Psyllid ID: psy1520

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------
Protein Sequence
MKYKAKRSQIKTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFTKGSTC
Secondary Structure (PSIPRED)
ccEEEEEcccccccccccccccccccHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEccccEccccccccccccccccHHHHHccccccHEEcHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHccEEEcccccccccccEccHHHHHHHcccc
Coil and Loop (DISEMBL)
mkykakrsqiktktksrdinaevsfntdkaqdwlpvdiyiggKEHAVLHLYYARFIAHFLhaqgktparepFKRLLVQGMIMgqtyrektsgkylkpdevftkgstc
Flexible Loop (DISEMBL)
mkykakrsqiktktksrdinaevsfntdkaqdwlPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGqtyrektsgkylkpdevftkgstc
Low Complexity Region (SEG)
MKYKAKRSQIKTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFTKGSTC
Disordered region (IsUnstruct)
************************FNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTY*********************
Disordered Region (DISOPRED)
MKYKAKRSQIKTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFTKG***
Disordered Region (DISEMBL)
*****************DINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDE********
Disordered Region (DISPRO)
******RSQIKTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFTKGS*C
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKYKAKRSQIKTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFTKGSTC
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	107	2.2.26 [Sep-21-2011]
Q15031	903	Probable leucine--tRNA li	yes	N/A	0.803	0.095	0.563	5e-22
Q5RDP4	903	Probable leucine--tRNA li	yes	N/A	0.803	0.095	0.563	5e-22
Q31LW9	865	Leucine--tRNA ligase OS=S	yes	N/A	0.757	0.093	0.518	2e-20
Q5N006	865	Leucine--tRNA ligase OS=S	yes	N/A	0.757	0.093	0.518	3e-20
Q8VDC0	902	Probable leucine--tRNA li	yes	N/A	0.747	0.088	0.530	8e-20
A5GL71	878	Leucine--tRNA ligase OS=S	yes	N/A	0.757	0.092	0.506	1e-19
Q7TV01	878	Leucine--tRNA ligase OS=P	yes	N/A	0.766	0.093	0.487	4e-19
B8DFR1	803	Leucine--tRNA ligase OS=L	yes	N/A	0.785	0.104	0.5	7e-19
Q8Y6M4	803	Leucine--tRNA ligase OS=L	yes	N/A	0.785	0.104	0.5	7e-19
Q71Z07	803	Leucine--tRNA ligase OS=L	yes	N/A	0.785	0.104	0.5	7e-19

>sp|Q15031|SYLM_HUMAN Probable leucine--tRNA ligase, mitochondrial OS=Homo sapiens GN=LARS2 PE=1 SV=2

 Score =  103 bits (256), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 49/87 (56%), Positives = 60/87 (68%), Gaps = 1/87 (1%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N    FNT  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct: 538 NPHSPFNTAVADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 597

Query: 80  MIMGQTYREKTSGKYLKPDEVFTKGST 106
           +I GQT+R   SG+YL+ +EV   GS 
Sbjct: 598 LIKGQTFR-LPSGQYLQREEVDLTGSV 623

Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 4

>sp|Q5RDP4|SYLM_PONAB Probable leucine--tRNA ligase, mitochondrial OS=Pongo abelii GN=LARS2 PE=2 SV=1

 Score =  102 bits (255), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 49/87 (56%), Positives = 60/87 (68%), Gaps = 1/87 (1%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N    FNT  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct: 538 NPHSPFNTAVADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 597

Query: 80  MIMGQTYREKTSGKYLKPDEVFTKGST 106
           +I GQT+R   SG+YL+ +EV   GS 
Sbjct: 598 LIKGQTFR-LPSGQYLQREEVDLTGSV 623

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|Q31LW9|SYL_SYNE7 Leucine--tRNA ligase OS=Synechococcus elongatus (strain PCC 7942) GN=leuS PE=3 SV=1

 Score = 97.4 bits (241), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 42/81 (51%), Positives = 53/81 (65%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N E++F  DK  DWLPVD Y+GG EHA+LHL Y+RF    L  +G     EPFKRLL QG
Sbjct: 528 NPEIAFTKDKVNDWLPVDQYVGGIEHAILHLLYSRFFTKVLRDRGLLSFDEPFKRLLTQG 587

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M+ G TY+   +GKY+  D +
Sbjct: 588 MVQGLTYKNPKTGKYVPSDRI 608

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|Q5N006|SYL_SYNP6 Leucine--tRNA ligase OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=leuS PE=3 SV=1

 Score = 97.4 bits (241), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 42/81 (51%), Positives = 53/81 (65%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N E++F  DK  DWLPVD Y+GG EHA+LHL Y+RF    L  +G     EPFKRLL QG
Sbjct: 528 NPEIAFTKDKVNDWLPVDQYVGGIEHAILHLLYSRFFTKVLRDRGLLSFDEPFKRLLTQG 587

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M+ G TY+   +GKY+  D +
Sbjct: 588 MVQGLTYKNPKTGKYVPSDRI 608

Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (taxid: 269084)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|Q8VDC0|SYLM_MOUSE Probable leucine--tRNA ligase, mitochondrial OS=Mus musculus GN=Lars2 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 43/81 (53%), Positives = 58/81 (71%), Gaps = 1/81 (1%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  F +  A  W+PVD+YIGGKEHAV+HL+YARF++HF H Q     REPF +LL QG
Sbjct: 537 NTQSPFGSALADFWMPVDLYIGGKEHAVMHLFYARFLSHFCHDQKMVKHREPFHKLLAQG 596

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           +I GQT+R   SG+ LK +++
Sbjct: 597 LIKGQTFR-LPSGQCLKKEDI 616

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|A5GL71|SYL_SYNPW Leucine--tRNA ligase OS=Synechococcus sp. (strain WH7803) GN=leuS PE=3 SV=1

 Score = 95.1 bits (235), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 41/81 (50%), Positives = 53/81 (65%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N E +F+ D  + WLPV  Y+GG EHA+LHL Y+RF    L  +G    REPF+RLL QG
Sbjct: 531 NTERAFDADAVERWLPVQQYVGGIEHAILHLLYSRFFTKALRDRGLLNIREPFERLLTQG 590

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M+ G TYR   +G+Y+ P EV
Sbjct: 591 MVQGVTYRNPRTGRYVAPSEV 611

Synechococcus sp. (strain WH7803) (taxid: 32051)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|Q7TV01|SYL_PROMM Leucine--tRNA ligase OS=Prochlorococcus marinus (strain MIT 9313) GN=leuS PE=3 SV=1

 Score = 93.2 bits (230), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 40/82 (48%), Positives = 53/82 (64%)

Query: 19  INAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ 78
           +N++  F+ D   +WLPVD Y+GG EHA+LHL YARF    LH +     +EPF RLL Q
Sbjct: 528 LNSQRPFDKDIVDEWLPVDQYVGGIEHAILHLLYARFFTKALHDRNLIGFKEPFNRLLTQ 587

Query: 79  GMIMGQTYREKTSGKYLKPDEV 100
           GM+ G TYR   +G Y+ P+ V
Sbjct: 588 GMVQGLTYRNAKNGSYISPELV 609

Prochlorococcus marinus (strain MIT 9313) (taxid: 74547)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|B8DFR1|SYL_LISMH Leucine--tRNA ligase OS=Listeria monocytogenes serotype 4a (strain HCC23) GN=leuS PE=3 SV=1

 Score = 92.4 bits (228), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 43/86 (50%), Positives = 57/86 (66%), Gaps = 2/86 (2%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N+E   + +K  +WLPVD+YIGG EHAVLHL YARF   FL+  G  P +EPF++L  QG
Sbjct: 507 NSEAIADKEKLAEWLPVDVYIGGAEHAVLHLLYARFWHKFLYDIGVVPTKEPFQKLFNQG 566

Query: 80  MIMGQTYRE--KTSGKYLKPDEVFTK 103
           MI+G+   +  K+ G  + PDEV  K
Sbjct: 567 MILGENNEKMSKSRGNVVNPDEVVEK 592

Listeria monocytogenes serotype 4a (strain HCC23) (taxid: 552536)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|Q8Y6M4|SYL_LISMO Leucine--tRNA ligase OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) GN=leuS PE=3 SV=1

 Score = 92.4 bits (228), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 43/86 (50%), Positives = 57/86 (66%), Gaps = 2/86 (2%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N+E   + +K  +WLPVD+YIGG EHAVLHL YARF   FL+  G  P +EPF++L  QG
Sbjct: 507 NSEAIADKEKLAEWLPVDVYIGGAEHAVLHLLYARFWHKFLYDIGVVPTKEPFQKLFNQG 566

Query: 80  MIMGQTYRE--KTSGKYLKPDEVFTK 103
           MI+G+   +  K+ G  + PDEV  K
Sbjct: 567 MILGENNEKMSKSRGNVVNPDEVVEK 592

Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) (taxid: 169963)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

>sp|Q71Z07|SYL_LISMF Leucine--tRNA ligase OS=Listeria monocytogenes serotype 4b (strain F2365) GN=leuS PE=3 SV=1

 Score = 92.4 bits (228), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 43/86 (50%), Positives = 57/86 (66%), Gaps = 2/86 (2%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N+E   + +K  +WLPVD+YIGG EHAVLHL YARF   FL+  G  P +EPF++L  QG
Sbjct: 507 NSEAIADKEKLAEWLPVDVYIGGAEHAVLHLLYARFWHKFLYDIGVVPTKEPFQKLFNQG 566

Query: 80  MIMGQTYRE--KTSGKYLKPDEVFTK 103
           MI+G+   +  K+ G  + PDEV  K
Sbjct: 567 MILGENNEKMSKSRGNVVNPDEVVEK 592

Listeria monocytogenes serotype 4b (strain F2365) (taxid: 265669)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 4

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	107
328702417	872	PREDICTED: probable leucyl-tRNA syntheta	0.813	0.099	0.609	2e-25
380021102	840	PREDICTED: LOW QUALITY PROTEIN: probable	0.757	0.096	0.629	2e-25
307178944	811	Probable leucyl-tRNA synthetase, mitocho	0.766	0.101	0.609	7e-25
91078378	866	PREDICTED: similar to Leucyl-tRNA synthe	0.757	0.093	0.629	1e-24
328782776	866	PREDICTED: probable leucyl-tRNA syntheta	0.757	0.093	0.617	2e-24
350398130	878	PREDICTED: probable leucyl-tRNA syntheta	0.757	0.092	0.629	3e-24
332020719	745	Putative leucyl-tRNA synthetase, mitocho	0.794	0.114	0.564	3e-24
443721981	892	hypothetical protein CAPTEDRAFT_228464 [	0.700	0.084	0.653	4e-24
347967008	860	AGAP002014-PA [Anopheles gambiae str. PE	0.757	0.094	0.604	6e-24
357628256	873	leucyl-tRNA synthetase [Danaus plexippus	0.794	0.097	0.6	7e-24

>gi|328702417|ref|XP_003241894.1| PREDICTED: probable leucyl-tRNA synthetase, mitochondrial-like [Acyrthosiphon pisum]

 Score =  119 bits (298), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 53/87 (60%), Positives = 65/87 (74%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N+   F+   A   +PVDIY+GGKEHAVLHLYYARF  HFLH+ G +P  EPFK+LLVQG
Sbjct: 487 NSSQPFDNMLANKMMPVDIYVGGKEHAVLHLYYARFFNHFLHSIGLSPCLEPFKKLLVQG 546

Query: 80  MIMGQTYREKTSGKYLKPDEVFTKGST 106
           M+MGQ+++ K +G YLK DEV  KG T
Sbjct: 547 MVMGQSFKNKINGTYLKEDEVIKKGKT 573

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380021102|ref|XP_003694413.1| PREDICTED: LOW QUALITY PROTEIN: probable leucine--tRNA ligase, mitochondrial-like [Apis florea]

 Score =  119 bits (298), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 51/81 (62%), Positives = 67/81 (82%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N    F  DK ++  PV++Y+GGKEHAVLHLYYARFI+HFLH++G  P+REPF+RLLVQG
Sbjct: 465 NMNEMFAVDKVKEIFPVNLYVGGKEHAVLHLYYARFISHFLHSEGLLPSREPFQRLLVQG 524

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M++G+TY+ K++ KYLK DEV
Sbjct: 525 MVLGKTYQVKSTKKYLKADEV 545

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307178944|gb|EFN67462.1| Probable leucyl-tRNA synthetase, mitochondrial [Camponotus floridanus]

 Score =  117 bits (294), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 50/82 (60%), Positives = 67/82 (81%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  F  +K ++  PVD+YIGGKEHAVLHLYYARFI+HFLH++G  P REPF++LLVQG
Sbjct: 431 NTKEMFAIEKVKEAFPVDLYIGGKEHAVLHLYYARFISHFLHSEGLIPCREPFRQLLVQG 490

Query: 80  MIMGQTYREKTSGKYLKPDEVF 101
           +IMG+TY+ K++GKY+  DE+ 
Sbjct: 491 VIMGKTYKTKSTGKYVTEDEII 512

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91078378|ref|XP_974191.1| PREDICTED: similar to Leucyl-tRNA synthetase CG7479-PA [Tribolium castaneum] gi|270003885|gb|EFA00333.1| hypothetical protein TcasGA2_TC003172 [Tribolium castaneum]

 Score =  117 bits (292), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 51/81 (62%), Positives = 67/81 (82%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  F+ +KA+  +PVD+YIGGKEHAVLHLYYARFI+HFL++QG  P REPFKRLLVQG
Sbjct: 491 NCQKMFDENKAKKMMPVDLYIGGKEHAVLHLYYARFISHFLYSQGLLPEREPFKRLLVQG 550

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M+MG++YR K +G+Y+   +V
Sbjct: 551 MVMGRSYRVKGTGRYVPESQV 571

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328782776|ref|XP_624911.2| PREDICTED: probable leucyl-tRNA synthetase, mitochondrial-like isoform 2 [Apis mellifera]

 Score =  116 bits (291), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 50/81 (61%), Positives = 67/81 (82%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  F  DK ++  PV++Y+GGKEHAVLHLYYARFI+HFLH++G  P++EPF+RLLVQG
Sbjct: 494 NMKEMFAVDKVREIFPVNLYVGGKEHAVLHLYYARFISHFLHSEGLLPSQEPFQRLLVQG 553

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M++G+TY+ K + KYLK DEV
Sbjct: 554 MVLGKTYQVKNTEKYLKADEV 574

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350398130|ref|XP_003485096.1| PREDICTED: probable leucyl-tRNA synthetase, mitochondrial-like [Bombus impatiens]

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 51/81 (62%), Positives = 65/81 (80%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  F  DKA++  P+D+YIGGKEHAVLHLYYARFI+HFLH++G  P  EPFK+LLVQG
Sbjct: 503 NMKEMFAVDKAKEMFPIDLYIGGKEHAVLHLYYARFISHFLHSEGLLPTPEPFKQLLVQG 562

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M++ +TY+ K + KYLK DEV
Sbjct: 563 MVLNKTYQLKKTEKYLKADEV 583

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332020719|gb|EGI61124.1| Putative leucyl-tRNA synthetase, mitochondrial [Acromyrmex echinatior]

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 48/85 (56%), Positives = 68/85 (80%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  F+ +K ++  PVD+YIGGKEHAVLHLY+ARF++HFLH++G  P REPFK+LLVQG
Sbjct: 374 NTKEMFSVEKVKEMFPVDLYIGGKEHAVLHLYFARFMSHFLHSEGLLPCREPFKQLLVQG 433

Query: 80  MIMGQTYREKTSGKYLKPDEVFTKG 104
           ++MG+TY+   +GKY+  +EV  +G
Sbjct: 434 VVMGKTYQNINTGKYILENEVLKEG 458

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443721981|gb|ELU11054.1| hypothetical protein CAPTEDRAFT_228464 [Capitella teleta]

 Score =  115 bits (287), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 49/75 (65%), Positives = 61/75 (81%)

Query: 26  NTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQT 85
           N DKA   +PVD+YIGG EHA++HLYYARFI+HFL+ +G  P +EPF  LL QGM+MGQ+
Sbjct: 523 NKDKAHAGMPVDLYIGGNEHAIMHLYYARFISHFLYDRGVVPTKEPFVNLLTQGMVMGQS 582

Query: 86  YREKTSGKYLKPDEV 100
           Y+ K SGKYL+PDEV
Sbjct: 583 YQVKKSGKYLRPDEV 597

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|347967008|ref|XP_321043.4| AGAP002014-PA [Anopheles gambiae str. PEST] gi|333469800|gb|EAA01232.5| AGAP002014-PA [Anopheles gambiae str. PEST]

 Score =  114 bits (286), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 49/81 (60%), Positives = 63/81 (77%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N    F++  A   +PVD+Y+GGKEHAVLHLYYARF+AH+LH +G  P  EPFKRLLVQG
Sbjct: 454 NRREMFDSALAHRLMPVDLYVGGKEHAVLHLYYARFVAHYLHGKGLLPTPEPFKRLLVQG 513

Query: 80  MIMGQTYREKTSGKYLKPDEV 100
           M+MG++YR  ++GKY+ P EV
Sbjct: 514 MVMGRSYRVASNGKYIPPAEV 534

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357628256|gb|EHJ77646.1| leucyl-tRNA synthetase [Danaus plexippus]

 Score =  114 bits (285), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 51/85 (60%), Positives = 64/85 (75%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N +  FN        P + YIGGKEHAVLHLYYARF+++FLH+ G TP +EPFK+LLVQG
Sbjct: 488 NKQAPFNIKSLAGVTPANCYIGGKEHAVLHLYYARFMSYFLHSIGLTPTQEPFKKLLVQG 547

Query: 80  MIMGQTYREKTSGKYLKPDEVFTKG 104
           MIMGQ+Y+ K++GKY+ PDEV   G
Sbjct: 548 MIMGQSYKVKSTGKYIPPDEVEQVG 572

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

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	107
FB|FBgn0027085	869	Aats-leu "Leucyl-tRNA syntheta	0.757	0.093	0.617	2.7e-22
UNIPROTKB|I3LI93	284	I3LI93 "Uncharacterized protei	0.794	0.299	0.558	2.4e-21
ZFIN|ZDB-GENE-070928-3	891	lars2 "leucyl-tRNA synthetase	0.728	0.087	0.569	9e-21
UNIPROTKB|E1BXI7	906	LARS2 "Uncharacterized protein	0.803	0.094	0.545	9.2e-21
UNIPROTKB|E9PHM2	860	LARS2 "Probable leucine--tRNA	0.794	0.098	0.569	2.3e-20
UNIPROTKB|E2RQR3	903	LARS2 "Uncharacterized protein	0.794	0.094	0.569	2.5e-20
UNIPROTKB|Q15031	903	LARS2 "Probable leucine--tRNA	0.794	0.094	0.569	2.5e-20
UNIPROTKB|F1SNZ5	702	LARS2 "Uncharacterized protein	0.794	0.121	0.558	2.6e-20
UNIPROTKB|E1B768	903	LARS2 "Uncharacterized protein	0.794	0.094	0.546	1.1e-19
MGI|MGI:2142973	902	Lars2 "leucyl-tRNA synthetase,	0.766	0.090	0.535	1.3e-18

FB|FBgn0027085 Aats-leu "Leucyl-tRNA synthetase" [Drosophila melanogaster (taxid:7227)]

 Score = 270 (100.1 bits), Expect = 2.7e-22, P = 2.7e-22
 Identities = 50/81 (61%), Positives = 64/81 (79%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N+E  F+T   + ++PVD+YIGGKEHAVLHLYYARFI HFLH+ G +P  EPF RLLVQG
Sbjct:   480 NSERIFDTALTKKFMPVDLYIGGKEHAVLHLYYARFINHFLHSCGLSPTSEPFSRLLVQG 539

Query:    80 MIMGQTYREKTSGKYLKPDEV 100
             M+MG+++R K SG+Y+   EV
Sbjct:   540 MVMGRSFRVKGSGRYVPETEV 560

GO:0006429 "leucyl-tRNA aminoacylation" evidence=ISS;NAS

GO:0004823 "leucine-tRNA ligase activity" evidence=ISS;NAS

GO:0005739 "mitochondrion" evidence=ISS

GO:0005759 "mitochondrial matrix" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

UNIPROTKB|I3LI93 I3LI93 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 250 (93.1 bits), Expect = 2.4e-21, P = 2.4e-21
 Identities = 48/86 (55%), Positives = 61/86 (70%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N +  F+T  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct:    19 NTQSPFSTALADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 78

Query:    80 MIMGQTYREKTSGKYLKPDEVFTKGS 105
             +I GQT+R   SG+YL+ +EV   GS
Sbjct:    79 LIKGQTFR-LPSGQYLQREEVDLTGS 103

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

ZFIN|ZDB-GENE-070928-3 lars2 "leucyl-tRNA synthetase 2, mitochondrial" [Danio rerio (taxid:7955)]

 Score = 256 (95.2 bits), Expect = 9.0e-21, P = 9.0e-21
 Identities = 45/79 (56%), Positives = 61/79 (77%)

Query:    25 FNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ 84
             F   +A  W+PVD+YIGGKEHAV+HLYYARF++HF   Q  T  REPF++LLVQG+I GQ
Sbjct:   530 FERSRADHWMPVDVYIGGKEHAVMHLYYARFLSHFCRDQSMTAHREPFRKLLVQGLIKGQ 589

Query:    85 TYREKTSGKYLKPDEV-FT 102
             T+  + +G+YLK +++ FT
Sbjct:   590 TFTLEHTGQYLKKEDIDFT 608

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|E1BXI7 LARS2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 256 (95.2 bits), Expect = 9.2e-21, P = 9.2e-21
 Identities = 48/88 (54%), Positives = 63/88 (71%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLH--AQGKTPAREPFKRLLV 77
             N +  FN D A  W+PVD+YIGGKEHAV+HL+YARF +HF H     K   REPF +LLV
Sbjct:   538 NTDRPFNCDLADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDLKMTKHNLREPFHKLLV 597

Query:    78 QGMIMGQTYREKTSGKYLKPDEVFTKGS 105
             QG+I  QT+R +T+G+YLK +E+   G+
Sbjct:   598 QGLIKNQTFRLRTTGQYLKREEIDLTGT 625

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|E9PHM2 LARS2 "Probable leucine--tRNA ligase, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 252 (93.8 bits), Expect = 2.3e-20, P = 2.3e-20
 Identities = 49/86 (56%), Positives = 60/86 (69%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N    FNT  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct:   495 NPHSPFNTAVADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 554

Query:    80 MIMGQTYREKTSGKYLKPDEVFTKGS 105
             +I GQT+R   SG+YL+ +EV   GS
Sbjct:   555 LIKGQTFR-LPSGQYLQREEVDLTGS 579

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

UNIPROTKB|E2RQR3 LARS2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 252 (93.8 bits), Expect = 2.5e-20, P = 2.5e-20
 Identities = 49/86 (56%), Positives = 60/86 (69%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N    FNT  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct:   538 NTHSPFNTALADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVRHREPFHKLLAQG 597

Query:    80 MIMGQTYREKTSGKYLKPDEVFTKGS 105
             +I GQT+R   SG+YL+ +EV   GS
Sbjct:   598 LIKGQTFR-LPSGQYLQREEVDLTGS 622

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

UNIPROTKB|Q15031 LARS2 "Probable leucine--tRNA ligase, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 252 (93.8 bits), Expect = 2.5e-20, P = 2.5e-20
 Identities = 49/86 (56%), Positives = 60/86 (69%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N    FNT  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct:   538 NPHSPFNTAVADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 597

Query:    80 MIMGQTYREKTSGKYLKPDEVFTKGS 105
             +I GQT+R   SG+YL+ +EV   GS
Sbjct:   598 LIKGQTFR-LPSGQYLQREEVDLTGS 622

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0005759 "mitochondrial matrix" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

UNIPROTKB|F1SNZ5 LARS2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 250 (93.1 bits), Expect = 2.6e-20, P = 2.6e-20
 Identities = 48/86 (55%), Positives = 61/86 (70%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N +  F+T  A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct:   337 NTQSPFSTALADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 396

Query:    80 MIMGQTYREKTSGKYLKPDEVFTKGS 105
             +I GQT+R   SG+YL+ +EV   GS
Sbjct:   397 LIKGQTFR-LPSGQYLQREEVDLTGS 421

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

UNIPROTKB|E1B768 LARS2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 246 (91.7 bits), Expect = 1.1e-19, P = 1.1e-19
 Identities = 47/86 (54%), Positives = 60/86 (69%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N +  F+   A  W+PVD+YIGGKEHAV+HL+YARF +HF H Q     REPF +LL QG
Sbjct:   538 NTQSPFSAALADYWMPVDLYIGGKEHAVMHLFYARFFSHFCHDQKMVKHREPFHKLLAQG 597

Query:    80 MIMGQTYREKTSGKYLKPDEVFTKGS 105
             +I GQT+R   SG+YL+ +EV   GS
Sbjct:   598 LIKGQTFR-LPSGQYLRREEVDLTGS 622

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

MGI|MGI:2142973 Lars2 "leucyl-tRNA synthetase, mitochondrial" [Mus musculus (taxid:10090)]

 Score = 236 (88.1 bits), Expect = 1.3e-18, P = 1.3e-18
 Identities = 45/84 (53%), Positives = 60/84 (71%)

Query:    20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             N +  F +  A  W+PVD+YIGGKEHAV+HL+YARF++HF H Q     REPF +LL QG
Sbjct:   537 NTQSPFGSALADFWMPVDLYIGGKEHAVMHLFYARFLSHFCHDQKMVKHREPFHKLLAQG 596

Query:    80 MIMGQTYREKTSGKYLKPDEV-FT 102
             +I GQT+R   SG+ LK +++ FT
Sbjct:   597 LIKGQTFR-LPSGQCLKKEDIDFT 619

GO:0000166 "nucleotide binding" evidence=IEA

GO:0002161 "aminoacyl-tRNA editing activity" evidence=IEA

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

GO:0004823 "leucine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006412 "translation" evidence=IEA

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

GO:0006429 "leucyl-tRNA aminoacylation" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

---

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)
B3WCD5	SYL_LACCB	6, ., 1, ., 1, ., 4	0.5060	0.7570	0.1008	yes	N/A
Q8VDC0	SYLM_MOUSE	6, ., 1, ., 1, ., 4	0.5308	0.7476	0.0886	yes	N/A
Q5N006	SYL_SYNP6	6, ., 1, ., 1, ., 4	0.5185	0.7570	0.0936	yes	N/A
Q837N5	SYL_ENTFA	6, ., 1, ., 1, ., 4	0.5256	0.7102	0.0945	yes	N/A
Q5RDP4	SYLM_PONAB	6, ., 1, ., 1, ., 4	0.5632	0.8037	0.0952	yes	N/A
B7GK53	SYL_ANOFW	6, ., 1, ., 1, ., 4	0.5064	0.7009	0.0931	yes	N/A
Q03AT8	SYL_LACC3	6, ., 1, ., 1, ., 4	0.5060	0.7570	0.1008	yes	N/A
Q38VP5	SYL_LACSS	6, ., 1, ., 1, ., 4	0.5128	0.7102	0.0941	yes	N/A
Q3AJU8	SYL_SYNSC	6, ., 1, ., 1, ., 4	0.5061	0.7570	0.0925	yes	N/A
P11325	SYLM_YEAST	6, ., 1, ., 1, ., 4	0.5294	0.7570	0.0906	yes	N/A
Q65FX8	SYL_BACLD	6, ., 1, ., 1, ., 4	0.5333	0.6822	0.0907	yes	N/A
Q31LW9	SYL_SYNE7	6, ., 1, ., 1, ., 4	0.5185	0.7570	0.0936	yes	N/A
A5GL71	SYL_SYNPW	6, ., 1, ., 1, ., 4	0.5061	0.7570	0.0922	yes	N/A
Q15031	SYLM_HUMAN	6, ., 1, ., 1, ., 4	0.5632	0.8037	0.0952	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	107
PRK00390	805	PRK00390, leuS, leucyl-tRNA synthetase; Validated	1e-26
TIGR00396	842	TIGR00396, leuS_bact, leucyl-tRNA synthetase, euba	4e-25
cd00812	314	cd00812, LeuRS_core, catalytic core domain of leuc	5e-22
COG0495	814	COG0495, LeuS, Leucyl-tRNA synthetase [Translation	6e-22
PLN02563	963	PLN02563, PLN02563, aminoacyl-tRNA ligase	1e-20

>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated

 Score =  101 bits (255), Expect = 1e-26
 Identities = 35/62 (56%), Positives = 40/62 (64%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N E  F+ + A  WLPVD YIGG EHAVLHL YARF    L   G   + EPFK+LL QG
Sbjct: 508 NDEAPFDKEAANYWLPVDQYIGGIEHAVLHLLYARFFTKVLRDLGLVSSDEPFKKLLTQG 567

Query: 80  MI 81
           M+
Sbjct: 568 MV 569

Length = 805

>gnl|CDD|232956 TIGR00396, leuS_bact, leucyl-tRNA synthetase, eubacterial and mitochondrial family

 Score = 97.5 bits (243), Expect = 4e-25
 Identities = 38/86 (44%), Positives = 50/86 (58%), Gaps = 2/86 (2%)

Query: 19  INAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ 78
            N +  F+ +KA+ WLPVD+YIGG EHA+LHL YARF   FL   G    +EPFK+L+ Q
Sbjct: 505 KNTDGPFDKEKAEYWLPVDLYIGGIEHAILHLLYARFFHKFLRDIGYVNTKEPFKKLINQ 564

Query: 79  GMIMGQTYREKTSGKYLKPDEVFTKG 104
           GM++G  Y    +GK           
Sbjct: 565 GMVLGFYYPP--NGKVPADVLTERDE 588

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 [Protein synthesis, tRNA aminoacylation]. Length = 842

>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA synthetases

 Score = 87.3 bits (217), Expect = 5e-22
 Identities = 37/90 (41%), Positives = 51/90 (56%), Gaps = 6/90 (6%)

Query: 17  RDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLL 76
           +    ++ F+ ++ + W PVDIYIGGKEHA  HL Y+RF    L  +G     EP K L+
Sbjct: 206 QPYEGDLEFDREEFEYWYPVDIYIGGKEHAPNHLLYSRFNHKALFDEG-LVTDEPPKGLI 264

Query: 77  VQGMIMGQTYREKTS---GKYLKPDEVFTK 103
           VQGM++ +   EK S   G  + PDE   K
Sbjct: 265 VQGMVLLEG--EKMSKSKGNVVTPDEAIKK 292

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. Length = 314

>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

 Score = 88.5 bits (220), Expect = 6e-22
 Identities = 39/85 (45%), Positives = 52/85 (61%), Gaps = 4/85 (4%)

Query: 22  EVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMI 81
           E+ F+ ++   W PVD+YIGG EHAVLHL Y RF    L  +G  P  EPFK+L+ QGM+
Sbjct: 513 ELPFDREEFNYWYPVDLYIGGIEHAVLHLLYFRFFHKALFDEGLVPKDEPFKKLITQGMV 572

Query: 82  MGQTYREKTS---GKYLKPDEVFTK 103
           +G+   EK S   G  + P+E   K
Sbjct: 573 LGEE-GEKMSKSKGNVVDPEEAVEK 596

Length = 814

>gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase

 Score = 84.9 bits (210), Expect = 1e-20
 Identities = 35/82 (42%), Positives = 52/82 (63%), Gaps = 3/82 (3%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N+    + +K + W+PVD+Y+GG EHAVLHL YARF    L+  G    +EPF+ L+ QG
Sbjct: 601 NSNALVDKEKEKYWMPVDLYVGGAEHAVLHLLYARFWHKVLYDIGVVSTKEPFQCLVNQG 660

Query: 80  MIMGQ---TYREKTSGKYLKPD 98
           MI+G+   T  + + G+Y+  D
Sbjct: 661 MILGEVEYTAFKDSDGEYVSAD 682

Length = 963

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	107
KOG0435|consensus	876		100.0
COG0495	814	LeuS Leucyl-tRNA synthetase [Translation, ribosoma	100.0
PLN02563	963	aminoacyl-tRNA ligase	99.97
TIGR00396	842	leuS_bact leucyl-tRNA synthetase, eubacterial and	99.96
PRK00390	805	leuS leucyl-tRNA synthetase; Validated	99.93
PF00133	601	tRNA-synt_1: tRNA synthetases class I (I, L, M and	99.47
cd00812	314	LeuRS_core catalytic core domain of leucyl-tRNA sy	99.37
PRK12300	897	leuS leucyl-tRNA synthetase; Reviewed	99.34
PLN02959	1084	aminoacyl-tRNA ligase	99.32
PTZ00419	995	valyl-tRNA synthetase-like protein; Provisional	99.26
PLN02381	1066	valyl-tRNA synthetase	99.25
PRK13208	800	valS valyl-tRNA synthetase; Reviewed	99.22
TIGR00392	861	ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA	99.22
PRK05743	912	ileS isoleucyl-tRNA synthetase; Reviewed	99.21
PRK14900	1052	valS valyl-tRNA synthetase; Provisional	99.1
TIGR00395	938	leuS_arch leucyl-tRNA synthetase, archaeal and cyt	99.06
PRK06039	975	ileS isoleucyl-tRNA synthetase; Reviewed	99.05
PTZ00427	1205	isoleucine-tRNA ligase, putative; Provisional	98.81
PRK13804	961	ileS isoleucyl-tRNA synthetase; Provisional	98.79
cd00817	382	ValRS_core catalytic core domain of valyl-tRNA syn	98.73
TIGR00422	861	valS valyl-tRNA synthetase. The valyl-tRNA synthet	98.72
PRK05729	874	valS valyl-tRNA synthetase; Reviewed	98.71
cd00668	312	Ile_Leu_Val_MetRS_core catalytic core domain of is	98.67
PLN02943	958	aminoacyl-tRNA ligase	98.6
COG0060	933	IleS Isoleucyl-tRNA synthetase [Translation, ribos	98.56
PLN02882	1159	aminoacyl-tRNA ligase	98.51
PLN02843	974	isoleucyl-tRNA synthetase	98.5
cd00818	338	IleRS_core catalytic core domain of isoleucyl-tRNA	98.44
KOG0433|consensus	937		98.29
PRK11893	511	methionyl-tRNA synthetase; Reviewed	98.27
PRK12267	648	methionyl-tRNA synthetase; Reviewed	98.03
TIGR00398	530	metG methionyl-tRNA synthetase. The methionyl-tRNA	97.99
cd00814	319	MetRS_core catalytic core domain of methioninyl-tR	97.79
cd00672	213	CysRS_core catalytic core domain of cysteinyl tRNA	97.74
TIGR00435	465	cysS cysteinyl-tRNA synthetase. This model finds t	97.51
PRK12268	556	methionyl-tRNA synthetase; Reviewed	97.45
PRK00260	463	cysS cysteinyl-tRNA synthetase; Validated	97.39
COG0525	877	ValS Valyl-tRNA synthetase [Translation, ribosomal	97.34
PRK12418	384	cysteinyl-tRNA synthetase; Provisional	97.28
PRK00133	673	metG methionyl-tRNA synthetase; Reviewed	97.02
TIGR03447	411	mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-	96.97
PLN02224	616	methionine-tRNA ligase	96.95
KOG0432|consensus	995		96.32
PRK00750	510	lysK lysyl-tRNA synthetase; Reviewed	96.19
PTZ00399	651	cysteinyl-tRNA-synthetase; Provisional	96.14
PF09334	391	tRNA-synt_1g: tRNA synthetases class I (M); InterP	94.95
cd00674	353	LysRS_core_class_I catalytic core domain of class	94.92
PRK01611	507	argS arginyl-tRNA synthetase; Reviewed	94.9
TIGR00456	566	argS arginyl-tRNA synthetase. This model recognize	94.26
KOG0437|consensus	1080		94.21
PF01406	300	tRNA-synt_1e: tRNA synthetases class I (C) catalyt	94.04
PRK14536	490	cysS cysteinyl-tRNA synthetase; Provisional	93.81
COG0143	558	MetG Methionyl-tRNA synthetase [Translation, ribos	93.22
PRK14534	481	cysS cysteinyl-tRNA synthetase; Provisional	93.15
PLN02946	557	cysteine-tRNA ligase	92.71
KOG0436|consensus	578		90.05
KOG0434|consensus	1070		90.05
PLN02610	801	probable methionyl-tRNA synthetase	89.73
PF00750	354	tRNA-synt_1d: tRNA synthetases class I (R); InterP	86.68
PRK14535	699	cysS cysteinyl-tRNA synthetase; Provisional	86.56
cd00802	143	class_I_aaRS_core catalytic core domain of class I	83.2
PRK12451	562	arginyl-tRNA synthetase; Reviewed	81.9
PF10910	125	DUF2744: Protein of unknown function (DUF2744); In	81.82

>KOG0435|consensus

Probab=100.00  E-value=1.9e-38  Score=279.20  Aligned_cols=92  Identities=52%  Similarity=0.859  Sum_probs=89.0

Q ss_pred             cccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeeecCCCc
Q psy1520          14 TKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGK   93 (107)
Q Consensus        14 ~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~ks~Gn   93 (107)
                      .|+||+|...|||++.+.+|||||+||||+|||||||||||||+|||+|+|++++.|||++|++||||+|++|+.++.|+
T Consensus       506 RylDpkN~e~~~d~a~a~k~MPVDvYIGG~EHAvlHLlYaRF~~kFl~di~~~~t~EPF~~Li~QGmV~G~tf~~~~sG~  585 (876)
T KOG0435|consen  506 RYLDPKNPEEPFDKAKAKKNMPVDVYIGGKEHAVLHLLYARFIAKFLKDIGVVSTAEPFTKLITQGMVRGKTFRTKESGK  585 (876)
T ss_pred             eecCCCCcccccchhhhhccCceeEEeccHHHHHHHHHHHHHHHHHHhhcCCCcCCCcHHHHHhhhcccceEEecCCCCc
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeCCCceeecCC
Q psy1520          94 YLKPDEVFTKGS  105 (107)
Q Consensus        94 ~v~p~ev~~~~~  105 (107)
                      ||.|+||...|+
T Consensus       586 yl~~~ev~~~nd  597 (876)
T KOG0435|consen  586 YLGPEEVQQVND  597 (876)
T ss_pred             cCCHHHhhhhcC
Confidence            999999987765

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

Probab=100.00  E-value=2.9e-36  Score=267.92  Aligned_cols=92  Identities=41%  Similarity=0.747  Sum_probs=86.6

Q ss_pred             cccccCCCCC-CCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-
Q psy1520          12 TKTKSRDINA-EVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-   88 (107)
Q Consensus        12 ~~~~~dp~n~-~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-   88 (107)
                      +..|+||.|. +.++++++++||||||+||||+|||++||||+|||||+|+|.|+|+.+|||++|++||||++ ++-|| 
T Consensus       502 ~~r~~d~~~~~~~~~~~e~~~yW~PVD~yigG~ehavlHLly~rF~Hkal~d~g~~p~~epf~~L~~qGmVl~~~g~KMS  581 (814)
T COG0495         502 YLRFFDPIFLGELPFDREEFNYWYPVDLYIGGIEHAVLHLLYFRFFHKALFDEGLVPKDEPFKKLITQGMVLGEEGEKMS  581 (814)
T ss_pred             cHhhcChhcCccchhcHHHHhcccChheeecchhHHHHHHHHHHHHHHHhcccCcCCCccchhhhhccceEEecCCCccc
Confidence            4578999998 79999999999999999999999999999999999999999999999999999999999999 57775 


Q ss_pred             cCCCceeCCCceeec
Q psy1520          89 KTSGKYLKPDEVFTK  103 (107)
Q Consensus        89 ks~Gn~v~p~ev~~~  103 (107)
                      ||+||+|+|+|++.+
T Consensus       582 KSKgN~v~p~~~i~~  596 (814)
T COG0495         582 KSKGNVVDPEEAVEK  596 (814)
T ss_pred             cccCCCCCHHHHHHH
Confidence            999999999998764

>PLN02563 aminoacyl-tRNA ligase

Probab=99.97  E-value=6.3e-33  Score=249.37  Aligned_cols=70  Identities=44%  Similarity=0.798  Sum_probs=67.8

Q ss_pred             cccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec
Q psy1520          14 TKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG   83 (107)
Q Consensus        14 ~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~   83 (107)
                      .|+||+|++++||++.+++|||||+||||+|||||||||+|||+++|+|+|++..+|||++|++||||++
T Consensus       595 r~~~p~~~~~~~~~~~~~~w~PvD~yigG~dhailHLlY~Rfw~~~l~~~g~~~~~ePfk~ll~qGmVl~  664 (963)
T PLN02563        595 RFMDPKNSNALVDKEKEKYWMPVDLYVGGAEHAVLHLLYARFWHKVLYDIGVVSTKEPFQCLVNQGMILG  664 (963)
T ss_pred             HHhCCCccccccCHHHHhCcCCCcEeeccHHHHhhHhHHHHHHHHHHHHhhccCCcccHHHHhccceeec
Confidence            3789999999999999999999999999999999999999999999999999999999999999999996

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

Probab=99.96  E-value=5.3e-31  Score=233.37  Aligned_cols=90  Identities=44%  Similarity=0.826  Sum_probs=83.1

Q ss_pred             cccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-----Cee--
Q psy1520          14 TKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-----QTY--   86 (107)
Q Consensus        14 ~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-----~~~--   86 (107)
                      .|+||+|...||+++.+++|+|||+||||+||||+||||||||+++|+++|+++.+|||++|++||||++     .+.  
T Consensus       499 r~~~p~~~~~~~~~~~~~~~~PvD~yi~G~dhailHLlyaRf~~~~l~~~~~~~~~~Pfk~l~~~G~Vl~~~~~~~G~~~  578 (842)
T TIGR00396       499 RYLDPKNTDQPFDKEKAEYWLPVDLYIGGAEHAILHLLYARFWHKFLYDIGYVSTKEPFKKLINQGMVLGFYYPPNGKSP  578 (842)
T ss_pred             HhhCCCCcCCCcChHHHhccCCCcEeeccHHHHHHHHHHHHHHHHHHHhccccCCCccHHHHhccceEEeeeecCCCCcc
Confidence            3689999889999999999999999999999999999999999999999999999999999999999998     233  


Q ss_pred             -------------------------ee-cCCCceeCCCceeec
Q psy1520          87 -------------------------RE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        87 -------------------------k~-ks~Gn~v~p~ev~~~  103 (107)
                                               || ||+||+|+|++++.+
T Consensus       579 ~~~~~~~~~~~~~~~~~~~~~~~~~KMSKS~GN~v~p~~ii~~  621 (842)
T TIGR00396       579 PDELTERDEKAKDKSGGELVVVGYEKMSKSKGNGIDPQEIVKK  621 (842)
T ss_pred             ChhhhccccccccccCCcccccchhhhhhcCCCcCCHHHHHHH
Confidence                                     65 999999999998754

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.

>PRK00390 leuS leucyl-tRNA synthetase; Validated

Probab=99.93  E-value=8.4e-27  Score=205.54  Aligned_cols=85  Identities=47%  Similarity=0.853  Sum_probs=80.0

Q ss_pred             cccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCC
Q psy1520          14 TKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSG   92 (107)
Q Consensus        14 ~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~G   92 (107)
                      .|++|+|+..+||++.+++|+|||+|+||+|||++||+|+|||+++|.++|+++.+|||++|++||||     || ||+|
T Consensus       502 ~~~~p~~~~~~~~~~~~~~~~P~Dly~~G~D~~i~hL~y~Rf~~~~l~~~~~~~~~~Pfk~v~~~G~v-----KMSKS~G  576 (805)
T PRK00390        502 RYTDPHNDEAPFDKEAANYWLPVDQYIGGIEHAVLHLLYARFFTKVLRDLGLVSSDEPFKKLLTQGMV-----KMSKSKG  576 (805)
T ss_pred             HhcCcccccCcCChHHhhCcCCCcEEeccHHHHHHHHHHHHHHHHHHHHhhcccCCcchhhheecCcE-----EeCCCCC
Confidence            46789988889999999999999999999999999999999999999999999999999999999999     65 9999


Q ss_pred             ceeCCCceeec
Q psy1520          93 KYLKPDEVFTK  103 (107)
Q Consensus        93 n~v~p~ev~~~  103 (107)
                      |+|+|.+++.+
T Consensus       577 N~i~p~~~i~~  587 (805)
T PRK00390        577 NVVDPDDIIEK  587 (805)
T ss_pred             CCCCHHHHHHH
Confidence            99999998754

>PF00133 tRNA-synt_1: tRNA synthetases class I (I, L, M and V); InterPro: IPR002300 The aminoacyl-tRNA synthetases (6

Probab=99.47  E-value=9.7e-15  Score=125.26  Aligned_cols=72  Identities=26%  Similarity=0.654  Sum_probs=58.8

Q ss_pred             ChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC-eeee-cCCCceeCCCceeec
Q psy1520          26 NTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ-TYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        26 d~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~-~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +++..++|.|||+|++|.||...|+.++.|.+-+|.+      ++||+++++||||++. +.|| ||+||+|+|++++.+
T Consensus       505 ~~~~~~~~~P~D~~~~G~D~~~~W~~~~l~~~~~l~~------~~pfk~v~~hG~vld~~G~KMSKS~GNvi~p~~ii~~  578 (601)
T PF00133_consen  505 DREEFEYWYPVDLYIEGKDQIRGWFQSSLFLSVALFG------KEPFKKVITHGFVLDEDGRKMSKSKGNVIDPEDIIEK  578 (601)
T ss_dssp             SCHHHHHHSSBSEEEEEGGGTTTHHHHHHHHHHHHSS------STSBSEEEEE--EEETTSSB-BTTTTB--BHHHHHHH
T ss_pred             cchhccccCCcccccCCccchhhHHHHhHhhcccccc------CCchheeeecccccccceeecccCCCcccCHHHHHHH
Confidence            4677899999999999999999999999999988754      4499999999999974 5665 999999999998753

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. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1OBC_A 2AJH_B 4ARI_A 2AJG_B 4AQ7_D 2AJI_B 4ARC_A 4AS1_A 1QU3_A 1QU2_A ....

>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases

Probab=99.37  E-value=2.3e-13  Score=108.28  Aligned_cols=77  Identities=44%  Similarity=0.753  Sum_probs=69.9

Q ss_pred             ChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          26 NTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        26 d~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +++..++|.|+|+|++|.||..-|++|.+||..+|...|++ ..+|+++++.+|||+.++.|| ||+||+|+|+|++.+
T Consensus       215 ~~~~~~~w~p~di~v~G~D~i~~h~~~~~~~~~~l~~~g~~-~~~~~~~~~~~g~v~~~g~KmSkS~Gn~v~~~dll~~  292 (314)
T cd00812         215 DREEFEYWYPVDIYIGGKEHAPNHLLYSRFNHKALFDEGLV-TDEPPKGLIVQGMVLLEGEKMSKSKGNVVTPDEAIKK  292 (314)
T ss_pred             hHHHHHHhCCCeeeecchhHHHHHHHHHHHHHHHHcCcccc-cccCcHHheecceEecCccccCCcCCCCCCHHHHHHH
Confidence            34567899999999999999999999999999999999987 678999999999999888775 999999999998754

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.

>PRK12300 leuS leucyl-tRNA synthetase; Reviewed

Probab=99.34  E-value=3.1e-13  Score=121.10  Aligned_cols=71  Identities=18%  Similarity=0.351  Sum_probs=63.4

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcc-ccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPF-KRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF-~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ++..++|.|+|+|++|.||+..||.|.+|.+.++.+..      |+ ++++.||||+.++.|| ||+||+|+|.|++.+
T Consensus       522 ~~~f~~~~P~D~~~~GkDii~~Hl~~~~~~~~a~~~~~------~~Pk~v~~hG~vl~~G~KMSKS~GNvVdp~eii~~  594 (897)
T PRK12300        522 REEFLYWYPVDWRHSGKDLIPNHLTFFIFNHVAIFPEE------KWPRGIVVNGFVLLEGKKMSKSKGNVIPLRKAIEE  594 (897)
T ss_pred             HHHHhccCCceEEEeeeccCccHHHHHHHHHHHhcCCC------ccCcEEEEcceEEECCccccCcCCCCCCHHHHHHH
Confidence            35678999999999999999999999999999887654      67 8999999999988885 999999999998754

>PLN02959 aminoacyl-tRNA ligase

Probab=99.32  E-value=7.4e-13  Score=121.07  Aligned_cols=70  Identities=21%  Similarity=0.442  Sum_probs=63.2

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcc-ccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPF-KRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF-~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++|.|+|+|++|.||+..||.|++|.+.++.+      ++|| ++++.+|||+.++.|| ||+||+|+|.|++.+
T Consensus       664 ~ef~~~yP~Dl~~sG~Dii~~wl~~~l~~~~al~~------~~P~p~~v~v~G~V~~~G~KMSKSkGNvI~p~diI~k  735 (1084)
T PLN02959        664 QEFEYWYPFDLRVSGKDLIQNHLTFAIYNHTAIWA------EEHWPRGFRCNGHLMLNSEKMSKSTGNFLTLRQAIEE  735 (1084)
T ss_pred             HHHHhhCCCeEEEecccHHHHHHHHHHHHHHHhcC------CCCCCceEEEccEEecCCcCccccCCCcCCHHHHHHH
Confidence            45789999999999999999999999999999876      5899 5699999999888875 999999999998754

>PTZ00419 valyl-tRNA synthetase-like protein; Provisional

Probab=99.26  E-value=4e-12  Score=114.76  Aligned_cols=70  Identities=29%  Similarity=0.533  Sum_probs=59.5

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceee
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      .+..++|.|+|+|++|  |.|+++.++|++...+.-.|    .+||++++.||||++ ++.|| ||+||+|+|.+++.
T Consensus       530 ~~~~~~~~P~d~~~~G--~Dii~~W~arm~~~~~~~~~----~~Pfk~v~~HG~v~d~~G~KMSKSlGNvIdP~~ii~  601 (995)
T PTZ00419        530 TDDLQRFFPTSLLETG--SDILFFWVARMVMMSLHLTD----KLPFKTVFLHAMVRDSQGEKMSKSKGNVIDPLEVIE  601 (995)
T ss_pred             hHHHhhcCCCcEEEec--hhHHhHHHHHHHHHHHHhcC----CCChHHHhccceEECCCCCCcccCCCCcCChHHHhc
Confidence            3557899999999999  66889999999666665444    799999999999998 55665 99999999999976

>PLN02381 valyl-tRNA synthetase

Probab=99.25  E-value=3.4e-12  Score=116.71  Aligned_cols=73  Identities=23%  Similarity=0.450  Sum_probs=60.4

Q ss_pred             CCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCcee
Q psy1520          24 SFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVF  101 (107)
Q Consensus        24 ~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~  101 (107)
                      |++.+..++|+|+|+|+-|  |.++|+.++|++-..+.    +...+||++++.||||++ .+.|| ||+||+|+|.+++
T Consensus       597 P~~~~~~~~~~P~d~~~~G--~Dii~~W~~rmi~~~~~----~~~~~PFk~v~~hG~V~D~~G~KMSKS~GNvIdP~~vi  670 (1066)
T PLN02381        597 PDDTDDLKAFYPTSVLETG--HDILFFWVARMVMMGMQ----LGGDVPFRKVYLHPMIRDAHGRKMSKSLGNVIDPLEVI  670 (1066)
T ss_pred             CCCHHHHhccCCCeeeeec--chhhhhHHHHHHHHHHH----hCCCCchHHheecceEECCCCCCCCCCCCCCCCHHHHH
Confidence            5566778999999999988  77788888888844333    567899999999999998 44565 9999999999997


Q ss_pred             e
Q psy1520         102 T  102 (107)
Q Consensus       102 ~  102 (107)
                      .
T Consensus       671 ~  671 (1066)
T PLN02381        671 N  671 (1066)
T ss_pred             h
Confidence            6

>PRK13208 valS valyl-tRNA synthetase; Reviewed

Probab=99.22  E-value=6e-12  Score=110.98  Aligned_cols=74  Identities=23%  Similarity=0.493  Sum_probs=60.9

Q ss_pred             CCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCcee
Q psy1520          24 SFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVF  101 (107)
Q Consensus        24 ~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~  101 (107)
                      |.+++..++|.|+|+|++|.++...|+.|..+++..+      ...+||++++.||||+. ++.|| ||+||+|+|.|++
T Consensus       475 ~~~~~~~~~~~P~d~~~~G~Di~~~w~~~~l~~~~~~------~~~~Pf~~v~~hg~v~~~~G~KMSKS~GN~i~p~~~i  548 (800)
T PRK13208        475 ERDEDLFEKVFPMDLRPQGHDIIRTWLFYTILRAYLL------TGKLPWKNIMISGMVLDPDGKKMSKSKGNVVTPEELL  548 (800)
T ss_pred             CCChhhhhhcCCceEEEeecchhhhHHHHHHHHHHHh------cCCCCcceEEEeeEEECCCCCCCCCCCCCCCCHHHHH
Confidence            3456678899999999999999988877777665554      23589999999999996 66675 9999999999987


Q ss_pred             ec
Q psy1520         102 TK  103 (107)
Q Consensus       102 ~~  103 (107)
                      .+
T Consensus       549 ~~  550 (800)
T PRK13208        549 EK  550 (800)
T ss_pred             HH
Confidence            54

>TIGR00392 ileS isoleucyl-tRNA synthetase

Probab=99.22  E-value=5.3e-12  Score=111.93  Aligned_cols=72  Identities=21%  Similarity=0.426  Sum_probs=56.7

Q ss_pred             ChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          26 NTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        26 d~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +.+..++|.|+|+|++|.||+..|+-.+.+.+-.+      ...+||+++++||||+. ++.|| ||+||+|+|.|++.+
T Consensus       555 ~~~~f~~~~P~d~~i~G~Di~r~Wf~~~~~~~~~~------~~~~P~k~v~~hG~vl~~~G~KMSKSkGNvI~p~d~i~~  628 (861)
T TIGR00392       555 ENEKFKEVFPADFILEGSDQTRGWFYSSLAIGTAL------FGQAPYKNVITHGFTLDEKGRKMSKSLGNVVDPLKVINK  628 (861)
T ss_pred             CcchhhccCCceEEEEecchhccHHHHHHHHHHHH------cCCCChHhhEecceEECCCCCCcCCCCCCCCCHHHHHHH
Confidence            33457899999999999999887755555544332      24799999999999996 56665 999999999998753

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.

>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed

Probab=99.21  E-value=3.2e-12  Score=114.80  Aligned_cols=66  Identities=23%  Similarity=0.495  Sum_probs=53.2

Q ss_pred             ccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          32 DWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        32 ~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +|.|+|+|++|.||+.+|     |.+..+....+ ...+||+++++||||++ ++.|| ||+||+|+|.+++.+
T Consensus       542 ~~~P~Dl~~~G~Di~r~W-----f~~~l~~~~~~-~g~~P~k~vl~HG~vld~~G~KMSKSlGNvIdP~~ii~~  609 (912)
T PRK05743        542 LGYPADLYLEGSDQHRGW-----FQSSLLTSVAT-RGKAPYKQVLTHGFTVDGKGRKMSKSLGNVIDPQDVIKK  609 (912)
T ss_pred             cCCCceEEEecccccchH-----HHHHHHHHHHh-cCCCccceeEEeeeEECCCCCCCCCCCCCcCCHHHHHHh
Confidence            789999999999999776     22333444444 45799999999999997 67775 999999999998754

>PRK14900 valS valyl-tRNA synthetase; Provisional

Probab=99.10  E-value=3.2e-11  Score=110.11  Aligned_cols=70  Identities=23%  Similarity=0.479  Sum_probs=60.9

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++|.|+|+|++|  |.++++.++|++...+...|.    .||++++.||||+. ++.|| ||+||+|+|.|++.+
T Consensus       484 ~~~~~~~P~d~~~~G--~Dii~~W~a~~l~~~~~~~~~----~Pfk~V~~hG~v~d~~G~KMSKSkGNvIdP~dvIe~  555 (1052)
T PRK14900        484 DTLRTFYPTSVMETG--HDIIFFWVARMMMMGLHFMGE----VPFRTVYLHPMVRDEKGQKMSKTKGNVIDPLVITEQ  555 (1052)
T ss_pred             HHHHhhCCchhhccc--ccHHhHHHHHHHHHHHHhcCC----CccceeEecccEECCCCCCccCCCCCCCCHHHHHHH
Confidence            357889999999999  667788899999999988775    68999999999998 66775 999999999998753

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

Probab=99.06  E-value=4.7e-11  Score=107.69  Aligned_cols=70  Identities=23%  Similarity=0.407  Sum_probs=61.3

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcc-ccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPF-KRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF-~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++|.|+|++++|.|+...|+.|.+|.+.++...      +|| ++++.||||+.++.|| ||+||+|+|.+++.+
T Consensus       566 ~ef~~~yP~D~~~~GkDii~~H~~~~i~~~~a~~~~------~~~Pk~i~~~G~vl~~G~KMSKSlGNvI~p~d~i~~  637 (938)
T TIGR00395       566 REFEYWYPLDWRISGKDLIPNHLTFYIFHHVAIFPE------KFWPRGIVVNGYVMLEGKKMSKSKGNVLTLEQAVEK  637 (938)
T ss_pred             HHHhhcCCceEEEEeeccccchHHHHHHHHHHcCCc------cccCcEEEEeceEEeCCccccCcCCCCCCHHHHHHH
Confidence            467899999999999999999999999988876543      355 8999999999988885 999999999998754

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.

>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed

Probab=99.05  E-value=5e-11  Score=107.74  Aligned_cols=70  Identities=29%  Similarity=0.459  Sum_probs=56.3

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCC-CCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPA-REPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~-~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ++..++|.|+|+|++|.||.       |||-..|..+|..-. .+||++++.||||+. ++.|| ||+||+|+|.|++.+
T Consensus       537 ~~~f~~~~Pad~~~~G~Di~-------r~Wf~~l~~~~~~~~~~~pfk~v~~hG~Vld~~G~KMSKSlGNvIdP~dli~~  609 (975)
T PRK06039        537 KEWFEKHFPADFIVEGIDQT-------RGWFYTLLALSTALFDRPPYKNVLVHGHVLDEDGQKMSKSLGNYVDPFEVFDK  609 (975)
T ss_pred             hhhhhccCCceEEEechhhH-------hhHHHHHHHHHHHhcCCCcccEEEEeeeEECCCCCCcCCCCCCcCCHHHHHHH
Confidence            34457899999999999995       556666666665544 689999999999997 56675 999999999998754

>PTZ00427 isoleucine-tRNA ligase, putative; Provisional

Probab=98.81  E-value=2.3e-09  Score=99.75  Aligned_cols=72  Identities=21%  Similarity=0.418  Sum_probs=59.8

Q ss_pred             ChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          26 NTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        26 d~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +++..++|.|.|+++-|.++-.+|+.++=+.+-.|.+      .-||++++.||+|++ ++.|| ||+||+|+|.+++.+
T Consensus       664 ~~~~f~~~fPaD~i~eG~Dq~rgWf~s~l~~s~~l~~------~~PfK~VlvHG~Vld~dG~KMSKSlGNvIDP~evI~k  737 (1205)
T PTZ00427        664 EKEDFHKIFPADFIAEGLDQTRGWFYTLLVISTLLFD------KAPFKNLICNGLVLASDGKKMSKRLKNYPDPLYILDK  737 (1205)
T ss_pred             chhhHhccCCceEEEEecchhccHHHHHHHHHHHhcC------CCCcceeEEccEEEcCCCCCcccCCCCCCCHHHHHHh
Confidence            3566778999999999999999996666666655543      489999999999997 66775 999999999998754

>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional

Probab=98.79  E-value=1.9e-09  Score=97.79  Aligned_cols=65  Identities=23%  Similarity=0.440  Sum_probs=52.6

Q ss_pred             cccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          33 WLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        33 WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +.|+|+|+.|.|+..++      |+..|-....+....||+++++||||+. ++.|| ||+||+|+|.+++.+
T Consensus       581 ~~PaD~~~eG~Di~rgW------F~s~ll~s~~~~~~~P~k~V~~HG~vld~~G~KMSKSlGNvIdP~~ii~~  647 (961)
T PRK13804        581 KWPADLYLEGSDQHRGW------FNSSLLESCGTRGRAPYKAVLTHGFTLDEKGEKMSKSLGNTVSPQDVIKQ  647 (961)
T ss_pred             CCCceEEEEEcccccHH------HHHHHHHHHHhcCCCChhhEEEeccEECCCCCCccCCCCCcCCHHHHHHh
Confidence            35999999999998776      4444444444566799999999999997 77775 999999999998753

>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases

Probab=98.73  E-value=4.6e-09  Score=86.00  Aligned_cols=70  Identities=17%  Similarity=0.385  Sum_probs=55.5

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++|.|+|+++||.++...|..+.-+....+  .|    ..||++++.+|||++ ++.|| ||+||+|+|+|++.+
T Consensus       289 ~~~~~~~p~d~~~~G~D~~~~h~~~~l~~~~~~--~g----~~p~~~v~~hg~v~~~~g~KMSKS~Gn~v~~~dll~~  360 (382)
T cd00817         289 KDLKKFYPTSLLVTGHDIIFFWVARMIMRGLKL--TG----KLPFKEVYLHGLVRDEDGRKMSKSLGNVIDPLDVIDG  360 (382)
T ss_pred             hhHhhcCCCCeeeeecCcCchHHHHHHHHHHHh--hC----CCchHHeEeeeeEECCCCCCccccCCCCCCHHHHHHh
Confidence            456789999999999999999988854443333  23    368999999999994 56664 999999999998753

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.

>TIGR00422 valS valyl-tRNA synthetase

Probab=98.72  E-value=6e-09  Score=92.82  Aligned_cols=69  Identities=20%  Similarity=0.420  Sum_probs=55.3

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceee
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      +..++|.|+|+++.|.+....|+.|.=+.+..+  .    ...||++++.||||+. ++.|| ||+||+|+|.+++.
T Consensus       471 ~~~~~~~P~d~~~~G~Dii~fw~~~~~~~~~~~--~----~~~Pfk~v~~hG~v~d~~G~KMSKS~GN~i~p~~~i~  541 (861)
T TIGR00422       471 KDLKKFYPTDLLVTGYDIIFFWVARMIFRSLAL--T----GQVPFKEVYIHGLVRDEQGRKMSKSLGNVIDPLDVIE  541 (861)
T ss_pred             HHHhhcCCcceeecchhhhhHHHHHHHHHHHHh--c----CCCchheEEEeeEEECCCCCCCCcCCCCCCCHHHHHH
Confidence            457889999999999998888866544433333  2    3789999999999997 66775 99999999999875

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

>PRK05729 valS valyl-tRNA synthetase; Reviewed

Probab=98.71  E-value=5.5e-09  Score=93.44  Aligned_cols=71  Identities=24%  Similarity=0.497  Sum_probs=55.9

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .+..++|.|+|+++.|.+....  -.+|++...+...    ...||++++.||||++ ++.|| ||+||+|+|.|++.+
T Consensus       465 ~~~~~~~~P~d~~~~G~Dii~~--W~a~~~~~~~~~~----~~~Pfk~v~~hG~v~d~~G~KMSKSlGNvIdP~dvi~~  537 (874)
T PRK05729        465 TEDLKRFYPTSVLVTGFDIIFF--WVARMIMMGLHFT----GQVPFKDVYIHGLVRDEQGRKMSKSKGNVIDPLDLIDK  537 (874)
T ss_pred             cHHHHhcCCcccccccccccch--HHHHHHHHHHHhc----CCCchhheEEeeeEECCCCCCcccCCCCCCCHHHHHHH
Confidence            4557889999999999996544  4566665555543    3689999999999996 66675 999999999998753

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

Probab=98.67  E-value=1.5e-08  Score=80.03  Aligned_cols=69  Identities=25%  Similarity=0.314  Sum_probs=57.2

Q ss_pred             hhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCe-eee-cCCCceeCCCceeec
Q psy1520          29 KAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQT-YRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        29 ~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~-~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ..++|.|+|+++||.++...|..+.......+.      ...||++++.+|||+.+. .|| ||+||+|+|+|++..
T Consensus       220 ~~~~~~~~di~~~G~D~~~~h~~~~~~~~~~~~------~~~~~~~~~~~g~~~~~~g~KmSKS~gn~v~~~d~~~~  290 (312)
T cd00668         220 WFKDSYPADWHLIGKDILRGWANFWITMLVALF------GEIPPKNLLVHGFVLDEGGQKMSKSKGNVIDPSDVVEK  290 (312)
T ss_pred             hhhhcCCceEEEEecchhhhHHHHHHHHHHHhc------CCCCcceeEECcEEEcCCCccccccCCCcCCHHHHHHH
Confidence            456778999999999999999888877666542      124899999999999888 775 999999999998753

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.

>PLN02943 aminoacyl-tRNA ligase

Probab=98.60  E-value=2.2e-08  Score=91.01  Aligned_cols=70  Identities=19%  Similarity=0.346  Sum_probs=54.0

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCC-CCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKT-PAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v-~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .+..++|.|+|+|+.|.+..       |||--.|.-+|+- ....||++++.||+|++ ++.|| ||+||+|+|.|++.+
T Consensus       528 ~~~~~~~yP~dl~~~G~Dii-------~fW~a~m~~~~~~~~~~~Pf~~v~~hg~v~~~~G~KMSKS~GN~i~p~~~i~~  600 (958)
T PLN02943        528 AEDFKKFYPTTVLETGHDIL-------FFWVARMVMMGIEFTGTVPFSYVYLHGLIRDSQGRKMSKTLGNVIDPLDTIKE  600 (958)
T ss_pred             hHHHhccCCCeEEEEeehHH-------HHHHHHHHHhhhhhcCCCChheEEEeccEECCCCCcccCcCCCCCCHHHHHHh
Confidence            45678999999999998876       3444443334553 34679999999999986 66675 999999999998754

>COG0060 IleS Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=98.56  E-value=1.5e-08  Score=92.62  Aligned_cols=66  Identities=23%  Similarity=0.441  Sum_probs=55.0

Q ss_pred             ccccc---eEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCe-eee-cCCCceeCCCceeec
Q psy1520          32 DWLPV---DIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQT-YRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        32 ~WmPV---D~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~-~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .|.|-   |+|..|+++.++|      |+..|--.-.+...-||+++|+||+|+++. .|| ||.||+|+|.||+++
T Consensus       549 ~~~~~~~aD~~lEGsDQ~RGW------F~Ssl~~s~a~~~~aPYk~vltHGfvlDe~GrKMSKSlGN~v~P~~V~~~  619 (933)
T COG0060         549 LKFPALFADFYLEGSDQTRGW------FYSSLLTSTALFGRAPYKNVLTHGFVLDEKGRKMSKSLGNVVDPQDVIDK  619 (933)
T ss_pred             ccCccccCcEEEEeccccchh------HHHHHHHHHHHcCCchHHHHhhcccEECCCCCCccccCCCcCCHHHHHHh
Confidence            44454   9999999999998      666666666667799999999999999855 565 999999999999864

>PLN02882 aminoacyl-tRNA ligase

Probab=98.51  E-value=6.7e-08  Score=89.64  Aligned_cols=70  Identities=20%  Similarity=0.365  Sum_probs=52.9

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..+.+.|+|+++-|.++..+|..++=+.+-+      +-...||++++.||+|+. ++.|| ||+||+|+|.+++.+
T Consensus       560 ~~f~~~~PaD~i~eG~Dq~RgWf~~ll~~s~~------l~~~~pfk~VivhG~vlde~G~KMSKSlGNvIdP~evi~~  631 (1159)
T PLN02882        560 ELFEKNFPADFVAEGLDQTRGWFYTLMVLSTA------LFDKPAFKNLICNGLVLAEDGKKMSKSLKNYPDPNEVIDK  631 (1159)
T ss_pred             hHhhccCCceEEEEecchhhhHHHHHHHHHHH------hcCCCCcceeEEccEEECCCCCCcccCCCCCCCHHHHHHH
Confidence            33455689999999999999983222222222      234589999999999998 56775 999999999998753

>PLN02843 isoleucyl-tRNA synthetase

Probab=98.50  E-value=3.4e-08  Score=89.96  Aligned_cols=66  Identities=20%  Similarity=0.420  Sum_probs=52.2

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceee
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      +.+.|.|+|+.|.++..+|+-.+=+.+-.      .....||+++++||+|+. ++.|| ||+||+|+|.+++.
T Consensus       560 ~~~~PaDl~~eG~Di~rgWf~s~l~~~~~------~~g~~Pfk~v~~HG~vld~~G~KMSKSlGNvI~p~~vi~  627 (974)
T PLN02843        560 GLSYPADLYLEGSDQHRGWFQSSLLTSVA------TKGKAPYKSVLTHGFVLDEKGFKMSKSLGNVVDPRLVIE  627 (974)
T ss_pred             ccCCCceeeeeeccccchHHHHHHHHHHH------hcCCCccceEEEeccEECCCCCCcCCCCCCcCCHHHHHh
Confidence            35679999999999999984443333322      244679999999999998 46775 99999999999876

>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases

Probab=98.44  E-value=8.8e-08  Score=77.34  Aligned_cols=69  Identities=22%  Similarity=0.482  Sum_probs=52.3

Q ss_pred             hhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          29 KAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        29 ~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ..++|.|+|+++-|.++...|+-+.=| ...+     +....||++++.+|+++. ++.|| ||+||+|.|+|++..
T Consensus       246 ~~~~~~p~d~~~~GkDii~~wf~~~~~-~~~~-----~~~~~p~~~~~~hg~~~~~~g~KmSKS~gn~i~~~~~~~~  316 (338)
T cd00818         246 DFEELFPADFILEGSDQTRGWFYSLLL-LSTA-----LFGKAPYKNVIVHGFVLDEDGRKMSKSLGNYVDPQEVVDK  316 (338)
T ss_pred             hhhccCCCeEEeecchHHhHHHHHHHH-HHHH-----hcCCCccceEEEEeeEECCCCCCCCCCCCCcCCHHHHHHH
Confidence            467889999999999999876333322 2222     233689999999999986 46664 999999999998653

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.

>KOG0433|consensus

Probab=98.29  E-value=2.2e-07  Score=84.30  Aligned_cols=64  Identities=19%  Similarity=0.362  Sum_probs=55.8

Q ss_pred             ccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCe-eee-cCCCceeCCCceeec
Q psy1520          34 LPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQT-YRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        34 mPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~-~k~-ks~Gn~v~p~ev~~~  103 (107)
                      -+.|+|..|.++.++|      |...|-..-.+....||+.+++||+++++. +|| ||.||||+|+.|++.
T Consensus       565 ~~aDv~LEG~DQ~rGW------FQSsLLTsvA~q~kAPYk~vivHGFtlDE~G~KMSKSlGNVidP~~v~~G  630 (937)
T KOG0433|consen  565 HVADVYLEGVDQFRGW------FQSSLLTSVAVQNKAPYKKVIVHGFTLDENGNKMSKSLGNVVDPTMVTDG  630 (937)
T ss_pred             cceeeEEecchhcchH------HHHHHHHHHHHhccCCchheeeeeeEecCCccchhhcccCcCCHHHHhCC
Confidence            3799999999999998      777777777777889999999999999965 675 999999999998764

>PRK11893 methionyl-tRNA synthetase; Reviewed

Probab=98.27  E-value=3.7e-07  Score=75.73  Aligned_cols=68  Identities=21%  Similarity=0.334  Sum_probs=54.9

Q ss_pred             hhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          29 KAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        29 ~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ..++|.|.|++++|.++..-|..+---+...+   |   ...| +..+.+|||+.++.|| ||+||+|+|.|++..
T Consensus       248 ~~~~~~~~D~~~~G~D~~~~h~~~~~a~~~a~---~---~~~p-~~~~~~g~v~~~G~KMSKS~GN~i~~~dll~~  316 (511)
T PRK11893        248 LFNKYWPADVHLIGKDILRFHAVYWPAFLMAA---G---LPLP-KRVFAHGFLTLDGEKMSKSLGNVIDPFDLVDE  316 (511)
T ss_pred             HHHhcCCCcceEecccccccchhHHHHHHHhC---C---CCCC-CEEEeeccEEECCeeecccCCcEEcHHHHHHH
Confidence            35677799999999999999988854333332   3   3677 9999999999988885 999999999998754

>PRK12267 methionyl-tRNA synthetase; Reviewed

Probab=98.03  E-value=2.4e-06  Score=74.12  Aligned_cols=66  Identities=23%  Similarity=0.416  Sum_probs=55.2

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +.|-|.|+++-|.+...-|.+|   |.-+|.-.|+    .|+++++.+|+++.++.|| ||+||+|+|.|++..
T Consensus       250 ~~~wp~~~~~~GkDii~fH~i~---wpa~l~~~~~----~~p~~v~~hg~l~~eg~KMSKS~GN~i~p~d~l~~  316 (648)
T PRK12267        250 KKFWPADVHLVGKDILRFHAIY---WPIMLMALGL----PLPKKVFAHGWWLMKDGKMSKSKGNVVDPEELVDR  316 (648)
T ss_pred             HhhcccceEEEeeeecchhHHH---HHHHHHhCCC----CCCcEEEecceEEECCceecccCCcccCHHHHHHH
Confidence            3344999999999999989875   6666666663    5999999999999988875 999999999998653

>TIGR00398 metG methionyl-tRNA synthetase

Probab=97.99  E-value=4.2e-06  Score=70.48  Aligned_cols=68  Identities=19%  Similarity=0.333  Sum_probs=55.1

Q ss_pred             hhcccccce-----EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          29 KAQDWLPVD-----IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        29 ~~~~WmPVD-----~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ..+.|.|-|     +++-|.+-..-|.+|-.   -+|..+|+    .|+++++.+|||+.++.|| ||+||+|+|+|++.
T Consensus       271 ~~~~~w~~~~~~~~v~~~G~Di~~~h~~~~~---a~l~~~~~----~~~~~~~~~g~v~~~g~KmSKS~Gn~i~~~d~i~  343 (530)
T TIGR00398       271 DWKKWWNNDEDAELIHFIGKDIVRFHTIYWP---AMLMGLGL----PLPTQVFSHGYLTVEGGKMSKSLGNVVDPSDLLA  343 (530)
T ss_pred             hHHHhCCCCCCceEEEEEecccchhHHHHHH---HHHHhCCC----CCCCEEEeeccEEECCceecccCCceecHHHHHH
Confidence            345677888     99999999999977643   34555563    5899999999999998885 99999999999865


Q ss_pred             c
Q psy1520         103 K  103 (107)
Q Consensus       103 ~  103 (107)
                      .
T Consensus       344 ~  344 (530)
T TIGR00398       344 R  344 (530)
T ss_pred             H
Confidence            3

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

>cd00814 MetRS_core catalytic core domain of methioninyl-tRNA synthetases

Probab=97.79  E-value=1.9e-05  Score=62.96  Aligned_cols=64  Identities=19%  Similarity=0.326  Sum_probs=53.6

Q ss_pred             cccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          33 WLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        33 WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +-|.|+++.|.+...-|.+   ||--.|...|    -.|+++++.+|+++.++.|| ||+||+|+|.|++..
T Consensus       233 ~~~~~v~~~G~D~~~fh~~---~~pa~l~~~~----~~~~~~~~~~~~~~~~g~kmSkS~gn~i~~~~~l~~  297 (319)
T cd00814         233 GWPELVHFIGKDIIRFHAI---YWPAMLLGAG----LPLPTRIVAHGYLTVEGKKMSKSRGNVVDPDDLLER  297 (319)
T ss_pred             CCCceEEEEeechhhhhHH---HHHHHHHhCC----CCCCcEeeeeeeEEECCeeecccCCcccCHHHHHHH
Confidence            3489999999999998876   5555676677    36899999999999988875 999999999998654

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.

>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase

Probab=97.74  E-value=1.4e-05  Score=61.67  Aligned_cols=62  Identities=19%  Similarity=0.272  Sum_probs=50.4

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |+|+..||++|.--|+-+.++.+.++.+       +||.+-+.+ |||.-++-|| ||+||+|+|+|++..
T Consensus       128 ~~dih~~G~Dl~fpH~~~~~a~~~a~~g-------~~~~~~~~h~~~v~~~g~KMSKs~Gn~v~~~dll~~  191 (213)
T cd00672         128 TFDIHGGGVDLIFPHHENEIAQSEAATG-------KPFARYWLHTGHLTIDGEKMSKSLGNFITVRDALKK  191 (213)
T ss_pred             CccEEeecCCCCcChHHHHHHHHHHHhC-------CCCCcEEEEEEEEeccCcchhhcCCCccCHHHHHHH
Confidence            7999999999999999999999988763       277765555 6666666664 999999999998653

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.

>TIGR00435 cysS cysteinyl-tRNA synthetase

Probab=97.51  E-value=4.1e-05  Score=64.90  Aligned_cols=63  Identities=17%  Similarity=0.226  Sum_probs=51.9

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |+|+..||++|.--|+-+-+..+.++..      ..|.+.++..|||.-++.|| ||+||+|.|.|++..
T Consensus       219 ~~Dih~gG~Dl~fpHhene~aqs~a~~g------~~~~~~~~h~g~v~~~g~KMSKS~GN~i~~~dll~~  282 (465)
T TIGR00435       219 QIDIHGGGVDLIFPHHENEIAQSEAAFG------KQLAKYWMHNGFLMIDNEKMSKSLGNFFTVRDVLKN  282 (465)
T ss_pred             CceeeccccccccchHHHHHHHHHHhcC------CCCCcEEEEeeEEEecCccccccCCCcCCHHHHHHH
Confidence            6999999999999999999999988653      23444457789998877775 999999999998653

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).

>PRK12268 methionyl-tRNA synthetase; Reviewed

Probab=97.45  E-value=8e-05  Score=63.17  Aligned_cols=64  Identities=17%  Similarity=0.289  Sum_probs=50.4

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |-++.+=|.|...-|   +.+|.-.|...|. +..-| ++++++|||+.++.|| ||+||+|+|.|++.+
T Consensus       287 ~~~~~~~G~D~~~Fh---~~~~p~~l~~~~~-~~~~P-~~v~~~G~v~~~G~KMSKS~GN~I~p~dli~~  351 (556)
T PRK12268        287 TKSYYFIGKDNIPFH---SIIWPAMLLGSGE-PLKLP-DEIVSSEYLTLEGGKFSKSRGWGIWVDDALER  351 (556)
T ss_pred             CeEEEEEeeccCcch---HHHHHHHHHhcCC-CCCCC-CEeeccCCEEECCeeeccCCCcccCHHHHHHH
Confidence            556888899987755   4556677878876 45556 5999999999888775 999999999998754

>PRK00260 cysS cysteinyl-tRNA synthetase; Validated

Probab=97.39  E-value=5.2e-05  Score=63.99  Aligned_cols=62  Identities=19%  Similarity=0.307  Sum_probs=49.0

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccc-cceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLV-QGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~-QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |+|+..||++|.--|+=.-.+-+..+.  |     .||.+... .|||..++.|| ||+||+|+|.|++..
T Consensus       220 ~~Dih~gG~DlifpHh~neiaqs~a~~--g-----~p~~~~w~H~g~v~~~G~KMSKS~GN~i~~~dll~~  283 (463)
T PRK00260        220 TFDIHGGGADLIFPHHENEIAQSEAAT--G-----KPFANYWMHNGFVTVNGEKMSKSLGNFFTIRDLLKK  283 (463)
T ss_pred             CcceecCccccCCCchHhHHHHHHHhc--C-----CCcceEEEEccEEccCCCcccCcCCCCCCHHHHHHH
Confidence            799999999999999866655555543  2     79988666 58888777775 999999999998753

>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=97.34  E-value=0.00014  Score=66.92  Aligned_cols=70  Identities=24%  Similarity=0.561  Sum_probs=52.0

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCe-eee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQT-YRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~-~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++..|.|+-+=|-  =|++.-=||++-..++=.    .+.||+.++-||||.++. .|| ||+||+|+|.|++.+
T Consensus       471 ~~l~~fyPt~llvtG~--DIIffWvarmi~~~~~~~----~~~PFk~V~ihGLVrDe~G~KMSKS~GNvIDP~d~I~~  542 (877)
T COG0525         471 PDLKKFYPTDLLVTGH--DIIFFWVARMIMRGLHLT----GEVPFKDVYIHGLVRDEQGRKMSKSKGNVIDPLDVIDK  542 (877)
T ss_pred             hHHHhcCCCccccccc--hhhHHHHHHHHHHHHHhc----CCCCccEEEEeeeEEcCCCCCCcccCCCcCCHHHHHHH
Confidence            3455666999999994  466554555555554433    358999999999999865 565 999999999998753

>PRK12418 cysteinyl-tRNA synthetase; Provisional

Probab=97.28  E-value=9.7e-05  Score=62.02  Aligned_cols=64  Identities=23%  Similarity=0.250  Sum_probs=52.3

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceeecC
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFTKG  104 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~~~  104 (107)
                      |+|+-.||+++.--|+=+-++-+.++.+      ..||.+.+.| |||..++.|| ||+||+|+|.|+++.|
T Consensus       214 ~~DIH~GG~DL~FPHHeneiaq~~a~~g------~~~~~~~w~H~g~l~~~G~KMSKSlGN~i~~~ell~~G  279 (384)
T PRK12418        214 GFDIQGGGSDLIFPHHEFSAAHAEAATG------ERRFARHYVHAGMIGLDGEKMSKSRGNLVFVSRLRAAG  279 (384)
T ss_pred             CcccccCccccccchhHhHHHHHHHhcC------CCCcceEEEECCEECCCCCcccCcCCCcCCHHHHHhcc
Confidence            4999999999999999999988887643      3599998887 5555566775 9999999999986543

>PRK00133 metG methionyl-tRNA synthetase; Reviewed

Probab=97.02  E-value=0.00042  Score=60.84  Aligned_cols=59  Identities=15%  Similarity=0.267  Sum_probs=47.4

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +.+=|.+-..-|   +.||--+|.-.|+    .+.++++.+|||+.++.|| ||+||+|+|.|++.+
T Consensus       287 v~~iGkDi~~fH---~i~wpa~l~a~g~----~lP~~v~~hg~v~~~G~KMSKS~GNvV~p~dlie~  346 (673)
T PRK00133        287 YHFIGKDIIYFH---TLFWPAMLEGAGY----RLPTNVFAHGFLTVEGAKMSKSRGTFIWARTYLDH  346 (673)
T ss_pred             EEEEeecchhHH---HHHHHHHHHhCCC----CCCCEEeeeccEEecCCcccccCCcccCHHHHHHH
Confidence            677778887766   5567777777775    3459999999999988875 999999999998754

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

Probab=96.97  E-value=0.00031  Score=59.62  Aligned_cols=62  Identities=21%  Similarity=0.184  Sum_probs=52.5

Q ss_pred             ceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceeec
Q psy1520          36 VDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        36 VD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +|+-.||+++.-=|+-+-++-+.++.      ...||.+...| |||..++.|| ||+||+|++.|+++.
T Consensus       242 ~Dih~GG~DLifpHheneiaq~~A~~------g~~~~~~~w~H~g~l~~~G~KMSKSlGN~i~~~dl~~~  305 (411)
T TIGR03447       242 FDIQGGGSDLIFPHHEFSAAHAEAAT------GVRRMARHYVHAGMIGLDGEKMSKSLGNLVFVSKLRAA  305 (411)
T ss_pred             eecccCcccccccchHhHHHHHHHhc------CCCCcceEEEECCEECcCCCCccCcCCCCCCHHHHHhc
Confidence            99999999999999999999988753      23599998877 6777677775 999999999998754

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.

>PLN02224 methionine-tRNA ligase

Probab=96.95  E-value=0.00047  Score=60.85  Aligned_cols=66  Identities=24%  Similarity=0.312  Sum_probs=52.8

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .+|-|.|+.+.|.+-..-|.+|   |--+|...|+    .+-++++.+|+++-++-|| ||+||+|+|.|++..
T Consensus       317 ~~~w~~~v~~iGKDii~fH~i~---wpa~l~~~g~----~~P~~i~~~g~l~~eG~KMSKS~GN~i~p~e~l~~  383 (616)
T PLN02224        317 SFGWPASLHLIGKDILRFHAVY---WPAMLMSAGL----ELPKMVFGHGFLTKDGMKMGKSLGNTLEPFELVQK  383 (616)
T ss_pred             ccCCCcceEEEeecccccHHHH---HHHHHHHCCC----CCCcEEEecccEecCCccccccCCccCCHHHHHHH
Confidence            3445999999999988877655   5666777774    3559999999999888875 999999999997653

>KOG0432|consensus

Probab=96.32  E-value=0.0021  Score=59.71  Aligned_cols=67  Identities=24%  Similarity=0.509  Sum_probs=46.2

Q ss_pred             hcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC-eeee-cCCCceeCCCceee
Q psy1520          30 AQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ-TYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        30 ~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~-~~k~-ks~Gn~v~p~ev~~  102 (107)
                      .+...|.++-==|  |=||-.--||+.---|.    +...-||++.+-||||.+. +.|| ||.||||+|-||+.
T Consensus       541 ~~~fyP~sllETG--~DILfFWVaRMvmLg~k----LtG~lPF~~V~LH~mVRDa~GRKMSKSLGNVIDPlDVI~  609 (995)
T KOG0432|consen  541 FKNFYPLSLLETG--HDILFFWVARMVMLGLK----LTGELPFKEVLLHGLVRDAHGRKMSKSLGNVIDPLDVID  609 (995)
T ss_pred             HHhcCCchhhhcC--chHHHHHHHHHHHhhhh----hcCCCCchheeechhhccccccccchhhccccCHHHHhc
Confidence            3444566655444  55666445555433332    2367799999999999974 4665 99999999999875

>PRK00750 lysK lysyl-tRNA synthetase; Reviewed

Probab=96.19  E-value=0.0035  Score=54.03  Aligned_cols=72  Identities=21%  Similarity=0.333  Sum_probs=51.0

Q ss_pred             CCCChhhhccc--ccceEEeecchhHH-HHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC-eee-ecCCCceeCC
Q psy1520          23 VSFNTDKAQDW--LPVDIYIGGKEHAV-LHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ-TYR-EKTSGKYLKP   97 (107)
Q Consensus        23 ~~fd~~~~~~W--mPVD~YIGGiEHAi-lHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~-~~k-~ks~Gn~v~p   97 (107)
                      -++-.+=+-+|  +-||+.++|.+|+. .+.++.+.-..+|   |.   .-|+.  +..|||+.+ +-| |||+||+|+|
T Consensus       220 L~Wr~dW~~rW~~l~Vd~e~~GkDh~~~s~~~~~~i~~~il---g~---~~P~~--~~y~~v~~~~G~KMSKSkGN~i~~  291 (510)
T PRK00750        220 LQWKVDWPMRWAALGVDFEPFGKDHASASYDTSKKIAREIL---GG---EPPEP--FVYELFLDKKGEKISKSKGNVITI  291 (510)
T ss_pred             cCCCCCcHHHHHHcCCCEEeeCcccCcchHHHHHHHHHHHc---CC---CCCee--eeeeeEEeCCCCcccccCCCccCH
Confidence            34444556677  68999999999998 6655554333233   32   34655  678999987 556 4999999999


Q ss_pred             Cceee
Q psy1520          98 DEVFT  102 (107)
Q Consensus        98 ~ev~~  102 (107)
                      +|++.
T Consensus       292 ~d~l~  296 (510)
T PRK00750        292 EDWLE  296 (510)
T ss_pred             HHHHH
Confidence            98754

>PTZ00399 cysteinyl-tRNA-synthetase; Provisional

Probab=96.14  E-value=0.0017  Score=57.59  Aligned_cols=63  Identities=14%  Similarity=0.247  Sum_probs=46.3

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |+|+--||+++.-=|.=.-+.-+.++.      ...||.+.+.| |+|+-++.|| ||+||+|+|.|++..
T Consensus       268 ~~DIh~gG~DL~FPHHeNEiAQseA~~------~~~~~v~y~~H~G~L~i~G~KMSKSLGNfItp~dlLek  332 (651)
T PTZ00399        268 PIDIHSGGIDLKFPHHDNELAQSEAYF------DKHQWVNYFLHSGHLHIKGLKMSKSLKNFITIRQALSK  332 (651)
T ss_pred             cceeeccCCCCCCCcchhHHHHHHHhh------CCCCCCcEEEEEEEEEeccchhhhcCCCcccHHHHHHH
Confidence            689999999886556333333333333      23589888888 9999888875 999999999998753

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

Probab=94.95  E-value=0.011  Score=49.30  Aligned_cols=58  Identities=24%  Similarity=0.378  Sum_probs=43.0

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      +++=|.+-+.-|.+|-=.   +|.-.|+-    +.++++++|+++-++.|+ ||+||+|.|+|++.
T Consensus       285 v~~iGkDi~~fH~i~~pa---~l~a~~~~----lP~~i~~~~~~~~~g~K~SkS~gn~i~~~~~~~  343 (391)
T PF09334_consen  285 VHFIGKDIIRFHAIYWPA---MLLAAGLP----LPRRIVVHGFLTLDGEKMSKSRGNVIWPDDLLE  343 (391)
T ss_dssp             EEEEEGGGHHHHHTHHHH---HHHHCTB-------SEEEEE--EEETTCCEETTTTESSBHHHHHH
T ss_pred             EEEEccchhHHHHHHhHH---HHhcccCC----CCCEEEeeeeEEECCeeccccCCcccCHHHHHH
Confidence            788899999999988443   44444443    448999999999988874 99999999998764

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 ....

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

Probab=94.92  E-value=0.012  Score=48.97  Aligned_cols=74  Identities=19%  Similarity=0.271  Sum_probs=49.6

Q ss_pred             CCCCChhhhccc--ccceEEeecchhHHH--HHHHHHHHHHHHH-hcCCCCCCCccccccccceeecCee-e-ecCCCce
Q psy1520          22 EVSFNTDKAQDW--LPVDIYIGGKEHAVL--HLYYARFIAHFLH-AQGKTPAREPFKRLLVQGMIMGQTY-R-EKTSGKY   94 (107)
Q Consensus        22 ~~~fd~~~~~~W--mPVD~YIGGiEHAil--HLLYaRF~~K~L~-D~G~v~~~EPF~~Ll~QGMV~~~~~-k-~ks~Gn~   94 (107)
                      .-++-.+=+-+|  +-||+=++|.+|+--  .---   ...+++ -+|.   ..|+.  +..|||+.+.- | |||+||+
T Consensus       212 KL~Wr~dW~~rW~~l~Vd~E~~GkDh~~~ggs~~~---~~~i~~~ilg~---~~P~~--~~ye~V~l~gg~KMSKSkGnv  283 (353)
T cd00674         212 KLTWRVDWPMRWAILGVDFEPFGKDHASAGGSYDT---GKEIAREIFGG---EPPVP--VMYEFIGLKGGGKMSSSKGNV  283 (353)
T ss_pred             ccCCCCCchhhhhhcCCCEEeeCccccccccHHHH---HHHHHHHHhCC---CCCeE--EEeeeEEeCCCCccCCCCCCc
Confidence            445555666777  689999999999832  1222   233333 3444   33644  66799987665 5 5999999


Q ss_pred             eCCCceeec
Q psy1520          95 LKPDEVFTK  103 (107)
Q Consensus        95 v~p~ev~~~  103 (107)
                      |+|+|++..
T Consensus       284 I~~~dll~~  292 (353)
T cd00674         284 ITPSDWLEV  292 (353)
T ss_pred             CCHHHHHHH
Confidence            999998653

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.

>PRK01611 argS arginyl-tRNA synthetase; Reviewed

Probab=94.90  E-value=0.013  Score=49.98  Aligned_cols=59  Identities=25%  Similarity=0.497  Sum_probs=40.3

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCc-cccccc--cceeecCe-ee-ecCCCceeCCCceeec
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREP-FKRLLV--QGMIMGQT-YR-EKTSGKYLKPDEVFTK  103 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EP-F~~Ll~--QGMV~~~~-~k-~ks~Gn~v~p~ev~~~  103 (107)
                      +||-|.+|. +|  ..| ...+++-+|..   ++ ...++.  .|||+++. .| ||++||+|+|+|++.+
T Consensus       276 i~V~g~~q~-~h--f~~-~~~~~~~lg~~---~~~~~~~~h~~~glv~~~~g~KMSkR~Gn~i~l~dll~~  339 (507)
T PRK01611        276 IYVVGADHH-GH--FKR-LKAALKALGYD---PDALEVLLHQMVGLVRGGEGVKMSTRAGNVVTLDDLLDE  339 (507)
T ss_pred             EEEECCChH-HH--HHH-HHHHHHHcCCC---cccceEEEEEEEEeeECCCCCcccCCCCceeEHHHHHHH
Confidence            899999998 56  223 33667777753   22 233433  48998854 45 4999999999998764

>TIGR00456 argS arginyl-tRNA synthetase

Probab=94.26  E-value=0.042  Score=47.62  Aligned_cols=56  Identities=30%  Similarity=0.474  Sum_probs=40.0

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccc--cccceeecCeeeecCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRL--LVQGMIMGQTYREKTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~L--l~QGMV~~~~~k~ks~Gn~v~p~ev~~  102 (107)
                      +||-|.+|. +|  ..|.| .+|..+|+-.   | .+|  +..|||.+.. .+|++||+|+|+|++.
T Consensus       331 I~V~g~~q~-~h--~~~v~-~~l~~lG~~~---~-~~l~h~~~~~V~~~k-mSkr~Gn~V~~~dll~  388 (566)
T TIGR00456       331 IYVWGSDHH-LH--IAQFF-AILEKLGFYK---K-KELIHLNFGMVPLGS-MKTRRGNVISLDNLLD  388 (566)
T ss_pred             EEEecCcHH-HH--HHHHH-HHHHHcCCCC---C-CceEEEEEEEEECCC-CCccCCceeeHHHHHH
Confidence            699999997 55  45544 7888899742   2 345  4566787743 2589999999997654

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.

>KOG0437|consensus

Probab=94.21  E-value=0.0068  Score=56.26  Aligned_cols=69  Identities=20%  Similarity=0.391  Sum_probs=57.5

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCcee
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVF  101 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~  101 (107)
                      +..+||.|+|+-++|.+=.=-||.|.=|-|-+|...-.+|     +...+.|-++-.+.|| ||+||+..-++-+
T Consensus       656 ~eF~Y~YPiDlrvsGKDLi~NHLtfflynHvAl~~~k~WP-----kgiraNGHLmLNsEKMSKSTGNfmTL~qai  725 (1080)
T KOG0437|consen  656 REFEYFYPIDLRVSGKDLIPNHLTFFLYNHVALFPEKKWP-----KGIRANGHLMLNSEKMSKSTGNFMTLEQAI  725 (1080)
T ss_pred             HhhhcccceeeeeccccccccceeEeeeehhhhcccccCc-----cceeeCceEEecchhhccccCCeeeHHHHH
Confidence            5578999999999999999999999888888888866666     4678888888777775 9999998876643

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

Probab=94.04  E-value=0.036  Score=45.73  Aligned_cols=61  Identities=16%  Similarity=0.212  Sum_probs=43.9

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccc-ccceeecCeeee-cCCCceeCCCceee
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLL-VQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll-~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ++|+--||+++.-=|.=.-+--+.++.+       +||.+.. -.|||.-++.|| ||.||++...|+.+
T Consensus       206 ~~DIH~GG~DL~FPHHENEiAqs~a~~g-------~~~a~~W~H~g~l~~~g~KMSKSlgN~~~i~dll~  268 (300)
T PF01406_consen  206 TFDIHGGGIDLIFPHHENEIAQSEAATG-------KPFANYWMHNGHLNVDGEKMSKSLGNFITIRDLLK  268 (300)
T ss_dssp             SEEEEEEEGGGTTTHHHHHHHHHHHHHS-------S-SEEEEEEE--EEETTCE--TTTT---BHHHHHT
T ss_pred             CceEEccccccCCCCccchHHHHHHhhC-------chHHHHHHHHHHHhhcCccccccCCCEEEHHHHhh
Confidence            6999999999999998777777777763       6777665 459999888886 99999999888764

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.

>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional

Probab=93.81  E-value=0.035  Score=48.21  Aligned_cols=61  Identities=25%  Similarity=0.382  Sum_probs=47.3

Q ss_pred             ceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccc-ccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          36 VDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKR-LLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        36 VD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~-Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +|+..||+++.-=|.-.-+--+.++.  |     .||.+ .+.+||++-++.|| ||+||+|...|++..
T Consensus       234 ~DIH~GG~DliFPHHeneiAqs~a~~--g-----~~~~~~w~h~g~l~~~g~KMSKSlGN~itl~dll~~  296 (490)
T PRK14536        234 CDIHIGGVDHIRVHHTNEIAQCEAAT--G-----KPWVRYWLHHEFLLMNKGKMSKSAGQFLTLSSLQEK  296 (490)
T ss_pred             eeEEeccccCCCcchhhHHHHHHHhc--C-----CCcceEEEEcCEEeecCccccccCCCcccHHHHHhc
Confidence            89999999999999877776666553  2     46655 55667777666665 999999999998765

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

Probab=93.22  E-value=0.063  Score=47.47  Aligned_cols=69  Identities=22%  Similarity=0.423  Sum_probs=53.3

Q ss_pred             hhhcccccce----EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          28 DKAQDWLPVD----IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        28 ~~~~~WmPVD----~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      +..+.|-|-|    +++=|.|=..=|-+   ||--+|...|+=    ..++++++|+++-++-|| ||+||+|.|.+++.
T Consensus       277 ~~~~~~W~~~~~e~vhfIGKDii~FHav---~wPamL~~~~~~----lP~~i~ahg~l~~~G~KmSKSrG~~V~~~~~~~  349 (558)
T COG0143         277 EDFKKFWPADDTELVHFIGKDIIRFHAV---YWPAMLMAAGLP----LPTRIFAHGFLTLEGQKMSKSRGNVVDPDELLE  349 (558)
T ss_pred             HHHHhhCCCCCceEEEEeccccCcchhh---HHHHHHHhCCCC----CCCEEEeeeeEEECCccccccCCcEEeHHHHHH
Confidence            4556666777    56666775555533   488899888876    779999999999988885 99999999999764


Q ss_pred             c
Q psy1520         103 K  103 (107)
Q Consensus       103 ~  103 (107)
                      .
T Consensus       350 ~  350 (558)
T COG0143         350 Q  350 (558)
T ss_pred             H
Confidence            3

>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional

Probab=93.15  E-value=0.052  Score=47.14  Aligned_cols=64  Identities=14%  Similarity=0.232  Sum_probs=47.9

Q ss_pred             cccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcc-ccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          33 WLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPF-KRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        33 WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF-~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |-.+|+..||+++.-=|.-.-+-.+.++.       .+|| .-.+.+|||+-++.|| ||.||+|..+|++..
T Consensus       231 g~~~DIH~GG~DliFPHHene~Aqs~a~~-------g~~~~~~W~H~g~l~~~g~KMSKSlGN~i~l~dll~~  296 (481)
T PRK14534        231 KSTLDIHLGGVDHIGVHHINEIAIAECYL-------NKKWCDMFVHGEFLIMEYEKMSKSNNNFITIKDLEDQ  296 (481)
T ss_pred             CCcceEEecccccCCCcchhHHHHHhhhc-------CCCcceEEEEecEEEecCceecccCCCcccHHHHHhc
Confidence            44589999999999888666555554432       2355 5567788999877775 999999999998754

>PLN02946 cysteine-tRNA ligase

Probab=92.71  E-value=0.04  Score=48.69  Aligned_cols=62  Identities=15%  Similarity=0.136  Sum_probs=46.6

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccc-cccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFK-RLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~-~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ++|+-.||+++.-=|.=.-+.-+.+...       .||. --+..|||+-++.|| ||+||+|.+.|++..
T Consensus       277 ~~DIH~GG~DL~FPHHENEiAQsea~~g-------~~~a~yW~H~G~v~~~G~KMSKSlGN~itl~dll~~  340 (557)
T PLN02946        277 SFDIHGGGMDLVFPHHENEIAQSCAACC-------DSNISYWIHNGFVTVDSEKMSKSLGNFFTIRQVIDL  340 (557)
T ss_pred             CeeEeccccccCCCcccchHHHHHHHhC-------CCCCceeeEeeEEEeCCCCcCCcCCCcCCHHHHHHh
Confidence            3999999999988886666655555432       3443 336689999888776 999999999988753

>KOG0436|consensus

Probab=90.05  E-value=0.21  Score=44.19  Aligned_cols=68  Identities=24%  Similarity=0.284  Sum_probs=54.9

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ..+..|-|..+-|=|.+=+.-|-.|   |-.||-..|+-    |=++.+-||.-+-.+-|| ||.||+|+|-+++.
T Consensus       292 ~~ls~~wPat~HvIGKDIlrFHavY---WPafLmaAGlp----lP~~I~vHghwt~ngmKMsKSLGNvvdP~~l~~  360 (578)
T KOG0436|consen  292 TALSFGWPATLHVIGKDILRFHAVY---WPAFLMAAGLP----LPKMIFVHGHWTKNGMKMSKSLGNVVDPFELVQ  360 (578)
T ss_pred             ceeecCCCceeeehhhhhhhhhhhh---hHHHHHhcCCC----CccEEEEeeeeeecceecchhhccccCHHHHHH
Confidence            3467788999999999988888776   88999888874    446777888887777776 99999999987654

>KOG0434|consensus

Probab=90.05  E-value=0.066  Score=49.78  Aligned_cols=73  Identities=19%  Similarity=0.382  Sum_probs=56.3

Q ss_pred             CChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCee-ee-cCCCceeCCCceee
Q psy1520          25 FNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTY-RE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        25 fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~-k~-ks~Gn~v~p~ev~~  102 (107)
                      -+++..+.=.|.|.--.|+++.++|..=.-...-      ++-.+-||++++..|+|+.+.- || |++-||=+|..+++
T Consensus       544 enk~~fe~~fPadFIaEGlDQTRGWFYTL~VlsT------~LF~kppfkNvIvnGlVLAeDG~KMSKrlkNYPdP~~iin  617 (1070)
T KOG0434|consen  544 ENKEEFEENFPADFIAEGLDQTRGWFYTLLVLST------ALFGKPPFKNVIVNGLVLAEDGKKMSKRLKNYPDPSLIIN  617 (1070)
T ss_pred             cchHHHhhcCchHhhhhccccccchhhHHHHHHH------HHcCCCcchheeEeeeEEecccHHHhhhhhcCCCHHHHHH
Confidence            3567778889999999999999998333333333      3345789999999999998664 44 89999999988875


Q ss_pred             c
Q psy1520         103 K  103 (107)
Q Consensus       103 ~  103 (107)
                      +
T Consensus       618 k  618 (1070)
T KOG0434|consen  618 K  618 (1070)
T ss_pred             h
Confidence            4

>PLN02610 probable methionyl-tRNA synthetase

Probab=89.73  E-value=0.29  Score=44.72  Aligned_cols=60  Identities=15%  Similarity=0.125  Sum_probs=43.5

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      +.+=|.+=+.-|-+|   |--+|.-.|.-  --+.++++.+|+++-++-|| ||+||+|+|.+++.
T Consensus       304 ~hfiGKDi~~fH~i~---wPa~L~a~g~~--~~~p~~i~~~g~l~~eG~KMSKS~GNvV~p~~~i~  364 (801)
T PLN02610        304 YQFMGKDNVPFHTVM---FPSTLLGTGEN--WTMMKTISVTEYLNYEGGKFSKSKGVGVFGNDAKD  364 (801)
T ss_pred             EEEEeeecchhHHHH---HHHHHHhCCCC--cCCCCEEEeccCEecCCceecCcCCcccCHHHHHh
Confidence            466666766666443   66666666640  01457999999999888875 99999999999875

>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 The aminoacyl-tRNA synthetases (6

Probab=86.68  E-value=0.15  Score=41.77  Aligned_cols=60  Identities=18%  Similarity=0.342  Sum_probs=40.5

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeee--e-cCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYR--E-KTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k--~-ks~Gn~v~p~ev~~  102 (107)
                      +||-|.+|. +|   ..=...+|..+|.-+....+. -+.+|||+...-+  | +.+|++|..+|++.
T Consensus       242 iyV~~~~q~-~h---f~~l~~~l~~lg~~~~~~~~~-H~~~g~vl~~~gk~~mstR~G~~i~l~dlld  304 (354)
T PF00750_consen  242 IYVVGADQK-GH---FKQLFAILEALGYDPEAVKLQ-HVSFGVVLLKDGKVKMSTRKGNVITLDDLLD  304 (354)
T ss_dssp             EEEEEGGGH-HH---HHHHHHHHHHTT-HHHHCTEE-EEEE-EEEETTBEESS-TTTTSSTBHHHHHH
T ss_pred             EEEecCchh-hH---HHHHHHHHHHhCCCCCCCEEE-EEEEEEEEcCCCCccccCCCCCceEHHHHHH
Confidence            899999998 66   333456777778544444433 2589999765433  4 77899999988865

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 entry represents the core region of arginyl-tRNA synthetase (6.1.1.19 from EC), which has been crystallized and preliminary X-ray crystallographic analysis of yeast arginyl-tRNA synthetase-yeast tRNAArg complexes is available []. ; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1IQ0_A 1F7V_A 1F7U_A 1BS2_A 3GDZ_B.

>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional

Probab=86.56  E-value=0.26  Score=44.99  Aligned_cols=69  Identities=19%  Similarity=0.208  Sum_probs=47.8

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhc--CCC----C-CC--Cccccc-cccceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQ--GKT----P-AR--EPFKRL-LVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~--G~v----~-~~--EPF~~L-l~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ++|+--||+++.-=|.=.-+--+.++...  +.-    . ..  +||.+- +..|||+-++.|| ||.||+|+|.|++..
T Consensus       446 ~~DIHgGG~DLiFPHHENEiAQseA~~g~~~~~~~~~~~~~~~~~~~aryWmHnG~V~vdGeKMSKSLGN~it~~dlLe~  525 (699)
T PRK14535        446 TFDIHGGGADLQFPHHENEIAQSVGATGHTCGHHHAQTHHGQSIASHVKYWLHNGFIRVDGEKMSKSLGNFFTIREVLKQ  525 (699)
T ss_pred             cceeECCccccCCCCCccHHHHHHHhhCCCcccccccccccccccccccEEEECCeEeeCCCccCCCCCCcCCHHHHHHh
Confidence            39999999999887766665555554321  010    1 11  256664 5669999777775 999999999988653

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

Probab=83.20  E-value=2.5  Score=29.59  Aligned_cols=45  Identities=24%  Similarity=0.333  Sum_probs=29.1

Q ss_pred             ceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCe-eee
Q psy1520          36 VDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQT-YRE   88 (107)
Q Consensus        36 VD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~-~k~   88 (107)
                      .|+|+||.||.- |.-..+-+.+.+   |.  ...|  .-+..|||++.. -||
T Consensus        94 ~~i~~~G~Dq~~-h~~~~~~i~~~~---~~--~~~p--~~~~~~~l~~~~g~Km  139 (143)
T cd00802          94 CDIHLGGSDQLG-HIELGLELLKKA---GG--PARP--FGLTFGRVMGADGTKM  139 (143)
T ss_pred             cEEEEechhHHH-HHHHHHHHHHHh---CC--CCCc--eEEEeCCeECCCCCcC
Confidence            599999999996 765555555544   41  1223  456678998755 444

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.

>PRK12451 arginyl-tRNA synthetase; Reviewed

Probab=81.90  E-value=0.78  Score=40.03  Aligned_cols=59  Identities=22%  Similarity=0.386  Sum_probs=41.8

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      +||-|.+|. +|  ..| ...+|..+|+.+. +- -.-+.-|||...+-+| +-+|++|.-+|++.
T Consensus       328 IyV~g~dq~-~h--~~~-l~~~~~~lg~~~~-~~-l~h~~~g~V~~~g~kmStR~G~~v~l~dLld  387 (562)
T PRK12451        328 LYVVGPEQS-LH--FNQ-FFTVLKKLGYTWV-DG-MEHVPFGLILKDGKKMSTRKGRVVLLEEVLE  387 (562)
T ss_pred             EEEeCCcHH-HH--HHH-HHHHHHHcCCCcc-cC-eEEEeeeeEecCCCCCcCCCCCeeEHHHHHH
Confidence            899999997 55  333 4478888887532 21 2236677998765554 77899999999865

>PF10910 DUF2744: Protein of unknown function (DUF2744); InterPro: IPR021226 This entry is represented by Mycobacteriophage D29, Gp29

Probab=81.82  E-value=1.3  Score=32.74  Aligned_cols=81  Identities=16%  Similarity=0.135  Sum_probs=50.7

Q ss_pred             cccccccCCCCCCCCCChhhhcccccceEE-eecchhHHHHHHHHHHHHHHHHhcCCCCCC-----Cccccccccceeec
Q psy1520          10 IKTKTKSRDINAEVSFNTDKAQDWLPVDIY-IGGKEHAVLHLYYARFIAHFLHAQGKTPAR-----EPFKRLLVQGMIMG   83 (107)
Q Consensus        10 ~~~~~~~dp~n~~~~fd~~~~~~WmPVD~Y-IGGiEHAilHLLYaRF~~K~L~D~G~v~~~-----EPF~~Ll~QGMV~~   83 (107)
                      |.|..-|||+|.++.      --|+=+.+= ++| ..+|.|--|.|=|++-|.++|+...+     +.-.++..=.+  |
T Consensus         2 iptQe~~D~~dPeEh------flWaL~~lP~~~G-~~~it~~~~lr~wS~hLw~cGfrh~ds~lP~q~~iK~~pP~r--g   72 (125)
T PF10910_consen    2 IPTQEECDPNDPEEH------FLWALRNLPGPAG-AGLITPPGYLRDWSEHLWECGFRHHDSQLPQQQIIKYQPPFR--G   72 (125)
T ss_pred             CcchhhcCCCCHHHH------HHHHHccCCCCCC-CCccCCHHHHHHHHHHHHHcCCCCCccccchhhhhhccCCCC--C
Confidence            556666777765444      445433322 334 78899999999999999999999887     33323322111  1


Q ss_pred             CeeeecCCCceeCCCc
Q psy1520          84 QTYREKTSGKYLKPDE   99 (107)
Q Consensus        84 ~~~k~ks~Gn~v~p~e   99 (107)
                      ..--..+.|.||+.|+
T Consensus        73 ~~h~~n~agrWV~~d~   88 (125)
T PF10910_consen   73 PRHWYNNAGRWVPIDE   88 (125)
T ss_pred             CccccCCcceeecCCC
Confidence            1111356788998766

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	107
3ziu_A	637	Crystal Structure Of Mycoplasma Mobile Leucyl-trna		3e-16
2v0c_A	878	Leucyl-Trna Synthetase From Thermus Thermophilus Co		2e-15
1obh_A	878	Leucyl-Trna Synthetase From Thermus Thermophilus Co		2e-15
4aq7_A	880	Ternary Complex Of E. Coli Leucyl-Trna Synthetase,		1e-12

>pdb|3ZIU|A Chain A, Crystal Structure Of Mycoplasma Mobile Leucyl-trna Synthetase With Leu-ams In The Active Site Length = 637

Iteration: 1
 Score = 80.1 bits (196), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 36/70 (51%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 33  WLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE--KT 90
           WLPVD+YIGG+EHAVLHL YARF    L+     P +EPF++L+ QGMI+G+  ++  K+
Sbjct: 355 WLPVDLYIGGQEHAVLHLLYARFWHKILYDLKIVPTKEPFQKLINQGMILGKDGQKMSKS 414
Query: 91  SGKYLKPDEV 100
            G  + PDE+
Sbjct: 415 LGNVVNPDEI 424

>pdb|2V0C|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed With A Sulphamoyl Analogue Of Leucyl-Adenylate In The Synthetic Site And An Adduct Of Amp With 5-Fluoro-1,3- Dihydro-1-Hydroxy-2,1-Benzoxaborole (An2690) In The Editing Site Length = 878

Iteration: 1
 Score = 77.4 bits (189), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 34/66 (51%), Positives = 42/66 (63%)
Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N  + F+ +KA  W+PVD YIGG EHAVLHL Y+RF   FLH  G     EPF+ L  QG
Sbjct: 516 NDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQG 575
Query: 80  MIMGQT 85
           M++  T
Sbjct: 576 MVLAWT 581

>pdb|1OBH|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed With A Pre-Transfer Editing Substrate Analogue In Both Synthetic Active Site And Editing Site Length = 878

Iteration: 1
 Score = 77.0 bits (188), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 34/66 (51%), Positives = 42/66 (63%)
Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N  + F+ +KA  W+PVD YIGG EHAVLHL Y+RF   FLH  G     EPF+ L  QG
Sbjct: 516 NDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQG 575
Query: 80  MIMGQT 85
           M++  T
Sbjct: 576 MVLAWT 581

>pdb|4AQ7|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase, Trna(Leu) And Leucyl-Adenylate Analogue In The Aminoacylation Conformation Length = 880

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 40/65 (61%)
Query: 22  EVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMI 81
           E   +++ A  WLPVDIYIGG EHA++HL Y RF    +   G   + EP K+LL QGM+
Sbjct: 530 EGMLDSEAANYWLPVDIYIGGIEHAIMHLLYFRFFHKLMRDAGMVNSDEPAKQLLCQGMV 589
Query: 82  MGQTY 86
           +   +
Sbjct: 590 LADAF 594

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	107
4arc_A	880	Leucine--tRNA ligase; ligase-RNA complex, nucleoti	5e-31
2v0c_A	878	Aminoacyl-tRNA synthetase; ligase, nucleotide-bind	3e-29
1wkb_A	810	Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, e	2e-17
1wz2_A	967	Leucyl-tRNA synthetase; ligase, riken structural g	2e-09

>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* Length = 880

 Score =  113 bits (286), Expect = 5e-31
 Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 3/87 (3%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
             E   +++ A  WLPVDIYIGG EHA++HL Y RF    +   G   + EP K+LL QG
Sbjct: 528 YKEGMLDSEAANYWLPVDIYIGGIEHAIMHLLYFRFFHKLMRDAGMVNSDEPAKQLLCQG 587

Query: 80  MIMGQTYR---EKTSGKYLKPDEVFTK 103
           M++   +    E     ++ P +   +
Sbjct: 588 MVLADAFYYVGENGERNWVSPVDAIVE 614

>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* Length = 878

 Score =  108 bits (273), Expect = 3e-29
 Identities = 36/82 (43%), Positives = 47/82 (57%), Gaps = 2/82 (2%)

Query: 20  NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
           N  + F+ +KA  W+PVD YIGG EHAVLHL Y+RF   FLH  G     EPF+ L  QG
Sbjct: 516 NDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQG 575

Query: 80  MIMGQTYR--EKTSGKYLKPDE 99
           M++  T     +  G  ++  E
Sbjct: 576 MVLAWTDFGPVEVEGSVVRLPE 597

>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino acid, aminoacylation, trnaLeu, structural genomics; 2.05A {Pyrococcus horikoshii} Length = 810

 Score = 75.4 bits (185), Expect = 2e-17
 Identities = 14/84 (16%), Positives = 27/84 (32%), Gaps = 6/84 (7%)

Query: 21  AEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGM 80
             +    ++ + W P+D    GK+    HL +  F    +            K + V G 
Sbjct: 589 EIIHEMKEEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAIF-----REEHWPKGIAVNGF 643

Query: 81  IMGQT-YREKTSGKYLKPDEVFTK 103
              +     K+ G  L   +   +
Sbjct: 644 GTLEGQKMSKSKGNVLNFIDAIEE 667

>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural genomics/proteomics initiativ structural genomics, ligase-RNA complex; 3.21A {Pyrococcus horikoshii} Length = 967

 Score = 52.3 bits (125), Expect = 2e-09
 Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 6/77 (7%)

Query: 28  DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYR 87
           ++ + W P+D    GK+    HL +  F    +            K + V G    +  +
Sbjct: 596 EEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAI-----FREEHWPKGIAVNGFGTLEGQK 650

Query: 88  -EKTSGKYLKPDEVFTK 103
             K+ G  L   +   +
Sbjct: 651 MSKSKGNVLNFIDAIEE 667

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	107
4arc_A	880	Leucine--tRNA ligase; ligase-RNA complex, nucleoti	100.0
2v0c_A	878	Aminoacyl-tRNA synthetase; ligase, nucleotide-bind	99.96
1wkb_A	810	Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, e	99.4
1wz2_A	967	Leucyl-tRNA synthetase; ligase, riken structural g	99.38
1gax_A	862	Valrs, valyl-tRNA synthetase; protein-RNA complex,	99.25
1ile_A	821	Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA s	99.22
2d5b_A	500	Methionyl-tRNA synthetase; rossmann fold, class 1A	99.12
2csx_A	497	Methionyl-tRNA synthetase; ligase, riken structura	99.08
1ffy_A	917	Isoleucyl-tRNA synthetase; protein-RNA complex, me	99.07
2x1l_A	524	Methionyl-tRNA synthetase; nucleotide-binding, pro	99.05
3c8z_A	414	Cysteinyl-tRNA synthetase; cysteine ligase, rossma	98.82
4dlp_A	536	Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA	98.72
3kfl_A	564	Methionyl-tRNA synthetase; parasite, aminoacyl-tRN	98.65
3u1f_A	542	Methionyl-tRNA synthetase; aminoacyl-tRNA syntheta	98.65
3h99_A	560	Methionyl-tRNA synthetase; rossmann fold, aminoacy	98.61
3sp1_A	501	Cysteinyl-tRNA synthetase; structural genomics, se	98.3
1rqg_A	722	Methionyl-tRNA synthetase; translation, dimerizati	97.78
1li5_A	461	Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys	97.61
3tqo_A	462	Cysteinyl-tRNA synthetase; protein synthesis, liga	97.09
3fnr_A	464	Arginyl-tRNA synthetase; transferase, PSI-2, NYSGX	96.48
1irx_A	523	Lysyl-tRNA synthetase; beta sandwitch, zinc-bindin	95.37
1iq0_A	592	Arginyl-tRNA synthetase; riken structural genomics	93.05
2zue_A	629	Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase	92.95
2cyb_A	323	Tyrosyl-tRNA synthetase; rossmann-fold, structural	85.63
1f7u_A	607	Arginyl-tRNA synthetase; RNA-protein complex, amin	84.95

>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=100.00  E-value=1.2e-34  Score=256.51  Aligned_cols=91  Identities=34%  Similarity=0.664  Sum_probs=84.9

Q ss_pred             ccccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCee------
Q psy1520          13 KTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTY------   86 (107)
Q Consensus        13 ~~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~------   86 (107)
                      -+|+||+|++++||++++++|||||+||||+||||+||||||||+++|+|+|+++.+|||++|++||||+++++      
T Consensus       521 ~r~~~p~~~~~~~~~~~~~~~~PvD~yigG~EHailHllyaRf~~~~L~~~g~~~~~ePFk~ll~qGmVl~~~~~~~d~~  600 (880)
T 4arc_A          521 ARYTCPQYKEGMLDSEAANYWLPVDIYIGGIEHAIMHLLYFRFFHKLMRDAGMVNSDEPAKQLLCQGMVLADAFYYVGEN  600 (880)
T ss_dssp             HHTTSTTCCSSSCCHHHHHHHCSEEEEECCGGGTTTHHHHHHHHHHHHHHTTSCCCSCSEEEEECCCCEEEEEEEEECTT
T ss_pred             HhhcCCCccccccChHHHhccCCceEeecchhhHHHHHHHHHHHHHHHHHhhcccCCCChHHeEEeceEeecceeccccC
Confidence            35789999999999999999999999999999999999999999999999999999999999999999986655      


Q ss_pred             --------------------------------------ee-cCCCceeCCCceeec
Q psy1520          87 --------------------------------------RE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        87 --------------------------------------k~-ks~Gn~v~p~ev~~~  103 (107)
                                                            || ||+||+|+|+|++.+
T Consensus       601 G~~~~~~~~~v~~~~~~~~~~~~~~~~~G~~v~~~~~eKMSKSkGNvVdP~diIek  656 (880)
T 4arc_A          601 GERNWVSPVDAIVERDEKGRIVKAKDAAGHELVYTGMSKMSKSKNNGIDPQVMVER  656 (880)
T ss_dssp             SCEEEECSTTCEEEECTTCCEEEEECTTCCBCEEEEEEECCTTTTCCCCHHHHHHH
T ss_pred             CcccccCHHHhccccccccccccccccCCccccccccccccCcCCCCCCHHHHHHH
Confidence                                                  75 999999999998753

>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=99.96  E-value=1.7e-31  Score=235.27  Aligned_cols=70  Identities=47%  Similarity=0.910  Sum_probs=67.9

Q ss_pred             cccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec
Q psy1520          14 TKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG   83 (107)
Q Consensus        14 ~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~   83 (107)
                      +|++|+|++.+|+++.+++|+|||+||||+||||+||||||||+++|+|+|++..+|||++|++||||++
T Consensus       510 ~~~~p~~~~~~~~~~~~~~~~P~D~yi~G~d~~ilhl~y~r~~~~~l~~~g~~~~~~Pfk~l~~~G~vl~  579 (878)
T 2v0c_A          510 RYTDPHNDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQGMVLA  579 (878)
T ss_dssp             HTTSTTCSSSSCCHHHHHHHCSBSEEECCGGGTTTHHHHHHHHHHHHHHTTSCSCSCSBSBEECCCCEEE
T ss_pred             hccCccccccccCHHHHccCCCCeEEEechHHHHHHHHHHHHHHHHHHHhhcccCCCchHhheecceEec
Confidence            4789999999999999999999999999999999999999999999999999999999999999999987

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

Probab=99.40  E-value=2.7e-14  Score=123.57  Aligned_cols=70  Identities=20%  Similarity=0.297  Sum_probs=62.0

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcc-ccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPF-KRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF-~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++|+|+|+|+||+||+..|+.|.+|++.++.+.+      |+ ++++.||||+.++.|| ||+||+|+|.|++.+
T Consensus       596 ~~~~~~~p~Di~~~G~D~~~~H~~~~~~~~~~~~~~~------~~pk~v~~~G~v~~~G~KMSKS~GNvv~p~dli~~  667 (810)
T 1wkb_A          596 EEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAIFREE------HWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEE  667 (810)
T ss_dssp             HHHHHHCSCSEEEEEGGGTTTHHHHHHHHHHHHSCGG------GSCCEEEEECCEEETTBCCCTTTTCCCBHHHHHHH
T ss_pred             HHHHhhCCceEEeecccccccHHHHHHHHHHHHcCcc------ccccEEEEEeEEEeCCeehhhcCCCcCCHHHHHHH
Confidence            4578999999999999999999999999999987653      45 8999999999888775 999999999998753

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

Probab=99.38  E-value=6.5e-14  Score=124.20  Aligned_cols=70  Identities=20%  Similarity=0.297  Sum_probs=62.4

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcc-ccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPF-KRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF-~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +..++|+|+|+|+||+||+..|+.|.+|++.++.+.+      || +++++||||+.++.|| ||+||+|+|.|++.+
T Consensus       596 ~~~~~w~P~Di~~~G~D~i~~H~~~~~~~~~a~~~~~------~~pk~v~~~G~v~~~G~KMSKS~GNvv~p~d~i~~  667 (967)
T 1wz2_A          596 EEFEYWYPLDWRCSGKDLIPNHLTFFIFNHVAIFREE------HWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEE  667 (967)
T ss_dssp             HHHHHHCSCSEEEEEGGGTTTHHHHHHHHHHHHSCST------TSCCCEEEECCEEESSSCCCTTTCCCCBHHHHHHT
T ss_pred             HHHHhhCCCeEEeeeeCcchhHHHHHHHHHHHHcCcc------cccceEEEeeEEeeCCEEccccccCCCCHHHHHHH
Confidence            4578999999999999999999999999999987653      55 8999999999888775 999999999998754

>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=99.25  E-value=1.2e-12  Score=115.71  Aligned_cols=71  Identities=25%  Similarity=0.573  Sum_probs=61.6

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .+..++|+|+|+|++|.|  ++|..++|++...+...|.    +||++++.||||++ ++.|| ||+||+|+|.|++.+
T Consensus       473 ~~~~~~~~P~d~~v~G~D--ii~~W~a~~~~~~~~~~g~----~Pfk~v~~hG~vld~~G~KMSKSlGNvIdP~dli~~  545 (862)
T 1gax_A          473 TEDLKAFYPGDVLVTGYD--ILFLWVSRMEVSGYHFMGE----RPFKTVLLHGLVLDEKGQKMSKSKGNVIDPLEMVER  545 (862)
T ss_dssp             CHHHHHSCSBSCEEEEGG--GTTTTHHHHHHHHHHHSSS----CSBSEEEEECCEECTTSCBCCTTTTCCCCHHHHHHH
T ss_pred             hHHHHhhCCceEEecCcc--ccccHHHHHHHHHHHhcCC----CcccEEEEeeeEEcCCCCCccccCCCCCCHHHHHHH
Confidence            356889999999999999  5677899999999988875    79999999999995 55665 999999999998753

>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=99.22  E-value=2.8e-12  Score=111.68  Aligned_cols=70  Identities=20%  Similarity=0.357  Sum_probs=54.7

Q ss_pred             hhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCC-CCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          27 TDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKT-PAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        27 ~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v-~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ++..++|+|+|+|+||+||+..|       ...|..++.. ...+||+++++||||+. ++.|| ||+||+|+|.|++.+
T Consensus       536 ~~~f~~~~P~dl~~~G~D~~r~w-------~~~~~~~~~~~~~~~pf~~v~~hg~vl~~~G~KMSKS~GNvV~p~dli~~  608 (821)
T 1ile_A          536 EEVFRESFPADFIAEGIDQTRGW-------FNSLHQLGVMLFGSIAFKNVICHGLILDEKGQKMSKSKGNVVDPWDIIRK  608 (821)
T ss_dssp             HHHHHHHSSBSBEEEEGGGGGTH-------HHHHHHHHHHHHSSCSBSEEEEECCEECTTSSCCCTTTTCCCCHHHHHTT
T ss_pred             hHHHhhcCCcccccchhhhhccH-------HHHHHHHHHHhcCCCCcceEEEEeeEECCCCCCCCccCCCCCCHHHHHHH
Confidence            35567899999999999997554       4444444333 24679999999999997 66665 999999999998764

>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=99.12  E-value=1.3e-11  Score=100.48  Aligned_cols=66  Identities=23%  Similarity=0.374  Sum_probs=55.2

Q ss_pred             hcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceee
Q psy1520          30 AQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        30 ~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      .++|.|+|+|+||.||+.-|++|   |...|..+|.    +||++++.||||+. ++.|| ||+||+|+|.|++.
T Consensus       246 ~~~~~p~di~~~G~D~~~fh~~~---~~a~~~~~g~----~~~~~v~~~G~v~~~~G~KMSKS~GN~i~p~d~i~  313 (500)
T 2d5b_A          246 YRTFWPHAWHLIGKDILKPHAVF---WPTMLKAAGI----PMYRHLNVGGFLLGPDGRKMSKTLGNVVDPFALLE  313 (500)
T ss_dssp             HHHHGGGEEEEEEGGGHHHHHTH---HHHHHHHHTC----CCCSEEEEECCEECTTSSCCCTTTTCCCCHHHHHH
T ss_pred             HHHcCCCeEEEEeechhhhHHHH---HHHHHHHcCC----CCCcEEEECceEEeCCCCcccccCCCCCCHHHHHH
Confidence            45667999999999999999884   5555555664    79999999999998 77775 99999999999875

>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=99.08  E-value=2.4e-11  Score=99.23  Aligned_cols=64  Identities=28%  Similarity=0.433  Sum_probs=54.8

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ++| |+|+|+||.||+.-|.+   ||...|..+|.    +||++++.||||+.++.|| ||+||+|+|.|++.
T Consensus       247 ~~~-p~di~~~G~D~~~~H~~---~~~a~l~~~g~----~~~~~~~~~G~v~~~G~KMSKS~GN~i~~~dli~  311 (497)
T 2csx_A          247 IYW-PADLHLVGKDILRFHTV---YWPAFLMSLGY----ELPKKVFAHGWWTVEGKKMSKTLGNVVDPYEVVQ  311 (497)
T ss_dssp             HHC-SCSCEEEEGGGHHHHHT---HHHHHHHHHTC----CCCSCEEEECCEESSSSBCCTTTTCCCCHHHHHH
T ss_pred             hhC-CceEEEeecchhHhHHH---HHHHHHHHcCC----CCCcEEEECcEEEeCCceeCCcCCCCCCHHHHHH
Confidence            566 99999999999999987   46666666674    7999999999999888775 99999999999865

>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=99.07  E-value=1.1e-11  Score=110.00  Aligned_cols=64  Identities=25%  Similarity=0.449  Sum_probs=50.4

Q ss_pred             cccceEEeecchhHHHHHHHHHHHHHH-HHhcCCCCCCCccccccccceeec-Ceeee-cCCCceeCCCceeec
Q psy1520          33 WLPVDIYIGGKEHAVLHLYYARFIAHF-LHAQGKTPAREPFKRLLVQGMIMG-QTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        33 WmPVD~YIGGiEHAilHLLYaRF~~K~-L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .+|+|+|++|+||...|      |+++ +...+ +...+||+++++||||+. ++.|| ||+||+|+|.|++.+
T Consensus       546 ~~P~Dl~~~G~D~~r~w------f~~~l~~s~~-~~g~~Pfk~v~~hG~V~d~~G~KMSKSlGNvV~P~dvi~~  612 (917)
T 1ffy_A          546 SFPADMYLEGSDQYRGW------FNSSITTSVA-TRGVSPYKFLLSHGFVMDGEGKKMSKSLGNVIVPDQVVKQ  612 (917)
T ss_dssp             CSSBSEEEEEGGGGTTH------HHHHHHHHHH-HHSSCSBSEEEEECCEECTTSCCCCSSSSCCCCHHHHHHH
T ss_pred             CCCceEEEEEecccccH------HHHHHHHHHH-hhCCCcccceeEeeeEEcCCCcCcccccCCcCChHHHHHh
Confidence            37999999999997776      3333 33333 345689999999999996 66675 999999999998753

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

Probab=99.05  E-value=3.1e-11  Score=99.17  Aligned_cols=67  Identities=22%  Similarity=0.417  Sum_probs=56.5

Q ss_pred             hhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          29 KAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        29 ~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ..++|.|+|+|+||.||+.-|.+|   |...|...|.    +||++++.||||+.++.|| ||+||+|+|.|++.
T Consensus       259 ~~~~~~p~di~~~G~D~~~fh~~~---~~a~l~~~g~----~~~~~v~~hG~v~~~G~KMSKS~GN~v~p~d~i~  326 (524)
T 2x1l_A          259 SFRRYWPADLHMIGKDIIRFHTVY---WPAFLMSAGL----PLPKRIFAHGWLLNRGEKMSKSIGNVVDPVNLVD  326 (524)
T ss_dssp             HHHHHCSCSEEEEEGGGHHHHHTH---HHHHHHHHTC----CCCSCEEEECCEEECSCSEETTTEESSCHHHHHH
T ss_pred             HHHhhCCCeEEEEeechhHhHHHH---HHHHHHHCCC----CCCcEEEECcEEEeCCcccCCcCCCCCCHHHHHH
Confidence            355677999999999999888774   5566666675    7999999999999888775 99999999999875

>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=98.82  E-value=7.2e-10  Score=89.93  Aligned_cols=64  Identities=23%  Similarity=0.272  Sum_probs=45.8

Q ss_pred             ccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceeec
Q psy1520          34 LPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        34 mPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      -|+|+++||.+|+..|..|.+++..++.+      .+||.+.+.| |||..++.|| ||+||+|+|.|++.+
T Consensus       243 ~~~di~~~G~D~~~~H~~~~~a~~~a~~g------~~~~~~~~~h~g~v~~~G~KMSKS~GN~v~~~~ll~~  308 (414)
T 3c8z_A          243 TGLDIQGGGSDLIFPHHEYSAAHAESVTG------ERRFARHYVHTGMIGWDGHKMSKSRGNLVLVSQLRAQ  308 (414)
T ss_dssp             SCEEEEEEEGGGTTTHHHHHHHHHHHHHC------CSCSEEEEEEECCBC-------------CBHHHHHHT
T ss_pred             CCceEEEeccccccHHHHHHHHHHHHhcC------CCCcCeEEEEcCEEecCCeEcccccCCcCCHHHHhhc
Confidence            49999999999999999999999999853      3699987776 9999887775 999999999998865

>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=98.72  E-value=4.1e-09  Score=87.24  Aligned_cols=68  Identities=24%  Similarity=0.392  Sum_probs=45.9

Q ss_pred             hhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          28 DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        28 ~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ++.++|-|.|+|+.|.+|..-|.+|   |...|...|+    +||++++.+|||+.++.|| ||+||+|+|.|++.
T Consensus       269 ~~~~~~~p~dv~~~G~D~~~fh~~~---~~a~l~a~g~----~~~~~v~~hg~v~~~G~KMSKS~GNvi~p~d~i~  337 (536)
T 4dlp_A          269 DERWAYWPANAHIIGKDISRFHAVY---WPAFLMSAQL----PLPKRVFAHGFLFNRGEKMSKSVGNVIDPFELVE  337 (536)
T ss_dssp             SGGGGGCSCSEEEEEGGGHHHHHTH---HHHHHHHTTC----CCCSCEEEECCEEC------------CCHHHHHH
T ss_pred             hHHHhhCCcceEEeechHHHHHHHH---HHHHHHHCCC----CCCcEEEeeeeEeeCCceecccCCCCCCHHHHHH
Confidence            3456777999999999999988776   4444444564    6899999999999888775 99999999999865

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

Probab=98.65  E-value=9.1e-09  Score=86.26  Aligned_cols=65  Identities=23%  Similarity=0.303  Sum_probs=55.1

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceee
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ++|-|.|+|+.|.+|..-|.+|   |..+|...|+    +|+++++.||||..++.|| ||+||+|+|.|++.
T Consensus       290 ~~~wp~dv~~~GkDii~FH~~~---wpa~L~a~g~----~~~~~v~~hg~v~~~G~KMSKS~GNvV~p~d~i~  355 (564)
T 3kfl_A          290 LNRWPADVHVVGKDILKFHAIY---WPAFLMSAEL----PLPERLVSHGWWTKDHKKISKSLGNAFDPVEKAK  355 (564)
T ss_dssp             TTCCSCSEEEEEGGGHHHHHTH---HHHHHHHTTC----CCCSCEEEECCEEETTEECCTTTTCCCCHHHHHH
T ss_pred             hhcCccceEEEeecccchHHHH---HHHHHHhCCC----CCCcEEEEcccEeeCCccccccCCCCCCHHHHHH
Confidence            4566999999999999988775   6666667775    6999999999998888875 99999999999864

>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=98.65  E-value=8.6e-09  Score=84.64  Aligned_cols=63  Identities=24%  Similarity=0.372  Sum_probs=53.4

Q ss_pred             ccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          34 LPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        34 mPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .|.|+|++|.|+..-|.+|   |...|...|+    .|++.++++|||..++.|| ||+||+|+|.|++.+
T Consensus       277 ~p~d~~~~G~D~~~fh~~~---~~a~l~~~g~----~~~~~v~~hg~l~~~G~KMSKSlGNvi~p~~~i~~  340 (542)
T 3u1f_A          277 FPADVHVIGKDILKFHAIY---WPAFLLSAGL----PLPKKIVAHGWWTKDRKKISKSLGNVFDPVEKAEE  340 (542)
T ss_dssp             CSCSEEEEEGGGHHHHHTH---HHHHHHHHTC----CCCSCEEEECCCEETTBCCBTTTTBCCCHHHHHHH
T ss_pred             CcceEEEecccccccccch---hHHHHHhhcc----cccceeccccceecCCceeccccCCCCChhHHHhh
Confidence            5999999999999988776   5555555564    6899999999999998885 999999999998753

>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=98.61  E-value=8.4e-09  Score=85.81  Aligned_cols=69  Identities=19%  Similarity=0.317  Sum_probs=58.4

Q ss_pred             hhhcccccce-----EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCcee
Q psy1520          28 DKAQDWLPVD-----IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVF  101 (107)
Q Consensus        28 ~~~~~WmPVD-----~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~  101 (107)
                      +..+.|.|.|     +++.|.+|..-|..   ||..+|..+|+   ..| ++++.||||+.++.|| ||+||+|+|+|++
T Consensus       288 ~~~~~~wp~~~~~~~~~~~G~D~~~fh~~---~~~a~l~~~g~---~~p-~~v~~hg~v~~~G~KMSKS~GNvv~p~d~i  360 (560)
T 3h99_A          288 VSFDEYWKKDSTAELYHFIGKDIVYFLSL---FWPAMLEGSNF---RKP-SNLFVHGYVTVNGAKMSKSRGTFIKASTWL  360 (560)
T ss_dssp             SHHHHHHBTTCCSEEEEEEEGGGHHHHHT---HHHHHHHHTTB---CCC-SEEEEECCEEETTEECCTTTTCCCBHHHHH
T ss_pred             hhHHHhCcCCCCceeEEEeccccchhHHH---HHHHHHHhCCC---CCC-cEEEEEeEEEeCCeeccccCCCcCCHHHHH
Confidence            3456777888     99999999987754   68888888886   677 9999999999988875 9999999999987


Q ss_pred             ec
Q psy1520         102 TK  103 (107)
Q Consensus       102 ~~  103 (107)
                      .+
T Consensus       361 ~~  362 (560)
T 3h99_A          361 NH  362 (560)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

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

Probab=98.30  E-value=1.8e-07  Score=79.23  Aligned_cols=66  Identities=17%  Similarity=0.324  Sum_probs=49.9

Q ss_pred             cccc-cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceeec
Q psy1520          31 QDWL-PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        31 ~~Wm-PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ++|- |+|+..||+++..-|..|-.+.+.++..       +||.+.+.| |||+-++.|| ||+||+|+|.|++.+
T Consensus       248 ~~lg~~~DIH~gG~DLifpHheneiAqs~a~~g-------~~~~~~w~H~g~v~~~G~KMSKSlGN~it~~dll~~  316 (501)
T 3sp1_A          248 EYFKDALDIHLGGVDHIGVHHINEIAIAECFLN-------KKWCDVFVHGEFLIMDYNKMSKSRGNFITVKDLEDQ  316 (501)
T ss_dssp             HHTTTCCCEEEEEGGGTTTHHHHHHHHHHHHHT-------SCCCSEEEEECCEECC----------CCCHHHHHHT
T ss_pred             HHcCCCceEEeeccccccchHHHHHHHHHHccC-------CCCCeEEEEeeeEeeCCeEccccCCCcCCHHHHHhc
Confidence            4452 6899999999999999999999998863       699998888 9999888885 999999999998765

>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=97.78  E-value=8.3e-06  Score=70.59  Aligned_cols=63  Identities=17%  Similarity=0.148  Sum_probs=48.7

Q ss_pred             eEEeecchhHHHHHHHHHHHHHHHHhcCC------C-CCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          37 DIYIGGKEHAVLHLYYARFIAHFLHAQGK------T-PAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        37 D~YIGGiEHAilHLLYaRF~~K~L~D~G~------v-~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +++++|.+...-|.+|   |--.|.-.|.      . ....| ++++.||||+.++.|| ||+||+|+|.|++.+
T Consensus       291 ~~h~~GkDii~fH~~~---wpA~l~~~~~~l~~d~~rg~~~P-k~v~~hG~v~~~G~KMSKS~GNvV~p~d~i~~  361 (722)
T 1rqg_A          291 VIHFIGKDNIPFHAIF---WPAFLMAYGKYKDEEVEAEWNLP-YDIPANEYLTLEGKKFSTSRNWAIWVHEFLDV  361 (722)
T ss_dssp             EEEEEEGGGHHHHHTH---HHHHHHTTCCBCSSSCCBCBCCC-SBCCEECCEEETTEECBTTTTBSCBHHHHTTT
T ss_pred             eEEEccccccccchhh---hHHHHhccCCCcccccccCCCCC-CEEEEeeeEEeCCeeeeeeCCCcCCHHHHHHh
Confidence            4899999999888765   4334554442      1 13678 9999999999988875 999999999998754

>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=97.61  E-value=2e-05  Score=65.00  Aligned_cols=62  Identities=18%  Similarity=0.236  Sum_probs=48.3

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccc-ccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKR-LLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~-Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      |+|+.+||.++..-|..|--....++  .|     .||.+ ++.+|||+.++.|| ||+||+|+|.|++.+
T Consensus       220 ~~dih~gG~Dl~fpH~~~~~aq~~a~--~g-----~~~~~~~~h~g~v~~~G~KMSKS~GN~v~~~dll~~  283 (461)
T 1li5_A          220 HFDIHGGGSDLMFPHHENEIAQSTCA--HD-----GQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKY  283 (461)
T ss_dssp             SEEEEECBGGGTTTHHHHHHHHHHHH--SS-----SCCEEEECCBCCEEETTBCCCGGGTCCCBHHHHHTT
T ss_pred             CceEEeccCccCchHHHHHHHHHHHh--cC-----CCCCcEEEEeeEEEECCeEccccCCCccChhHHhhh
Confidence            89999999998877877666555554  23     35654 66779999888775 999999999998753

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

Probab=97.09  E-value=0.00022  Score=59.63  Aligned_cols=61  Identities=21%  Similarity=0.278  Sum_probs=49.3

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccc-ceeecCeeee-cCCCceeCCCceee
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ-GMIMGQTYRE-KTSGKYLKPDEVFT  102 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~Q-GMV~~~~~k~-ks~Gn~v~p~ev~~  102 (107)
                      ++|+-.||+++.--|.-.-...+.++.       ..||.+...| |||..++.|| ||+||+|+|.|++.
T Consensus       223 ~~dih~gG~Dl~FpHheneiaqs~a~~-------g~p~~~~w~H~g~v~~~G~KMSKSlGN~i~~~dll~  285 (462)
T 3tqo_A          223 PFDIHGGGLDLKFPHHENEIAQSEAGE-------EKPFVKLWMHAGLLEINKEKMSKSLGNIISIREALK  285 (462)
T ss_dssp             SEEEEEEEGGGTTTHHHHHHHHHHHHH-------SSCCEEEEEEECCEEETTEECCTTTTCCCBHHHHHH
T ss_pred             CeEEEccccccccHHHHhHHHHHHHHc-------CCCcceEEEEccEEecCCcCccccCCCcccHHHHHh
Confidence            799999999999888766666666554       2499988655 8888888875 99999999999865

>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc genomics, protein structure initiative; 2.20A {Campylobacter jejuni}

Probab=96.48  E-value=0.00066  Score=56.53  Aligned_cols=58  Identities=19%  Similarity=0.316  Sum_probs=40.0

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCcccccccccee-ec-Ce--ee-ecCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMI-MG-QT--YR-EKTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV-~~-~~--~k-~ks~Gn~v~p~ev~~  102 (107)
                      +||.|.+|. +|  ..| +..++..+|+.+   |--..+..||| ++ ++  .| |||+||+|+|+|++.
T Consensus       239 Iyv~G~dq~-~~--f~~-l~~~l~~lG~~~---~~~~h~~~g~V~l~~dG~~~KMSKr~Gn~v~l~dll~  301 (464)
T 3fnr_A          239 INIWGADHH-GY--IPR-MKAAMEFLGFDS---NNLEIILAQMVSLLKDGEPYKMSKRAGNFILMSDVVD  301 (464)
T ss_dssp             EEEEEGGGG-GG--HHH-HHHHHHTTTCCG---GGEEEEEECCEEEEETTEECCC---CCSSCBHHHHHH
T ss_pred             EEEecCcHH-HH--HHH-HHHHHHHcCCCc---cceEEEEeeeEEecCCCcccCCcCcCCCCCCHHHHHh
Confidence            899999998 55  445 458889999743   21256889999 32 22  45 499999999999864

>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=95.37  E-value=0.0029  Score=52.46  Aligned_cols=62  Identities=19%  Similarity=0.197  Sum_probs=35.1

Q ss_pred             ccceEEeecchhHHHHH--HHHHHHHHHHHhcCCCCCCCccccccccceeecC--eee-ecCCCceeCCCceee
Q psy1520          34 LPVDIYIGGKEHAVLHL--YYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ--TYR-EKTSGKYLKPDEVFT  102 (107)
Q Consensus        34 mPVD~YIGGiEHAilHL--LYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~--~~k-~ks~Gn~v~p~ev~~  102 (107)
                      +.|++.++|++|..-|.  -+..-+.  +.-+|.    +|+ ..+..|||+.+  +.| |||+||+|+++++..
T Consensus       229 l~~~vd~~G~Dh~~~h~s~~~~~~i~--~~alG~----~~p-~~~h~~~i~~~g~g~KmSKs~Gn~i~~~~~~~  295 (523)
T 1irx_A          229 FGVDFEPAGKDHLVAGSSYDTGKEII--KEVYGK----EAP-LSLMYEFVGIKGQKGKMSGSKGNVILLSDLYE  295 (523)
T ss_dssp             SCCCBCCEEHHHHSTTSHHHHHHHHH--HHHHCC----CCC-BCCEECCEEESCC---------CCCCHHHHHT
T ss_pred             cCCCCcCCCcCccCCCcchhhHHHHH--HHHhCC----CCC-eEEEEEEEEeCCCCCCCCCcCCCCCCHHHHHH
Confidence            34566699999998662  1112222  123454    333 67888999987  566 599999999988764

>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=93.05  E-value=0.0075  Score=50.99  Aligned_cols=61  Identities=18%  Similarity=0.132  Sum_probs=36.8

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      +||.|.+|. +|  .++ ...++..+|+ +.....-.-+..|||+.++.|| ||+||+|+++|++..
T Consensus       350 iyV~g~~h~-~~--~~~-~~~~~~alG~-~~~~~~~~H~~~g~v~~~g~KMSKr~Gn~v~l~dll~~  411 (592)
T 1iq0_A          350 INVVDVRQS-HP--QAL-VRAALALAGY-PALAEKAHHLAYETVLLEGRQMSGRKGLAVSVDEVLEE  411 (592)
T ss_dssp             EEEEESSSC-CC--HHH-HHHHHHHTTC-HHHHTTEEEEEECCEEETTBCSCC----CCBHHHHHHH
T ss_pred             EEEEeccHH-HH--HHH-HHHHHHHcCC-CCCCCcEEEEEeeEEEcCCCcccCCCCCccCHHHHHHH
Confidence            689999887 44  233 3455666775 1101112346789999887775 999999999998754

>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=92.95  E-value=0.036  Score=47.42  Aligned_cols=61  Identities=18%  Similarity=0.046  Sum_probs=42.6

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCC--ceeCCCceeec
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSG--KYLKPDEVFTK  103 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~G--n~v~p~ev~~~  103 (107)
                      +||.|.+|. +|  ..|. ..+|..+|+-...+ .-..+..|||+.+..|| |++|  |+|+++|++..
T Consensus       380 IyV~g~~q~-~~--~~~l-~~~l~~lG~~~~~~-~~~h~~~g~V~~~~~KMSkr~G~~n~v~l~dLl~e  443 (629)
T 2zue_A          380 INVIGAEQK-HP--QLAI-KYALQLLGFEDAAA-NLYHLAYEHVERPEGKFSGRKGTWVGFTVDEVIQE  443 (629)
T ss_dssp             EEEEEGGGH-HH--HHHH-HHHHHHTTCHHHHH-TEEEEEECCEEBTTBCCCTTTTTTTTCBHHHHHHH
T ss_pred             EEEEeCcHh-hH--HHHH-HHHHHHcCCCCCCC-eEEEEEeeeEEcCCCcccCCCCCCCeeeHHHHHHH
Confidence            799999996 44  3443 46677778621000 12357789999887775 8999  99999998753

>2cyb_A Tyrosyl-tRNA synthetase; rossmann-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: TYR; 1.80A {Archaeoglobus fulgidus}

Probab=85.63  E-value=0.54  Score=36.72  Aligned_cols=57  Identities=25%  Similarity=0.366  Sum_probs=41.0

Q ss_pred             ccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC-eeee-cCCCceeCCCc
Q psy1520          34 LPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ-TYRE-KTSGKYLKPDE   99 (107)
Q Consensus        34 mPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~-~~k~-ks~Gn~v~p~e   99 (107)
                      +.+|+-+||.+|. -|+.-+|=+.+-+   |.   .+|+  .++..+|.+. +-|| ||.||.|..+|
T Consensus       169 ~~~~~v~~G~DQ~-~~~~l~rdla~~~---~~---~~p~--~l~~pll~~l~G~KMSKS~~n~I~l~d  227 (323)
T 2cyb_A          169 LGVDLAVGGIDQR-KIHMLARENLPRL---GY---SSPV--CLHTPILVGLDGQKMSSSKGNYISVRD  227 (323)
T ss_dssp             TTCSEEEEEGGGH-HHHHHHHHHGGGG---TC---CCCE--EEEECCCBCTTSSBCCTTTTCSCBTTC
T ss_pred             cCCCEEEechhhH-HHHHHHHHHHHhc---CC---CCce--EEecCcccCCCCCcccCCcCceeCCCC
Confidence            5899999999997 6888787766543   32   3665  5667777653 3454 99999887765

>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=84.95  E-value=0.43  Score=40.80  Aligned_cols=56  Identities=23%  Similarity=0.349  Sum_probs=38.2

Q ss_pred             EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeeecCCCceeCCCceee
Q psy1520          38 IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFT  102 (107)
Q Consensus        38 ~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~ks~Gn~v~p~ev~~  102 (107)
                      +||-|.+|. +|  .+|.+ .+++-+|. +..+ .-..+.-|||.+   .|++.||+|..+|++.
T Consensus       368 IyV~g~~q~-~~--f~q~~-~~~~~lG~-~~~~-~~~Hv~fg~v~k---MSkR~G~~v~L~dLld  423 (607)
T 1f7u_A          368 IYVIASQQD-LH--AAQFF-EILKQMGF-EWAK-DLQHVNFGMVQG---MSTRKGTVVFLDNILE  423 (607)
T ss_dssp             EEECCGGGH-HH--HHHHH-HHHHHTTC-GGGG-GEEEECCCCEES---CCGGGTCCCBHHHHHH
T ss_pred             EEEEcChHh-hH--HHHHH-HHHHHcCC-CcCc-EEEEeccccccc---ccCCCCCcccHHHHHH
Confidence            788999996 56  46765 57788886 2111 122244588874   4589999999988764

---

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	107
d1ivsa4	425	c.26.1.1 (A:1-189,A:343-578) Valyl-tRNA synthetase	2e-08
d1h3na3	494	c.26.1.1 (A:1-225,A:418-686) Leucyl-tRNA synthetas	2e-07
d1ffya3	450	c.26.1.1 (A:1-200,A:395-644) Isoleucyl-tRNA synthe	2e-05
d1ilea3	452	c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthe	0.001

>d1ivsa4 c.26.1.1 (A:1-189,A:343-578) Valyl-tRNA synthetase (ValRS) {Thermus thermophilus [TaxId: 274]} Length = 425

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]

 Score = 48.0 bits (113), Expect = 2e-08
 Identities = 18/81 (22%), Positives = 40/81 (49%), Gaps = 8/81 (9%)

Query: 25  FNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ 84
             T+  + + P D+ + G  + +L L+ +R      H  G+     PFK +L+ G+++ +
Sbjct: 318 EETEDLKAFYPGDVLVTG--YDILFLWVSRMEVSGYHFMGE----RPFKTVLLHGLVLDE 371

Query: 85  TYRE--KTSGKYLKPDEVFTK 103
             ++  K+ G  + P E+  +
Sbjct: 372 KGQKMSKSKGNVIDPLEMVER 392

>d1h3na3 c.26.1.1 (A:1-225,A:418-686) Leucyl-tRNA synthetase (LeuRS) {Thermus thermophilus [TaxId: 274]} Length = 494

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]

 Score = 45.4 bits (106), Expect = 2e-07
 Identities = 34/72 (47%), Positives = 42/72 (58%)

Query: 19  INAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQ 78
            N  + F+ +KA  W+PVD YIGG EHAVLHL Y+RF   FLH  G     EPF+ L  Q
Sbjct: 323 HNDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQ 382

Query: 79  GMIMGQTYREKT 90
           GM++  T     
Sbjct: 383 GMVLAWTDFGPV 394

>d1ffya3 c.26.1.1 (A:1-200,A:395-644) Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus aureus [TaxId: 1280]} Length = 450

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]

 Score = 39.6 bits (91), Expect = 2e-05
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 8/78 (10%)

Query: 28  DKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYR 87
            + +   P D+Y+ G +      ++   I   +  +G      P+K LL  G +M    +
Sbjct: 347 TRPELSFPADMYLEGSDQ--YRGWFNSSITTSVATRGV----SPYKFLLSHGFVMDGEGK 400

Query: 88  E--KTSGKYLKPDEVFTK 103
           +  K+ G  + PD+V  +
Sbjct: 401 KMSKSLGNVIVPDQVVKQ 418

>d1ilea3 c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthetase (IleRS) {Thermus thermophilus [TaxId: 274]} Length = 452

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]

 Score = 34.5 bits (78), Expect = 0.001
 Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 10/81 (12%)

Query: 26  NTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPA-REPFKRLLVQGMIMGQ 84
           + +  ++  P D    G +         R   + LH  G        FK ++  G+I+ +
Sbjct: 346 HEEVFRESFPADFIAEGIDQT-------RGWFNSLHQLGVMLFGSIAFKNVICHGLILDE 398

Query: 85  TYRE--KTSGKYLKPDEVFTK 103
             ++  K+ G  + P ++  K
Sbjct: 399 KGQKMSKSKGNVVDPWDIIRK 419

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	107
d1h3na3	494	Leucyl-tRNA synthetase (LeuRS) {Thermus thermophil	99.18
d1ffya3	450	Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus	98.98
d1ivsa4	425	Valyl-tRNA synthetase (ValRS) {Thermus thermophilu	98.71
d1ilea3	452	Isoleucyl-tRNA synthetase (IleRS) {Thermus thermop	98.65
d1pfva2	350	Methionyl-tRNA synthetase (MetRS) {Escherichia col	97.79
d1rqga2	361	Methionyl-tRNA synthetase (MetRS) {Pyrococcus abys	97.71
d1irxa2	317	Class I lysyl-tRNA synthetase {Archaeon Pyrococcus	97.54
d2d5ba2	348	Methionyl-tRNA synthetase (MetRS) {Thermus thermop	97.28
d1li5a2	315	Cysteinyl-tRNA synthetase (CysRS) {Escherichia col	95.98
d1p9ka_	79	Hypothetical protein YbcJ {Escherichia coli [TaxId	83.73
d1f7ua2	348	Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Sa	80.78

>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=99.18  E-value=4.7e-12  Score=98.34  Aligned_cols=71  Identities=46%  Similarity=0.885  Sum_probs=64.0

Q ss_pred             cccCCCCCCCCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC
Q psy1520          14 TKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ   84 (107)
Q Consensus        14 ~~~dp~n~~~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~   84 (107)
                      .+.+......+.......+|.|||++.+|.++.+.+.+++|++.++..+.|.....+||++.++||+|+..
T Consensus       318 ~~~~~~~~~~~~~~~~~~~~~~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~G~v~~~  388 (494)
T d1h3na3         318 RYTDPHNDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQGMVLAW  388 (494)
T ss_dssp             HTTSTTCSSSSSCHHHHHHHCSBSEEECCGGGTTTHHHHHHHHHHHHHHTTSCSCSCSBSBEECCCCEEEE
T ss_pred             hhcccccccccccccccccccCceecccccceeeeeeecccchhhhhhcccccccchhcccccccCcEecC
Confidence            34555666777888888999999999999999999999999999999999999999999999999999864

>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=98.98  E-value=2.3e-11  Score=96.36  Aligned_cols=67  Identities=24%  Similarity=0.435  Sum_probs=51.2

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC-eeee-cCCCceeCCCceeec
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ-TYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~-~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      ..+.|+|+|++|.|+...|  +++++-..+.-    ...+||++++.||||++. +.|| ||+||+|+|+|++.+
T Consensus       350 ~~~~P~d~~~~G~Di~r~w--~~~~~~~~~~~----~~~~Pfk~v~~hG~vld~~G~KMSKS~GN~I~p~dii~~  418 (450)
T d1ffya3         350 ELSFPADMYLEGSDQYRGW--FNSSITTSVAT----RGVSPYKFLLSHGFVMDGEGKKMSKSLGNVIVPDQVVKQ  418 (450)
T ss_dssp             TCCSSBSEEEEEGGGGTTH--HHHHHHHHHHH----HSSCSBSEEEEECCEECTTSCCCCSSSSCCCCHHHHHHH
T ss_pred             cccCCCcccccCcchhhHH--HHHHHHHHHHh----cCCCCcceEEEcceEECCCCCCCCCCCCCCcCHHHHHHH
Confidence            4567999999999998776  33333333333    346899999999999864 5665 999999999998754

>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=98.71  E-value=1.5e-09  Score=82.91  Aligned_cols=75  Identities=19%  Similarity=0.401  Sum_probs=57.8

Q ss_pred             CCCChhhhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecC-eee-ecCCCceeCCCce
Q psy1520          23 VSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQ-TYR-EKTSGKYLKPDEV  100 (107)
Q Consensus        23 ~~fd~~~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~-~~k-~ks~Gn~v~p~ev  100 (107)
                      .+.+.+..+.|-|+|++++|.+....|.++.=+....+      ...+||++++.||||+.. +.| |||+||+|.|+|+
T Consensus       316 ~~~~~~~~~~~~p~di~~~G~Di~~~h~~~~~a~~~~~------~~~~p~~~v~~hg~~L~~~G~KMSKS~Gn~I~~~e~  389 (425)
T d1ivsa4         316 WPEETEDLKAFYPGDVLVTGYDILFLWVSRMEVSGYHF------MGERPFKTVLLHGLVLDEKGQKMSKSKGNVIDPLEM  389 (425)
T ss_dssp             TTTTCSHHHHSCSBSCEEEEGGGTTTTHHHHHHHHHHH------SSSCSBSEEEEECCEECTTSSBCBTTTTBCCCHHHH
T ss_pred             CCcChHHHhCCCCceEEEEEehhhhHHHHHHHHHHHHh------cCCCccceEEEcceEECCCCCCcCCCCCCCcCHHHH
Confidence            34556777899999999999998888865554444433      236799999999999864 456 5999999999998


Q ss_pred             eec
Q psy1520         101 FTK  103 (107)
Q Consensus       101 ~~~  103 (107)
                      +.+
T Consensus       390 l~~  392 (425)
T d1ivsa4         390 VER  392 (425)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=98.65  E-value=1.2e-09  Score=83.89  Aligned_cols=69  Identities=16%  Similarity=0.317  Sum_probs=50.6

Q ss_pred             hhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceee-ecCCCceeCCCceeec
Q psy1520          29 KAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYR-EKTSGKYLKPDEVFTK  103 (107)
Q Consensus        29 ~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k-~ks~Gn~v~p~ev~~~  103 (107)
                      ....+.|+|++++|++|.+.+ +++=+|--.|     +...+||++++.||||+. ++.| |||+||+|+|.|++.+
T Consensus       349 ~~~~~~p~~~~~~g~d~~~~~-fh~l~~~~~l-----~~~~~~~~~v~~hg~iL~~~G~KMSKS~gn~I~~~dll~~  419 (452)
T d1ilea3         349 VFRESFPADFIAEGIDQTRGW-FNSLHQLGVM-----LFGSIAFKNVICHGLILDEKGQKMSKSKGNVVDPWDIIRK  419 (452)
T ss_dssp             HHHHHSSBSBEEEEGGGGGTH-HHHHHHHHHH-----HHSSCSBSEEEEECCEECTTSSCCCTTTTCCCCHHHHHTT
T ss_pred             hcccCCcchhheecCceechh-hHHHHHhHHH-----HcCCCCCCeEEEeeEEECCCCcccCCCCCCCcCHHHHHHH
Confidence            345678999999999999865 1222222222     234789999999999975 4456 5999999999998754

>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=97.79  E-value=3.3e-06  Score=62.41  Aligned_cols=61  Identities=15%  Similarity=0.159  Sum_probs=48.2

Q ss_pred             ceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          36 VDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        36 VD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .++++||++++.-|..+......+       ....||.+.+.+|||+.++.|| ||+||+|.|+|++..
T Consensus       250 ~~~h~~G~D~~~~h~~~~~~~~~a-------~~~~~~~~~~~~g~l~~~G~KMSKS~GN~i~~~dll~~  311 (350)
T d1pfva2         250 ELYHFIGKDIVYFHSLFWPAMLEG-------SNFRKPSNLFVHGYVTVNGAKMSKSRGTFIKASTWLNH  311 (350)
T ss_dssp             EEEEEEEGGGHHHHHTHHHHHHHH-------TTBCCCSEEEEECCEEETTBSCCTTTTCCCBHHHHHHH
T ss_pred             ceeeccchhhHHHHHhhHHHHhhh-------cCCCccceEEecccEEECCeEccCcCCCCCCHHHHHHH
Confidence            347899999999987765443222       2367888999999999888886 999999999998754

>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=97.71  E-value=6.7e-06  Score=60.12  Aligned_cols=70  Identities=7%  Similarity=-0.074  Sum_probs=51.0

Q ss_pred             ccceEEeecchhHHHHHHHHHHHHHHHHhcCCC---CCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          34 LPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKT---PAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        34 mPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v---~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      -+.|+..+|.+.+.-|..+...+...+......   ..-.++++++.+|+|+.++.|| ||+||+|+|+|++.+
T Consensus       253 ~~~~~~~~g~d~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~p~~~~~~g~l~~~G~KMSKSlGN~I~~~d~i~~  326 (361)
T d1rqga2         253 QTRVIHFIGKDNIPFHAIFWPAFLMAYGKYKDEEVEAEWNLPYDIPANEYLTLEGKKFSTSRNWAIWVHEFLDV  326 (361)
T ss_dssp             CEEEEEEEEGGGHHHHHTHHHHHHHTTCCBCSSSCCBCBCCCSBCCEECCEEETTEECBTTTTBSCBHHHHTTT
T ss_pred             CcceEEeccccccccchhhHHHHHHHhhccccccccccCCCCCEEEEeeeEEeCCEecCCCCCCCCCHHHHHHH
Confidence            467899999999887766555544333221111   1235668889999999888885 999999999999764

>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=97.54  E-value=7.5e-06  Score=56.87  Aligned_cols=68  Identities=18%  Similarity=0.141  Sum_probs=48.2

Q ss_pred             cccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec--Ceee-ecCCCceeCCCceeec
Q psy1520          31 QDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG--QTYR-EKTSGKYLKPDEVFTK  103 (107)
Q Consensus        31 ~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~--~~~k-~ks~Gn~v~p~ev~~~  103 (107)
                      ..|.+++..+.|.+|++-|..|...+..++..+|..    |.. .+..|||.-  ++.| |||+||+|+++|++..
T Consensus       224 ~~~~~~~~~~~g~d~~~~~~~~~~~~~~~~~~~g~~----~~~-~~~~~~l~l~ge~~KMSkrkGn~I~~~dll~~  294 (317)
T d1irxa2         224 WSHFGVDFEPAGKDHLVAGSSYDTGKEIIKEVYGKE----APL-SLMYEFVGIKGQKGKMSGSKGNVILLSDLYEV  294 (317)
T ss_dssp             HHHSCCCBCCEEHHHHSTTSHHHHHHHHHHHHHCCC----CCB-CCEECCEEESCC---------CCCCHHHHHTT
T ss_pred             hccCceeEEEecceecccchhhhHhhhhhhhhcCCC----CcE-EEEEEEEEECCccccccCCCCccccHHHHHHH
Confidence            345789999999999999999999999999888864    333 467788754  4456 5999999999998753

>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=97.28  E-value=1.2e-05  Score=58.47  Aligned_cols=68  Identities=21%  Similarity=0.302  Sum_probs=49.6

Q ss_pred             hhcccccceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeec-Ceee-ecCCCceeCCCceeec
Q psy1520          29 KAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMG-QTYR-EKTSGKYLKPDEVFTK  103 (107)
Q Consensus        29 ~~~~WmPVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~-~~~k-~ks~Gn~v~p~ev~~~  103 (107)
                      ....|.+.+..++|.+|+..|..+.-.-       .+.....||.+++.+|+++. ++.| |||+||+|+|.|++..
T Consensus       245 ~~~~~~~~~~~~~g~d~~~~~~~~~~~~-------~~~~~~~~~~~v~~~~~~l~~~G~KMSKS~Gn~i~~~ell~~  314 (348)
T d2d5ba2         245 AYRTFWPHAWHLIGKDILKPHAVFWPTM-------LKAAGIPMYRHLNVGGFLLGPDGRKMSKTLGNVVDPFALLEK  314 (348)
T ss_dssp             HHHHHGGGEEEEEEGGGHHHHHTHHHHH-------HHHHTCCCCSEEEEECCEECTTSSCCCTTTTCCCCHHHHHHH
T ss_pred             hhccccchheeeehhhccchhhhhhhhh-------ccccccCCCCEEEeCceEEcccCCCCcCCCCcccCHHHHHHH
Confidence            4556778899999999998775433221       12234669999999998875 4456 4999999999998753

>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=95.98  E-value=0.0011  Score=48.34  Aligned_cols=63  Identities=19%  Similarity=0.226  Sum_probs=41.5

Q ss_pred             cceEEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeee-cCCCceeCCCceeec
Q psy1520          35 PVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE-KTSGKYLKPDEVFTK  103 (107)
Q Consensus        35 PVD~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~-ks~Gn~v~p~ev~~~  103 (107)
                      .+|.+++|..|..-|..+.........  +    ..+-.-++..|+|..++.|| ||+||+|+|.|++..
T Consensus       220 ~~~~~~~~~d~~~~~~~~~~~~~~~~~--~----~~~~~~~~~~~~l~~~G~KMSKs~Gn~V~~~dlle~  283 (315)
T d1li5a2         220 HFDIHGGGSDLMFPHHENEIAQSTCAH--D----GQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKY  283 (315)
T ss_dssp             SEEEEECBGGGTTTHHHHHHHHHHHHS--S----SCCEEEECCBCCEEETTBCCCGGGTCCCBHHHHHTT
T ss_pred             cccccccccccccccccccchhhhccc--c----cccccEEEEEEEEecCCcEecCcCCCcccHHHHHHh
Confidence            599999999988776544333332211  1    12222245558999777675 999999999998753

>d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: YbcJ-like
domain: Hypothetical protein YbcJ
species: Escherichia coli [TaxId: 562]

Probab=83.73  E-value=0.17  Score=31.13  Aligned_cols=56  Identities=14%  Similarity=0.185  Sum_probs=44.0

Q ss_pred             EeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeeecCCCceeCCCceee
Q psy1520          39 YIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFT  102 (107)
Q Consensus        39 YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~ks~Gn~v~p~ev~~  102 (107)
                      -+++.+|..|        .|+|...|++.+..=-++|+.+|.|.-.+-.....|.-|.|.|++.
T Consensus        14 ~~~~~~~irL--------~k~L~~~gl~~Sr~eAk~lI~~G~V~VNG~~~~~p~~~V~~~d~I~   69 (79)
T d1p9ka_          14 SLGKHPHVEL--------CDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVS   69 (79)
T ss_dssp             ECCSCSCCCH--------HHHHHHHTSCSSSSTTSHHHHHHHHEETTBCCCCSSCCCCSSEEEE
T ss_pred             EcCCCCcEEH--------HHHHHHCCCccCHHHHHHHHHhCCcccCCEEeccccccCCCCCEEE
Confidence            3567788765        6999999999999999999999999876654445566777777653

>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=80.78  E-value=0.4  Score=35.50  Aligned_cols=59  Identities=25%  Similarity=0.353  Sum_probs=39.8

Q ss_pred             cce--EEeecchhHHHHHHHHHHHHHHHHhcCCCCCCCccccccccceeecCeeeecCCCceeCCCceee
Q psy1520          35 PVD--IYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLKPDEVFT  102 (107)
Q Consensus        35 PVD--~YIGGiEHAilHLLYaRF~~K~L~D~G~v~~~EPF~~Ll~QGMV~~~~~k~ks~Gn~v~p~ev~~  102 (107)
                      ..|  +||-|.+|. +|  ..|. ..+|..+|.-...  --.++.-|||.+   .|+.+||+|..+|++.
T Consensus       228 ~~D~~I~V~g~dq~-~~--~~~l-~~~l~~lg~~~~~--~~~h~~~g~v~k---MStR~G~~i~l~dll~  288 (348)
T d1f7ua2         228 HFDKMIYVIASQQD-LH--AAQF-FEILKQMGFEWAK--DLQHVNFGMVQG---MSTRKGTVVFLDNILE  288 (348)
T ss_dssp             CCSEEEEECCGGGH-HH--HHHH-HHHHHHTTCGGGG--GEEEECCCCEES---CCGGGTCCCBHHHHHH
T ss_pred             CCCEEEEecccccc-hh--hhhH-HHHHHHhCCCccc--ceeeecCCcccc---ccccCCCceEHHHHHH
Confidence            345  899999997 44  4554 4678888863211  234455688863   3488999999988864