHHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCceeccccCCCCeEEEEeCCCcCCCCCchhhhHHHHHHHHHHH
Confidence            378999999999999999999999999999999999999999999999999987

>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, LYME disease; HET: AMP; 2.55A {Borrelia burgdorferi}

Probab=99.87  E-value=3.5e-24  Score=162.27  Aligned_cols=54  Identities=31%  Similarity=0.473  Sum_probs=49.5

Q ss_pred             CCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        11 ~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      -..|+|+||||+||+||+|+|++  +|+||+||||||+.+||||||+||+||+|+|
T Consensus        19 ~~~m~l~lyntltr~ke~f~p~~--~v~~YvcgPTvYg~~HIGHar~~v~~Dvl~R   72 (501)
T 3sp1_A           19 PGSMILKLYNTRTKDFSELTNFE--NVKVYACGPTVYNYAHIGNFRTYIFGDLLIK   72 (501)
T ss_dssp             ---CCEEEEETTTTEEEEECCCS--CEEEEECCCBCSSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCccccccccC--cceEEeCCCcCCCCcchhhhHHHHHHHHHHH
Confidence            34578999999999999999987  9999999999999999999999999999987

>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine, E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1 c.26.1.1 PDB: 1li7_A 1u0b_B

Probab=99.86  E-value=1.4e-23  Score=155.68  Aligned_cols=51  Identities=53%  Similarity=1.021  Sum_probs=50.0

Q ss_pred             eEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        16 l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |+||||+||+||+|+|+++|+|+||+||||||+.+||||+|++|++|+|+|
T Consensus         2 l~~ynt~t~~~~~f~p~~~~~v~~yv~gPt~y~~~HiGHar~~v~~D~l~R   52 (461)
T 1li5_A            2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVAR   52 (461)
T ss_dssp             CEEEETTTTEEEECCCSSTTEEEEEECCCBSSSCCBHHHHHHHHHHHHHHH
T ss_pred             cEEEeCCCCCccccccCCCCCeeEEEcCCcCCCCCcccccHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999999987

>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium smegmatis}

Probab=99.80  E-value=1.9e-21  Score=142.02  Aligned_cols=54  Identities=35%  Similarity=0.627  Sum_probs=51.2

Q ss_pred             CCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           11 APKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        11 ~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +..++|+||||+|+++++|.|  +++++||+||||||+.+||||+|++|.+|+|+|
T Consensus        16 ~~~~~~~lynt~~~~~~~f~p--~~~v~~y~~gPt~yg~~HiGHar~~v~~DvlaR   69 (414)
T 3c8z_A           16 GRGPALRLFDSADRQVRPVTP--GPTATMYVCGITPYDATHLGHAATYLTFDLVHR   69 (414)
T ss_dssp             SCCCCCEEEETTTTEEEECCC--CSEEEEEECCCCTTSCCBHHHHHHHHHHHHHHH
T ss_pred             CCCCCcEEEeeccCCcccccC--CCCceEEeCCCcCCCCcCccccHHHHHHHHHHH
Confidence            566789999999999999999  789999999999999999999999999999986

>3h99_A Methionyl-tRNA synthetase; rossmann fold, aminoacyl-tRNA synthetase, ATP-binding, ligas binding, nucleotide-binding, protein biosynthesis; HET: CIT; 1.40A {Escherichia coli} PDB: 3h97_A* 3h9b_A* 1f4l_A 3h9c_A* 1pfv_A* 1pfu_A 1p7p_A* 1pfw_A* 1pfy_A* 1pg0_A* 1pg2_A* 1qqt_A 1mea_A 1med_A

Probab=98.65  E-value=5.3e-10  Score=83.53  Aligned_cols=37  Identities=19%  Similarity=0.214  Sum_probs=30.0

Q ss_pred             eecCCCeeeeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           30 TPIVPGKVGMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        30 ~p~~~~~v~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|.+++++++|+|+|++|  +.+||||+|++|..|+|+|
T Consensus        11 ~~~~~~~~~~~v~~~~py~ng~lHiGH~r~~v~~D~laR   49 (560)
T 3h99_A           11 GSMTQVAKKILVTCASPYANGSIHLGHMLEHIQADVWVR   49 (560)
T ss_dssp             ------CCEEEEEECCCBTTSCCBHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCcEEEeCCCCCCCCCcchhhHHHHHHHHHHHH
Confidence            466789999999999999  9999999999999999986

>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class IA:methionyl-tRNA...; structural genomics; 2.65A {Brucella melitensis biovar abortus 230ORGANISM_TAXID}

Probab=98.59  E-value=1e-09  Score=81.63  Aligned_cols=41  Identities=22%  Similarity=0.276  Sum_probs=28.9

Q ss_pred             eEEeeecCCCeeeeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           26 KELFTPIVPGKVGMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        26 ke~f~p~~~~~v~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      ..|+.|.+-++-++|+|||++|  +.+||||+|++|..|+|+|
T Consensus        14 ~~~~~~~~~~~~~~~i~~p~pypng~lHiGH~r~~v~~D~laR   56 (536)
T 4dlp_A           14 AQTQGPGSMSREKYYITTAIAYPNGKPHIGHAYELIATDAMAR   56 (536)
T ss_dssp             ----------CCEEEEEECCBCCSSCCCHHHHHHHHHHHHHHH
T ss_pred             ccccCCCcCCCCCEEEeCCCCCCCCCcCcchhHHHHHHHHHHH
Confidence            3455554434458999999999  9999999999999999876

>1f7u_A Arginyl-tRNA synthetase; RNA-protein complex, aminoacylation; HET: PSU 1MG 2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A {Saccharomyces cerevisiae} SCOP: a.27.1.1 c.26.1.1 d.67.2.1 PDB: 1bs2_A* 1f7v_A*

Probab=98.36  E-value=1.8e-08  Score=77.34  Aligned_cols=34  Identities=24%  Similarity=0.090  Sum_probs=31.7

Q ss_pred             CCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           33 VPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        33 ~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+++|.+|.|||+|++..||||+|+.|..|+|+|
T Consensus       141 ~~~~V~ve~~spN~~~plHvGHlRs~iiGD~laR  174 (607)
T 1f7u_A          141 ENKKVIIEFSSPNIAKPFHAGHLRSTIIGGFLAN  174 (607)
T ss_dssp             SCCEEEEECCCCBTTSCCBGGGHHHHHHHHHHHH
T ss_pred             CCCeEEEEecCCCCCCCCccchHHHHHHHHHHHH
Confidence            4678999999999999999999999999999876

>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS, isomerase, structural genomics, NPPSFA; 1.80A {Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A 1a8h_A 2d54_A

Probab=98.34  E-value=9.9e-09  Score=75.12  Aligned_cols=29  Identities=31%  Similarity=0.374  Sum_probs=27.3

Q ss_pred             eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      ++|+|||++|  +..||||+|+++..|+++|
T Consensus         4 ~~~i~~p~py~~g~lHiGH~r~~~~~D~~~R   34 (500)
T 2d5b_A            4 VFYVTTPIYYVNAEPHLGHAYTTVVADFLAR   34 (500)
T ss_dssp             EEEEECCCEETTSCCCHHHHHHHHHHHHHHH
T ss_pred             cEEEecCCCCCCCCcchhhHHHHHHHHHHHH
Confidence            6899999997  9999999999999999986

>2csx_A Methionyl-tRNA synthetase; ligase, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus} PDB: 2ct8_A*

Probab=98.33  E-value=7.3e-09  Score=76.03  Aligned_cols=30  Identities=33%  Similarity=0.475  Sum_probs=28.2

Q ss_pred             eeeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      -++|+|||++|  +.+||||+|+++..|+++|
T Consensus         5 ~~~~i~~p~py~ng~lHiGH~~~~~~~D~~~R   36 (497)
T 2csx_A            5 KKFYVTTPIYYVNDVPHLGHAYTTIAADTIAR   36 (497)
T ss_dssp             CEEEEEEEEEETTSCCCHHHHHHHHHHHHHHH
T ss_pred             CcEEEecCCCCCCCccchhhHHHHHHHHHHHH
Confidence            47999999999  9999999999999999986

>2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase, nucleotide-binding, protein biosynthesis, ligase/RNA complex; HET: ANP; 2.00A {Pyrococcus horikoshii} PDB: 2zuf_A

Probab=98.26  E-value=2.6e-08  Score=76.44  Aligned_cols=34  Identities=29%  Similarity=0.207  Sum_probs=31.6

Q ss_pred             CCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           33 VPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        33 ~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+++|.+|.|||+|++..||||+|+.|+.|+|+|
T Consensus       117 ~~~~V~ve~~spN~~~~~HiGH~Rs~iigD~laR  150 (629)
T 2zue_A          117 KGKKVIVEHTSVNPTKPLHMGHARNAILGDVMAR  150 (629)
T ss_dssp             TTCEEEEECCCCCTTSCCBHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeeCCCCCCCCccchhHHHHHHHHHHH
Confidence            4578999999999999999999999999999876

>1iq0_A Arginyl-tRNA synthetase; riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; 2.30A {Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 d.67.2.1

Probab=98.23  E-value=2.7e-08  Score=75.49  Aligned_cols=31  Identities=19%  Similarity=0.045  Sum_probs=29.8

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +|.+|.|||+|++.+||||+|++|..|+|+|
T Consensus       104 ~v~ve~~spn~~~~~HiGH~R~~iigD~laR  134 (592)
T 1iq0_A          104 VVLVEHTSVNPNKELHVGHLRNIALGDAIAR  134 (592)
T ss_dssp             EEEEECCCCCTTSCCBHHHHHHHHHHHHHHH
T ss_pred             eEEEEeeCCCCCCCCcchHHHHHHHHHHHHH
Confidence            8999999999999999999999999999876

>1irx_A Lysyl-tRNA synthetase; beta sandwitch, zinc-binding structure, rossmann fold, alpha-helix CAGE; 2.60A {Pyrococcus horikoshii} SCOP: a.97.1.2 c.26.1.1

Probab=98.21  E-value=2.2e-08  Score=74.74  Aligned_cols=28  Identities=32%  Similarity=0.547  Sum_probs=26.5

Q ss_pred             eEEe--CCccCCCCCCCccceEEEEEeeeC
Q 036777           39 MYVC--GVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        39 ~Y~C--GPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|+|  |||+++++||||+|++|+.|+++|
T Consensus        21 ~yv~~tgPsPtG~lHIGhaR~al~~D~laR   50 (523)
T 1irx_A           21 KYVVESGITPSGYVHVGNFRELFTAYIVGH   50 (523)
T ss_dssp             EEEEEEEECCSSCCCHHHHHHHHHHHHHHH
T ss_pred             eEEECCCCCCCCCcccCCcHHHHHHHHHHH
Confidence            7999  999999999999999999999865

>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase, tRNA ligase metrs, methionine, translation, ATP-binding; HET: ME8; 2.00A {Leishmania major}

Probab=98.15  E-value=2.9e-08  Score=74.65  Aligned_cols=42  Identities=14%  Similarity=0.177  Sum_probs=29.3

Q ss_pred             ceEEeeecCC-CeeeeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           25 QKELFTPIVP-GKVGMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        25 ~ke~f~p~~~-~~v~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      +..+|.|..+ +.-++|+|+|++|  +.+||||+|++|..|+|+|
T Consensus        13 ~~~~~~~~~~~~~~~~~i~~~~py~ng~lHiGH~r~~v~~D~laR   57 (564)
T 3kfl_A           13 EAQTQGPGSMKKQKVFFATTPIYYVNASPHIGHVYSTLIVDVLGR   57 (564)
T ss_dssp             -----------CCCCEEEEEEEEECSSCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhcCCccccCCCCEEEeCCCCCCCCCCCcchhHHHHHHHHHHH
Confidence            4456666543 3468999999999  9999999999999999976

>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein biosynthesis, ligase, aminoacyl- synthetase; HET: ADN CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*

Probab=97.73  E-value=5e-07  Score=66.65  Aligned_cols=27  Identities=19%  Similarity=0.162  Sum_probs=21.6

Q ss_pred             EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           40 YVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .++.|+|.+.+||||+|+++..|+|+|
T Consensus        17 ~t~~P~~ng~lHiGHa~~~i~~D~l~R   43 (524)
T 2x1l_A           17 TTAIAYPNGVPHIGHAYEYIATDAIAR   43 (524)
T ss_dssp             EECCBCCSSCCCHHHHHHHHHHHHHHH
T ss_pred             eeCCCCCCCCcccchhHHHHHHHHHHH
Confidence            334444459999999999999999986

>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus} PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*

Probab=96.97  E-value=2.9e-05  Score=61.57  Aligned_cols=32  Identities=22%  Similarity=0.147  Sum_probs=25.7

Q ss_pred             CeeeeEEe-C-CccCCCCCCCccceEEEEEeeeC
Q 036777           35 GKVGMYVC-G-VTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        35 ~~v~~Y~C-G-PTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      ++-+.|++ | |+++...||||+|+++..|+|.|
T Consensus        31 ~~~k~~v~~~~Py~nG~lHiGHa~~~~~~Dvl~R   64 (878)
T 2v0c_A           31 GRGKQYVLVMFPYPSGDLHMGHLKNYTMGDVLAR   64 (878)
T ss_dssp             ---EEEEEECCCCCSSCCBHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCCCCcchhhhHHHHHHHHHHH
Confidence            44456666 4 99999999999999999999976

>3u1f_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS, metrs, parasite, protein-IN complex, rossmann-fold, translation; HET: 392; 2.20A {Trypanosoma brucei} PDB: 3u1e_A* 3u1g_A* 3u20_A* 4eg1_A 4eg3_A* 4eg6_A* 4eg8_A* 4eg5_A* 3tun_A* 3u1z_A* 4eg4_A* 4eg7_A* 4ega_A*

Probab=96.83  E-value=1.9e-05  Score=58.25  Aligned_cols=28  Identities=14%  Similarity=0.275  Sum_probs=23.2

Q ss_pred             eEEeCC--ccCCCCCCCccceEEEEEeeeC
Q 036777           39 MYVCGV--TAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        39 ~Y~CGP--TvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|++-|  .|.+.+|||||+++|.+|+++|
T Consensus        11 f~Ittp~pY~nG~lHiGHa~~~~~~Dii~R   40 (542)
T 3u1f_A           11 FFVTSPIYYVNAAPHIGHVYSTLITDVIGR   40 (542)
T ss_dssp             EEEEEEEEECSSCCCHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCCchhhHHHHHHHHHHHHHH
Confidence            455554  5569999999999999999987

>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A {Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1

Probab=96.63  E-value=7.8e-05  Score=57.83  Aligned_cols=30  Identities=17%  Similarity=0.005  Sum_probs=26.3

Q ss_pred             eeeEEeCCccCCCCCCCccce-EEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARA-AISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~-~V~~Dvl~R   66 (66)
                      .-+.+..|+|++.+||||+++ +|..|++.|
T Consensus         4 ~~itt~~Py~nG~lHiGHa~~~~i~~DiiaR   34 (722)
T 1rqg_A            4 YMVTSALPYANGPIHAGHLAGAYLPADIFVR   34 (722)
T ss_dssp             EEEEECCCBTTSCCBHHHHHHHTHHHHHHHH
T ss_pred             EEEecCCCCCCCchhhchhhccHHHHHHHHH
Confidence            445677899999999999998 999999986

>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus radiodurans}

Probab=96.49  E-value=7.3e-05  Score=59.98  Aligned_cols=31  Identities=26%  Similarity=0.259  Sum_probs=26.1

Q ss_pred             CCeeeeEEe--CCccCCCCCCCccceEEEEEee
Q 036777           34 PGKVGMYVC--GVTAYDLSHLGHARAAISFYIL   64 (66)
Q Consensus        34 ~~~v~~Y~C--GPTvYd~~HiGhaR~~V~~Dvl   64 (66)
                      +|+++.|+|  +|+++++.||||||++++..++
T Consensus        61 ~g~~~~v~tRFaPSPtG~LHIGhARtAL~n~l~   93 (851)
T 2hz7_A           61 AGKYPRVVTRFPPDPSGYAHLGHVFASLLDFNT   93 (851)
T ss_dssp             TTSCSSCEEEECCCSSSCCBHHHHHHHHHHHHH
T ss_pred             cCCcCceEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            567778888  9999999999999998865443

>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding, protein biosynthesis I aminoacyl-tRNA synthetase, ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A 4ari_A* 4as1_A*

Probab=96.48  E-value=0.00012  Score=58.51  Aligned_cols=32  Identities=19%  Similarity=0.102  Sum_probs=27.6

Q ss_pred             CeeeeEEe--CCccCCCCCCCccceEEEEEeeeC
Q 036777           35 GKVGMYVC--GVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        35 ~~v~~Y~C--GPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      ++-+.|+|  .|++....||||+|+++..|+|.|
T Consensus        51 ~~~~~~v~~~~PypnG~lHiGHa~~~~~~DvlaR   84 (880)
T 4arc_A           51 SKEKYYCLSMLPYPSGRLHMGHVRNYTIGDVIAR   84 (880)
T ss_dssp             TSCEEEEEECCCCCCSSCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEcCCCCCCCCcchhhhHHHHHHHHHHH
Confidence            45567776  789999999999999999999976

>1qtq_A GLNRS, protein (glutaminyl-tRNA synthetase); glutamine, trnaGln, E. coli, complex, ligase/RNA complex; HET: QSI; 2.25A {Escherichia coli} SCOP: b.53.1.2 c.26.1.1 PDB: 1gsg_P* 1gts_A* 1gtr_A* 1zjw_A* 1o0b_A* 1o0c_A* 1qru_A* 1qrs_A* 1qrt_A* 1euy_A* 1euq_A* 1exd_A* 2rd2_A* 2re8_A* 1nyl_A

Probab=95.25  E-value=0.00048  Score=53.03  Aligned_cols=24  Identities=17%  Similarity=0.203  Sum_probs=20.1

Q ss_pred             EeCCccCCCCCCCccceEEEEEee
Q 036777           41 VCGVTAYDLSHLGHARAAISFYIL   64 (66)
Q Consensus        41 ~CGPTvYd~~HiGhaR~~V~~Dvl   64 (66)
                      -.+|+++.+.||||||++++.+++
T Consensus        30 RFaPSPtG~LHIGhaRtal~n~l~   53 (553)
T 1qtq_A           30 RFPPEPNGYLHIGHAKSICLNFGI   53 (553)
T ss_dssp             EECCCTTSCCBHHHHHHHHHHHHH
T ss_pred             EeCCCCCCCccHHHHHHHHHHHHH
Confidence            468999999999999998865544

>3aii_A Glutamyl-tRNA synthetase; amino-acyl tRNA synthetase, ligase; 1.65A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=94.59  E-value=0.00085  Score=51.65  Aligned_cols=25  Identities=32%  Similarity=0.238  Sum_probs=20.5

Q ss_pred             EEeCCccCCCCCCCccceEEEEEee
Q 036777           40 YVCGVTAYDLSHLGHARAAISFYIL   64 (66)
Q Consensus        40 Y~CGPTvYd~~HiGhaR~~V~~Dvl   64 (66)
                      ---.||++++.||||||++++..++
T Consensus        99 tRFaPsPtG~LHIGhaRtal~n~l~  123 (553)
T 3aii_A           99 LRFAPNPSGPLHIGHARAAILNHEY  123 (553)
T ss_dssp             EEECCCSSSSCBHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCCccHHHHHHHHHHHHH
Confidence            4567999999999999998865544

>1nzj_A Hypothetical protein YADB; Zn cluster, glutamyl T-RNA synthetase, structural genomics, unknown function; 1.50A {Escherichia coli} SCOP: c.26.1.1 PDB: 2zlz_A* 4a91_A*

Probab=92.01  E-value=0.014  Score=41.31  Aligned_cols=18  Identities=22%  Similarity=0.235  Sum_probs=15.8

Q ss_pred             CCccCCCCCCCccceEEE
Q 036777           43 GVTAYDLSHLGHARAAIS   60 (66)
Q Consensus        43 GPTvYd~~HiGhaR~~V~   60 (66)
                      -|+++.+.||||+|+++.
T Consensus        11 APsPtG~LHiG~~rtal~   28 (298)
T 1nzj_A           11 APSPSGELHFGSLIAALG   28 (298)
T ss_dssp             CCCTTSCCCHHHHHHHHH
T ss_pred             CcCCCCCccHHHHHHHHH
Confidence            479999999999999763

>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino acid, aminoacylation, trnaLeu, structural genomics; 2.05A {Pyrococcus horikoshii}

Probab=91.25  E-value=0.0089  Score=46.45  Aligned_cols=31  Identities=23%  Similarity=0.091  Sum_probs=25.4

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.-+..--|.+-...||||+|+++.-|++.|
T Consensus        35 ~~~i~~~~Py~nG~lHiGH~~~~~~~D~i~R   65 (810)
T 1wkb_A           35 KFYITVAFPYLSGHLHVGHARTYTIPDVIAR   65 (810)
T ss_dssp             EEEEEECCCBTTSCCBHHHHHHHHHHHHHHH
T ss_pred             cEEEEeCCCCCCCCCccccchhHHHHHHHHH
Confidence            3455556677889999999999999999876

>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold, coiled coil, riken structural genomics/proteomics initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus} SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A* 1iyw_A

Probab=90.85  E-value=0.011  Score=46.97  Aligned_cols=31  Identities=16%  Similarity=0.083  Sum_probs=27.6

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.-++..-|.+-...||||+++++.-|++.|
T Consensus        35 ~f~i~~ppPy~nG~lHiGHa~~~~l~Dii~R   65 (862)
T 1gax_A           35 PFVIFMPPPNVTGSLHMGHALDNSLQDALIR   65 (862)
T ss_dssp             EEEEECCCCBSSSCCCHHHHHHHHHHHHHHH
T ss_pred             cEEEEcCCCCCCCCcchhhhHHHHHHHHHHH
Confidence            4677788899999999999999999999876

>2o5r_A Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, glutamate-T ligase 1, glurs 1, structural genomics, joint center for ST genomics, JCSG; 2.34A {Thermotoga maritima}

Probab=90.79  E-value=0.0087  Score=44.82  Aligned_cols=31  Identities=16%  Similarity=0.210  Sum_probs=24.8

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .|-...+.|++..+.||||+|+.++.|++.|
T Consensus        12 ~vv~~RfaPsPTG~LHiG~aRtAl~n~~~Ar   42 (481)
T 2o5r_A           12 HMVRVRFAPSPTGFLHVGGARTALFNFLFAR   42 (481)
T ss_dssp             -CCEEEECCCCCSCCBHHHHHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCCcCHHHHHHHHHHHHHHH
Confidence            4556677888889999999999988877654

>2cfo_A Glutamyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase, ATP-binding, nucleotide-B; HET: GLU; 2.45A {Synechococcus elongatus}

Probab=90.38  E-value=0.0071  Score=45.52  Aligned_cols=20  Identities=25%  Similarity=0.243  Sum_probs=17.4

Q ss_pred             eCCccCCCCCCCccceEEEE
Q 036777           42 CGVTAYDLSHLGHARAAISF   61 (66)
Q Consensus        42 CGPTvYd~~HiGhaR~~V~~   61 (66)
                      ..|+++.+.||||+|++++-
T Consensus         6 FAPSPtG~lHiG~artal~n   25 (492)
T 2cfo_A            6 LAPSPTGNLHIGTARTAVFN   25 (492)
T ss_dssp             ECCCTTSCCBHHHHHHHHHH
T ss_pred             eCCCCCCCccHHHHHHHHHH
Confidence            46899999999999998753

>1ile_A Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken structural genomics/proteom initiative, RSGI, structural genomics; 2.50A {Thermus thermophilus} SCOP: a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1jzq_A* 1jzs_A*

Probab=90.14  E-value=0.012  Score=46.07  Aligned_cols=26  Identities=31%  Similarity=0.239  Sum_probs=21.2

Q ss_pred             EeCCccCCCCCCCccceEEEEEeeeC
Q 036777           41 VCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .--|.+-...||||+++++.-|++.|
T Consensus        44 ~~pPy~nG~lHiGH~~~~~~~D~i~R   69 (821)
T 1ile_A           44 EGPPTANGLPHVGHAQARSYKDLFPR   69 (821)
T ss_dssp             CCCCCTTSCCCTTHHHHHHHHHHHHH
T ss_pred             cCCCCCCCCCchhhhHhHHHHHHHHH
Confidence            33455668999999999999999876

>4g6z_A Glutamate-tRNA ligase; aminoacyl-tRNA synthetase, AARS, class 1B AARS, ATP-dependen charging, protein synthesis, structural genomics; HET: GLU; 2.05A {Burkholderia thailandensis}

Probab=85.53  E-value=0.021  Score=43.19  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=18.5

Q ss_pred             eCCccCCCCCCCccceEEEEEee
Q 036777           42 CGVTAYDLSHLGHARAAISFYIL   64 (66)
Q Consensus        42 CGPTvYd~~HiGhaR~~V~~Dvl   64 (66)
                      --|++..+.||||+|++++.+++
T Consensus        30 FAPSPTG~lHiG~~rtal~n~l~   52 (490)
T 4g6z_A           30 FAPSPTGFIHLGNIRSALYPWAF   52 (490)
T ss_dssp             ECCCCCSCCBHHHHHHHHHHHHH
T ss_pred             eCCCCCCCccHHHHHHHHHHHHH
Confidence            34789999999999998865543

>1ffy_A Isoleucyl-tRNA synthetase; protein-RNA complex, metal IONS, editing tRNA synthetase, double-sieve, ligase/RNA, mupiroci; HET: MRC; 2.20A {Staphylococcus aureus} SCOP: a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1qu2_A* 1qu3_A*

Probab=84.97  E-value=0.026  Score=45.00  Aligned_cols=30  Identities=20%  Similarity=0.016  Sum_probs=24.2

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .-+..--|.+-...||||+++++.-|++.|
T Consensus        50 f~i~~~pPY~nG~lHiGHa~n~~~~Dii~R   79 (917)
T 1ffy_A           50 FILHDGPPYANGNLHMGHALNKILKDFIVR   79 (917)
T ss_dssp             CCEECCCCBSSSCCCHHHHHHHHHHHHHHH
T ss_pred             eeeCCCCCCCCCcchHHHHHHHHHHHHHHH
Confidence            334445578889999999999999999876

>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural genomics/proteomics initiativ structural genomics, ligase-RNA complex; 3.21A {Pyrococcus horikoshii}

Probab=84.08  E-value=0.04  Score=43.97  Aligned_cols=31  Identities=23%  Similarity=0.091  Sum_probs=26.1

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.-++.--|.+-...||||+++++.-|++.|
T Consensus        35 kf~i~~~pPy~nG~lHiGH~~~~~~~Dii~R   65 (967)
T 1wz2_A           35 KFYITVAFPYLSGHLHVGHARTYTIPDVIAR   65 (967)
T ss_dssp             CCBEEECCCBCSSCCBHHHHHHHHHHHHHHH
T ss_pred             cEEEEeCCCCCCCCcchhhhHHHHHHHHHHH
Confidence            3456667788889999999999999999876

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	66
d1li5a2	315	c.26.1.1 (A:1-315) Cysteinyl-tRNA synthetase (CysR	1e-21
d1irxa2	317	c.26.1.1 (A:3-319) Class I lysyl-tRNA synthetase {	1e-06

>d1li5a2 c.26.1.1 (A:1-315) Cysteinyl-tRNA synthetase (CysRS) {Escherichia coli [TaxId: 562]} Length = 315

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Cysteinyl-tRNA synthetase (CysRS)
species: Escherichia coli [TaxId: 562]

 Score = 83.1 bits (204), Expect = 1e-21
 Identities = 27/50 (54%), Positives = 38/50 (76%)

Query: 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
          L I+N++T+QKE F PI  G+VGMYVCG+T YDL H+GH R  ++F ++ 
Sbjct: 2  LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVA 51

>d1irxa2 c.26.1.1 (A:3-319) Class I lysyl-tRNA synthetase {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 317

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Class I lysyl-tRNA synthetase
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

 Score = 41.3 bits (95), Expect = 1e-06
 Identities = 7/40 (17%), Positives = 16/40 (40%)

Query: 26 KELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILY 65
           ++       +  +   G+T     H+G+ R   + YI+ 
Sbjct: 8  DKIIRERGEKEKYVVESGITPSGYVHVGNFRELFTAYIVG 47

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	66
d1li5a2	315	Cysteinyl-tRNA synthetase (CysRS) {Escherichia col	99.85
d1irxa2	317	Class I lysyl-tRNA synthetase {Archaeon Pyrococcus	98.19
d2d5ba2	348	Methionyl-tRNA synthetase (MetRS) {Thermus thermop	98.07
d1ivsa4	425	Valyl-tRNA synthetase (ValRS) {Thermus thermophilu	97.85
d1ilea3	452	Isoleucyl-tRNA synthetase (IleRS) {Thermus thermop	97.81
d1pfva2	350	Methionyl-tRNA synthetase (MetRS) {Escherichia col	97.66
d1rqga2	361	Methionyl-tRNA synthetase (MetRS) {Pyrococcus abys	97.22
d1ffya3	450	Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus	95.71
d1h3na3	494	Leucyl-tRNA synthetase (LeuRS) {Thermus thermophil	92.95
d1f7ua2	348	Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Sa	88.98
d1iq0a2	370	Arginyl-tRNA synthetase (ArgRS) {Thermus thermophi	88.02
d1j09a2	305	Glutamyl-tRNA synthetase (GluRS) {Thermus thermoph	84.74

>d1li5a2 c.26.1.1 (A:1-315) Cysteinyl-tRNA synthetase (CysRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Cysteinyl-tRNA synthetase (CysRS)
species: Escherichia coli [TaxId: 562]

Probab=99.85  E-value=1.6e-23  Score=143.31  Aligned_cols=51  Identities=53%  Similarity=1.021  Sum_probs=49.7

Q ss_pred             eEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        16 l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |+||||+||++++|++.+|++++||||||||++.+||||+|.+|..|+|.|
T Consensus         2 ~~~~~~~~~~~~~f~~~~~~~~~~yv~Gptv~g~~HIGH~R~av~gD~laR   52 (315)
T d1li5a2           2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVAR   52 (315)
T ss_dssp             CEEEETTTTEEEECCCSSTTEEEEEECCCBSSSCCBHHHHHHHHHHHHHHH
T ss_pred             ceEEeCCCCceeeeecCCCCeEEEEecCCcCCCCcccchhHHHHHHHHHHH
Confidence            789999999999999999999999999999999999999999999999876

>d1irxa2 c.26.1.1 (A:3-319) Class I lysyl-tRNA synthetase {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Class I lysyl-tRNA synthetase
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=98.19  E-value=1e-08  Score=65.26  Aligned_cols=33  Identities=21%  Similarity=0.291  Sum_probs=29.1

Q ss_pred             CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           34 PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+..-++.||||+...+||||+|++|..|+|.|
T Consensus        16 ~k~~~v~~~~~~PnG~lHIGHlr~~i~gD~laR   48 (317)
T d1irxa2          16 EKEKYVVESGITPSGYVHVGNFRELFTAYIVGH   48 (317)
T ss_dssp             CCSEEEEEEEECCSSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCCCccccccHHHHHHHHHHH
Confidence            345668889999999999999999999999876

>d2d5ba2 c.26.1.1 (A:1-348) Methionyl-tRNA synthetase (MetRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Methionyl-tRNA synthetase (MetRS)
species: Thermus thermophilus [TaxId: 274]

Probab=98.07  E-value=3.5e-08  Score=65.37  Aligned_cols=29  Identities=31%  Similarity=0.374  Sum_probs=26.9

Q ss_pred             eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777           38 GMYVCGVTAY--DLSHLGHARAAISFYILYS   66 (66)
Q Consensus        38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.|+|.|.+|  ...||||+|.||.+|+|+|
T Consensus         4 ~~~~~~~~PypnG~lHiGH~r~~v~~D~l~R   34 (348)
T d2d5ba2           4 VFYVTTPIYYVNAEPHLGHAYTTVVADFLAR   34 (348)
T ss_dssp             EEEEECCCEETTSCCCHHHHHHHHHHHHHHH
T ss_pred             CEEEecCCCCCCCCcccccCHHHHHHHHHHH
Confidence            5799999999  9999999999999999986

>d1ivsa4 c.26.1.1 (A:1-189,A:343-578) Valyl-tRNA synthetase (ValRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Valyl-tRNA synthetase (ValRS)
species: Thermus thermophilus [TaxId: 274]

Probab=97.85  E-value=2.3e-07  Score=63.55  Aligned_cols=34  Identities=21%  Similarity=0.112  Sum_probs=30.0

Q ss_pred             CCCeeeeEEeC--CccCCCCCCCccceEEEEEeeeC
Q 036777           33 VPGKVGMYVCG--VTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        33 ~~~~v~~Y~CG--PTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.++-++|+|.  |++...+||||+|+||..||++|
T Consensus        30 ~~~~~~f~i~~~pPy~NG~lHlGH~~~yv~~Dv~~R   65 (425)
T d1ivsa4          30 KSGKPPFVIFMPPPNVTGSLHMGHALDNSLQDALIR   65 (425)
T ss_dssp             TCCSCEEEEECCCCBSSSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCcEEEEcCCCCCCCCchhhHHHHHHHHHHHHH
Confidence            45677888888  89999999999999999999987

>d1ilea3 c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthetase (IleRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Isoleucyl-tRNA synthetase (IleRS)
species: Thermus thermophilus [TaxId: 274]

Probab=97.81  E-value=2.6e-07  Score=63.61  Aligned_cols=31  Identities=29%  Similarity=0.307  Sum_probs=28.4

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +..+..+.|+|...+||||+|+||.+||++|
T Consensus        39 ~f~i~~~pPy~nG~lHiGH~~~~v~~Dv~~R   69 (452)
T d1ilea3          39 RYTVYEGPPTANGLPHVGHAQARSYKDLFPR   69 (452)
T ss_dssp             BCCBCCCCCCTTSCCCTTHHHHHHHHHHHHH
T ss_pred             CEEEecCCCCCCCcchhhhHHHHHHHHHHHH
Confidence            4567889999999999999999999999987

>d1pfva2 c.26.1.1 (A:4-140,A:176-388) Methionyl-tRNA synthetase (MetRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Methionyl-tRNA synthetase (MetRS)
species: Escherichia coli [TaxId: 562]

Probab=97.66  E-value=3.2e-07  Score=61.39  Aligned_cols=23  Identities=26%  Similarity=0.185  Sum_probs=21.5

Q ss_pred             CccCCCCCCCccceEEEEEeeeC
Q 036777           44 VTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        44 PTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |||...+||||+|.||.+|+|+|
T Consensus        11 P~~nG~lHiGHar~~v~~D~l~R   33 (350)
T d1pfva2          11 PYANGSIHLGHMLEHIQADVWVR   33 (350)
T ss_dssp             CBTTSCCBHHHHHHHHHHHHHHH
T ss_pred             CCCCCCccccccHHHHHHHHHHH
Confidence            58889999999999999999987

>d1rqga2 c.26.1.1 (A:1-138,A:174-396) Methionyl-tRNA synthetase (MetRS) {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Methionyl-tRNA synthetase (MetRS)
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.22  E-value=2.5e-06  Score=56.43  Aligned_cols=23  Identities=26%  Similarity=0.174  Sum_probs=20.7

Q ss_pred             CccCCCCCCCccc-eEEEEEeeeC
Q 036777           44 VTAYDLSHLGHAR-AAISFYILYS   66 (66)
Q Consensus        44 PTvYd~~HiGhaR-~~V~~Dvl~R   66 (66)
                      |||+...||||+| +||.+|+|+|
T Consensus        11 P~p~G~lHiGH~~~~~i~~Dil~R   34 (361)
T d1rqga2          11 PYANGPIHAGHLAGAYLPADIFVR   34 (361)
T ss_dssp             CBTTSCCBHHHHHHHTHHHHHHHH
T ss_pred             CCCCCCcccccccccHHHHHHHHH
Confidence            6999999999965 7999999986

>d1ffya3 c.26.1.1 (A:1-200,A:395-644) Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Isoleucyl-tRNA synthetase (IleRS)
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.71  E-value=0.00011  Score=51.57  Aligned_cols=30  Identities=20%  Similarity=0.016  Sum_probs=25.5

Q ss_pred             eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           37 VGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      --+..--|++....|||||++++..|++.|
T Consensus        50 f~~~~~pPy~nG~lHiGH~~~~~~~Dv~~R   79 (450)
T d1ffya3          50 FILHDGPPYANGNLHMGHALNKILKDFIVR   79 (450)
T ss_dssp             CCEECCCCBSSSCCCHHHHHHHHHHHHHHH
T ss_pred             EEEecCCCCCCCchhhhHHHHHHHHHHHHH
Confidence            345555789999999999999999999876

>d1h3na3 c.26.1.1 (A:1-225,A:418-686) Leucyl-tRNA synthetase (LeuRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Leucyl-tRNA synthetase (LeuRS)
species: Thermus thermophilus [TaxId: 274]

Probab=92.95  E-value=0.0022  Score=43.76  Aligned_cols=31  Identities=19%  Similarity=0.007  Sum_probs=26.8

Q ss_pred             eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      +.-+..-.|.|-...|||||..++..|++.|
T Consensus        34 ~~~i~~~pP~~nG~lHiGH~~~~~~~D~~~R   64 (494)
T d1h3na3          34 KQYVLVMFPYPSGDLHMGHLKNYTMGDVLAR   64 (494)
T ss_dssp             EEEEEECCCCSSSCCBHHHHHHHHHHHHHHH
T ss_pred             CeEEEeCCCCCCCchhhhHHHHHHHHHHHHH
Confidence            3456777889999999999999999999876

>d1f7ua2 c.26.1.1 (A:136-483) Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Arginyl-tRNA synthetase (ArgRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.98  E-value=0.012  Score=39.77  Aligned_cols=32  Identities=25%  Similarity=0.125  Sum_probs=25.8

Q ss_pred             CeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           35 GKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        35 ~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      .+|-+=...|.+-.+.|+||+|+.|+.|.|.|
T Consensus         8 kki~vE~~SaNpt~plHvGH~R~aiiGd~lar   39 (348)
T d1f7ua2           8 KKVIIEFSSPNIAKPFHAGHLRSTIIGGFLAN   39 (348)
T ss_dssp             CEEEEECCCCBTTSCCBGGGHHHHHHHHHHHH
T ss_pred             CEEEEEecCCCCCCCcchhhhhhHHHHHHHHH
Confidence            34555566788889999999999999998865

>d1iq0a2 c.26.1.1 (A:97-466) Arginyl-tRNA synthetase (ArgRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Arginyl-tRNA synthetase (ArgRS)
species: Thermus thermophilus [TaxId: 274]

Probab=88.02  E-value=0.0055  Score=41.85  Aligned_cols=36  Identities=25%  Similarity=0.200  Sum_probs=29.9

Q ss_pred             ecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777           31 PIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS   66 (66)
Q Consensus        31 p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R   66 (66)
                      |..|++|-+=.+.|.+=...|+||+|+.|.-|.|.|
T Consensus         3 p~~~~~i~vEf~SpN~~kplHvGHlRs~iiGd~lar   38 (370)
T d1iq0a2           3 PRRPGVVLVEHTSVNPNKELHVGHLRNIALGDAIAR   38 (370)
T ss_dssp             CCEEEEEEEECCCCCTTSCCBHHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEecCCCCCCCcchhhhhhHHHHHHHHH
Confidence            445567777788999999999999999998887765

>d1j09a2 c.26.1.1 (A:1-305) Glutamyl-tRNA synthetase (GluRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Glutamyl-tRNA synthetase (GluRS)
species: Thermus thermophilus [TaxId: 274]

Probab=84.74  E-value=0.01  Score=39.60  Aligned_cols=21  Identities=24%  Similarity=0.226  Sum_probs=16.1

Q ss_pred             CccCCCCCCCccceEEEEEee
Q 036777           44 VTAYDLSHLGHARAAISFYIL   64 (66)
Q Consensus        44 PTvYd~~HiGhaR~~V~~Dvl   64 (66)
                      |++=.+.||||+|++++-+++
T Consensus         8 PsPtG~lHiG~~rtal~n~~~   28 (305)
T d1j09a2           8 PSPTGDPHVGTAYIALFNYAW   28 (305)
T ss_dssp             CCCSSSCBHHHHHHHHHHHHH
T ss_pred             CCCCCcccHHHHHHHHHHHHH
Confidence            566678999999998765443