Citrus Sinensis ID: 009321

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------

MEASKETGTVAAPKMDLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETIWRPCVLVEQEQEAPPAEKEKKPAATGEEQKA

ccccccccccccccccccEEEEEccccccccccccccccEEEEEEcccccccccccccccHHHHHHHHHHHHHcccEEEEEcccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHccccEEEcccEEEEccccccccccccccHHHHHccccccccccccccccHHccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccEEEEcccccEEEccccccccccccccccccccccccccccc

cccccccccccccccccEEEEEEccccccccEEEcccccEEEEEEcccEEEccEccccHHHHHHHHHHHHHHHcccEEEEEEEccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccEEEEcccEEEEEcccccccccccccHHHHHcccEEEccccccccHHHHHHHccccccccccccccccccccEEEHHHHHHHHccccEEEccccccccccccHHHHHHHHHccccccEEEEEEccEEEEcccHHccccccHHHHHHHHHHccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHcHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccEEEccccccEEEccccHHHHccccccccccccccccccccc

measketgtvaapkmDLTLKIYNSMTQqkelftpivrgkvgmyVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRAndlgenplslSNRYCQEYLVDmadlqclpptyqprvsDHMEQIKDMITQIINNDCAYVVEGDVFFAvekspnygrlsgqrlennragervavdsrkrnpaDFALWKAAkagepswdspwgpgrpgwhieCSAMSAHYLSskfdihgggidlifphheneiaqscaacqdsnvsywmhnghvtnnnekMSKSLGNFFTIRQITERYHPLALRHFLISahyrsplnysvlqldsaSDAVFYIYQTLQDCEVAlspfqehgktarinpaaEDCINKLRDEFHArmsddlntshILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILgllppgaySEVLQQLKDKALKRAELTEEDVLQLIEERAAArknkdfsksdQIRADLTRKGIALMDmgketiwrpcvlveqeqeappaekekkpaatgeeqka

measketgtvaapkmdLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRandlgenplsLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPnygrlsgqrlennragervavdsrkrnpADFALWKAAkagepswdspwGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHgktarinpaaEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERaaarknkdfsksdqiraDLTRKGIALMDMGKETIWRPCVLVEQeqeappaekekkpaatgeeqka

MEASKETGTVAAPKMDLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLkkkqpkqqqLSLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETIWRPCVLVeqeqeappaekekkpaaTGEEQKA

***************DLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEK********************************FALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSL**************LIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKAL*********VLQL*********************DLTRKGIALMDMGKETIWRPCVLV************************

*****************TLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALS*************AAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLN*************LIESLRKIENEVKEVLRILGLLPPGAYSEVLQ***********LTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETIWRPC***************************

**********AAPKMDLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNML**********SLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETIWRPCVLVEQ**********************

***************DLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIALMDMGKETIWRPCVLVEQE*********************

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MEASKETGTVAAPKMDLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGLLPPGAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKDFSKSDQIRADLTRKGIALMDMGKETIWRPCVLVEQEQEAPPAEKEKKPAATGEEQKA

no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		537	2.2.26 [Sep-21-2011]
A1AK01		493	Cysteine--tRNA ligase OS=	yes	no	0.899	0.979	0.489	1e-130
B3E1P0		487	Cysteine--tRNA ligase OS=	yes	no	0.895	0.987	0.475	1e-127
A0LIR9		493	Cysteine--tRNA ligase OS=	yes	no	0.901	0.981	0.464	1e-125
Q3J8Y9		485	Cysteine--tRNA ligase OS=	yes	no	0.875	0.969	0.472	1e-124
Q39ZL8		485	Cysteine--tRNA ligase OS=	yes	no	0.895	0.991	0.457	1e-124
Q3A8C9		481	Cysteine--tRNA ligase OS=	yes	no	0.878	0.981	0.460	1e-122
Q6AJ23		489	Cysteine--tRNA ligase OS=	yes	no	0.890	0.977	0.441	1e-122
A5G949		494	Cysteine--tRNA ligase OS=	yes	no	0.901	0.979	0.461	1e-122
B9LZV4		494	Cysteine--tRNA ligase OS=	yes	no	0.897	0.975	0.462	1e-122
B8GNT5		460	Cysteine--tRNA ligase OS=	yes	no	0.849	0.991	0.464	1e-120

>sp\|A1AK01\|SYC_PELPD Cysteine--tRNA ligase OS=Pelobacter propionicus (strain DSM 2379) GN=cysS PE=3 SV=1	Back alignment and function desciption

 Score =  466 bits (1200), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 244/498 (48%), Positives = 319/498 (64%), Gaps = 15/498 (3%)

Query: 17  LTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKC 76
           + L+IYN++T +K+ F P+  GK GMYVCGVT YD  H+GHARA V FD++YRYL +   
Sbjct: 1   MALRIYNTLTGEKDTFVPLHPGKAGMYVCGVTVYDYCHIGHARANVVFDVIYRYLGYSGY 60

Query: 77  EVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHME 136
            VTYVRNFTD+DDKII RAN  G +  ++S RY + +  DMA L    PT +P+ +DHM 
Sbjct: 61  AVTYVRNFTDIDDKIINRANQEGVDYTTISERYIEAFNQDMARLGLAKPTVEPKATDHMG 120

Query: 137 QIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPAD 196
            I  +I  +I    AY  +GDV++AVE  P+Y RLSG+ LE+  AG RV VD RKRNP D
Sbjct: 121 GIISVIETLIAKGHAYESDGDVYYAVESFPSYLRLSGRNLEDMLAGARVEVDDRKRNPMD 180

Query: 197 FALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIA 256
           FALWK +K GEPSWDSPWG GRPGWHIECSAMS  YL   FDIHGGG DL+FPHHENEIA
Sbjct: 181 FALWKGSKPGEPSWDSPWGAGRPGWHIECSAMSMEYLGKTFDIHGGGKDLVFPHHENEIA 240

Query: 257 QSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRS 316
           QS AA     V YWMHNG V  N+EKMSKSLGNFFTIR++ E+Y P  LR F++SAHYRS
Sbjct: 241 QSEAANGCQFVRYWMHNGFVNINSEKMSKSLGNFFTIREVLEQYDPETLRFFILSAHYRS 300

Query: 317 PLNYSVLQLDSASDAVFYIYQTLQDCEVALS----PFQEHGKTARINPAAEDCINKLR-- 370
           P+++S   L+ A   +  IY  L   + A+     P Q   + A + PA  +   KL+  
Sbjct: 301 PIDFSDQNLNDAQAGLERIYSCLAAVDGAMEGQDVPNQPV-EGAPLPPAGAELHEKLQSL 359

Query: 371 -DEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVK 429
              F   M DD NT+  L G   +A++  N  +     + P    L+L+  +R++  E  
Sbjct: 360 ISRFREAMDDDFNTAQAL-GVLFEAVRATNRFMAESGDQTPA--TLALLGQVRRLFAETG 416

Query: 430 EVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRA 489
           +VL +     P A+ E ++Q K   +   E++ +++ QLI ERAAAR N+DF + D+IR 
Sbjct: 417 DVLGLF-TSQPAAWLESIKQAKSDQM---EISPQEIEQLIAERAAARTNRDFKRGDEIRD 472

Query: 490 DLTRKGIALMDMGKETIW 507
            L +KGI L+D  + T W
Sbjct: 473 LLLQKGIQLLDSPQGTTW 490

Pelobacter propionicus (strain DSM 2379) (taxid: 338966)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 6

>sp\|B3E1P0\|SYC_GEOLS Cysteine--tRNA ligase OS=Geobacter lovleyi (strain ATCC BAA-1151 / DSM 17278 / SZ) GN=cysS PE=3 SV=1	Back alignment and function description

>sp\|A0LIR9\|SYC_SYNFM Cysteine--tRNA ligase OS=Syntrophobacter fumaroxidans (strain DSM 10017 / MPOB) GN=cysS PE=3 SV=1	Back alignment and function description

>sp\|Q3J8Y9\|SYC_NITOC Cysteine--tRNA ligase OS=Nitrosococcus oceani (strain ATCC 19707 / NCIMB 11848) GN=cysS PE=3 SV=1	Back alignment and function description

>sp\|Q39ZL8\|SYC_GEOMG Cysteine--tRNA ligase OS=Geobacter metallireducens (strain GS-15 / ATCC 53774 / DSM 7210) GN=cysS PE=3 SV=1	Back alignment and function description

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

>sp\|Q6AJ23\|SYC_DESPS Cysteine--tRNA ligase OS=Desulfotalea psychrophila (strain LSv54 / DSM 12343) GN=cysS PE=3 SV=1	Back alignment and function description

>sp\|A5G949\|SYC_GEOUR Cysteine--tRNA ligase OS=Geobacter uraniireducens (strain Rf4) GN=cysS PE=3 SV=1	Back alignment and function description

>sp\|B9LZV4\|SYC_GEOSF Cysteine--tRNA ligase OS=Geobacter sp. (strain FRC-32) GN=cysS PE=3 SV=1	Back alignment and function description

>sp\|B8GNT5\|SYC_THISH Cysteine--tRNA ligase OS=Thioalkalivibrio sp. (strain HL-EbGR7) GN=cysS PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		537
359475690		513	PREDICTED: cysteinyl-tRNA synthetase-lik	0.938	0.982	0.790	0.0
359496172		513	PREDICTED: cysteinyl-tRNA synthetase-lik	0.938	0.982	0.788	0.0
224111652		532	predicted protein [Populus trichocarpa]	0.949	0.958	0.766	0.0
255585350		530	cysteinyl-tRNA synthetase, putative [Ric	0.957	0.969	0.746	0.0
449464950		562	PREDICTED: cysteine--tRNA ligase-like [C	0.957	0.914	0.749	0.0
356575566		553	PREDICTED: cysteinyl-tRNA synthetase-lik	0.960	0.933	0.701	0.0
356536300		548	PREDICTED: cysteinyl-tRNA synthetase-lik	0.942	0.923	0.709	0.0
357444709		552	Cysteinyl-tRNA synthetase [Medicago trun	0.921	0.896	0.732	0.0
15241557		511	cysteinyl-tRNA synthetase [Arabidopsis t	0.918	0.964	0.692	0.0
297801734		511	tRNA synthetase class I (C) family prote	0.918	0.964	0.692	0.0

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

 Score =  842 bits (2175), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 399/505 (79%), Positives = 452/505 (89%), Gaps = 1/505 (0%)

Query: 19  LKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEV 78
           L++YN+MTQQKE+F P+V GKV MYVCGVTAYDLSHLGHARAAV FD+LYRYL+HL  EV
Sbjct: 7   LRVYNTMTQQKEIFKPVVDGKVSMYVCGVTAYDLSHLGHARAAVCFDVLYRYLQHLGYEV 66

Query: 79  TYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQI 138
           TYVRNFTDVDDKIIRRAN+LGENPL+LS+R+CQEYL DM DLQCL PT QPRVSDHM+QI
Sbjct: 67  TYVRNFTDVDDKIIRRANELGENPLTLSSRFCQEYLDDMTDLQCLTPTQQPRVSDHMDQI 126

Query: 139 KDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADFA 198
           KDMITQIINNDCAY+++GDV+FAV+KSPNYGRLSG++LE+NRAGERVAVDSRKRNPADFA
Sbjct: 127 KDMITQIINNDCAYIIDGDVYFAVDKSPNYGRLSGRKLEDNRAGERVAVDSRKRNPADFA 186

Query: 199 LWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQS 258
           LWKAAK  EPSWDSPWGPGRPGWHIECSAMSAHYL+ KFDIHGGGIDLIFPHHENEIAQS
Sbjct: 187 LWKAAKPDEPSWDSPWGPGRPGWHIECSAMSAHYLTFKFDIHGGGIDLIFPHHENEIAQS 246

Query: 259 CAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPL 318
           CAACQ+SNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQIT+ YHPLALR+FL+  HYRSP+
Sbjct: 247 CAACQESNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITDLYHPLALRYFLLGTHYRSPV 306

Query: 319 NYSVLQLDSASDAVFYIYQTLQDCEVALSPFQE-HGKTARINPAAEDCINKLRDEFHARM 377
           NYS+ QL+ AS+AVFYIYQTL+DCE  LSPFQE +G+   I PAA+DCI+KL+ +F  +M
Sbjct: 307 NYSIAQLEIASEAVFYIYQTLRDCEDTLSPFQEVNGQNVCITPAAKDCISKLQTDFQTKM 366

Query: 378 SDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGL 437
           SDDL+T HIL  + Q+AL+FINS LNMLKKKQ KQQQLS ++SL ++E EVK VL +LGL
Sbjct: 367 SDDLSTPHILNASLQEALRFINSGLNMLKKKQQKQQQLSAVQSLTELEKEVKGVLSVLGL 426

Query: 438 LPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIA 497
           L   AYSEVLQQLK KAL+RA + E+DVL LIEERA ARKNK+FS+ DQIRADL  KGIA
Sbjct: 427 LSTLAYSEVLQQLKGKALRRAGMIEDDVLHLIEERALARKNKNFSRGDQIRADLASKGIA 486

Query: 498 LMDMGKETIWRPCVLVEQEQEAPPA 522
           LMD+GKETIWRPCV VEQE +AP A
Sbjct: 487 LMDVGKETIWRPCVPVEQEPQAPAA 511

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

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

>gi\|224111652\|ref\|XP_002315932.1\| predicted protein [Populus trichocarpa] gi\|222864972\|gb\|EEF02103.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|255585350\|ref\|XP_002533372.1\| cysteinyl-tRNA synthetase, putative [Ricinus communis] gi\|223526794\|gb\|EEF29017.1\| cysteinyl-tRNA synthetase, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|449464950\|ref\|XP_004150192.1\| PREDICTED: cysteine--tRNA ligase-like [Cucumis sativus] gi\|449508099\|ref\|XP_004163218.1\| PREDICTED: cysteine--tRNA ligase-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356575566\|ref\|XP_003555910.1\| PREDICTED: cysteinyl-tRNA synthetase-like [Glycine max]	Back alignment and taxonomy information

>gi\|356536300\|ref\|XP_003536677.1\| PREDICTED: cysteinyl-tRNA synthetase-like [Glycine max]	Back alignment and taxonomy information

>gi\|357444709\|ref\|XP_003592632.1\| Cysteinyl-tRNA synthetase [Medicago truncatula] gi\|355481680\|gb\|AES62883.1\| Cysteinyl-tRNA synthetase [Medicago truncatula]	Back alignment and taxonomy information

>gi\|15241557\|ref\|NP_198699.1\| cysteinyl-tRNA synthetase [Arabidopsis thaliana] gi\|192807340\|gb\|ACF06122.1\| At5g38830 [Arabidopsis thaliana] gi\|332006981\|gb\|AED94364.1\| cysteinyl-tRNA synthetase [Arabidopsis thaliana]	Back alignment and taxonomy information

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

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		537
TAIR\|locus:2152237		511	AT5G38830 "AT5G38830" [Arabido	0.923	0.970	0.681	3e-188
UNIPROTKB\|Q0IZQ2		569	Os09g0556500 "Os09g0556500 pro	0.929	0.876	0.608	3.9e-163
TAIR\|locus:2042521		563	SYCO ARATH "cysteinyl t-RNA sy	0.906	0.865	0.614	1.7e-162
TAIR\|locus:2078406		489	AT3G56300 "AT3G56300" [Arabido	0.562	0.617	0.721	1.5e-149
UNIPROTKB\|Q7G2N5		491	LOC_Os10g32570 "tRNA synthetas	0.472	0.517	0.641	1e-128
UNIPROTKB\|A8JCV0		637	CHLREDRAFT_153062 "Cysteinyl-t	0.482	0.406	0.571	1.7e-120
UNIPROTKB\|Q747A2		481	cysS "Cysteine--tRNA ligase" [	0.890	0.993	0.462	2.7e-107
TIGR_CMR\|GSU_3365		481	GSU_3365 "cysteinyl-tRNA synth	0.890	0.993	0.462	2.7e-107
TIGR_CMR\|SO_1791		459	SO_1791 "cysteinyl-tRNA synthe	0.646	0.755	0.531	2e-102
TIGR_CMR\|CHY_2338		465	CHY_2338 "cysteinyl-tRNA synth	0.702	0.810	0.497	5.2e-102

TAIR\|locus:2152237 AT5G38830 "AT5G38830" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1825 (647.5 bits), Expect = 3.0e-188, P = 3.0e-188
 Identities = 343/503 (68%), Positives = 411/503 (81%)

Query:    12 APKMDLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYL 71
             A KM+L  K+YN+MTQQKE+  PI  GK+G+YVCG+TAYD SH+GHARAAVSFD+LYRYL
Sbjct:     3 AEKMEL--KLYNTMTQQKEVLIPITPGKIGLYVCGITAYDFSHIGHARAAVSFDVLYRYL 60

Query:    72 EHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRV 131
             +HL  +VT+VRNFTDVDDKII RAN  GE+PL LSNR+C EYLVDM  LQCLPPT+QPRV
Sbjct:    61 KHLDYDVTFVRNFTDVDDKIIDRANKNGEDPLDLSNRFCDEYLVDMGALQCLPPTHQPRV 120

Query:   132 SDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRK 191
             S+HM+ I  MI +II  DC YVVEGDVFF+V+KSPNYG+LSGQ LE+ RAGERVAVDSRK
Sbjct:   121 SEHMDNIIKMIEKIIEKDCGYVVEGDVFFSVDKSPNYGKLSGQLLEHTRAGERVAVDSRK 180

Query:   192 RNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHH 251
             RNPADFALWKAAK  EPSW+SPWGPGRPGWHIECSAMS HYLS KFDIHGGG DL FPHH
Sbjct:   181 RNPADFALWKAAKPDEPSWESPWGPGRPGWHIECSAMSVHYLSPKFDIHGGGADLKFPHH 240

Query:   252 ENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLIS 311
             ENEIAQ+CAAC+DS V+YW+HNGHVT NNEKM+KS  NF TIR+IT  YHPLALRHFL+S
Sbjct:   241 ENEIAQTCAACEDSGVNYWLHNGHVTINNEKMAKSKHNFKTIREITASYHPLALRHFLMS 300

Query:   312 AHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQ----EHGKTARINPAAEDCIN 367
             A YRSPL+++  QL+S+S+A++Y+YQTLQD +  LSP+Q    E G  +      +D I 
Sbjct:   301 AQYRSPLSFTASQLESSSEALYYVYQTLQDLDEGLSPYQDALSEDGGKSEQTAEGKDIIK 360

Query:   368 KLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLXXXXXXXXXLSLIESLRKIENE 427
             KL+ EF ++M DDLNT+HILTGA+QDALKFIN+SL+ L         +S++ SL +IE  
Sbjct:   361 KLKTEFESKMLDDLNTAHILTGAYQDALKFINASLSKLKKMQKKQR-MSMLVSLVEIEKA 419

Query:   428 VKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQI 487
              +EVL +LGLL   +Y+E+L+++K K L RAE+ EE + QLIEER  ARKNKDF+KSD+I
Sbjct:   420 AREVLDVLGLLTTLSYAEILKEMKLKTLIRAEIGEEGISQLIEERITARKNKDFAKSDEI 479

Query:   488 RADLTRKGIALMDMGKETIWRPC 510
             R  LTRKGIALMD+GKET+WRPC
Sbjct:   480 REKLTRKGIALMDIGKETVWRPC 502

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

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0005739 "mitochondrion" evidence=IBA

GO:0005829 "cytosol" evidence=IDA;IBA

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

GO:0009507 "chloroplast" evidence=IBA

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

UNIPROTKB\|Q0IZQ2 Os09g0556500 "Os09g0556500 protein" [Oryza sativa Japonica Group (taxid:39947)]	Back alignment and assigned GO terms

TAIR\|locus:2042521 SYCO ARATH "cysteinyl t-RNA synthetase" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2078406 AT3G56300 "AT3G56300" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|Q7G2N5 LOC_Os10g32570 "tRNA synthetase class I family protein, putative, expressed" [Oryza sativa Japonica Group (taxid:39947)]	Back alignment and assigned GO terms

UNIPROTKB\|A8JCV0 CHLREDRAFT_153062 "Cysteinyl-tRNA synthetase" [Chlamydomonas reinhardtii (taxid:3055)]	Back alignment and assigned GO terms

UNIPROTKB\|Q747A2 cysS "Cysteine--tRNA ligase" [Geobacter sulfurreducens PCA (taxid:243231)]	Back alignment and assigned GO terms

TIGR_CMR\|GSU_3365 GSU_3365 "cysteinyl-tRNA synthetase" [Geobacter sulfurreducens PCA (taxid:243231)]	Back alignment and assigned GO terms

TIGR_CMR\|SO_1791 SO_1791 "cysteinyl-tRNA synthetase" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

TIGR_CMR\|CHY_2338 CHY_2338 "cysteinyl-tRNA synthetase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]	Back alignment and assigned GO terms

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)
A1S4X2	SYC_SHEAM	6, ., 1, ., 1, ., 1, 6	0.4582	0.8472	0.9912	yes	no
Q6AJ23	SYC_DESPS	6, ., 1, ., 1, ., 1, 6	0.4415	0.8901	0.9775	yes	no
B6YUQ3	SYC_THEON	6, ., 1, ., 1, ., 1, 6	0.4198	0.8770	0.9894	yes	no
Q0AJJ4	SYC_NITEC	6, ., 1, ., 1, ., 1, 6	0.4523	0.8584	0.9871	yes	no
A1WT89	SYC_HALHL	6, ., 1, ., 1, ., 1, 6	0.4503	0.8417	0.9847	yes	no
B9MMM6	SYC_CALBD	6, ., 1, ., 1, ., 1, 6	0.4332	0.8547	0.9870	yes	no
Q9UYV2	SYC_PYRAB	6, ., 1, ., 1, ., 1, 6	0.4242	0.8733	0.9832	yes	no
Q82Y45	SYC_NITEU	6, ., 1, ., 1, ., 1, 6	0.4437	0.8454	0.9763	yes	no
C6E7P0	SYC_GEOSM	6, ., 1, ., 1, ., 1, 6	0.4615	0.8864	0.9916	yes	no
Q7NX82	SYC_CHRVO	6, ., 1, ., 1, ., 1, 6	0.4543	0.8398	0.9868	yes	no
Q5JD45	SYC_PYRKO	6, ., 1, ., 1, ., 1, 6	0.4352	0.8752	0.9873	yes	no
B9LZV4	SYC_GEOSF	6, ., 1, ., 1, ., 1, 6	0.462	0.8975	0.9757	yes	no
Q72BQ5	SYC_DESVH	6, ., 1, ., 1, ., 1, 6	0.4448	0.8957	0.9917	yes	no
Q8U227	SYC_PYRFU	6, ., 1, ., 1, ., 1, 6	0.4361	0.8845	0.9958	yes	no
A4XHE2	SYC_CALS8	6, ., 1, ., 1, ., 1, 6	0.4332	0.8547	0.9870	yes	no
A5G949	SYC_GEOUR	6, ., 1, ., 1, ., 1, 6	0.4618	0.9013	0.9797	yes	no
C5A739	SYC_THEGJ	6, ., 1, ., 1, ., 1, 6	0.4430	0.8789	0.9915	yes	no
Q747A2	SYC_GEOSL	6, ., 1, ., 1, ., 1, 6	0.4574	0.8882	0.9916	yes	no
Q39ZL8	SYC_GEOMG	6, ., 1, ., 1, ., 1, 6	0.4574	0.8957	0.9917	yes	no
Q3A8C9	SYC_PELCD	6, ., 1, ., 1, ., 1, 6	0.4609	0.8789	0.9812	yes	no
O58370	SYC_PYRHO	6, ., 1, ., 1, ., 1, 6	0.4392	0.8752	0.9873	yes	no
A0L4P8	SYC_MAGSM	6, ., 1, ., 1, ., 1, 6	0.432	0.8770	0.9612	yes	no
B5YID4	SYC_THEYD	6, ., 1, ., 1, ., 1, 6	0.4311	0.8919	0.9835	yes	no
A4Y5H9	SYC_SHEPC	6, ., 1, ., 1, ., 1, 6	0.4493	0.8417	0.9804	yes	no
Q0HH98	SYC_SHESM	6, ., 1, ., 1, ., 1, 6	0.4514	0.8417	0.9804	yes	no
Q3J8Y9	SYC_NITOC	6, ., 1, ., 1, ., 1, 6	0.4721	0.8752	0.9690	yes	no
B0TC35	SYC_HELMI	6, ., 1, ., 1, ., 1, 6	0.4388	0.8789	0.9812	yes	no
C4LG04	SYC_TOLAT	6, ., 1, ., 1, ., 1, 6	0.4471	0.8342	0.9676	yes	no
Q2Y7U5	SYC_NITMU	6, ., 1, ., 1, ., 1, 6	0.4495	0.8361	0.9676	yes	no
B8GNT5	SYC_THISH	6, ., 1, ., 1, ., 1, 6	0.4643	0.8491	0.9913	yes	no
Q60BG8	SYC_METCA	6, ., 1, ., 1, ., 1, 6	0.4787	0.8547	0.9870	yes	no
Q5QYP3	SYC_IDILO	6, ., 1, ., 1, ., 1, 6	0.4462	0.8491	0.9934	yes	no
A1AK01	SYC_PELPD	6, ., 1, ., 1, ., 1, 6	0.4899	0.8994	0.9797	yes	no
B5EEK6	SYC_GEOBB	6, ., 1, ., 1, ., 1, 6	0.458	0.8752	0.9791	yes	no
Q0HTK4	SYC_SHESR	6, ., 1, ., 1, ., 1, 6	0.4514	0.8417	0.9804	yes	no
Q31H54	SYC_THICR	6, ., 1, ., 1, ., 1, 6	0.4705	0.8435	0.9934	yes	no
A1RL92	SYC_SHESW	6, ., 1, ., 1, ., 1, 6	0.4493	0.8417	0.9804	yes	no
A1VDQ5	SYC_DESVV	6, ., 1, ., 1, ., 1, 6	0.4412	0.8882	0.9835	yes	no
C6BS23	SYC_DESAD	6, ., 1, ., 1, ., 1, 6	0.4251	0.8882	0.9835	yes	no
B8DKL0	SYC_DESVM	6, ., 1, ., 1, ., 1, 6	0.4340	0.8901	0.9855	yes	no
A9KWH4	SYC_SHEB9	6, ., 1, ., 1, ., 1, 6	0.4584	0.8435	0.9869	yes	no
B8E5F2	SYC_SHEB2	6, ., 1, ., 1, ., 1, 6	0.4563	0.8435	0.9869	yes	no
A0LIR9	SYC_SYNFM	6, ., 1, ., 1, ., 1, 6	0.4649	0.9013	0.9817	yes	no
Q1H417	SYC_METFK	6, ., 1, ., 1, ., 1, 6	0.4655	0.8342	0.9846	yes	no
B3E1P0	SYC_GEOLS	6, ., 1, ., 1, ., 1, 6	0.4758	0.8957	0.9876	yes	no
A0KYM2	SYC_SHESA	6, ., 1, ., 1, ., 1, 6	0.4473	0.8417	0.9804	yes	no
A4J0Y9	SYC_DESRM	6, ., 1, ., 1, ., 1, 6	0.4510	0.8994	0.9938	yes	no
Q2SK40	SYC_HAHCH	6, ., 1, ., 1, ., 1, 6	0.4643	0.8621	0.9914	yes	no
Q0A7N3	SYC_ALHEH	6, ., 1, ., 1, ., 1, 6	0.4615	0.8472	0.9848	yes	no
A5D5M0	SYC_PELTS	6, ., 1, ., 1, ., 1, 6	0.4653	0.8957	0.9938	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.1	LOW CONFIDENCE prediction!
4th Layer	6.1.1.16	0.914
3rd Layer	6.1.1	0.921

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		537
PLN02946		557	PLN02946, PLN02946, cysteine-tRNA ligase	0.0
PRK00260		463	PRK00260, cysS, cysteinyl-tRNA synthetase; Validat	0.0
COG0215		464	COG0215, CysS, Cysteinyl-tRNA synthetase [Translat	0.0
TIGR00435		464	TIGR00435, cysS, cysteinyl-tRNA synthetase	0.0
pfam01406		301	pfam01406, tRNA-synt_1e, tRNA synthetases class I	1e-155
PRK14535		699	PRK14535, cysS, cysteinyl-tRNA synthetase; Provisi	1e-124
PTZ00399		651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	1e-122
PRK14536		490	PRK14536, cysS, cysteinyl-tRNA synthetase; Provisi	1e-111
TIGR03447		411	TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosi	2e-86
PRK12418		384	PRK12418, PRK12418, cysteinyl-tRNA synthetase; Pro	2e-82
PRK14534		481	PRK14534, cysS, cysteinyl-tRNA synthetase; Provisi	5e-64
cd00672		213	cd00672, CysRS_core, catalytic core domain of cyst	2e-59
cd00672		213	cd00672, CysRS_core, catalytic core domain of cyst	4e-51
cd07963		156	cd07963, Anticodon_Ia_Cys, Anticodon-binding domai	2e-21
cd00802		143	cd00802, class_I_aaRS_core, catalytic core domain	2e-11
cd00812		314	cd00812, LeuRS_core, catalytic core domain of leuc	4e-07
COG0143		558	COG0143, MetG, Methionyl-tRNA synthetase [Translat	1e-06
pfam09334		388	pfam09334, tRNA-synt_1g, tRNA synthetases class I	2e-06
cd00814		319	cd00814, MetRS_core, catalytic core domain of meth	6e-06
PLN02959		1084	PLN02959, PLN02959, aminoacyl-tRNA ligase	6e-06
PRK12300		897	PRK12300, leuS, leucyl-tRNA synthetase; Reviewed	2e-05
cd00802		143	cd00802, class_I_aaRS_core, catalytic core domain	3e-05
TIGR00395		938	TIGR00395, leuS_arch, leucyl-tRNA synthetase, arch	5e-04
cd00668		312	cd00668, Ile_Leu_Val_MetRS_core, catalytic core do	5e-04
COG0495		814	COG0495, LeuS, Leucyl-tRNA synthetase [Translation	0.001
PRK11893		511	PRK11893, PRK11893, methionyl-tRNA synthetase; Rev	0.002
TIGR00398		530	TIGR00398, metG, methionyl-tRNA synthetase	0.002
PRK12268		556	PRK12268, PRK12268, methionyl-tRNA synthetase; Rev	0.003
PRK00750		510	PRK00750, lysK, lysyl-tRNA synthetase; Reviewed	0.004

>gnl\|CDD\|178532 PLN02946, PLN02946, cysteine-tRNA ligase	Back alignment and domain information

 Score =  774 bits (2001), Expect = 0.0
 Identities = 334/519 (64%), Positives = 402/519 (77%), Gaps = 11/519 (2%)

Query: 3   ASKETGTVAAPKMDLTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAV 62
           A    G  A+   +L L  YN+M+++KELF P V GKVGMYVCGVTAYDLSH+GHAR  V
Sbjct: 46  ALASNGAPASRGRELHL--YNTMSRKKELFKPKVEGKVGMYVCGVTAYDLSHIGHARVYV 103

Query: 63  SFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQC 122
           +FD+LYRYL+HL  EV YVRNFTDVDDKII RAN+LGE+P+SLS RYC+E+L DMA L C
Sbjct: 104 TFDVLYRYLKHLGYEVRYVRNFTDVDDKIIARANELGEDPISLSRRYCEEFLSDMAYLHC 163

Query: 123 LPPTYQPRVSDHMEQIKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAG 182
           LPP+ +PRVSDH+ QI DMI QI++N CAY V+GDV+F+V+K P YG+LSG++LE+NRAG
Sbjct: 164 LPPSVEPRVSDHIPQIIDMIKQILDNGCAYRVDGDVYFSVDKFPEYGKLSGRKLEDNRAG 223

Query: 183 ERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGG 242
           ERVAVDSRK+NPADFALWKAAK GEP WDSPWGPGRPGWHIECSAMSA YL   FDIHGG
Sbjct: 224 ERVAVDSRKKNPADFALWKAAKEGEPFWDSPWGPGRPGWHIECSAMSAAYLGHSFDIHGG 283

Query: 243 GIDLIFPHHENEIAQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHP 302
           G+DL+FPHHENEIAQSCAAC DSN+SYW+HNG VT ++EKMSKSLGNFFTIRQ+ + YHP
Sbjct: 284 GMDLVFPHHENEIAQSCAACCDSNISYWIHNGFVTVDSEKMSKSLGNFFTIRQVIDLYHP 343

Query: 303 LALRHFLISAHYRSPLNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAA 362
           LALR FL+  HYRSP+NYS +QL+SAS+ +FYIYQTL DCE +L       +   + P  
Sbjct: 344 LALRLFLLGTHYRSPINYSDVQLESASERIFYIYQTLHDCEESLQQHDSTFEKDSVPPDT 403

Query: 363 EDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLK-KKQPKQQQLSLIESL 421
            +CINK  DEF   MSDDL+T  +   A  + LK IN  L+  K KKQ K+     +ESL
Sbjct: 404 LNCINKFHDEFVTSMSDDLHTP-VALAALSEPLKTINDLLHTRKGKKQEKR-----LESL 457

Query: 422 RKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDF 481
             +E ++++VL +LGL+P  +YSE LQQL++KAL+RA+LTEE VLQ IEER  ARKNK++
Sbjct: 458 AALEKKIRDVLSVLGLMPT-SYSEALQQLREKALRRAKLTEEQVLQKIEERTVARKNKEY 516

Query: 482 SKSDQIRADLTRKGIALMDMGKETIWRPCV-LVEQEQEA 519
            KSD IR DL   GIALMD    T WRP + L  QEQ A
Sbjct: 517 EKSDAIRKDLAAVGIALMDSPDGTTWRPAIPLALQEQVA 555

Length = 557

>gnl\|CDD\|234705 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated	Back alignment and domain information

>gnl\|CDD\|223293 COG0215, CysS, Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|232974 TIGR00435, cysS, cysteinyl-tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|216482 pfam01406, tRNA-synt_1e, tRNA synthetases class I (C) catalytic domain	Back alignment and domain information

>gnl\|CDD\|173001 PRK14535, cysS, cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>gnl\|CDD\|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional	Back alignment and domain information

>gnl\|CDD\|184731 PRK14536, cysS, cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>gnl\|CDD\|132488 TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase	Back alignment and domain information

>gnl\|CDD\|183518 PRK12418, PRK12418, cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>gnl\|CDD\|173000 PRK14534, cysS, cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>gnl\|CDD\|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|153417 cd07963, Anticodon_Ia_Cys, Anticodon-binding domain of cysteinyl tRNA synthetases	Back alignment and domain information

>gnl\|CDD\|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I amino acyl-tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA synthetases	Back alignment and domain information

>gnl\|CDD\|223221 COG0143, MetG, Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|220185 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M)	Back alignment and domain information

>gnl\|CDD\|173907 cd00814, MetRS_core, catalytic core domain of methioninyl-tRNA synthetases	Back alignment and domain information

>gnl\|CDD\|215518 PLN02959, PLN02959, aminoacyl-tRNA ligase	Back alignment and domain information

>gnl\|CDD\|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed	Back alignment and domain information

>gnl\|CDD\|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I amino acyl-tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|232955 TIGR00395, leuS_arch, leucyl-tRNA synthetase, archaeal and cytosolic family	Back alignment and domain information

>gnl\|CDD\|185674 cd00668, Ile_Leu_Val_MetRS_core, catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases	Back alignment and domain information

>gnl\|CDD\|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|237012 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed	Back alignment and domain information

>gnl\|CDD\|232957 TIGR00398, metG, methionyl-tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|237029 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed	Back alignment and domain information

>gnl\|CDD\|234829 PRK00750, lysK, lysyl-tRNA synthetase; Reviewed	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		537
COG0215		464	CysS Cysteinyl-tRNA synthetase [Translation, ribos	100.0
PLN02946		557	cysteine-tRNA ligase	100.0
PRK14535		699	cysS cysteinyl-tRNA synthetase; Provisional	100.0
PRK14536		490	cysS cysteinyl-tRNA synthetase; Provisional	100.0
PRK14534		481	cysS cysteinyl-tRNA synthetase; Provisional	100.0
PTZ00399		651	cysteinyl-tRNA-synthetase; Provisional	100.0
PRK00260		463	cysS cysteinyl-tRNA synthetase; Validated	100.0
TIGR00435		465	cysS cysteinyl-tRNA synthetase. This model finds t	100.0
KOG2007		586	consensus Cysteinyl-tRNA synthetase [Translation,	100.0
TIGR03447		411	mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-	100.0
PF01406		300	tRNA-synt_1e: tRNA synthetases class I (C) catalyt	100.0
PRK12418		384	cysteinyl-tRNA synthetase; Provisional	100.0
cd00672		213	CysRS_core catalytic core domain of cysteinyl tRNA	100.0
COG0143		558	MetG Methionyl-tRNA synthetase [Translation, ribos	100.0
PRK11893		511	methionyl-tRNA synthetase; Reviewed	100.0
PLN02224		616	methionine-tRNA ligase	100.0
PRK00133		673	metG methionyl-tRNA synthetase; Reviewed	100.0
PLN02610		801	probable methionyl-tRNA synthetase	100.0
TIGR00398		530	metG methionyl-tRNA synthetase. The methionyl-tRNA	100.0
PRK12267		648	methionyl-tRNA synthetase; Reviewed	100.0
PRK12268		556	methionyl-tRNA synthetase; Reviewed	100.0
KOG0436		578	consensus Methionyl-tRNA synthetase [Translation,	100.0
cd00668		312	Ile_Leu_Val_MetRS_core catalytic core domain of is	100.0
PF09334		391	tRNA-synt_1g: tRNA synthetases class I (M); InterP	100.0
PRK01611		507	argS arginyl-tRNA synthetase; Reviewed	100.0
cd00814		319	MetRS_core catalytic core domain of methioninyl-tR	100.0
PRK13208		800	valS valyl-tRNA synthetase; Reviewed	100.0
TIGR00422		861	valS valyl-tRNA synthetase. The valyl-tRNA synthet	100.0
COG0525		877	ValS Valyl-tRNA synthetase [Translation, ribosomal	100.0
PRK05729		874	valS valyl-tRNA synthetase; Reviewed	100.0
cd00812		314	LeuRS_core catalytic core domain of leucyl-tRNA sy	100.0
TIGR00395		938	leuS_arch leucyl-tRNA synthetase, archaeal and cyt	100.0
PLN02943		958	aminoacyl-tRNA ligase	100.0
PRK14900		1052	valS valyl-tRNA synthetase; Provisional	100.0
cd00817		382	ValRS_core catalytic core domain of valyl-tRNA syn	100.0
PRK05743		912	ileS isoleucyl-tRNA synthetase; Reviewed	100.0
PRK00390		805	leuS leucyl-tRNA synthetase; Validated	100.0
cd00818		338	IleRS_core catalytic core domain of isoleucyl-tRNA	100.0
PRK06039		975	ileS isoleucyl-tRNA synthetase; Reviewed	100.0
TIGR00396		842	leuS_bact leucyl-tRNA synthetase, eubacterial and	100.0
PLN02882		1159	aminoacyl-tRNA ligase	100.0
PLN02843		974	isoleucyl-tRNA synthetase	100.0
PLN02381		1066	valyl-tRNA synthetase	100.0
TIGR00392		861	ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA	100.0
PRK13804		961	ileS isoleucyl-tRNA synthetase; Provisional	100.0
PTZ00419		995	valyl-tRNA synthetase-like protein; Provisional	100.0
COG0018		577	ArgS Arginyl-tRNA synthetase [Translation, ribosom	100.0
TIGR00456		566	argS arginyl-tRNA synthetase. This model recognize	100.0
PRK12300		897	leuS leucyl-tRNA synthetase; Reviewed	100.0
PLN02563		963	aminoacyl-tRNA ligase	100.0
PRK12451		562	arginyl-tRNA synthetase; Reviewed	100.0
KOG1247		567	consensus Methionyl-tRNA synthetase [Translation,	100.0
PTZ00427		1205	isoleucine-tRNA ligase, putative; Provisional	100.0
COG0495		814	LeuS Leucyl-tRNA synthetase [Translation, ribosoma	100.0
PLN02286		576	arginine-tRNA ligase	100.0
COG0060		933	IleS Isoleucyl-tRNA synthetase [Translation, ribos	100.0
cd00674		353	LysRS_core_class_I catalytic core domain of class	100.0
PLN02959		1084	aminoacyl-tRNA ligase	100.0
KOG0432		995	consensus Valyl-tRNA synthetase [Translation, ribo	99.97
PRK00750		510	lysK lysyl-tRNA synthetase; Reviewed	99.97
cd00671		212	ArgRS_core catalytic core domain of arginyl-tRNA s	99.97
PF00133		601	tRNA-synt_1: tRNA synthetases class I (I, L, M and	99.96
TIGR00467		515	lysS_arch lysyl-tRNA synthetase, archaeal and spir	99.96
KOG0435		876	consensus Leucyl-tRNA synthetase [Translation, rib	99.96
KOG0433		937	consensus Isoleucyl-tRNA synthetase [Translation,	99.95
PRK04156		567	gltX glutamyl-tRNA synthetase; Provisional	99.94
cd00802		143	class_I_aaRS_core catalytic core domain of class I	99.94
PF01921		360	tRNA-synt_1f: tRNA synthetases class I (K); InterP	99.91
COG1384		521	LysS Lysyl-tRNA synthetase (class I) [Translation,	99.91
KOG4426		656	consensus Arginyl-tRNA synthetase [Translation, ri	99.9
PF00750		354	tRNA-synt_1d: tRNA synthetases class I (R); InterP	99.89
KOG0434		1070	consensus Isoleucyl-tRNA synthetase [Translation,	99.87
cd07963		156	Anticodon_Ia_Cys Anticodon-binding domain of cyste	99.85
cd09287		240	GluRS_non_core catalytic core domain of non-discri	99.85
KOG1195		567	consensus Arginyl-tRNA synthetase [Translation, ri	99.77
TIGR00464		470	gltX_bact glutamyl-tRNA synthetase, bacterial fami	99.73
PRK12558		445	glutamyl-tRNA synthetase; Provisional	99.72
PRK12410		433	glutamylglutaminyl-tRNA synthetase; Provisional	99.72
PRK14895		513	gltX glutamyl-tRNA synthetase; Provisional	99.71
TIGR00463		560	gltX_arch glutamyl-tRNA synthetase, archaeal and e	99.71
PRK01406		476	gltX glutamyl-tRNA synthetase; Reviewed	99.7
PLN03233		523	putative glutamate-tRNA ligase; Provisional	99.68
PLN02627		535	glutamyl-tRNA synthetase	99.66
cd00418		230	GlxRS_core catalytic core domain of glutamyl-tRNA	99.66
PRK05347		554	glutaminyl-tRNA synthetase; Provisional	99.65
PRK05710		299	glutamyl-Q tRNA(Asp) synthetase; Reviewed	99.63
TIGR03838		272	queuosine_YadB glutamyl-queuosine tRNA(Asp) synthe	99.62
PRK14703		771	glutaminyl-tRNA synthetase/YqeY domain fusion prot	99.61
COG0008		472	GlnS Glutamyl- and glutaminyl-tRNA synthetases [Tr	99.6
cd00807		238	GlnRS_core catalytic core domain of glutaminyl-tRN	99.6
PTZ00402		601	glutamyl-tRNA synthetase; Provisional	99.6
PLN02907		722	glutamate-tRNA ligase	99.59
PF00749		314	tRNA-synt_1c: tRNA synthetases class I (E and Q),	99.59
TIGR00440		522	glnS glutaminyl-tRNA synthetase. This protein is a	99.57
PTZ00437		574	glutaminyl-tRNA synthetase; Provisional	99.56
PLN02859		788	glutamine-tRNA ligase	99.55
cd00808		239	GluRS_core catalytic core domain of discriminating	99.55
KOG1149		524	consensus Glutamyl-tRNA synthetase (mitochondrial)	99.44
KOG0437		1080	consensus Leucyl-tRNA synthetase [Translation, rib	99.32
cd07956		156	Anticodon_Ia_Arg Anticodon-binding domain of argin	99.06
PF09190		63	DALR_2: DALR domain; InterPro: IPR015273 The amino	98.51
cd07962		135	Anticodon_Ia_Val Anticodon-binding domain of valyl	98.41
KOG1147		712	consensus Glutamyl-tRNA synthetase [Translation, r	98.34
PF05746		119	DALR_1: DALR anticodon binding domain; InterPro: I	98.34
cd07958		117	Anticodon_Ia_Leu_BEm Anticodon-binding domain of b	98.29
cd07957		129	Anticodon_Ia_Met Anticodon-binding domain of methi	98.19
cd07960		180	Anticodon_Ia_Ile_BEm Anticodon-binding domain of b	98.18
cd07959		117	Anticodon_Ia_Leu_AEc Anticodon-binding domain of a	98.12
smart00840		56	DALR_2 This DALR domain is found in cysteinyl-tRNA	98.05
PRK13354		410	tyrosyl-tRNA synthetase; Provisional	98.01
TIGR00233		328	trpS tryptophanyl-tRNA synthetase. This model repr	97.88
PRK12285		368	tryptophanyl-tRNA synthetase; Reviewed	97.85
cd00395		273	Tyr_Trp_RS_core catalytic core domain of tyrosinyl	97.83
cd07955		81	Anticodon_Ia_Cys_like Anticodon-binding domain of	97.82
cd07961		183	Anticodon_Ia_Ile_ABEc Anticodon-binding domain of	97.82
cd00805		269	TyrRS_core catalytic core domain of tyrosinyl-tRNA	97.81
smart00836		122	DALR_1 DALR anticodon binding domain. This all alp	97.72
PRK05912		408	tyrosyl-tRNA synthetase; Validated	97.66
cd07375		117	Anticodon_Ia_like Anticodon-binding domain of clas	97.65
PRK08560		329	tyrosyl-tRNA synthetase; Validated	97.61
PF00579		292	tRNA-synt_1b: tRNA synthetases class I (W and Y);	97.58
cd00806		280	TrpRS_core catalytic core domain of tryptophanyl-t	97.58
PTZ00126		383	tyrosyl-tRNA synthetase; Provisional	97.57
PLN02486		383	aminoacyl-tRNA ligase	97.52
PRK12284		431	tryptophanyl-tRNA synthetase; Reviewed	97.48
PRK12556		332	tryptophanyl-tRNA synthetase; Provisional	97.41
PF08264		153	Anticodon_1: Anticodon-binding domain of tRNA; Int	97.41
COG0180		314	TrpS Tryptophanyl-tRNA synthetase [Translation, ri	97.41
PRK12282		333	tryptophanyl-tRNA synthetase II; Reviewed	97.38
COG0162		401	TyrS Tyrosyl-tRNA synthetase [Translation, ribosom	97.24
PRK12283		398	tryptophanyl-tRNA synthetase; Reviewed	97.18
KOG0437		1080	consensus Leucyl-tRNA synthetase [Translation, rib	97.12
PTZ00348		682	tyrosyl-tRNA synthetase; Provisional	97.12
KOG1148		764	consensus Glutaminyl-tRNA synthetase [Translation,	96.9
TIGR00234		377	tyrS tyrosyl-tRNA synthetase. This tyrosyl-tRNA sy	96.82
PRK00927		333	tryptophanyl-tRNA synthetase; Reviewed	96.56
PLN02886		389	aminoacyl-tRNA ligase	96.47
KOG2007		586	consensus Cysteinyl-tRNA synthetase [Translation,	95.74
COG1656		165	Uncharacterized conserved protein [Function unknow	91.24

>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

Probab=100.00  E-value=2.1e-130  Score=1005.03  Aligned_cols=456  Identities=49%  Similarity=0.836  Sum_probs=411.5

Q ss_pred             ceeeeecCCCCccccccCCCCcceEEEeCCCCCCCCCcchhhHHHHHHHHHHHHHHCCCceEEECCcchhhHHHHHHHHH
Q 009321           18 TLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRAND   97 (537)
Q Consensus        18 ~l~~~ntl~~~~~~~~p~~~~~v~~y~~gPt~yg~lHiGh~r~~v~~D~l~R~lr~~G~~V~~v~~idd~d~ki~~~a~~   97 (537)
                      .|+|||||||++++|.|.++++|+||+||||||+.+||||+|++|++|+++|+|+++||.|.||+||||+||||+++|++
T Consensus         1 ~l~iyNTltr~ke~F~P~~~~~V~mYvCGpTVYd~~HIGhaRt~V~fDvl~R~L~~~Gy~V~yV~NiTDIDDKIi~rA~~   80 (464)
T COG0215           1 MLKLYNTLTRQKEEFVPIDPGKVKMYVCGPTVYDYAHIGHARTYVVFDVLRRYLRYLGYKVTYVRNITDIDDKIINRARE   80 (464)
T ss_pred             CcEEEecCccceecccCCCCCeEEEEecCCccCCccccccCcceehHHHHHHHHHHhCCeEEEEeccccccHHHHHHHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCChHHHHHHHHHHHHHHHHHcCCCCCCCccchhhhHHHHHHHHHHHHHCCceeee-ccceeecCCCCCCCCCCcch-h
Q 009321           98 LGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVV-EGDVFFAVEKSPNYGRLSGQ-R  175 (537)
Q Consensus        98 ~g~~~~~~~~~~~~~~~~~l~~L~i~~~~~~~r~s~~~~~~~~~~~~L~~kG~ay~~-~~~v~f~~~~~~~yg~ls~~-~  175 (537)
                      .|.++.+++++|+++|++||++|||.+|+.+||+|+||++|+++|++|++||+||.. +|+|||+++++|+||+||+. .
T Consensus        81 ~g~~~~ev~~~~i~~f~~D~~aL~v~~p~~~PraTe~I~~iI~~I~~LiekG~AY~~~~G~VYFdv~~f~~YG~LS~~~~  160 (464)
T COG0215          81 EGLSIREVAERYIAAFFEDMDALNVLPPDIEPRATEHIDEIIEFIEKLIEKGYAYVADDGDVYFDVSKFKDYGKLSGRDS  160 (464)
T ss_pred             hCCCHHHHHHHHHHHHHHHHHHhCCCCCcccCcHhhCHHHHHHHHHHHHHCCceEEecCCcEEEecccchhhHhhcCCCC
Confidence            999999999999999999999999988999999999999999999999999999998 78999999999999999966 8


Q ss_pred             chhhhcCCCccccccccCcccccccccccCCCCccccCCCCCCCchhhhHHHHHHhhcCCCeeEEEecccCcCcchhHHH
Q 009321          176 LENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEI  255 (537)
Q Consensus       176 l~~~~~g~~~~~~~~k~~~~df~lwk~~~~g~~~w~~~wG~g~PgW~iecs~~~~~~~g~~~dih~~G~Dl~fpH~~~~~  255 (537)
                      ++++..|.+++.+..|++|.||+|||++++|+|+|+||||.||||||||||+|+..+||.++|||+||.||+||||+||+
T Consensus       161 le~l~~gar~~~~~~Krnp~DFvLWK~sk~gEp~W~SPWG~GRPGWHIECSaM~~~~LG~~~DIHgGG~DLiFPHHENEi  240 (464)
T COG0215         161 LEELQAGARVEVDEEKRNPLDFVLWKAAKPGEPSWDSPWGKGRPGWHIECSAMSTKYLGETFDIHGGGSDLIFPHHENEI  240 (464)
T ss_pred             hhHHhhccccccccccCCchhheeeccCCCCCCCCCCCCCCCCCchhHHHHHHHHHHhCCCcceecCcccccCCCcccHH
Confidence            88888999999988999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhccC-CCCceEEEEeeeeeeCCccccccCCCcccHHHHHHHcCchhhHHHHhhcCcCCCcccCHHHHHHHHHHHHH
Q 009321          256 AQSCAACQ-DSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFY  334 (537)
Q Consensus       256 a~~~a~~~-~~~~~~~~h~g~v~~~G~KMSKS~Gn~i~~~dll~~~~~d~lR~~ll~~~~~~~~~fs~~~l~~~~~~l~~  334 (537)
                      ||++|+++ ++|++||||+|||+++|+|||||+|||+|++|+|++|+|++|||+||++|||+|++||++.|.++.+.+.+
T Consensus       241 AQsea~~g~~~~a~yWmH~G~l~i~geKMSKSLGNfiti~d~l~~~~p~~lR~~lls~HYR~pl~fsee~L~~A~~~l~r  320 (464)
T COG0215         241 AQSEAATGVKPFAKYWMHNGFLNIDGEKMSKSLGNFITVRDLLKKYDPEVLRLFLLSSHYRSPLDFSEELLEEAKKALER  320 (464)
T ss_pred             HHHHhhhCCCcceeEeEEcceeeecCcCcccccCCeeEHHHHHhhcCHHHHHHHHHHHHhCCccccCHHHHHHHHHHHHH
Confidence            99999998 78999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCccccCCCCCCCChHHHHHHHHHHHHHHHHHHcccCchhhhHHHHHHHHHHHHHHHhhhcccCchhhh
Q 009321          335 IYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQ  414 (537)
Q Consensus       335 l~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~l~~~~~~v~~am~dd~n~~~al~~~L~~l~~~~N~~~~~~~~~~~~~~~  414 (537)
                      |++++.++........       ..     .+.++...|.+||+||||||.|++. |+++++.+|...+.....      
T Consensus       321 l~~~~~~~~~~~~~~~-------~~-----~~~~~~~~f~~al~DDfnt~~al~~-l~~l~~~~~~~~~~~~~~------  381 (464)
T COG0215         321 LYNALRRLRDLAGDAE-------LA-----DLKEFEARFREALDDDFNTPKALAV-LFELAKEINRLLEEGKSD------  381 (464)
T ss_pred             HHHHHHHHHhhccccc-------cc-----hhHHHHHHHHHHHHhccCcHHHHHH-HHHHHHHHhhhhhccccc------
Confidence            9999887653322110       00     3456777899999999999999999 999999997766544310      


Q ss_pred             HHHHHHHHHHHHHHHHHHh-----hcccCCCCChHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHhcCCChhHhHHHHH
Q 009321          415 LSLIESLRKIENEVKEVLR-----ILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRA  489 (537)
Q Consensus       415 ~~~~~~l~~~~~~l~~~l~-----vLGi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~li~~R~~aR~~Kdf~~aD~IRd  489 (537)
                            ...++..+..++.     +||+.+. ..    .       ......+++|+.||++|++||++|||++||+|||
T Consensus       382 ------~~~~~~~~~~~~~~lg~~~l~~~~~-~~----~-------~~~~~~~~~i~~Li~~R~~aR~~K~~~~AD~iRd  443 (464)
T COG0215         382 ------AKAVLSALKALLAILGLKVLGLFPQ-SG----A-------QEDESDDEEIEALIEERLEARKAKNWALADEIRD  443 (464)
T ss_pred             ------hHHHHHHHHHHHHHhCchhhccccc-cc----c-------ccccchHHHHHHHHHHHHHHHHhhCHHHHHHHHH
Confidence                  1122233333334     4555443 10    0       0112257889999999999999999999999999


Q ss_pred             HhHhCCCEEEecCCceEEEeC
Q 009321          490 DLTRKGIALMDMGKETIWRPC  510 (537)
Q Consensus       490 ~L~~~GI~l~D~~~Gt~W~~~  510 (537)
                      +|.++||.|+|+|+||+|++.
T Consensus       444 ~L~~~Gi~leD~~~gt~w~~~  464 (464)
T COG0215         444 ELLALGIILEDTPDGTTWRRK  464 (464)
T ss_pred             HHHHCCcEEEECCCCeEEEeC
Confidence            999999999999999999973

>PLN02946 cysteine-tRNA ligase	Back alignment and domain information

>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>PTZ00399 cysteinyl-tRNA-synthetase; Provisional	Back alignment and domain information

>PRK00260 cysS cysteinyl-tRNA synthetase; Validated	Back alignment and domain information

>TIGR00435 cysS cysteinyl-tRNA synthetase	Back alignment and domain information

>KOG2007 consensus Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR03447 mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase	Back alignment and domain information

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

>PRK12418 cysteinyl-tRNA synthetase; Provisional	Back alignment and domain information

>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase	Back alignment and domain information

>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK11893 methionyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN02224 methionine-tRNA ligase	Back alignment and domain information

>PRK00133 metG methionyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN02610 probable methionyl-tRNA synthetase	Back alignment and domain information

>TIGR00398 metG methionyl-tRNA synthetase	Back alignment and domain information

>PRK12267 methionyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PRK12268 methionyl-tRNA synthetase; Reviewed	Back alignment and domain information

>KOG0436 consensus Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

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

>PF09334 tRNA-synt_1g: tRNA synthetases class I (M); InterPro: IPR015413 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>PRK01611 argS arginyl-tRNA synthetase; Reviewed	Back alignment and domain information

>cd00814 MetRS_core catalytic core domain of methioninyl-tRNA synthetases	Back alignment and domain information

>PRK13208 valS valyl-tRNA synthetase; Reviewed	Back alignment and domain information

>TIGR00422 valS valyl-tRNA synthetase	Back alignment and domain information

>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK05729 valS valyl-tRNA synthetase; Reviewed	Back alignment and domain information

>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases	Back alignment and domain information

>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family	Back alignment and domain information

>PLN02943 aminoacyl-tRNA ligase	Back alignment and domain information

>PRK14900 valS valyl-tRNA synthetase; Provisional	Back alignment and domain information

>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases	Back alignment and domain information

>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PRK00390 leuS leucyl-tRNA synthetase; Validated	Back alignment and domain information

>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases	Back alignment and domain information

>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed	Back alignment and domain information

>TIGR00396 leuS_bact leucyl-tRNA synthetase, eubacterial and mitochondrial family	Back alignment and domain information

>PLN02882 aminoacyl-tRNA ligase	Back alignment and domain information

>PLN02843 isoleucyl-tRNA synthetase	Back alignment and domain information

>PLN02381 valyl-tRNA synthetase	Back alignment and domain information

>TIGR00392 ileS isoleucyl-tRNA synthetase	Back alignment and domain information

>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional	Back alignment and domain information

>PTZ00419 valyl-tRNA synthetase-like protein; Provisional	Back alignment and domain information

>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR00456 argS arginyl-tRNA synthetase	Back alignment and domain information

>PRK12300 leuS leucyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN02563 aminoacyl-tRNA ligase	Back alignment and domain information

>PRK12451 arginyl-tRNA synthetase; Reviewed	Back alignment and domain information

>KOG1247 consensus Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PTZ00427 isoleucine-tRNA ligase, putative; Provisional	Back alignment and domain information

>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PLN02286 arginine-tRNA ligase	Back alignment and domain information

>COG0060 IleS Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase	Back alignment and domain information

>PLN02959 aminoacyl-tRNA ligase	Back alignment and domain information

>KOG0432 consensus Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK00750 lysK lysyl-tRNA synthetase; Reviewed	Back alignment and domain information

>cd00671 ArgRS_core catalytic core domain of arginyl-tRNA synthetases	Back alignment and domain information

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

>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete	Back alignment and domain information

>KOG0435 consensus Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG0433 consensus Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK04156 gltX glutamyl-tRNA synthetase; Provisional	Back alignment and domain information

>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase	Back alignment and domain information

>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG4426 consensus Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>KOG0434 consensus Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>cd07963 Anticodon_Ia_Cys Anticodon-binding domain of cysteinyl tRNA synthetases	Back alignment and domain information

>cd09287 GluRS_non_core catalytic core domain of non-discriminating glutamyl-tRNA synthetase	Back alignment and domain information

>KOG1195 consensus Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR00464 gltX_bact glutamyl-tRNA synthetase, bacterial family	Back alignment and domain information

>PRK12558 glutamyl-tRNA synthetase; Provisional	Back alignment and domain information

>PRK12410 glutamylglutaminyl-tRNA synthetase; Provisional	Back alignment and domain information

>PRK14895 gltX glutamyl-tRNA synthetase; Provisional	Back alignment and domain information

>TIGR00463 gltX_arch glutamyl-tRNA synthetase, archaeal and eukaryotic family	Back alignment and domain information

>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN03233 putative glutamate-tRNA ligase; Provisional	Back alignment and domain information

>PLN02627 glutamyl-tRNA synthetase	Back alignment and domain information

>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase	Back alignment and domain information

>PRK05347 glutaminyl-tRNA synthetase; Provisional	Back alignment and domain information

>PRK05710 glutamyl-Q tRNA(Asp) synthetase; Reviewed	Back alignment and domain information

>TIGR03838 queuosine_YadB glutamyl-queuosine tRNA(Asp) synthetase	Back alignment and domain information

>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional	Back alignment and domain information

>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>cd00807 GlnRS_core catalytic core domain of glutaminyl-tRNA synthetase	Back alignment and domain information

>PTZ00402 glutamyl-tRNA synthetase; Provisional	Back alignment and domain information

>PLN02907 glutamate-tRNA ligase	Back alignment and domain information

>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>TIGR00440 glnS glutaminyl-tRNA synthetase	Back alignment and domain information

>PTZ00437 glutaminyl-tRNA synthetase; Provisional	Back alignment and domain information

>PLN02859 glutamine-tRNA ligase	Back alignment and domain information

>cd00808 GluRS_core catalytic core domain of discriminating glutamyl-tRNA synthetase	Back alignment and domain information

>KOG1149 consensus Glutamyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG0437 consensus Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>cd07956 Anticodon_Ia_Arg Anticodon-binding domain of arginyl tRNA synthetases	Back alignment and domain information

>PF09190 DALR_2: DALR domain; InterPro: IPR015273 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>cd07962 Anticodon_Ia_Val Anticodon-binding domain of valyl tRNA synthetases	Back alignment and domain information

>KOG1147 consensus Glutamyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF05746 DALR_1: DALR anticodon binding domain; InterPro: IPR008909 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>cd07958 Anticodon_Ia_Leu_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases	Back alignment and domain information

>cd07957 Anticodon_Ia_Met Anticodon-binding domain of methionyl tRNA synthetases	Back alignment and domain information

>cd07960 Anticodon_Ia_Ile_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases	Back alignment and domain information

>cd07959 Anticodon_Ia_Leu_AEc Anticodon-binding domain of archaeal and eukaryotic cytoplasmic leucyl tRNA synthetases	Back alignment and domain information

>smart00840 DALR_2 This DALR domain is found in cysteinyl-tRNA-synthetases	Back alignment and domain information

>PRK13354 tyrosyl-tRNA synthetase; Provisional	Back alignment and domain information

>TIGR00233 trpS tryptophanyl-tRNA synthetase	Back alignment and domain information

>PRK12285 tryptophanyl-tRNA synthetase; Reviewed	Back alignment and domain information

>cd00395 Tyr_Trp_RS_core catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase	Back alignment and domain information

>cd07955 Anticodon_Ia_Cys_like Anticodon-binding domain of cysteinyl tRNA synthetases and domain found in MshC	Back alignment and domain information

>cd07961 Anticodon_Ia_Ile_ABEc Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases	Back alignment and domain information

>cd00805 TyrRS_core catalytic core domain of tyrosinyl-tRNA synthetase	Back alignment and domain information

>smart00836 DALR_1 DALR anticodon binding domain	Back alignment and domain information

>PRK05912 tyrosyl-tRNA synthetase; Validated	Back alignment and domain information

>cd07375 Anticodon_Ia_like Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains	Back alignment and domain information

>PRK08560 tyrosyl-tRNA synthetase; Validated	Back alignment and domain information

>PF00579 tRNA-synt_1b: tRNA synthetases class I (W and Y); InterPro: IPR002305 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>cd00806 TrpRS_core catalytic core domain of tryptophanyl-tRNA synthetase	Back alignment and domain information

>PTZ00126 tyrosyl-tRNA synthetase; Provisional	Back alignment and domain information

>PLN02486 aminoacyl-tRNA ligase	Back alignment and domain information

>PRK12284 tryptophanyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PRK12556 tryptophanyl-tRNA synthetase; Provisional	Back alignment and domain information

>PF08264 Anticodon_1: Anticodon-binding domain of tRNA; InterPro: IPR013155 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>COG0180 TrpS Tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK12282 tryptophanyl-tRNA synthetase II; Reviewed	Back alignment and domain information

>COG0162 TyrS Tyrosyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK12283 tryptophanyl-tRNA synthetase; Reviewed	Back alignment and domain information

>KOG0437 consensus Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PTZ00348 tyrosyl-tRNA synthetase; Provisional	Back alignment and domain information

>KOG1148 consensus Glutaminyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR00234 tyrS tyrosyl-tRNA synthetase	Back alignment and domain information

>PRK00927 tryptophanyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN02886 aminoacyl-tRNA ligase	Back alignment and domain information

>KOG2007 consensus Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>COG1656 Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		537
1li5_A		461	Crystal Structure Of Cysteinyl-Trna Synthetase Leng		1e-103
3tqo_A		462	Structure Of The Cysteinyl-Trna Synthetase (Cyss) F		1e-102
3c8z_A		414	The 1.6 A Crystal Structure Of Mshc: The Rate Limit		2e-53
3sp1_A		501	Crystal Structure Of Cysteinyl-Trna Synthetase (Cys		3e-51

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

Back alignment and structure

Iteration: 1

Score = 372 bits (955), Expect = e-103, Method: Compositional matrix adjust. Identities = 216/493 (43%), Positives = 280/493 (56%), Gaps = 38/493 (7%) Query: 19 LKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEV 78 LKI+N++T+QKE F PI G+VGMYVCG+T YDL H+GH R V+FD++ RYL L ++ Sbjct: 2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYLRFLGYKL 61 Query: 79 TYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQI 138 YVRN TD+DDKII+RAN+ GE+ +++ +R E D L L P +PR + H+ +I Sbjct: 62 KYVRNITDIDDKIIKRANENGESFVAMVDRMIAEMHKDFDALNILRPDMEPRATHHIAEI 121 Query: 139 KDMITQIINNDCAYVVE-GDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADF 197 ++ Q+I AYV + GDV F V P YG LS Q L+ +AG RV V KRNP DF Sbjct: 122 IELTEQLIAKGHAYVADNGDVMFDVPTDPTYGVLSRQDLDQLQAGARVDVVDDKRNPMDF 181 Query: 198 ALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQ 257 LWK +K GEPSW SPWG GRPGWHIECSAM+ L + FDIHGGG DL+FPHHENEIAQ Sbjct: 182 VLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQLGNHFDIHGGGSDLMFPHHENEIAQ 241 Query: 258 SCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSP 317 S A V+YWMH+G V + EKMSKSLGNFFT+R + + Y +R+FL+S HYRS Sbjct: 242 STCAHDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRYFLMSGHYRSQ 301 Query: 318 LNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARM 377 LNYS L A A+ +Y L+ + ++P AR F M Sbjct: 302 LNYSEENLKQARAALERLYTALRGTDKTVAPAGGEAFEAR---------------FIEAM 346 Query: 378 SDDLNTSHILTGAFQDALKFINSSLNMLXXXXXXXXXLSLIESLRKIENEVKEVLRILGL 437 DD NT + F A +N L ++ LRK+ +LGL Sbjct: 347 DDDFNTPEAYSVLFDMA-----REVNRLKAEDMAAAN-AMASHLRKLSA-------VLGL 393 Query: 438 L--PPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKG 495 L P A+ + Q D + E LI++R ARK KD++ +D R L G Sbjct: 394 LEQEPEAFLQSGAQADDSEVAEIE-------ALIQQRLDARKAKDWAAADAARDRLNEMG 446 Query: 496 IALMDMGKETIWR 508 I L D + T WR Sbjct: 447 IVLEDGPQGTTWR 459

PyMOL of 1li5

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

Back alignment and structure

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

Back alignment and structure

>pdb|3SP1|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From Borrelia Burgdorferi Length = 501

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		537
1li5_A		461	Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys	0.0
3tqo_A		462	Cysteinyl-tRNA synthetase; protein synthesis, liga	0.0
3sp1_A		501	Cysteinyl-tRNA synthetase; structural genomics, se	0.0
3c8z_A		414	Cysteinyl-tRNA synthetase; cysteine ligase, rossma	0.0
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-11
1wz2_A		967	Leucyl-tRNA synthetase; ligase, riken structural g	9e-09
1wkb_A		810	Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, e	9e-07
2csx_A		497	Methionyl-tRNA synthetase; ligase, riken structura	9e-06
3kfl_A		564	Methionyl-tRNA synthetase; parasite, aminoacyl-tRN	3e-05
4dlp_A		536	Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA	3e-05
2x1l_A		524	Methionyl-tRNA synthetase; nucleotide-binding, pro	3e-05
2d5b_A		500	Methionyl-tRNA synthetase; rossmann fold, class 1A	4e-04
1ile_A		821	Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA s	8e-04

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

 Score =  712 bits (1840), Expect = 0.0
 Identities = 205/491 (41%), Positives = 278/491 (56%), Gaps = 34/491 (6%)

Query: 19  LKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEV 78
           LKI+N++T+QKE F PI  G+VGMYVCG+T YDL H+GH R  V+FD++ RYL  L  ++
Sbjct: 2   LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYLRFLGYKL 61

Query: 79  TYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQI 138
            YVRN TD+DDKII+RAN+ GE+ +++ +R   E   D   L  L P  +PR + H+ +I
Sbjct: 62  KYVRNITDIDDKIIKRANENGESFVAMVDRMIAEMHKDFDALNILRPDMEPRATHHIAEI 121

Query: 139 KDMITQIINNDCAYVVE-GDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADF 197
            ++  Q+I    AYV + GDV F V   P YG LS Q L+  +AG RV V   KRNP DF
Sbjct: 122 IELTEQLIAKGHAYVADNGDVMFDVPTDPTYGVLSRQDLDQLQAGARVDVVDDKRNPMDF 181

Query: 198 ALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQ 257
            LWK +K GEPSW SPWG GRPGWHIECSAM+   L + FDIHGGG DL+FPHHENEIAQ
Sbjct: 182 VLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQLGNHFDIHGGGSDLMFPHHENEIAQ 241

Query: 258 SCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSP 317
           S  A     V+YWMH+G V  + EKMSKSLGNFFT+R + + Y    +R+FL+S HYRS 
Sbjct: 242 STCAHDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRYFLMSGHYRSQ 301

Query: 318 LNYSVLQLDSASDAVFYIYQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARM 377
           LNYS   L  A  A+  +Y  L+  +  ++P                        F   M
Sbjct: 302 LNYSEENLKQARAALERLYTALRGTDKTVAPAGG---------------EAFEARFIEAM 346

Query: 378 SDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQLSLIESLRKIENEVKEVLRILGL 437
            DD NT    +  F D  + +N                  + +   + + ++++  +LGL
Sbjct: 347 DDDFNTPEAYSVLF-DMAREVNRLKA------------EDMAAANAMASHLRKLSAVLGL 393

Query: 438 LPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKGIA 497
           L      +  +       +  +    ++  LI++R  ARK KD++ +D  R  L   GI 
Sbjct: 394 LE-----QEPEAFLQSGAQADDSEVAEIEALIQQRLDARKAKDWAAADAARDRLNEMGIV 448

Query: 498 LMDMGKETIWR 508
           L D  + T WR
Sbjct: 449 LEDGPQGTTWR 459

PyMOL of 1li5

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

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

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

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

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

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

>2csx_A Methionyl-tRNA synthetase; ligase, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus} PDB: 2ct8_A* Length = 497	Back alignment and structure

>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase, tRNA ligase metrs, methionine, translation, ATP-binding; HET: ME8; 2.00A {Leishmania major} Length = 564	Back alignment and structure

>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class IA:methionyl-tRNA...; structural genomics; 2.65A {Brucella melitensis biovar abortus 230ORGANISM_TAXID} Length = 536	Back alignment and structure

>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein biosynthesis, ligase, aminoacyl- synthetase; HET: ADN CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A* Length = 524	Back alignment and structure

>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 Length = 500	Back alignment and structure

>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* Length = 821	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		537
3tqo_A		462	Cysteinyl-tRNA synthetase; protein synthesis, liga	100.0
3sp1_A		501	Cysteinyl-tRNA synthetase; structural genomics, se	100.0
1li5_A		461	Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys	100.0
3c8z_A		414	Cysteinyl-tRNA synthetase; cysteine ligase, rossma	100.0
2csx_A		497	Methionyl-tRNA synthetase; ligase, riken structura	100.0
2d5b_A		500	Methionyl-tRNA synthetase; rossmann fold, class 1A	100.0
3u1f_A		542	Methionyl-tRNA synthetase; aminoacyl-tRNA syntheta	100.0
1rqg_A		722	Methionyl-tRNA synthetase; translation, dimerizati	100.0
4dlp_A		536	Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA	100.0
2x1l_A		524	Methionyl-tRNA synthetase; nucleotide-binding, pro	100.0
3h99_A		560	Methionyl-tRNA synthetase; rossmann fold, aminoacy	100.0
3kfl_A		564	Methionyl-tRNA synthetase; parasite, aminoacyl-tRN	100.0
1iq0_A		592	Arginyl-tRNA synthetase; riken structural genomics	100.0
2zue_A		629	Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase	100.0
1gax_A		862	Valrs, valyl-tRNA synthetase; protein-RNA complex,	100.0
1f7u_A		607	Arginyl-tRNA synthetase; RNA-protein complex, amin	100.0
1irx_A		523	Lysyl-tRNA synthetase; beta sandwitch, zinc-bindin	100.0
1ile_A		821	Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA s	100.0
1wkb_A		810	Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, e	100.0
1ffy_A		917	Isoleucyl-tRNA synthetase; protein-RNA complex, me	100.0
4arc_A		880	Leucine--tRNA ligase; ligase-RNA complex, nucleoti	100.0
1wz2_A		967	Leucyl-tRNA synthetase; ligase, riken structural g	100.0
2v0c_A		878	Aminoacyl-tRNA synthetase; ligase, nucleotide-bind	100.0
3fnr_A		464	Arginyl-tRNA synthetase; transferase, PSI-2, NYSGX	100.0
3aii_A		553	Glutamyl-tRNA synthetase; amino-acyl tRNA syntheta	100.0
1qtq_A		553	GLNRS, protein (glutaminyl-tRNA synthetase); gluta	100.0
2hz7_A		851	Glutaminyl-tRNA synthetase; rossmann fold, GLNRS c	100.0
2cfo_A		492	Glutamyl-tRNA synthetase; ligase, aminoacyl-tRNA s	99.96
1nzj_A		298	Hypothetical protein YADB; Zn cluster, glutamyl T-	99.95
2o5r_A		481	Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, g	99.86
1j09_A		468	Glutamyl-tRNA synthetase; glurs-ATP-Glu complex, r	99.85
4g6z_A		490	Glutamate-tRNA ligase; aminoacyl-tRNA synthetase,	99.83
3afh_A		488	Glutamyl-tRNA synthetase 2; protein-substrate comp	99.83
3al0_C		592	Glutamyl-tRNA(Gln) amidotransferase subunit C, GL	99.82
2ja2_A		498	Glutamyl-tRNA synthetase; non-discriminating gluta	99.72
4gri_A		512	Glutamate--tRNA ligase; structural genomics, seatt	99.67
2cyb_A		323	Tyrosyl-tRNA synthetase; rossmann-fold, structural	98.73
2g36_A		340	Tryptophanyl-tRNA synthetase; TM0492, structural g	98.4
2dlc_X		394	Tyrosyl-tRNA synthetase, cytoplasmic; tyrrs, ligas	98.12
2el7_A		337	Tryptophanyl-tRNA synthetase; aminoacyl-tRNA synth	98.07
2cya_A		364	Tyrosyl-tRNA synthetase; tyrrs, aminoacylation, st	98.0
2zp1_A		314	Tyrosyl-tRNA synthetase; tRNA synthetases class I,	97.99
1n3l_A		372	Tyrosyl-tRNA synthetase; rossmann fold AS catalyti	97.95
3hzr_A		386	Tryptophanyl-tRNA synthetase; APO tRNA-ligase, str	97.86
1y42_X		392	Tyrosyl-tRNA synthetase, mitochondrial; CYT-18, tR	97.84
3tzl_A		322	Tryptophanyl-tRNA synthetase; structural genomics,	97.8
2jan_A		432	Tyrosyl-tRNA synthetase; protein biosynthesis, ami	97.72
1yi8_B		351	Tryptophanyl-tRNA synthetase; ligase; HET: TRP; 2.	97.71
3vgj_A		373	Tyrosyl-tRNA synthetase, putative; tyrrs, ligase;	97.71
1jil_A		420	Tyrrs, tyrosyl-tRNA synthetase; truncation, based	97.68
1h3f_A		432	Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA sy	97.67
2cyc_A		375	Tyrosyl-tRNA synthetase; tyrosine, tyrrs, aminoacy	97.51
2ts1_A		419	Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30	97.49
3i05_A		395	Tryptophanyl-tRNA synthetase; APO tRNA-ligase, ATP	97.49
3jxe_A		392	Tryptophanyl-tRNA synthetase; adenosine triphospha	97.46
1i6k_A		328	TRPRS, tryptophanyl-tRNA synthetase; class I tRNA	97.44
3hv0_A		393	Tryptophanyl-tRNA synthetase; tRNA-ligase, ATP-bin	97.43
2j5b_A		348	Tyrosyl-tRNA synthetase; ligase, protein biosynthe	97.42
3tze_A		406	Tryptophanyl-tRNA synthetase; structural genomics,	97.28
2yy5_A		348	Tryptophanyl-tRNA synthetase; aminoaccyl tRNA synt	97.26
3prh_A		388	Tryptophanyl-tRNA synthetase; TRPRS, protein biosy	97.2
1r6t_A		477	Tryptophanyl-tRNA synthetase; class IC tRNA synthe	97.19
2ip1_A		432	Tryptophanyl-tRNA synthetase; rossmann fold, struc	97.09
1r6u_A		437	Tryptophanyl-tRNA synthetase; class IC tRNA synthe	97.07
3p0j_A		690	Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase	97.01
3a04_A		372	Tryptophanyl-tRNA synthetase; ligase, aminoacyl-tR	96.93
3n9i_A		346	Tryptophanyl-tRNA synthetase; tryptophan-tRNA liga	96.85
3foc_A		451	Tryptophanyl-tRNA synthetase; structural genomics,	96.78
3sz3_A		341	Tryptophanyl-tRNA synthetase; structural genomics,	96.33
2yxn_A		322	Tyrosyl-tRNA synthetase; tRNA synthetases class I,	96.02
2pid_A		356	Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase	95.75

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

Probab=100.00  E-value=6e-118  Score=939.35  Aligned_cols=458  Identities=45%  Similarity=0.752  Sum_probs=357.7

Q ss_pred             CceeeeecCCCCccccccCCCCcceEEEeCCCCCCCCCcchhhHHHHHHHHHHHHHHCCCceEEECCcchhhHHHHHHHH
Q 009321           17 LTLKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRAN   96 (537)
Q Consensus        17 ~~l~~~ntl~~~~~~~~p~~~~~v~~y~~gPt~yg~lHiGh~r~~v~~D~l~R~lr~~G~~V~~v~~idd~d~ki~~~a~   96 (537)
                      .+|+|||||||+|++|.|..+++|+||+|||||||++||||+|++|++|+++||||++||+|.||+|+||+|+||+.+|+
T Consensus         3 m~l~~yntlt~~ke~f~p~~~~~v~~YvcGPtvy~~~HIGHaR~~v~~Dvl~R~lr~~Gy~V~~v~n~dD~ddKIi~~A~   82 (462)
T 3tqo_A            3 MSVKIFNSLTKQKEIFKPIESGKVKLYVCGMTVYDYMHIGHGRSWIIFDMVVRYLRMRGYEVTFVRNITDIDDKIIKRAG   82 (462)
T ss_dssp             CCCEEEETTTTEEEECCCSSTTEEEEEECCCBTTSCCBHHHHHHHHHHHHHHHHHHHTTCEEEEEECBBCCCHHHHHHHH
T ss_pred             ceEEEEEcCCCceeccccCCCCeEEEEeCCCcCCCCCchhhhHHHHHHHHHHHHHHHcCCceEEecCcCCCCcHHHHHHH
Confidence            36999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCChHHHHHHHHHHHHHHHHHcCCCCCCCccchhhhHHHHHHHHHHHHHCCceeee-ccceeecCCCCCCCCCCcchh
Q 009321           97 DLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVV-EGDVFFAVEKSPNYGRLSGQR  175 (537)
Q Consensus        97 ~~g~~~~~~~~~~~~~~~~~l~~L~i~~~~~~~r~s~~~~~~~~~~~~L~~kG~ay~~-~~~v~f~~~~~~~yg~ls~~~  175 (537)
                      ++|++|++++++|++.|.++|++|||.+++.+||+|+|++.++++|++|+++|+||++ +++||||+++++.||+||+++
T Consensus        83 ~~g~~~~e~a~~~~~~f~~d~~~LgI~~d~~~praTe~i~~i~~~i~~L~ekG~aY~~~~g~Vyfdv~~~~~yg~Ls~~~  162 (462)
T 3tqo_A           83 ENKESPAALAERFIQILHEDEKALRVLSPDQEPRATQYVPEIIKLIQKLLDNQYAYTGQNGDVFFDVRRFKDYGKLSHRH  162 (462)
T ss_dssp             HTTSCHHHHHHHHHHHHHHHHHHHTCCCCSBCCBGGGCHHHHHHHHHHHHHHTSEEECTTSCEEECTTTCTTTTTTTTCS
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHHcCCCCCccccChhhHHHHHHHHHHHHHHCCCEEEecCCcEEeccccccccccccCCC
Confidence            9999999999999999999999999998899999999999999999999999999998 799999999999999999999


Q ss_pred             chhhhcCCCccccccccCcccccccccccCCCCccccCCCCCCCchhhhHHHHHHhhcCCCeeEEEecccCcCcchhHHH
Q 009321          176 LENNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEI  255 (537)
Q Consensus       176 l~~~~~g~~~~~~~~k~~~~df~lwk~~~~g~~~w~~~wG~g~PgW~iecs~~~~~~~g~~~dih~~G~Dl~fpH~~~~~  255 (537)
                      ++++..|++++.+.+|++|.||+|||.+++|+|+|+||||.||||||||||+|+.++||.++|||+||.||+||||+|++
T Consensus       163 ~~~~~~g~r~~~~~~K~~p~DF~LWK~~k~~ep~W~spwG~GrPGWHiEcsam~~~~lG~~~dih~gG~Dl~FpHhenei  242 (462)
T 3tqo_A          163 LDELQAGARVEVSDSKRDPLDFVLWKKAKPGEPKWDSPWGEGRPGWHIECSAMSSSILGQPFDIHGGGLDLKFPHHENEI  242 (462)
T ss_dssp             CC------------CCSSTTCEEEEEECCTTSCCBCCTTCSEEECHHHHHHHHHHHHHCSSEEEEEEEGGGTTTHHHHHH
T ss_pred             hHHhhccCccccccccCCccccceeeecCCCCCcccCCCCCCCCCCceehHHHHHHhcCCCeEEEccccccccHHHHhHH
Confidence            99999999988888899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhccCCCCceEEEEeeeeeeCCccccccCCCcccHHHHHHHcCchhhHHHHhhcCcCCCcccCHHHHHHHHHHHHHH
Q 009321          256 AQSCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASDAVFYI  335 (537)
Q Consensus       256 a~~~a~~~~~~~~~~~h~g~v~~~G~KMSKS~Gn~i~~~dll~~~~~d~lR~~ll~~~~~~~~~fs~~~l~~~~~~l~~l  335 (537)
                      ||++|+.+.||+++|+|+|+|+++|+|||||+||+|+|+|++++|++|++|||++++||+++++||++.+.++.+.+.+|
T Consensus       243 aqs~a~~g~p~~~~w~H~g~v~~~G~KMSKSlGN~i~~~dll~~~g~dalR~~lls~~yr~~l~fs~~~l~~a~~~l~rl  322 (462)
T 3tqo_A          243 AQSEAGEEKPFVKLWMHAGLLEINKEKMSKSLGNIISIREALKESDVEVLRYFLLSGHYRNPLSYSKENLENGRLALERF  322 (462)
T ss_dssp             HHHHHHHSSCCEEEEEEECCEEETTEECCTTTTCCCBHHHHHHHSCHHHHHHHHHHSCTTSCEEECHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcceEEEEccEEecCCcCccccCCCcccHHHHHhhcChHHhhhhhccCCCCCCcCcCHHHHHHHHHHHHHH
Confidence            99999988899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccCCCCCCCChHHHHHHHHHHHHHHHHHHcccCchhhhHHHHHHHHHHHHHHHhhhcccCchhhhH
Q 009321          336 YQTLQDCEVALSPFQEHGKTARINPAAEDCINKLRDEFHARMSDDLNTSHILTGAFQDALKFINSSLNMLKKKQPKQQQL  415 (537)
Q Consensus       336 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~l~~~~~~v~~am~dd~n~~~al~~~L~~l~~~~N~~~~~~~~~~~~~~~~  415 (537)
                      ++++.++..    .   . .        ..+..+.+.|.+||+||||+|.|++. |+++++.+|++.+...         
T Consensus       323 ~~~~~~~~~----~---~-~--------~~~~~~~~~~~~a~~dD~nt~~a~~~-l~~~~~~~n~~~~~~~---------  376 (462)
T 3tqo_A          323 YLALRGLPV----V---N-H--------EKTSSYTDRFYEAMDDDFNTPIAFAL-LFEMVREINRFRDNNQ---------  376 (462)
T ss_dssp             HHHHTTCCC----------------------CHHHHHHHHHHTBTCCHHHHHHH-HHHHHHHHHHHHHTTC---------
T ss_pred             HHHHHHhhh----c---c-c--------hhHHHHHHHHHHHHHhccChHHHHHH-HHHHHHHHhhhhcccc---------
Confidence            888754311    0   0 0        01345678899999999999999999 9999999999875432         


Q ss_pred             HHHHHHHHHHHHHHHHHhhcccCCCCChHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHhcCCChhHhHHHHHHhHhCC
Q 009321          416 SLIESLRKIENEVKEVLRILGLLPPGAYSEVLQQLKDKALKRAELTEEDVLQLIEERAAARKNKDFSKSDQIRADLTRKG  495 (537)
Q Consensus       416 ~~~~~l~~~~~~l~~~l~vLGi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~li~~R~~aR~~Kdf~~aD~IRd~L~~~G  495 (537)
                        ...+..+...+..++.+|||... ..+...+   ..   ...+.+++|+.||++|++||++|||++||+|||+|.++|
T Consensus       377 --~~~~~~~~~~~~~~~~vlg~~~~-~~~~~~~---~~---~~~~~~~~i~~li~~R~~ar~~kd~~~aD~iR~~L~~~G  447 (462)
T 3tqo_A          377 --IEKAAVLAAELKCLGNIFGLLQY-SPEQFLQ---GA---KKEADVQEIKKLIDQRNEARAKKDWKTADQIRDQLTDLG  447 (462)
T ss_dssp             --HHHHHHHHHHHHHHHGGGTCSCS-CHHHHC------------------------------------------------
T ss_pred             --HHHHHHHHHHHHHHHHhcCCCcc-chhhhhh---cc---ccccCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHCC
Confidence              11233455778889999999764 2222111   00   012345789999999999999999999999999999999


Q ss_pred             CEEEecCCceEEEe
Q 009321          496 IALMDMGKETIWRP  509 (537)
Q Consensus       496 I~l~D~~~Gt~W~~  509 (537)
                      |.|+|+|+||+|++
T Consensus       448 i~l~D~~~g~~w~~  461 (462)
T 3tqo_A          448 VAIEDSSDGTSWRQ  461 (462)
T ss_dssp             --------------
T ss_pred             cEEEEcCCCcEEEe
Confidence            99999999999986

PyMOL of 3tqo

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

>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	Back alignment and structure

>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}	Back alignment and structure

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

>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	Back alignment and structure

>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*	Back alignment and structure

>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	Back alignment and structure

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

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

>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	Back alignment and structure

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

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>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*	Back alignment and structure

>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	Back alignment and structure

>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*	Back alignment and structure

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

>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*	Back alignment and structure

>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*	Back alignment and structure

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

>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*	Back alignment and structure

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

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

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

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

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

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

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

>1j09_A Glutamyl-tRNA synthetase; glurs-ATP-Glu complex, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; HET: GLU ATP; 1.80A {Thermus thermophilus} SCOP: a.97.1.1 c.26.1.1 PDB: 1n75_A* 1n77_A* 1n78_A* 2cuz_A* 2cv0_A* 2cv1_A* 2cv2_A* 2dxi_A* 1g59_A 1gln_A	Back alignment and structure

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

>3afh_A Glutamyl-tRNA synthetase 2; protein-substrate complex, aminoacyl-tRNA synthetase, ATP-binding, ligase, nucleotide-binding; HET: GSU; 2.00A {Thermotoga maritima} PDB: 3akz_B*	Back alignment and structure

>3al0_C Glutamyl-tRNA(Gln) amidotransferase subunit C, GL tRNA synthetase 2; protein-RNA complex, ligase-RNA complex; HET: GSU; 3.37A {Thermotoga maritima}	Back alignment and structure

>2ja2_A Glutamyl-tRNA synthetase; non-discriminating glutamyl-tRNA aminoacylation, protein biosynthesis, aminoacyl-tRNA synthetase, ligase; 1.65A {Mycobacterium tuberculosis} PDB: 3pny_A 3pnv_A	Back alignment and structure

>4gri_A Glutamate--tRNA ligase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, aminoacyl-tRNA synthetase; HET: GLU; 2.60A {Borrelia burgdorferi}	Back alignment and structure

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

>2g36_A Tryptophanyl-tRNA synthetase; TM0492, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI, ligase; HET: TRP; 2.50A {Thermotoga maritima}	Back alignment and structure

>2dlc_X Tyrosyl-tRNA synthetase, cytoplasmic; tyrrs, ligase-tRNA complex; HET: 2MG OMG M2G PSU 6IA 5MC 5MU 1MA YMP; 2.40A {Saccharomyces cerevisiae}	Back alignment and structure

>2el7_A Tryptophanyl-tRNA synthetase; aminoacyl-tRNA synthetase, translation, structural GEN NPPSFA; 2.50A {Thermus thermophilus}	Back alignment and structure

>2cya_A Tyrosyl-tRNA synthetase; tyrrs, aminoacylation, structural genomics, NPPSFA, national on protein structural and functional analyses; 2.20A {Aeropyrum pernix}	Back alignment and structure

>2zp1_A Tyrosyl-tRNA synthetase; tRNA synthetases class I, ligase, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, nucleotide-binding; HET: IYR; 1.70A {Methanocaldococcus jannaschii} PDB: 1zh6_A* 1j1u_A* 1u7d_A 2q1g_A* 2pxh_A* 1zh0_A* 2q1i_A* 2ag6_A* 3qe4_A* 3d6u_A* 3d6v_A* 1u7x_A 3n2y_A* 2hgz_A*	Back alignment and structure

>1n3l_A Tyrosyl-tRNA synthetase; rossmann fold AS catalytic domain, unique anticodon recognit domain, dimer, ligase; 1.18A {Homo sapiens} SCOP: c.26.1.1 PDB: 1q11_A*	Back alignment and structure

>3hzr_A Tryptophanyl-tRNA synthetase; APO tRNA-ligase, structural genomics, medical structural GEN pathogenic protozoa, MSGPP, ligase; 3.00A {Entamoeba histolytica}	Back alignment and structure

>1y42_X Tyrosyl-tRNA synthetase, mitochondrial; CYT-18, tRNA ligase, group I intron; HET: TYR; 1.95A {Neurospora crassa} PDB: 2rkj_A	Back alignment and structure

>3tzl_A Tryptophanyl-tRNA synthetase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-beta structure; HET: ADP TRP; 2.15A {Campylobacter jejuni subsp} SCOP: c.26.1.0 PDB: 3m5w_A*	Back alignment and structure

>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis}	Back alignment and structure

>1yi8_B Tryptophanyl-tRNA synthetase; ligase; HET: TRP; 2.10A {Deinococcus radiodurans} PDB: 1yia_B* 1yid_B* 2a4m_A*	Back alignment and structure

>3vgj_A Tyrosyl-tRNA synthetase, putative; tyrrs, ligase; HET: YAP; 2.21A {Plasmodium falciparum}	Back alignment and structure

>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design, ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP: c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A*	Back alignment and structure

>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase; HET: TYE; 2.00A {Thermus thermophilus} SCOP: c.26.1.1 d.66.1.4 PDB: 1h3e_A*	Back alignment and structure

>2cyc_A Tyrosyl-tRNA synthetase; tyrosine, tyrrs, aminoacylation, structural genomics; HET: TYR; 2.20A {Pyrococcus horikoshii}	Back alignment and structure

>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E* 1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A	Back alignment and structure

>3i05_A Tryptophanyl-tRNA synthetase; APO tRNA-ligase, ATP-binding, aminoacyl-tRNA synthetase, LIG nucleotide-binding, protein biosynthesis; 2.80A {Trypanosoma brucei} SCOP: c.26.1.0	Back alignment and structure

>3jxe_A Tryptophanyl-tRNA synthetase; adenosine triphosphate, rossmann fold, crystallography, X-RAY, P. horikoshii, aminoacyl-tRNA synthetase; HET: TYM; 3.00A {Pyrococcus horikoshii}	Back alignment and structure

>1i6k_A TRPRS, tryptophanyl-tRNA synthetase; class I tRNA synthetase, AARS, induced FIT, ligase; HET: TYM; 1.72A {Geobacillus stearothermophilus} SCOP: c.26.1.1 PDB: 1i6l_A* 1i6m_A* 1m83_A* 1mau_A* 1maw_A* 1mb2_A* 2ov4_A* 3fhj_A* 3fi0_A* 1d2r_A 3u1v_A	Back alignment and structure

>3hv0_A Tryptophanyl-tRNA synthetase; tRNA-ligase, ATP-binding, aminoacyl-tRNA synthetase, ligase, nucleotide-binding; HET: TRP; 2.42A {Cryptosporidium parvum iowa II} SCOP: c.26.1.0	Back alignment and structure

>2j5b_A Tyrosyl-tRNA synthetase; ligase, protein biosynthesis, ATP-binding; HET: TYE; 2.20A {Acanthamoeba polyphaga mimivirus}	Back alignment and structure

>3tze_A Tryptophanyl-tRNA synthetase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, amino acylation; HET: TRP; 2.60A {Encephalitozoon cuniculi}	Back alignment and structure

>2yy5_A Tryptophanyl-tRNA synthetase; aminoaccyl tRNA synthetase, structural genomics, NPPSFA; HET: WSA; 2.55A {Mycoplasma pneumoniae}	Back alignment and structure

>3prh_A Tryptophanyl-tRNA synthetase; TRPRS, protein biosynthesis, translation, class I tRNA synth rossman fold, high motif, KMSKS motif; 2.80A {Bacillus subtilis}	Back alignment and structure

>1r6t_A Tryptophanyl-tRNA synthetase; class IC tRNA synthetase, rossmann fold catalytical domain, recognition domain, bound Trp-AMP, ligase; HET: TYM; 2.10A {Homo sapiens} SCOP: a.16.1.3 c.26.1.1 PDB: 2azx_A* 2quh_A* 2qui_A* 2quj_A* 2quk_A	Back alignment and structure

>2ip1_A Tryptophanyl-tRNA synthetase; rossmann fold, structural genomics, PSI-2, protein structure initiative; HET: PG4; 1.80A {Saccharomyces cerevisiae} PDB: 3kt0_A* 3kt3_A* 3kt6_A* 3kt8_A*	Back alignment and structure

>1r6u_A Tryptophanyl-tRNA synthetase; class IC tRNA synthetase, rossmann fold catalytic domain, AN recognition domain, bound Trp-AMP, ligase; HET: TYM; 2.00A {Homo sapiens} SCOP: c.26.1.1 PDB: 1ulh_A 2dr2_A* 2ake_A* 1o5t_A	Back alignment and structure

>3p0j_A Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, tyrrs, pseudod translation, ATP-binding, nucleotide-binding, ligase; HET: TYE; 2.89A {Leishmania major} PDB: 3p0i_A* 3p0h_A*	Back alignment and structure

>3a04_A Tryptophanyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, nucleotide-binding, protein biosynthesis; 1.97A {Aeropyrum pernix} PDB: 3a05_A*	Back alignment and structure

>3n9i_A Tryptophanyl-tRNA synthetase; tryptophan-tRNA ligase, csgid, structural genomics, niaid, center for structural genomics infectious diseases; 1.95A {Yersinia pestis} SCOP: c.26.1.1	Back alignment and structure

>3foc_A Tryptophanyl-tRNA synthetase; structural genomics, giardiasi aminoacyl-tRNA synthetase, ligase; 2.09A {Giardia lamblia atcc 50803}	Back alignment and structure

>3sz3_A Tryptophanyl-tRNA synthetase; structural genomics, center for structural genomics of infec diseases, csgid, rossmann fold; HET: TRP; 1.50A {Vibrio cholerae o1 biovar el tor}	Back alignment and structure

>2yxn_A Tyrosyl-tRNA synthetase; tRNA synthetases class I, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: AZY; 1.80A {Escherichia coli str} PDB: 1wq3_A* 1wq4_A* 1x8x_A* 1vbn_A* 1vbm_A*	Back alignment and structure

>2pid_A Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase, protein-substrate complex, ATP-BI ligase, mitochondrion, nucleotide-binding, protein biosynth; HET: YSA; 2.20A {Homo sapiens} PDB: 3zxi_A*	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		537
d1li5a2		315	c.26.1.1 (A:1-315) Cysteinyl-tRNA synthetase (CysR	6e-96
d1irxa2		317	c.26.1.1 (A:3-319) Class I lysyl-tRNA synthetase {	9e-50
d1pfva2		350	c.26.1.1 (A:4-140,A:176-388) Methionyl-tRNA synthe	2e-39
d2d5ba2		348	c.26.1.1 (A:1-348) Methionyl-tRNA synthetase (MetR	5e-37
d1rqga2		361	c.26.1.1 (A:1-138,A:174-396) Methionyl-tRNA synthe	9e-36
d1ffya3		450	c.26.1.1 (A:1-200,A:395-644) Isoleucyl-tRNA synthe	7e-17
d1ffya3		450	c.26.1.1 (A:1-200,A:395-644) Isoleucyl-tRNA synthe	1e-06
d1ivsa4		425	c.26.1.1 (A:1-189,A:343-578) Valyl-tRNA synthetase	3e-15
d1ivsa4		425	c.26.1.1 (A:1-189,A:343-578) Valyl-tRNA synthetase	7e-07
d1ilea3		452	c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthe	5e-11
d1ilea3		452	c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthe	0.002
d1f7ua2		348	c.26.1.1 (A:136-483) Arginyl-tRNA synthetase (ArgR	2e-08
d1j09a2		305	c.26.1.1 (A:1-305) Glutamyl-tRNA synthetase (GluRS	7e-07
d1li5a1		87	a.27.1.1 (A:316-402) Cysteinyl-tRNA synthetase (Cy	5e-05
d1iq0a2		370	c.26.1.1 (A:97-466) Arginyl-tRNA synthetase (ArgRS	2e-04

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


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

 Score =  292 bits (747), Expect = 6e-96
 Identities = 168/314 (53%), Positives = 207/314 (65%), Gaps = 1/314 (0%)

Query: 19  LKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEV 78
           LKI+N++T+QKE F PI  G+VGMYVCG+T YDL H+GH R  V+FD++ RYL  L  ++
Sbjct: 2   LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYLRFLGYKL 61

Query: 79  TYVRNFTDVDDKIIRRANDLGENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHM-EQ 137
            YVRN TD+DDKII+RAN+ GE+ +++ +R   E   D   L  L P  +PR + H+ E 
Sbjct: 62  KYVRNITDIDDKIIKRANENGESFVAMVDRMIAEMHKDFDALNILRPDMEPRATHHIAEI 121

Query: 138 IKDMITQIINNDCAYVVEGDVFFAVEKSPNYGRLSGQRLENNRAGERVAVDSRKRNPADF 197
           I+     I          GDV F V   P YG LS Q L+  +AG RV V   KRNP DF
Sbjct: 122 IELTEQLIAKGHAYVADNGDVMFDVPTDPTYGVLSRQDLDQLQAGARVDVVDDKRNPMDF 181

Query: 198 ALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQ 257
            LWK +K GEPSW SPWG GRPGWHIECSAM+   L + FDIHGGG DL+FPHHENEIAQ
Sbjct: 182 VLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQLGNHFDIHGGGSDLMFPHHENEIAQ 241

Query: 258 SCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSP 317
           S  A     V+YWMH+G V  + EKMSKSLGNFFT+R + + Y    +R+FL+S HYRS 
Sbjct: 242 STCAHDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRYFLMSGHYRSQ 301

Query: 318 LNYSVLQLDSASDA 331
           LNYS   L  A  A
Sbjct: 302 LNYSEENLKQARAA 315

PyMOL of d1li5a2

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

>d1pfva2 c.26.1.1 (A:4-140,A:176-388) Methionyl-tRNA synthetase (MetRS) {Escherichia coli [TaxId: 562]} Length = 350	Back information, alignment and structure

>d2d5ba2 c.26.1.1 (A:1-348) Methionyl-tRNA synthetase (MetRS) {Thermus thermophilus [TaxId: 274]} Length = 348	Back information, alignment and structure

>d1rqga2 c.26.1.1 (A:1-138,A:174-396) Methionyl-tRNA synthetase (MetRS) {Pyrococcus abyssi [TaxId: 29292]} Length = 361	Back information, alignment and structure

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

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

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

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

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

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

>d1f7ua2 c.26.1.1 (A:136-483) Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 348	Back information, alignment and structure

>d1j09a2 c.26.1.1 (A:1-305) Glutamyl-tRNA synthetase (GluRS) {Thermus thermophilus [TaxId: 274]} Length = 305	Back information, alignment and structure

>d1li5a1 a.27.1.1 (A:316-402) Cysteinyl-tRNA synthetase (CysRS) {Escherichia coli [TaxId: 562]} Length = 87	Back information, alignment and structure

>d1iq0a2 c.26.1.1 (A:97-466) Arginyl-tRNA synthetase (ArgRS) {Thermus thermophilus [TaxId: 274]} Length = 370	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		537
d1li5a2		315	Cysteinyl-tRNA synthetase (CysRS) {Escherichia col	100.0
d1pfva2		350	Methionyl-tRNA synthetase (MetRS) {Escherichia col	100.0
d2d5ba2		348	Methionyl-tRNA synthetase (MetRS) {Thermus thermop	100.0
d1rqga2		361	Methionyl-tRNA synthetase (MetRS) {Pyrococcus abys	100.0
d1ivsa4		425	Valyl-tRNA synthetase (ValRS) {Thermus thermophilu	100.0
d1ilea3		452	Isoleucyl-tRNA synthetase (IleRS) {Thermus thermop	100.0
d1ffya3		450	Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus	100.0
d1h3na3		494	Leucyl-tRNA synthetase (LeuRS) {Thermus thermophil	99.97
d1irxa2		317	Class I lysyl-tRNA synthetase {Archaeon Pyrococcus	99.97
d1iq0a2		370	Arginyl-tRNA synthetase (ArgRS) {Thermus thermophi	99.93
d1f7ua2		348	Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Sa	99.93
d1j09a2		305	Glutamyl-tRNA synthetase (GluRS) {Thermus thermoph	99.86
d1nzja_		286	Glutamyl-Q tRNA-Asp synthetase YadB {Escherichia c	99.7
d1gtra2		331	Glutaminyl-tRNA synthetase (GlnRS) {Escherichia co	99.67
d1f7ua1		124	Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Sa	98.77
d1iq0a1		126	Arginyl-tRNA synthetase (ArgRS) {Thermus thermophi	98.71
d1li5a1		87	Cysteinyl-tRNA synthetase (CysRS) {Escherichia col	98.65
d1rqga1		210	Methionyl-tRNA synthetase (MetRS) {Pyrococcus abys	98.33
d2d5ba1		152	Methionyl-tRNA synthetase (MetRS) {Thermus thermop	98.32
d1pfva1		162	Methionyl-tRNA synthetase (MetRS) {Escherichia col	98.31
d1jila_		323	Tyrosyl-tRNA synthetase (TyrRS) {Staphylococcus au	97.86
d1j1ua_		306	Tyrosyl-tRNA synthetase (TyrRS) {Archaeon Methanoc	97.82
d1h3fa1		343	Tyrosyl-tRNA synthetase (TyrRS) {Thermus thermophi	97.79
d1n3la_		339	Tyrosyl-tRNA synthetase (TyrRS) {Human (Homo sapie	97.18
d2ts1a_		319	Tyrosyl-tRNA synthetase (TyrRS) {Bacillus stearoth	97.13
d1ffya1		273	Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus	97.12
d1ivsa2		218	Valyl-tRNA synthetase (ValRS) {Thermus thermophilu	97.03
d1h3na1		128	Leucyl-tRNA synthetase (LeuRS) {Thermus thermophil	96.99
d1ilea1		180	Isoleucyl-tRNA synthetase (IleRS) {Thermus thermop	96.73
d1r6ta2		386	Tryptophanyl-tRNA synthetase (TrpRS) {Human (Homo	95.84
d1i6la_		326	Tryptophanyl-tRNA synthetase (TrpRS) {Bacillus ste	84.95

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

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=100.00  E-value=1e-62  Score=500.51  Aligned_cols=312  Identities=54%  Similarity=0.960  Sum_probs=283.0

Q ss_pred             eeeeecCCCCccccccCCCCcceEEEeCCCCCCCCCcchhhHHHHHHHHHHHHHHCCCceEEECCcchhhHHHHHHHHHc
Q 009321           19 LKIYNSMTQQKELFTPIVRGKVGMYVCGVTAYDLSHLGHARAAVSFDLLYRYLEHLKCEVTYVRNFTDVDDKIIRRANDL   98 (537)
Q Consensus        19 l~~~ntl~~~~~~~~p~~~~~v~~y~~gPt~yg~lHiGh~r~~v~~D~l~R~lr~~G~~V~~v~~idd~d~ki~~~a~~~   98 (537)
                      |+||||+||++++|.|.+|++++||||||||||++||||+|++|++|+|+|+||..|++|.+++++||+|.+|...|+..
T Consensus         2 ~~~~~~~~~~~~~f~~~~~~~~~~yv~Gptv~g~~HIGH~R~av~gD~laR~lr~~G~~V~~~~~~dd~G~~i~~~a~~~   81 (315)
T d1li5a2           2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYLRFLGYKLKYVRNITDIDDKIIKRANEN   81 (315)
T ss_dssp             CEEEETTTTEEEECCCSSTTEEEEEECCCBSSSCCBHHHHHHHHHHHHHHHHHHHHTCEEEEEECBBCCSHHHHHHHHHT
T ss_pred             ceEEeCCCCceeeeecCCCCeEEEEecCCcCCCCcccchhHHHHHHHHHHHHHHHcCCcEEEEecccchhHHHHHHHhhh
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHHHHHcCCCCCCCccchhhhHHHHHHHHHHHHHCCceeee-ccceeecCCCCCCCCCCcchhch
Q 009321           99 GENPLSLSNRYCQEYLVDMADLQCLPPTYQPRVSDHMEQIKDMITQIINNDCAYVV-EGDVFFAVEKSPNYGRLSGQRLE  177 (537)
Q Consensus        99 g~~~~~~~~~~~~~~~~~l~~L~i~~~~~~~r~s~~~~~~~~~~~~L~~kG~ay~~-~~~v~f~~~~~~~yg~ls~~~l~  177 (537)
                      |++++++++++..++.++++.++|..++.++++++++.++++.+++|.++|++|.. .+.+|++...++.||..+.....
T Consensus        82 ~~~~~e~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (315)
T d1li5a2          82 GESFVAMVDRMIAEMHKDFDALNILRPDMEPRATHHIAEIIELTEQLIAKGHAYVADNGDVMFDVPTDPTYGVLSRQDLD  161 (315)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHTTCCCCSBCCBGGGCHHHHHHHHHHHHHTTSEEECTTSCEEECGGGCTTTTTTTTC---
T ss_pred             hhccccccccchhhhhhhHHhcCCCCCcEEEecchhhhhhhhHHHHhhccCceeccccceEEeecccccccCcccccccc
Confidence            99999999999999999999999998899999999999999999999999999865 56788888889999988877666


Q ss_pred             hhhcCCCccccccccCcccccccccccCCCCccccCCCCCCCchhhhHHHHHHhhcCCCeeEEEecccCcCcchhHHHHH
Q 009321          178 NNRAGERVAVDSRKRNPADFALWKAAKAGEPSWDSPWGPGRPGWHIECSAMSAHYLSSKFDIHGGGIDLIFPHHENEIAQ  257 (537)
Q Consensus       178 ~~~~g~~~~~~~~k~~~~df~lwk~~~~g~~~w~~~wG~g~PgW~iecs~~~~~~~g~~~dih~~G~Dl~fpH~~~~~a~  257 (537)
                      .+..|.+........+|.|+.+||.++.+++.+.+.||.+.|+|+++|.++....|+..++++++|.|+.++|+...+++
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~K~~~~~~~~~~~~~g~~~~~~~~~~~~~w~~~l~~~~~~~~~~~d~~~~~~~~~~~~  241 (315)
T d1li5a2         162 QLQAGARVDVVDDKRNPMDFVLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQLGNHFDIHGGGSDLMFPHHENEIAQ  241 (315)
T ss_dssp             -------------CCSTTCEEEEEECCTTSCCBCCTTCSEEECSSHHHHHHHHHHHCSSEEEEECBGGGTTTHHHHHHHH
T ss_pred             ccccCCcccccccccChhhhhccccCccCCceeccCCceecccccchhhhHHHHHcCCcccccccccccccccccccchh
Confidence            66666665555556788999999999999999999999999999999999998999999999999999999999999999


Q ss_pred             HhhccCCCCceEEEEeeeeeeCCccccccCCCcccHHHHHHHcCchhhHHHHhhcCcCCCcccCHHHHHHHHH
Q 009321          258 SCAACQDSNVSYWMHNGHVTNNNEKMSKSLGNFFTIRQITERYHPLALRHFLISAHYRSPLNYSVLQLDSASD  330 (537)
Q Consensus       258 ~~a~~~~~~~~~~~h~g~v~~~G~KMSKS~Gn~i~~~dll~~~~~d~lR~~ll~~~~~~~~~fs~~~l~~~~~  330 (537)
                      ..+..+..++.+|+|+|||+++|+|||||+||+|+|+|+++.|++|++|||||+++++++++||++.|.++++
T Consensus       242 ~~~~~~~~~~~~~~~~~~l~~~G~KMSKs~Gn~V~~~dlle~~g~D~lRy~lls~~~~s~ldFs~e~l~~a~~  314 (315)
T d1li5a2         242 STCAHDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRYFLMSGHYRSQLNYSEENLKQARA  314 (315)
T ss_dssp             HHHHSSSCCEEEECCBCCEEETTBCCCGGGTCCCBHHHHHTTSCHHHHHHHHHSSCTTSCEEECHHHHHHHHH
T ss_pred             hhcccccccccEEEEEEEEecCCcEecCcCCCcccHHHHHHhCCHHHHHHHHHcCCCCCCCCcCHHHHHHHhh
Confidence            9888777888999999999999999999999999999999999999999999999999999999999999876

PyMOL of d1li5a2

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

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

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

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

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

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

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

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

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

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

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

>d1nzja_ c.26.1.1 (A:) Glutamyl-Q tRNA-Asp synthetase YadB {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1gtra2 c.26.1.1 (A:8-338) Glutaminyl-tRNA synthetase (GlnRS) {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1f7ua1 a.27.1.1 (A:484-607) Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1iq0a1 a.27.1.1 (A:467-592) Arginyl-tRNA synthetase (ArgRS) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1li5a1 a.27.1.1 (A:316-402) Cysteinyl-tRNA synthetase (CysRS) {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1rqga1 a.27.1.1 (A:397-606) Methionyl-tRNA synthetase (MetRS) {Pyrococcus abyssi [TaxId: 29292]}	Back information, alignment and structure

>d2d5ba1 a.27.1.1 (A:349-500) Methionyl-tRNA synthetase (MetRS) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1pfva1 a.27.1.1 (A:389-550) Methionyl-tRNA synthetase (MetRS) {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1jila_ c.26.1.1 (A:) Tyrosyl-tRNA synthetase (TyrRS) {Staphylococcus aureus [TaxId: 1280]}	Back information, alignment and structure

>d1j1ua_ c.26.1.1 (A:) Tyrosyl-tRNA synthetase (TyrRS) {Archaeon Methanococcus jannaschii [TaxId: 2190]}	Back information, alignment and structure

>d1h3fa1 c.26.1.1 (A:5-347) Tyrosyl-tRNA synthetase (TyrRS) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1n3la_ c.26.1.1 (A:) Tyrosyl-tRNA synthetase (TyrRS) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ts1a_ c.26.1.1 (A:) Tyrosyl-tRNA synthetase (TyrRS) {Bacillus stearothermophilus, nca 1503 [TaxId: 1422]}	Back information, alignment and structure

>d1ffya1 a.27.1.1 (A:645-917) Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus aureus [TaxId: 1280]}	Back information, alignment and structure

>d1ivsa2 a.27.1.1 (A:579-796) Valyl-tRNA synthetase (ValRS) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1h3na1 a.27.1.1 (A:687-814) Leucyl-tRNA synthetase (LeuRS) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1ilea1 a.27.1.1 (A:642-821) Isoleucyl-tRNA synthetase (IleRS) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1r6ta2 c.26.1.1 (A:82-467) Tryptophanyl-tRNA synthetase (TrpRS) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1i6la_ c.26.1.1 (A:) Tryptophanyl-tRNA synthetase (TrpRS) {Bacillus stearothermophilus [TaxId: 1422]}	Back information, alignment and structure