Citrus Sinensis ID: 030343

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------18
Protein Sequence
MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHPGRSLL
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHccccEEEEcccccccccccccccccccccccccHHHHHHcccHHHHHHHHcccccEEEccccccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccEEEEEcccccccccEEEEcccccccEEHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHcccEEEEccccccccccccccccccccccccccEcccccHHHHHHHHHHccHHHHHHHHHcccccccccccccccEEEEEHHHHccHHHHHHHHHHHHHHHHHHHcccEEEEEcccccccccEEEEcccccccccHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
MLNVEVRQIFKTRSKIVSYIRRFLDnldfleveTPMMnmiaggaaarpfvthhndlNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRnegidlthnpefttceFYMAFADYNDLMELTEKMLSGMIKEITGSYKikyhasgldkdpieidftppfrslnfiysckwykiyhpgrsll
Flexible Loop (DISEMBL)
mlnvevrqifktrskivsYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFrnegidlthnpEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHPGRSLL
Low Complexity Region (SEG)
MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHPGRSLL
Disordered region (IsUnstruct)
*****VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYH******
Disordered Region (DISOPRED)
**NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYH**RSLL
Disordered Region (DISEMBL)
MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHPGRSLL
Disordered Region (DISPRO)
MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKI********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHPGRSLL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	179	2.2.26 [Sep-21-2011]
Q9ZPI1	626	Lysine--tRNA ligase OS=Ar	yes	no	0.910	0.260	0.852	1e-82
Q6F2U9	602	Lysine--tRNA ligase OS=Or	yes	no	0.910	0.270	0.858	7e-82
Q43776	588	Lysine--tRNA ligase OS=So	N/A	no	0.910	0.277	0.711	1e-71
Q99MN1	595	Lysine--tRNA ligase OS=Mu	yes	no	0.910	0.273	0.723	7e-68
P37879	597	Lysine--tRNA ligase OS=Cr	yes	no	0.910	0.273	0.723	1e-67
Q15046	597	Lysine--tRNA ligase OS=Ho	yes	no	0.910	0.273	0.711	4e-67
Q9UUE6	591	Lysine--tRNA ligase, cyto	yes	no	0.910	0.275	0.668	2e-62
Q22099	572	Lysine--tRNA ligase OS=Ca	yes	no	0.899	0.281	0.648	5e-62
P15180	591	Lysine--tRNA ligase, cyto	yes	no	0.910	0.275	0.664	2e-61
Q8SS56	440	Probable lysine--tRNA lig	yes	no	0.910	0.370	0.612	1e-57

>sp|Q9ZPI1|SYK_ARATH Lysine--tRNA ligase OS=Arabidopsis thaliana GN=At3g11710 PE=2 SV=1

 Score =  305 bits (781), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 139/163 (85%), Positives = 156/163 (95%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LNVEVRQIF+TR+KI+SY+RRFLDN +FLEVETPMMNMIAGGAAARPFVTHHNDL+M+L
Sbjct: 271 ILNVEVRQIFRTRAKIISYVRRFLDNKNFLEVETPMMNMIAGGAAARPFVTHHNDLDMRL 330

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLK+L+VGGL+RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLME+T
Sbjct: 331 YMRIAPELYLKQLIVGGLERVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMEMT 390

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E MLSGM+KE+TG YKIKY+A+G DKDPIEIDFTPPFR +  I
Sbjct: 391 EVMLSGMVKELTGGYKIKYNANGYDKDPIEIDFTPPFRRIEMI 433

Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 6

>sp|Q6F2U9|SYK_ORYSJ Lysine--tRNA ligase OS=Oryza sativa subsp. japonica GN=Os03g0586800 PE=2 SV=1

 Score =  302 bits (774), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 140/163 (85%), Positives = 155/163 (95%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           M+N EVR IFKTRSK+VS+IR+FLD LDFLEVETPMMNMIAGGAAARPFVTHHN+LNM+L
Sbjct: 262 MVNHEVRHIFKTRSKVVSFIRKFLDGLDFLEVETPMMNMIAGGAAARPFVTHHNELNMRL 321

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMA+ADYNDL+ELT
Sbjct: 322 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAYADYNDLIELT 381

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E MLSGM+KE+TG YKIKYHA+G++K PIEIDFTPPFR ++ I
Sbjct: 382 ETMLSGMVKELTGGYKIKYHANGVEKPPIEIDFTPPFRKIDMI 424

Oryza sativa subsp. japonica (taxid: 39947)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|Q43776|SYK_SOLLC Lysine--tRNA ligase OS=Solanum lycopersicum GN=LYSRS PE=2 SV=1

 Score =  268 bits (685), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 116/163 (71%), Positives = 149/163 (91%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           M+N EVR +F+TR++I+SYIR FLDNL+FLEVETP MN+ AGGA+ARPF+THHN+L+ +L
Sbjct: 249 MMNPEVRALFRTRARIISYIRSFLDNLEFLEVETPSMNLTAGGASARPFITHHNELDTEL 308

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
            +R++PELYLK+LVVGG DRVYE+GK FRNEG+DLTH+PEFT CE YMA+ADYNDLM+LT
Sbjct: 309 LIRVSPELYLKKLVVGGFDRVYELGKHFRNEGMDLTHSPEFTMCELYMAYADYNDLMDLT 368

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E++LSGM+K++TGSYKI+YHA+GLD +PIEIDFTPPFR ++ +
Sbjct: 369 EQLLSGMVKDLTGSYKIRYHANGLDNEPIEIDFTPPFRKIDML 411

Solanum lycopersicum (taxid: 4081)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|Q99MN1|SYK_MOUSE Lysine--tRNA ligase OS=Mus musculus GN=Kars PE=1 SV=1

 Score =  256 bits (653), Expect = 7e-68,   Method: Compositional matrix adjust.
 Identities = 118/163 (72%), Positives = 139/163 (85%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct: 233 ILNDFVRQKFIVRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 292

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct: 293 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 352

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+K ITGSYKI YH  G +    E+DFTPPFR ++ +
Sbjct: 353 EKMLSGMVKSITGSYKITYHPDGPEGQAYEVDFTPPFRRISMV 395

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|P37879|SYK_CRIGR Lysine--tRNA ligase OS=Cricetulus griseus GN=KARS PE=1 SV=1

 Score =  255 bits (652), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 118/163 (72%), Positives = 140/163 (85%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  VRQ F  R+KI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct: 235 ILNDFVRQKFIVRAKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 294

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct: 295 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 354

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+K ITGSYKI YH  G + +  EIDFTPPFR ++ +
Sbjct: 355 EKMLSGMVKSITGSYKITYHPDGPEGEAYEIDFTPPFRRISMV 397

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Cricetulus griseus (taxid: 10029)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|Q15046|SYK_HUMAN Lysine--tRNA ligase OS=Homo sapiens GN=KARS PE=1 SV=3

 Score =  253 bits (647), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 116/163 (71%), Positives = 139/163 (85%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct: 235 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 294

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct: 295 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 354

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKM+SGM+K ITGSYK+ YH  G +    ++DFTPPFR +N +
Sbjct: 355 EKMVSGMVKHITGSYKVTYHPDGPEGQAYDVDFTPPFRRINMV 397

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA. When secreted, acts as a signaling molecule that induces immune response through the activation of monocyte/macrophages. Catalyzes the synthesis of diadenosine oligophosphate (Ap4A), a signaling molecule involved in the activation of MITF transcriptional activity. Interacts with HIV-1 virus GAG protein, facilitating the selective packaging of tRNA(3)(Lys), the primer for reverse transcription initiation.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|Q9UUE6|SYKC_SCHPO Lysine--tRNA ligase, cytoplasmic OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=krs1 PE=3 SV=1

 Score =  238 bits (606), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 109/163 (66%), Positives = 133/163 (81%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N   R  F  RS+I+ YIR F D+ DF+EVETPMMNMIAGGA A+PFVTHHNDL+M L
Sbjct: 239 IMNRSTRDRFVMRSRIIQYIRHFFDSRDFMEVETPMMNMIAGGATAKPFVTHHNDLDMDL 298

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLK LVVGGLDRVYEIG+QFRNEG DLTHNPEFT+ EFY A+ADY DLM+ T
Sbjct: 299 YMRIAPELYLKMLVVGGLDRVYEIGRQFRNEGADLTHNPEFTSIEFYQAYADYYDLMDTT 358

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E++LSG++K++TGSYK+ YH  G +    E+DF+ P+R +N I
Sbjct: 359 EELLSGLVKDLTGSYKVPYHPEGPEGPKWELDFSRPWRRINMI 401

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|Q22099|SYK_CAEEL Lysine--tRNA ligase OS=Caenorhabditis elegans GN=krs-1 PE=2 SV=1

 Score =  236 bits (603), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 105/162 (64%), Positives = 138/162 (85%), Gaps = 1/162 (0%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  V+  F  RSKI++++RR+LDNL FLEVETP+MN IAGGA A+PF+THHNDL+M L
Sbjct: 214 ILNPRVKDNFVIRSKIITFLRRYLDNLGFLEVETPIMNQIAGGATAKPFITHHNDLDMNL 273

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           ++R+APELY K LVVGG+DRVYE+G+ FRNEGIDLTHNPEFTTCEFYMA+ADY D+++LT
Sbjct: 274 FLRVAPELYHKMLVVGGIDRVYEVGRLFRNEGIDLTHNPEFTTCEFYMAYADYEDVIQLT 333

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPI-EIDFTPPFRSLN 161
           E +LS M+  I G+YKI+YH +G + +P+ E+DFTPPF+ ++
Sbjct: 334 EDLLSSMVMSIKGTYKIEYHPNGPNTEPVYEVDFTPPFKRVH 375

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Caenorhabditis elegans (taxid: 6239)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|P15180|SYKC_YEAST Lysine--tRNA ligase, cytoplasmic OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=KRS1 PE=1 SV=2

 Score =  234 bits (597), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 109/164 (66%), Positives = 135/164 (82%), Gaps = 1/164 (0%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N + R  F TRS+I+ YIRRFLD   F+EVETPMMN+IAGGA A+PF+THHNDL+M +
Sbjct: 238 IMNKDARNRFITRSEIIRYIRRFLDQRKFIEVETPMMNVIAGGATAKPFITHHNDLDMDM 297

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPEL+LK+LVVGGLDRVYEIG+QFRNEGID+THNPEFTTCEFY A+AD  DLM++T
Sbjct: 298 YMRIAPELFLKQLVVGGLDRVYEIGRQFRNEGIDMTHNPEFTTCEFYQAYADVYDLMDMT 357

Query: 121 EKMLSGMIKEITGSYKIKYHASGLD-KDPIEIDFTPPFRSLNFI 163
           E M S M+KEITGSY IKYH    D    +E++F+ P++ +N I
Sbjct: 358 ELMFSEMVKEITGSYIIKYHPDPADPAKELELNFSRPWKRINMI 401

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

>sp|Q8SS56|SYKC_ENCCU Probable lysine--tRNA ligase, cytoplasmic OS=Encephalitozoon cuniculi (strain GB-M1) GN=ECU04_0580 PE=3 SV=1

 Score =  222 bits (565), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 101/165 (61%), Positives = 135/165 (81%), Gaps = 2/165 (1%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N E R  F+ R++I+ YIR FLD+  FLEVETPMMN+I GGAAA+PF+THHN+L + L
Sbjct: 98  LINRESRNRFQKRAQIIGYIRSFLDSRGFLEVETPMMNLIPGGAAAKPFITHHNELKLDL 157

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMR++PELYLK+LVVGGL+RVYEIGKQFRNEGIDLTHNPEFT+CEFYMA+ADYNDLME+T
Sbjct: 158 YMRVSPELYLKKLVVGGLERVYEIGKQFRNEGIDLTHNPEFTSCEFYMAYADYNDLMEMT 217

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDK--DPIEIDFTPPFRSLNFI 163
           E+++SGM++ + G+  I Y     ++  + +E+ F  PFR ++ +
Sbjct: 218 EELISGMVENMFGTDTIVYSPKKREERTESVELSFKRPFRVISIL 262

Encephalitozoon cuniculi (strain GB-M1) (taxid: 284813)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	179
296090191	676	unnamed protein product [Vitis vinifera]	0.910	0.241	0.920	2e-86
225436215	619	PREDICTED: lysyl-tRNA synthetase-like [V	0.910	0.263	0.920	4e-86
296089683	1537	unnamed protein product [Vitis vinifera]	0.910	0.106	0.914	5e-86
359487616	620	PREDICTED: lysyl-tRNA synthetase-like [V	0.910	0.262	0.914	1e-85
224106978	593	predicted protein [Populus trichocarpa]	0.910	0.274	0.895	2e-84
224143682	549	predicted protein [Populus trichocarpa]	0.910	0.296	0.895	3e-84
449461221	692	PREDICTED: LOW QUALITY PROTEIN: lysine--	0.910	0.235	0.889	8e-84
224126015	603	predicted protein [Populus trichocarpa]	0.910	0.270	0.895	3e-83
449527840	363	PREDICTED: lysine--tRNA ligase-like, par	0.910	0.449	0.889	4e-83
255580096	607	lysyl-tRNA synthetase, putative [Ricinus	0.910	0.268	0.871	3e-82

>gi|296090191|emb|CBI40010.3| unnamed protein product [Vitis vinifera]

 Score =  323 bits (827), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 150/163 (92%), Positives = 159/163 (97%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EVRQIFKTR+KI+SYIR FLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL
Sbjct: 321 MLNMEVRQIFKTRAKIISYIRSFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 380

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYND+MELT
Sbjct: 381 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDVMELT 440

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 441 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 483

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436215|ref|XP_002269584.1| PREDICTED: lysyl-tRNA synthetase-like [Vitis vinifera]

 Score =  322 bits (825), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 150/163 (92%), Positives = 159/163 (97%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EVRQIFKTR+KI+SYIR FLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL
Sbjct: 264 MLNMEVRQIFKTRAKIISYIRSFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 323

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYND+MELT
Sbjct: 324 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDVMELT 383

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 384 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 426

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089683|emb|CBI39502.3| unnamed protein product [Vitis vinifera]

 Score =  322 bits (824), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 149/163 (91%), Positives = 158/163 (96%)

Query: 1    MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
            MLN+EVRQIFKTR+KI+SYIR FLDNLDFLEVETPMMNMI GGAAARPFVTHHNDLNMKL
Sbjct: 1181 MLNMEVRQIFKTRAKIISYIRSFLDNLDFLEVETPMMNMIPGGAAARPFVTHHNDLNMKL 1240

Query: 61   YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
            YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYND+MELT
Sbjct: 1241 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDVMELT 1300

Query: 121  EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
            EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 1301 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 1343

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487616|ref|XP_002279658.2| PREDICTED: lysyl-tRNA synthetase-like [Vitis vinifera]

 Score =  320 bits (820), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 149/163 (91%), Positives = 158/163 (96%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EVRQIFKTR+KI+SYIR FLDNLDFLEVETPMMNMI GGAAARPFVTHHNDLNMKL
Sbjct: 264 MLNMEVRQIFKTRAKIISYIRSFLDNLDFLEVETPMMNMIPGGAAARPFVTHHNDLNMKL 323

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYND+MELT
Sbjct: 324 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDVMELT 383

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 384 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 426

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224106978|ref|XP_002333583.1| predicted protein [Populus trichocarpa] gi|222837523|gb|EEE75888.1| predicted protein [Populus trichocarpa]

 Score =  316 bits (810), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 146/163 (89%), Positives = 158/163 (96%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EV+QIFKTRSKI+ Y++ FLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL
Sbjct: 253 MLNLEVQQIFKTRSKIIKYVKSFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 312

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPEL+LKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMA+ADYNDLMELT
Sbjct: 313 YMRIAPELFLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMELT 372

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 373 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 415

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143682|ref|XP_002325039.1| predicted protein [Populus trichocarpa] gi|222866473|gb|EEF03604.1| predicted protein [Populus trichocarpa]

 Score =  315 bits (808), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 146/163 (89%), Positives = 158/163 (96%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EV+QIFKTRSKI+ Y++ FLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL
Sbjct: 210 MLNLEVQQIFKTRSKIIKYVKSFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 269

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPEL+LKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMA+ADYNDLMELT
Sbjct: 270 YMRIAPELFLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMELT 329

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 330 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 372

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461221|ref|XP_004148340.1| PREDICTED: LOW QUALITY PROTEIN: lysine--tRNA ligase-like [Cucumis sativus]

 Score =  314 bits (805), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 145/163 (88%), Positives = 158/163 (96%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EVRQIFKTRSK++ YIR+FLD+LDFLEVETPMMNMIAGGAAARPFVT HNDLNMKL
Sbjct: 341 MLNMEVRQIFKTRSKVIQYIRKFLDDLDFLEVETPMMNMIAGGAAARPFVTFHNDLNMKL 400

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           +MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT
Sbjct: 401 FMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 460

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TGSYK+KYH++GLD DPIEIDFTPPFR ++ I
Sbjct: 461 EKMLSGMVKELTGSYKVKYHSNGLDNDPIEIDFTPPFRRIDMI 503

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126015|ref|XP_002329640.1| predicted protein [Populus trichocarpa] gi|222870521|gb|EEF07652.1| predicted protein [Populus trichocarpa]

 Score =  313 bits (801), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 146/163 (89%), Positives = 155/163 (95%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN EVRQIFKTRSKI+ YI+ FLD+LDFLEVETPMMNMI GGAAARPF THHNDLNMKL
Sbjct: 253 MLNSEVRQIFKTRSKIIKYIQNFLDDLDFLEVETPMMNMIPGGAAARPFKTHHNDLNMKL 312

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMA+ADYNDLMELT
Sbjct: 313 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAYADYNDLMELT 372

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TG YKIKYHA+GLDKDPIEIDFTPPFR ++ I
Sbjct: 373 EKMLSGMVKELTGGYKIKYHANGLDKDPIEIDFTPPFRRIDMI 415

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449527840|ref|XP_004170917.1| PREDICTED: lysine--tRNA ligase-like, partial [Cucumis sativus]

 Score =  312 bits (799), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 145/163 (88%), Positives = 158/163 (96%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EVRQIFKTRSK++ YIR+FLD+LDFLEVETPMMNMIAGGAAARPFVT HNDLNMKL
Sbjct: 12  MLNMEVRQIFKTRSKVIQYIRKFLDDLDFLEVETPMMNMIAGGAAARPFVTFHNDLNMKL 71

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           +MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT
Sbjct: 72  FMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 131

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKMLSGM+KE+TGSYK+KYH++GLD DPIEIDFTPPFR ++ I
Sbjct: 132 EKMLSGMVKELTGSYKVKYHSNGLDNDPIEIDFTPPFRRIDMI 174

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255580096|ref|XP_002530880.1| lysyl-tRNA synthetase, putative [Ricinus communis] gi|223529533|gb|EEF31486.1| lysyl-tRNA synthetase, putative [Ricinus communis]

 Score =  309 bits (791), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 142/163 (87%), Positives = 159/163 (97%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           MLN+EVRQIFKTRS+I++YIR FLD+LDFLEVETPMMNMIAGGAAARPFVTHHN+LNM+L
Sbjct: 260 MLNLEVRQIFKTRSRIITYIRSFLDSLDFLEVETPMMNMIAGGAAARPFVTHHNELNMRL 319

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           +MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT
Sbjct: 320 FMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 379

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E++LSGM+KE+TG +KIKYHA+GL+KDPIEIDFTPPFR ++ I
Sbjct: 380 ERLLSGMVKELTGGHKIKYHANGLEKDPIEIDFTPPFRRIDMI 422

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	179
TAIR|locus:2098348	626	ATKRS-1 "lysyl-tRNA synthetase	0.910	0.260	0.852	2.1e-75
UNIPROTKB|E1C3E0	581	KARS "Lysine--tRNA ligase" [Ga	0.910	0.280	0.748	7.6e-64
UNIPROTKB|F1NE72	590	KARS "Lysine--tRNA ligase" [Ga	0.910	0.276	0.748	7.6e-64
ZFIN|ZDB-GENE-021115-8	602	kars "lysyl-tRNA synthetase" [	0.899	0.267	0.732	2e-63
MGI|MGI:1934754	595	Kars "lysyl-tRNA synthetase" [	0.910	0.273	0.723	6.9e-63
UNIPROTKB|F1MMK8	623	KARS "Lysine--tRNA ligase" [Bo	0.910	0.261	0.717	1.1e-62
UNIPROTKB|E2RSP4	625	KARS "Lysine--tRNA ligase" [Ca	0.910	0.260	0.717	1.1e-62
UNIPROTKB|Q15046	597	KARS "Lysine--tRNA ligase" [Ho	0.910	0.273	0.711	1.4e-62
RGD|1359653	626	Kars "lysyl-tRNA synthetase" [	0.910	0.260	0.723	1.4e-62
UNIPROTKB|D4ABR8	597	Kars "Lysine--tRNA ligase" [Ra	0.910	0.273	0.723	1.4e-62

TAIR|locus:2098348 ATKRS-1 "lysyl-tRNA synthetase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 760 (272.6 bits), Expect = 2.1e-75, P = 2.1e-75
 Identities = 139/163 (85%), Positives = 156/163 (95%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LNVEVRQIF+TR+KI+SY+RRFLDN +FLEVETPMMNMIAGGAAARPFVTHHNDL+M+L
Sbjct:   271 ILNVEVRQIFRTRAKIISYVRRFLDNKNFLEVETPMMNMIAGGAAARPFVTHHNDLDMRL 330

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELYLK+L+VGGL+RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLME+T
Sbjct:   331 YMRIAPELYLKQLIVGGLERVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMEMT 390

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             E MLSGM+KE+TG YKIKY+A+G DKDPIEIDFTPPFR +  I
Sbjct:   391 EVMLSGMVKELTGGYKIKYNANGYDKDPIEIDFTPPFRRIEMI 433

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA;ISS;IDA

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

GO:0005737 "cytoplasm" evidence=ISM;IEA

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

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA;ISS

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0009165 "nucleotide biosynthetic process" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

UNIPROTKB|E1C3E0 KARS "Lysine--tRNA ligase" [Gallus gallus (taxid:9031)]

 Score = 651 (234.2 bits), Expect = 7.6e-64, P = 7.6e-64
 Identities = 122/163 (74%), Positives = 140/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F TR+KIV+YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+MKL
Sbjct:   223 ILNDYVRQKFITRAKIVTYIRSFLDELGFLEIETPMMNIIPGGAMAKPFITYHNELDMKL 282

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGGLDRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY DLME+T
Sbjct:   283 YMRIAPELYHKMLVVGGLDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYCDLMEIT 342

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EK+LSGM+K ITGSYKI YH  G D    EIDFTPPFR ++ +
Sbjct:   343 EKLLSGMVKHITGSYKITYHPDGQDGQAYEIDFTPPFRRISMV 385

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA

UNIPROTKB|F1NE72 KARS "Lysine--tRNA ligase" [Gallus gallus (taxid:9031)]

 Score = 651 (234.2 bits), Expect = 7.6e-64, P = 7.6e-64
 Identities = 122/163 (74%), Positives = 140/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F TR+KIV+YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+MKL
Sbjct:   232 ILNDYVRQKFITRAKIVTYIRSFLDELGFLEIETPMMNIIPGGAMAKPFITYHNELDMKL 291

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGGLDRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY DLME+T
Sbjct:   292 YMRIAPELYHKMLVVGGLDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYCDLMEIT 351

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EK+LSGM+K ITGSYKI YH  G D    EIDFTPPFR ++ +
Sbjct:   352 EKLLSGMVKHITGSYKITYHPDGQDGQAYEIDFTPPFRRISMV 394

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA

ZFIN|ZDB-GENE-021115-8 kars "lysyl-tRNA synthetase" [Danio rerio (taxid:7955)]

 Score = 647 (232.8 bits), Expect = 2.0e-63, P = 2.0e-63
 Identities = 118/161 (73%), Positives = 139/161 (86%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F TRSKI++Y+R FLD L FLE+ETPMMN+I GGA A+PF+T+HNDLNM L
Sbjct:   248 ILNDFVRQKFVTRSKIITYLRSFLDQLGFLEIETPMMNLIPGGAVAKPFITYHNDLNMNL 307

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   308 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 367

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN 161
             EK+LSGM+K ITG+YK+ YH  G +    EIDFTPPFR ++
Sbjct:   368 EKLLSGMVKHITGAYKVTYHPDGPEGQAYEIDFTPPFRRIS 408

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

MGI|MGI:1934754 Kars "lysyl-tRNA synthetase" [Mus musculus (taxid:10090)]

 Score = 642 (231.1 bits), Expect = 6.9e-63, P = 6.9e-63
 Identities = 118/163 (72%), Positives = 139/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct:   233 ILNDFVRQKFIVRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 292

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   293 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 352

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EKMLSGM+K ITGSYKI YH  G +    E+DFTPPFR ++ +
Sbjct:   353 EKMLSGMVKSITGSYKITYHPDGPEGQAYEVDFTPPFRRISMV 395

GO:0000049 "tRNA binding" evidence=ISO

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0004824 "lysine-tRNA ligase activity" evidence=ISO

GO:0005524 "ATP binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0006412 "translation" evidence=IEA

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

GO:0006430 "lysyl-tRNA aminoacylation" evidence=ISO

GO:0015966 "diadenosine tetraphosphate biosynthetic process" evidence=ISO

GO:0016597 "amino acid binding" evidence=ISO

GO:0016874 "ligase activity" evidence=IEA

GO:0017101 "aminoacyl-tRNA synthetase multienzyme complex" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1MMK8 KARS "Lysine--tRNA ligase" [Bos taurus (taxid:9913)]

 Score = 640 (230.4 bits), Expect = 1.1e-62, P = 1.1e-62
 Identities = 117/163 (71%), Positives = 139/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct:   261 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 320

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   321 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 380

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EKM+SGM+K ITGSYK+ YH  G +    EIDFTPPFR ++ +
Sbjct:   381 EKMISGMVKHITGSYKVTYHPDGPEGQAYEIDFTPPFRKISMV 423

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E2RSP4 KARS "Lysine--tRNA ligase" [Canis lupus familiaris (taxid:9615)]

 Score = 640 (230.4 bits), Expect = 1.1e-62, P = 1.1e-62
 Identities = 117/163 (71%), Positives = 140/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct:   263 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 322

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   323 YMRIAPELYHKILVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 382

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EKM+SGM+K ITGSYK+ YH  G + +  EIDFTPPFR ++ +
Sbjct:   383 EKMISGMVKHITGSYKVTYHPDGPEGEAYEIDFTPPFRRISMV 425

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q15046 KARS "Lysine--tRNA ligase" [Homo sapiens (taxid:9606)]

 Score = 639 (230.0 bits), Expect = 1.4e-62, P = 1.4e-62
 Identities = 116/163 (71%), Positives = 139/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct:   235 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 294

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   295 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 354

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EKM+SGM+K ITGSYK+ YH  G +    ++DFTPPFR +N +
Sbjct:   355 EKMVSGMVKHITGSYKVTYHPDGPEGQAYDVDFTPPFRRINMV 397

GO:0019048 "virus-host interaction" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0015966 "diadenosine tetraphosphate biosynthetic process" evidence=IEA

GO:0016597 "amino acid binding" evidence=IEA

GO:0017101 "aminoacyl-tRNA synthetase multienzyme complex" evidence=IEA

GO:0005576 "extracellular region" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IDA

GO:0008033 "tRNA processing" evidence=NAS

GO:0000049 "tRNA binding" evidence=NAS

GO:0005739 "mitochondrion" evidence=IDA

GO:0004824 "lysine-tRNA ligase activity" evidence=IDA;TAS

GO:0005759 "mitochondrial matrix" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0015630 "microtubule cytoskeleton" evidence=IDA

RGD|1359653 Kars "lysyl-tRNA synthetase" [Rattus norvegicus (taxid:10116)]

 Score = 639 (230.0 bits), Expect = 1.4e-62, P = 1.4e-62
 Identities = 118/163 (72%), Positives = 139/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct:   264 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 323

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   324 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 383

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EKMLSGM++ ITGSYKI YH  G +    EIDFTPPFR ++ +
Sbjct:   384 EKMLSGMVRSITGSYKITYHPDGPEGQAYEIDFTPPFRRISMV 426

GO:0000049 "tRNA binding" evidence=IDA

GO:0004824 "lysine-tRNA ligase activity" evidence=ISO;IDA

GO:0005524 "ATP binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0006430 "lysyl-tRNA aminoacylation" evidence=ISO;IDA

GO:0015630 "microtubule cytoskeleton" evidence=IEA;ISO

GO:0015966 "diadenosine tetraphosphate biosynthetic process" evidence=IDA

GO:0016597 "amino acid binding" evidence=IDA

GO:0017101 "aminoacyl-tRNA synthetase multienzyme complex" evidence=IDA

UNIPROTKB|D4ABR8 Kars "Lysine--tRNA ligase" [Rattus norvegicus (taxid:10116)]

 Score = 639 (230.0 bits), Expect = 1.4e-62, P = 1.4e-62
 Identities = 118/163 (72%), Positives = 139/163 (85%)

Query:     1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
             +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct:   235 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 294

Query:    61 YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
             YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct:   295 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 354

Query:   121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
             EKMLSGM++ ITGSYKI YH  G +    EIDFTPPFR ++ +
Sbjct:   355 EKMLSGMVRSITGSYKITYHPDGPEGQAYEIDFTPPFRRISMV 397

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004824 "lysine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006430 "lysyl-tRNA aminoacylation" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q15046	SYK_HUMAN	6, ., 1, ., 1, ., 6	0.7116	0.9106	0.2730	yes	no
Q9ZPI1	SYK_ARATH	6, ., 1, ., 1, ., 6	0.8527	0.9106	0.2603	yes	no
Q6F2U9	SYK_ORYSJ	6, ., 1, ., 1, ., 6	0.8588	0.9106	0.2707	yes	no
Q99MN1	SYK_MOUSE	6, ., 1, ., 1, ., 6	0.7239	0.9106	0.2739	yes	no
P37879	SYK_CRIGR	6, ., 1, ., 1, ., 6	0.7239	0.9106	0.2730	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	6.1.1	0.691

---

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	Length	Definition	E-value
Query	179
PLN02502	553	PLN02502, PLN02502, lysyl-tRNA synthetase	1e-116
cd00775	329	cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) c	1e-101
PRK00484	491	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	2e-96
COG1190	502	COG1190, LysU, Lysyl-tRNA synthetase (class II) [T	2e-88
TIGR00499	496	TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukar	2e-82
PTZ00417	585	PTZ00417, PTZ00417, lysine-tRNA ligase; Provisiona	2e-70
PRK02983	1094	PRK02983, lysS, lysyl-tRNA synthetase; Provisional	3e-59
pfam00152	345	pfam00152, tRNA-synt_2, tRNA synthetases class II	4e-56
PRK12445	505	PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewe	2e-55
cd00669	269	cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA syn	5e-54
PTZ00385	659	PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisi	5e-50
TIGR00459	583	TIGR00459, aspS_bact, aspartyl-tRNA synthetase, ba	1e-22
COG2269	322	COG2269, COG2269, Truncated, possibly inactive, ly	5e-22
COG0017	435	COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetas	2e-21
COG0173	585	COG0173, AspS, Aspartyl-tRNA synthetase [Translati	9e-21
PRK00476	588	PRK00476, aspS, aspartyl-tRNA synthetase; Validate	2e-20
cd00777	280	cd00777, AspRS_core, Asp tRNA synthetase (aspRS) c	2e-19
TIGR00462	290	TIGR00462, genX, EF-P lysine aminoacylase GenX	2e-19
PRK09350	306	PRK09350, PRK09350, poxB regulator PoxA; Provision	9e-19
PRK05159	437	PRK05159, aspC, aspartyl-tRNA synthetase; Provisio	4e-17
cd00768	211	cd00768, class_II_aaRS-like_core, Class II tRNA am	2e-16
TIGR00458	428	TIGR00458, aspS_nondisc, nondiscriminating asparty	2e-16
cd00776	322	cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/As	1e-15
PLN02903	652	PLN02903, PLN02903, aminoacyl-tRNA ligase	2e-15
PRK12820	706	PRK12820, PRK12820, bifunctional aspartyl-tRNA syn	6e-13
TIGR00457	453	TIGR00457, asnS, asparaginyl-tRNA synthetase	2e-10
PRK06462	335	PRK06462, PRK06462, asparagine synthetase A; Revie	6e-10
PTZ00401	550	PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Prov	7e-10
PLN02850	530	PLN02850, PLN02850, aspartate-tRNA ligase	1e-07
PRK03932	450	PRK03932, asnC, asparaginyl-tRNA synthetase; Valid	2e-05
TIGR00468	293	TIGR00468, pheS, phenylalanyl-tRNA synthetase, alp	2e-04
cd00496	218	cd00496, PheRS_alpha_core, Phenylalanyl-tRNA synth	0.003

>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase

 Score =  340 bits (875), Expect = e-116
 Identities = 121/158 (76%), Positives = 137/158 (86%), Gaps = 7/158 (4%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           + N EVR IF+TR+KI+SYIRRFLD+  FLEVETPM+NMIAGGAAARPFVTHHNDLNM L
Sbjct: 220 IANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDL 279

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIA EL+LK LVVGG +RVYEIG+QFRNEGI   HNPEFTTCEFY A+ADYND+MELT
Sbjct: 280 YLRIATELHLKRLVVGGFERVYEIGRQFRNEGISTRHNPEFTTCEFYQAYADYNDMMELT 339

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR 158
           E+M+SGM+KE+TGSYKIKYH        IEIDFTPPFR
Sbjct: 340 EEMVSGMVKELTGSYKIKYHG-------IEIDFTPPFR 370

Length = 553

>gnl|CDD|238398 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core domain

 Score =  295 bits (757), Expect = e-101
 Identities = 105/161 (65%), Positives = 127/161 (78%), Gaps = 7/161 (4%)

Query: 3   NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYM 62
           N EVRQ F  RSKI+SYIR+FLD+  FLEVETPM+  IAGGAAARPF+THHN L+M LY+
Sbjct: 1   NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYL 60

Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEK 122
           RIAPELYLK L+VGG +RVYEIG+ FRNEGIDLTHNPEFT  EFY A+ADYND+M+LTE 
Sbjct: 61  RIAPELYLKRLIVGGFERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTED 120

Query: 123 MLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           + SG++K+I G  KI+Y          E+DFTPPF+ +  +
Sbjct: 121 LFSGLVKKINGKTKIEY-------GGKELDFTPPFKRVTMV 154

Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Length = 329

>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed

 Score =  287 bits (737), Expect = 2e-96
 Identities = 97/163 (59%), Positives = 123/163 (75%), Gaps = 7/163 (4%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N E R+ F+ RSKI+S IRRFLDN  FLEVETPM+  IAGGAAARPF+THHN L++ L
Sbjct: 163 IVNPESRETFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDL 222

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIAPELYLK L+VGG +RVYEIG+ FRNEGID  HNPEFT  EFY A+ADYND+M+LT
Sbjct: 223 YLRIAPELYLKRLIVGGFERVYEIGRNFRNEGIDTRHNPEFTMLEFYQAYADYNDMMDLT 282

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E+++  + + + G+ K+ Y          EIDF PPF+ L  +
Sbjct: 283 EELIRHLAQAVLGTTKVTY-------QGTEIDFGPPFKRLTMV 318

Length = 491

>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

 Score =  267 bits (684), Expect = 2e-88
 Identities = 95/163 (58%), Positives = 120/163 (73%), Gaps = 7/163 (4%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N E RQ F  RSKI+  IR FLD+  FLEVETPM+  I GGAAARPF+THHN L+M L
Sbjct: 171 IVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFITHHNALDMDL 230

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIAPELYLK L+VGG +RV+EIG+ FRNEGID THNPEFT  EFY A+ADY DLM+LT
Sbjct: 231 YLRIAPELYLKRLIVGGFERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLT 290

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E+++  + KE+ G+ K+ Y          EIDF+ PF+ +  +
Sbjct: 291 EELIKELAKEVNGTTKVTYG-------GQEIDFSKPFKRITMV 326

Length = 502

>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial

 Score =  251 bits (643), Expect = 2e-82
 Identities = 92/162 (56%), Positives = 117/162 (72%), Gaps = 7/162 (4%)

Query: 2   LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY 61
           +N + RQ F  RSKI+  IRRFLD+  F+EVETPM+ +I GGA ARPF+THHN L+M LY
Sbjct: 164 VNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLY 223

Query: 62  MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTE 121
           +RIAPELYLK L+VGG ++VYEIG+ FRNEG+D THNPEFT  EFY A+ADY DLM+LTE
Sbjct: 224 LRIAPELYLKRLIVGGFEKVYEIGRNFRNEGVDTTHNPEFTMIEFYQAYADYEDLMDLTE 283

Query: 122 KMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
            +   + +E+ G+ KI Y          EIDF  PF+ +  +
Sbjct: 284 NLFKFLAQELLGTTKITYGEL-------EIDFKKPFKRITMV 318

This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms [Protein synthesis, tRNA aminoacylation]. Length = 496

>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional

 Score =  222 bits (568), Expect = 2e-70
 Identities = 96/163 (58%), Positives = 129/163 (79%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           M+N   R  F TR+KI++Y+R FL++  F+EVETP MN++AGGA ARPF+THHNDL++ L
Sbjct: 244 MINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDL 303

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIA EL LK L+VGG+D+VYEIGK FRNEGID THNPEFT+CEFY A+AD+ DL++ +
Sbjct: 304 YLRIATELPLKMLIVGGIDKVYEIGKVFRNEGIDNTHNPEFTSCEFYWAYADFYDLIKWS 363

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E   S ++  + G+YKI Y+  G +KDPIEIDFTPP+  ++ +
Sbjct: 364 EDFFSQLVMHLFGTYKILYNKDGPEKDPIEIDFTPPYPKVSIV 406

Length = 585

>gnl|CDD|235095 PRK02983, lysS, lysyl-tRNA synthetase; Provisional

 Score =  198 bits (505), Expect = 3e-59
 Identities = 67/124 (54%), Positives = 89/124 (71%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
            +N E R + + RS +V  +R  L    FLEVETP++  + GGA ARPFVTH N  +M L
Sbjct: 761 AVNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQVHGGANARPFVTHINAYDMDL 820

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIAPELYLK L VGG++RV+E+G+ FRNEG+D THNPEFT  E Y A ADY+ + +LT
Sbjct: 821 YLRIAPELYLKRLCVGGVERVFELGRNFRNEGVDATHNPEFTLLEAYQAHADYDTMRDLT 880

Query: 121 EKML 124
            +++
Sbjct: 881 RELI 884

Length = 1094

>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N)

 Score =  179 bits (457), Expect = 4e-56
 Identities = 51/148 (34%), Positives = 80/148 (54%), Gaps = 2/148 (1%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI 64
           +++   K RSKI+  IR FLD   FLEVETP++        AR F+        + Y+  
Sbjct: 17  KMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGARDFLVPSKFYAKEAYLPQ 76

Query: 65  APELYLKELVVGGLDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFADYNDLMELTEKM 123
           +P+LY + L+V G DRV++I   FR+E +    H PEFT  +  M+F DY D+M+LTE +
Sbjct: 77  SPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFVDYEDVMDLTEDL 136

Query: 124 LSGMIKEITGSYKIKYHASGLDKDPIEI 151
           +  + K++ G  +      G++      
Sbjct: 137 IKYVFKKVLGKREELEL-LGIELPEFPR 163

Length = 345

>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed

 Score =  181 bits (461), Expect = 2e-55
 Identities = 87/168 (51%), Positives = 115/168 (68%), Gaps = 7/168 (4%)

Query: 3   NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYM 62
           N + RQ F  RSKI++ IR+F+    F+EVETPMM +I GGA+ARPF+THHN L++ +Y+
Sbjct: 177 NDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYL 236

Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEK 122
           RIAPELYLK LVVGG +RV+EI + FRNEGI + HNPEFT  E YMA+ADY+DL+ELTE 
Sbjct: 237 RIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTES 296

Query: 123 MLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYK 170
           +   + +E+ G+ K+ Y            DF  PF  L    + K Y+
Sbjct: 297 LFRTLAQEVLGTTKVTYGEH-------VFDFGKPFEKLTMREAIKKYR 337

Length = 505

>gnl|CDD|238358 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II core domain

 Score =  172 bits (437), Expect = 5e-54
 Identities = 74/170 (43%), Positives = 103/170 (60%), Gaps = 12/170 (7%)

Query: 10  FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELY 69
           FK RSKI+  IR F+D+  FLEVETPM+  I GGA ARPF+  +N L +  Y+RI+P+L+
Sbjct: 1   FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLF 60

Query: 70  LKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIK 129
            K L+VGGLDRV+EI + FRNE +   H PEFT  +  MAFADY D++ELTE+++  + +
Sbjct: 61  KKRLMVGGLDRVFEINRNFRNEDLRARHQPEFTMMDLEMAFADYEDVIELTERLVRHLAR 120

Query: 130 EITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYK-----IYHP 174
           E+ G   + Y            DF  PF  L +  + + Y        +P
Sbjct: 121 EVLGVTAVTY-------GFELEDFGLPFPRLTYREALERYGQPLFLTDYP 163

This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. Length = 269

>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional

 Score =  170 bits (431), Expect = 5e-50
 Identities = 68/161 (42%), Positives = 106/161 (65%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           M N  V +  K R  ++  +R + +  +F+EVETP+++ +A GA A+ FVTHHN   M L
Sbjct: 224 MTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDL 283

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           ++R+APEL+LK+ +VGG++R+YEIGK FRNE  D +HNPEFT+CEFY A+  Y DLM +T
Sbjct: 284 FLRVAPELHLKQCIVGGMERIYEIGKVFRNEDADRSHNPEFTSCEFYAAYHTYEDLMPMT 343

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN 161
           E +   +   + G+  ++ +      +P+ +D   PFR ++
Sbjct: 344 EDIFRQLAMRVNGTTVVQIYPENAHGNPVTVDLGKPFRRVS 384

Length = 659

>gnl|CDD|211576 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type

 Score = 93.6 bits (233), Expect = 1e-22
 Identities = 46/130 (35%), Positives = 74/130 (56%), Gaps = 2/130 (1%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY-MR 63
           E++Q  K R K+   +R FLD   FLE+ETPM+   +    AR ++        + Y + 
Sbjct: 133 EMQQRLKLRHKVTKAVRNFLDQQGFLEIETPMLTK-STPEGARDYLVPSRVHKGEFYALP 191

Query: 64  IAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKM 123
            +P+L+ + L+V G+DR Y+I + FR+E +     PEFT  +  M+F    D+MEL EK+
Sbjct: 192 QSPQLFKQLLMVSGVDRYYQIARCFRDEDLRADRQPEFTQIDMEMSFMTQEDVMELIEKL 251

Query: 124 LSGMIKEITG 133
           +S +  E+ G
Sbjct: 252 VSHVFLEVKG 261

Asparate--tRNA ligases in this family may be discriminating (6.1.1.12) or nondiscriminating (6.1.1.23). In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences [Protein synthesis, tRNA aminoacylation]. Length = 583

>gnl|CDD|225178 COG2269, COG2269, Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

 Score = 90.1 bits (224), Expect = 5e-22
 Identities = 39/118 (33%), Positives = 60/118 (50%), Gaps = 7/118 (5%)

Query: 13  RSKIVSYIRRFLDNLDFLEVETPMMNMIAGG------AAARPFVTHHNDLNMKLYMRIAP 66
           R+ I++ IRRF      LEVETP ++ +A             F+         L++  +P
Sbjct: 19  RAAIIAAIRRFFAERGVLEVETPALS-VAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSP 77

Query: 67  ELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKML 124
           E ++K L+  G   ++++GK FRNE +   HNPEFT  E+Y    DY  LM   + +L
Sbjct: 78  EYHMKRLLAAGSGPIFQLGKVFRNEEMGRLHNPEFTMLEWYRVGCDYYRLMNEVDDLL 135

Length = 322

>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]

 Score = 89.6 bits (223), Expect = 2e-21
 Identities = 48/154 (31%), Positives = 76/154 (49%), Gaps = 4/154 (2%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI 64
           +++ +FK RS I+  IR F     F EV TP++   A       F   + D     Y+  
Sbjct: 129 KIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGGGELFKVDYFDKEA--YLTQ 186

Query: 65  APELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELTEKM 123
           +P+LY KE +   L+RV+ IG  FR E  +   H  EF   +  MAFAD ND+M+L E++
Sbjct: 187 SPQLY-KEALAAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFADLNDVMDLAEEL 245

Query: 124 LSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPF 157
           +  + K++      +    G D   ++   + PF
Sbjct: 246 IKYLFKKVLEECADELEFLGRDNSELKRPESAPF 279

Length = 435

>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

 Score = 88.0 bits (219), Expect = 9e-21
 Identities = 52/137 (37%), Positives = 76/137 (55%), Gaps = 22/137 (16%)

Query: 8   QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAA----ARPFV----THHNDLNMK 59
           +  K RSK+   IR FLD+  FLE+ETP++       +    AR F+     H      K
Sbjct: 139 KNLKLRSKVTKAIRNFLDDQGFLEIETPIL-----TKSTPEGARDFLVPSRVHPG----K 189

Query: 60  LY-MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHN--PEFTTCEFYMAFADYNDL 116
            Y +  +P+L+ + L+V G DR Y+I + FR+E  DL  +  PEFT  +  M+F D  D+
Sbjct: 190 FYALPQSPQLFKQLLMVAGFDRYYQIARCFRDE--DLRADRQPEFTQIDLEMSFVDEEDV 247

Query: 117 MELTEKMLSGMIKEITG 133
           MEL EK+L  + KE+ G
Sbjct: 248 MELIEKLLRYVFKEVKG 264

Length = 585

>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated

 Score = 87.0 bits (217), Expect = 2e-20
 Identities = 61/190 (32%), Positives = 92/190 (48%), Gaps = 49/190 (25%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAA----ARPFV----THHNDL 56
           E+++  K RSK+ S IR FLD+  FLE+ETP++       +    AR ++     H    
Sbjct: 136 EMQKNLKLRSKVTSAIRNFLDDNGFLEIETPIL-----TKSTPEGARDYLVPSRVHPG-- 188

Query: 57  NMKLYMRIA----PELYLKELVVGGLDRVYEIGKQFRNEGIDLTHN--PEFTTCEFYMAF 110
             K Y   A    P+L+ + L+V G DR Y+I + FR+E  DL  +  PEFT  +  M+F
Sbjct: 189 --KFY---ALPQSPQLFKQLLMVAGFDRYYQIARCFRDE--DLRADRQPEFTQIDIEMSF 241

Query: 111 ADYNDLMELTEKMLSGMIKEITG----------SYKI---KYHASGLDK-D---PIEI-D 152
               D+M L E ++  + KE+ G          +Y     +Y   G DK D    +E+ D
Sbjct: 242 VTQEDVMALMEGLIRHVFKEVLGVDLPTPFPRMTYAEAMRRY---GSDKPDLRFGLELVD 298

Query: 153 FTPPFRSLNF 162
            T  F+   F
Sbjct: 299 VTDLFKDSGF 308

Length = 588

>gnl|CDD|238400 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core domain

 Score = 82.6 bits (205), Expect = 2e-19
 Identities = 45/130 (34%), Positives = 71/130 (54%), Gaps = 12/130 (9%)

Query: 10  FKTRSKIVSYIRRFLDNLDFLEVETPMMN-MIAGGAAARPFV----THHNDLNMKLY-MR 63
            + RS+++  IR FLD   F+E+ETP++      G  AR F+     H      K Y + 
Sbjct: 1   LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEG--ARDFLVPSRLHPG----KFYALP 54

Query: 64  IAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKM 123
            +P+L+ + L+V G DR ++I + FR+E +     PEFT  +  M+F D  D+M L E +
Sbjct: 55  QSPQLFKQLLMVSGFDRYFQIARCFRDEDLRADRQPEFTQIDIEMSFVDQEDIMSLIEGL 114

Query: 124 LSGMIKEITG 133
           L  + KE+ G
Sbjct: 115 LKYVFKEVLG 124

Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain. Length = 280

>gnl|CDD|232984 TIGR00462, genX, EF-P lysine aminoacylase GenX

 Score = 82.6 bits (205), Expect = 2e-19
 Identities = 37/119 (31%), Positives = 57/119 (47%), Gaps = 6/119 (5%)

Query: 23  FLDNLDFLEVETPMMNMIAGGAAA--RPFVTH---HNDLNMKLYMRIAPELYLKELVVGG 77
           F      LEVETP+++  A         F T     +     LY++ +PE  +K L+  G
Sbjct: 1   FFAERGVLEVETPLLS-PAPVTDPHLDAFATEFVGPDGQGRPLYLQTSPEYAMKRLLAAG 59

Query: 78  LDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYK 136
              +++I K FRN      HNPEFT  E+Y    DY+DLM+  E +L  ++ +     +
Sbjct: 60  SGPIFQICKVFRNGERGRRHNPEFTMLEWYRPGFDYHDLMDEVEALLQELLGDPFAPAE 118

Many Gram-negative bacteria have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS. The protein is termed GenX after its designation in E. coli. Interestingly, genX often is located near a homolog of lysine-2,3-aminomutase. Its function is unknown [Unknown function, General]. Length = 290

>gnl|CDD|236474 PRK09350, PRK09350, poxB regulator PoxA; Provisional

 Score = 81.1 bits (201), Expect = 9e-19
 Identities = 39/132 (29%), Positives = 59/132 (44%), Gaps = 25/132 (18%)

Query: 8   QIFKTRSKIVSYIRRFLDNLDFLEVETPMM---------------NMIAGGAAARPFVTH 52
                R+KI++ IRRF  +   LEVETP++                 +  GA+       
Sbjct: 3   PNLLKRAKIIAEIRRFFADRGVLEVETPILSQATVTDIHLVPFETRFVGPGASQ------ 56

Query: 53  HNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD 112
                  L++  +PE ++K L+  G   +++I K FRNE     HNPEFT  E+Y    D
Sbjct: 57  ----GKTLWLMTSPEYHMKRLLAAGSGPIFQICKSFRNEEAGRYHNPEFTMLEWYRPHYD 112

Query: 113 YNDLMELTEKML 124
              LM   + +L
Sbjct: 113 MYRLMNEVDDLL 124

Length = 306

>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional

 Score = 77.5 bits (192), Expect = 4e-17
 Identities = 47/155 (30%), Positives = 78/155 (50%), Gaps = 12/155 (7%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAARPFVTHHNDLNMKL 60
            VR IFK RS+++   R FL    F E+ TP   ++A    GGA   P      +     
Sbjct: 131 RVRAIFKIRSEVLRAFREFLYENGFTEIFTP--KIVASGTEGGAELFPIDYFEKEA---- 184

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFAD-YNDLME 118
           Y+  +P+LY + +V  G +RV+EIG  FR E  + + H  E+T+ +  M F D + D+M+
Sbjct: 185 YLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYTSIDVEMGFIDDHEDVMD 244

Query: 119 LTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF 153
           L E +L  M +++  + + +    G++    E   
Sbjct: 245 LLENLLRYMYEDVAENCEKELELLGIELPVPETPI 279

Length = 437

>gnl|CDD|238391 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl synthetase-like catalytic core domain

 Score = 73.3 bits (180), Expect = 2e-16
 Identities = 43/136 (31%), Positives = 61/136 (44%), Gaps = 16/136 (11%)

Query: 12  TRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAAR----PFVTHHNDLNMKLYMRIAPE 67
            RSKI   +RRF+  L F EVETP++        A       +    +    LY+R   E
Sbjct: 1   IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLE 60

Query: 68  LYLKELVVGGL----DRVYEIGKQFRNEGI--DLTHNPEFTTCEFYMAFAD------YND 115
             L  L V  +     R+ EIG  FRNEG    L    EFT  E  +   D      + +
Sbjct: 61  PGLVRLFVSHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEE 120

Query: 116 LMELTEKMLSGMIKEI 131
           L+ELTE++L  +  ++
Sbjct: 121 LIELTEELLRALGIKL 136

Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ. Length = 211

>gnl|CDD|129550 TIGR00458, aspS_nondisc, nondiscriminating aspartyl-tRNA synthetase

 Score = 75.2 bits (185), Expect = 2e-16
 Identities = 42/131 (32%), Positives = 75/131 (57%), Gaps = 7/131 (5%)

Query: 4   VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA--GGAAARPFVTHHNDLNMKLY 61
             V+ IF+ RS ++  +R FL    F+EV TP +   A  GG    P +T+      + +
Sbjct: 127 PTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFP-ITY---FEREAF 182

Query: 62  MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELT 120
           +  +P+LY ++L+  G +RVYEIG  FR E  +   H  E T+ +  MAF D++D+M++ 
Sbjct: 183 LGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDHHDVMDIL 242

Query: 121 EKMLSGMIKEI 131
           E+++  + +++
Sbjct: 243 EELVVRVFEDV 253

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn) [Protein synthesis, tRNA aminoacylation]. Length = 428

>gnl|CDD|238399 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II core domain

 Score = 72.6 bits (179), Expect = 1e-15
 Identities = 45/129 (34%), Positives = 69/129 (53%), Gaps = 9/129 (6%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGA--AARPFVTHHNDLNMKLYM 62
           +V+ IF+ RS+++   R FL    F EV TP   + +      A  F   +       Y+
Sbjct: 19  KVQAIFRIRSEVLRAFREFLRENGFTEVHTPK--ITSTDTEGGAELFKVSYFG--KPAYL 74

Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFA-DYNDLMELT 120
             +P+LY KE+++  L+RVYEIG  FR E  +   H  EF   E  MAF  DYN++M+L 
Sbjct: 75  AQSPQLY-KEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLI 133

Query: 121 EKMLSGMIK 129
           E+++  + K
Sbjct: 134 EELIKYIFK 142

Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Length = 322

>gnl|CDD|215490 PLN02903, PLN02903, aminoacyl-tRNA ligase

 Score = 72.9 bits (179), Expect = 2e-15
 Identities = 43/152 (28%), Positives = 74/152 (48%), Gaps = 20/152 (13%)

Query: 13  RSKIVSYIRRFL-DNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY-MRIAPELYL 70
           R ++V  IRR+L D   F+E+ETP+++  +    AR ++          Y +  +P+L+ 
Sbjct: 206 RHRVVKLIRRYLEDVHGFVEIETPILSR-STPEGARDYLVPSRVQPGTFYALPQSPQLFK 264

Query: 71  KELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKE 130
           + L+V G DR Y+I + FR+E +     PEFT  +  +AF    D+++L E ++  + KE
Sbjct: 265 QMLMVSGFDRYYQIARCFRDEDLRADRQPEFTQLDMELAFTPLEDMLKLNEDLIRQVFKE 324

Query: 131 ITGSYKIKYHASGLDKDPIEIDFTPPFRSLNF 162
           I G                 +    PF  L +
Sbjct: 325 IKG-----------------VQLPNPFPRLTY 339

Length = 652

>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional

 Score = 65.8 bits (160), Expect = 6e-13
 Identities = 33/116 (28%), Positives = 63/116 (54%), Gaps = 2/116 (1%)

Query: 13  RSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY-MRIAPELYLK 71
           R +I+   R FLD+  FLE+ETP++   +    AR ++        + Y +  +P+L+ +
Sbjct: 159 RHRIIKCARDFLDSRGFLEIETPILTK-STPEGARDYLVPSRIHPKEFYALPQSPQLFKQ 217

Query: 72  ELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM 127
            L++ G +R +++ + FR+E +     PEFT  +   +F D   + EL E++ + M
Sbjct: 218 LLMIAGFERYFQLARCFRDEDLRPNRQPEFTQLDIEASFIDEEFIFELIEELTARM 273

Length = 706

>gnl|CDD|232982 TIGR00457, asnS, asparaginyl-tRNA synthetase

 Score = 58.2 bits (141), Expect = 2e-10
 Identities = 38/153 (24%), Positives = 64/153 (41%), Gaps = 21/153 (13%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL-------Y 61
           + + R+ +   I R+     F  V  P++       A   F     +++          Y
Sbjct: 135 VMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEGAGELFRVSTGNIDFSQDFFGKEAY 194

Query: 62  MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELT 120
           + ++ +LYL E     L +VY  G  FR E  + + H  EF   E  MAFA+ NDL++L 
Sbjct: 195 LTVSGQLYL-ETYALALSKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFANLNDLLQLA 253

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF 153
           E ++  +IK +            L+    E+ F
Sbjct: 254 ETLIKYIIKAV------------LENCSQELKF 274

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn [Protein synthesis, tRNA aminoacylation]. Length = 453

>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed

 Score = 56.6 bits (137), Expect = 6e-10
 Identities = 34/140 (24%), Positives = 70/140 (50%), Gaps = 9/140 (6%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVTHHNDLNMK 59
           + R++ K +S I+ Y R FLD   F+EV  P+++         G+         +   ++
Sbjct: 25  KYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVE 84

Query: 60  LYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGID---LTHNPEFTTCEFYMAFADYNDL 116
            Y+  +  L+ K+L +  L +++ +   FR E +D     H  EFT  +  +  AD +++
Sbjct: 85  YYLADSMILH-KQLALRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDEV 143

Query: 117 MELTEKMLSGMIKEITGSYK 136
           M+L E ++  ++KE+   ++
Sbjct: 144 MDLIEDLIKYLVKELLEEHE 163

Length = 335

>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional

 Score = 56.5 bits (136), Expect = 7e-10
 Identities = 34/130 (26%), Positives = 66/130 (50%), Gaps = 4/130 (3%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPEL 68
           IF+ +S++  Y R+FL + DF E+ +P +        A  F   +   N   Y+  +P+L
Sbjct: 212 IFRLQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEY--FNRFAYLAQSPQL 269

Query: 69  YLKELVVGGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELTEKMLSG 126
           Y + ++ G + RV+E+G  FR+E  +   H  EF   +  M   + Y ++++L E + + 
Sbjct: 270 YKQMVLQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNY 329

Query: 127 MIKEITGSYK 136
           + + +    K
Sbjct: 330 IFERLATHTK 339

Length = 550

>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase

 Score = 50.5 bits (121), Expect = 1e-07
 Identities = 36/135 (26%), Positives = 66/135 (48%), Gaps = 14/135 (10%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAG----GAAARPFVTHHNDLNMKLYMRI 64
           IF+ +S++ +  R FL +  F+E+ TP   +IAG    G+A   F   +      L    
Sbjct: 224 IFRIQSQVCNLFREFLLSKGFVEIHTP--KLIAGASEGGSAV--FRLDYKGQPACLAQ-- 277

Query: 65  APELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNP--EFTTCEFYMAFAD-YNDLMELTE 121
           +P+L+ +  + G   RV+EIG  FR E    TH    EFT  +  M   + Y++++++ +
Sbjct: 278 SPQLHKQMAICGDFRRVFEIGPVFRAED-SFTHRHLCEFTGLDLEMEIKEHYSEVLDVVD 336

Query: 122 KMLSGMIKEITGSYK 136
           ++   +   +    K
Sbjct: 337 ELFVAIFDGLNERCK 351

Length = 530

>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated

 Score = 43.6 bits (104), Expect = 2e-05
 Identities = 41/153 (26%), Positives = 66/153 (43%), Gaps = 21/153 (13%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL-------Y 61
           + + R+ +   I  F +   F+ V+TP++       A   F     DL+          Y
Sbjct: 132 VMRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRVTTLDLDFSKDFFGKEAY 191

Query: 62  MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELT 120
           + ++ +LY  E     L +VY  G  FR E  +   H  EF   E  MAFAD  D M+L 
Sbjct: 192 LTVSGQLYA-EAYAMALGKVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFADLEDNMDLA 250

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF 153
           E+ML  ++K +            L+  P +++F
Sbjct: 251 EEMLKYVVKYV------------LENCPDDLEF 271

Length = 450

>gnl|CDD|232988 TIGR00468, pheS, phenylalanyl-tRNA synthetase, alpha subunit

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 80  RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKY 139
           R++  G+ FRN+ +D TH PEF   E  +   D N      +  L   +K++ G  +I++
Sbjct: 152 RIFSPGRVFRNDTVDATHLPEFHQVEGLV--IDKNISFTNLKGFLEEFLKKMFGETEIRF 209

Query: 140 HAS 142
             S
Sbjct: 210 RPS 212

Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment [Protein synthesis, tRNA aminoacylation]. Length = 293

>gnl|CDD|238277 cd00496, PheRS_alpha_core, Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 77  GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD--YNDLMELTEKMLSGMIKEIT 132
              R++ IG+ +RN+ ID TH PEF   E  +      + DL    E+    +   IT
Sbjct: 79  PPIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELFGPIT 136

PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. Length = 218

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	179
TIGR00499	496	lysS_bact lysyl-tRNA synthetase, eukaryotic and no	100.0
PRK00484	491	lysS lysyl-tRNA synthetase; Reviewed	100.0
PRK12445	505	lysyl-tRNA synthetase; Reviewed	100.0
PLN02502	553	lysyl-tRNA synthetase	100.0
PTZ00417	585	lysine-tRNA ligase; Provisional	100.0
cd00775	329	LysRS_core Lys_tRNA synthetase (LysRS) class II co	100.0
COG1190	502	LysU Lysyl-tRNA synthetase (class II) [Translation	100.0
TIGR00459	583	aspS_bact aspartyl-tRNA synthetase, bacterial type	100.0
COG0017	435	AsnS Aspartyl/asparaginyl-tRNA synthetases [Transl	100.0
PTZ00385	659	lysyl-tRNA synthetase; Provisional	100.0
PRK02983	1094	lysS lysyl-tRNA synthetase; Provisional	100.0
PLN02903	652	aminoacyl-tRNA ligase	100.0
PF00152	335	tRNA-synt_2: tRNA synthetases class II (D, K and N	100.0
PRK00476	588	aspS aspartyl-tRNA synthetase; Validated	100.0
KOG1885	560	consensus Lysyl-tRNA synthetase (class II) [Transl	100.0
PRK12820	706	bifunctional aspartyl-tRNA synthetase/aspartyl/glu	100.0
PLN02532	633	asparagine-tRNA synthetase	100.0
TIGR00458	428	aspS_arch aspartyl-tRNA synthetase, archaeal type.	100.0
PRK05159	437	aspC aspartyl-tRNA synthetase; Provisional	100.0
PRK06462	335	asparagine synthetase A; Reviewed	100.0
cd00776	322	AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class	100.0
PLN02221	572	asparaginyl-tRNA synthetase	100.0
COG0173	585	AspS Aspartyl-tRNA synthetase [Translation, riboso	100.0
PTZ00425	586	asparagine-tRNA ligase; Provisional	100.0
PLN02603	565	asparaginyl-tRNA synthetase	100.0
PLN02850	530	aspartate-tRNA ligase	100.0
TIGR00457	453	asnS asparaginyl-tRNA synthetase. In a multiple se	100.0
PRK03932	450	asnC asparaginyl-tRNA synthetase; Validated	100.0
TIGR00462	304	genX lysyl-tRNA synthetase-like protein GenX. Many	100.0
cd00669	269	Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase cl	100.0
PTZ00401	550	aspartyl-tRNA synthetase; Provisional	100.0
cd00777	280	AspRS_core Asp tRNA synthetase (aspRS) class II co	100.0
KOG2411	628	consensus Aspartyl-tRNA synthetase, mitochondrial	100.0
KOG0554	446	consensus Asparaginyl-tRNA synthetase (mitochondri	100.0
KOG0556	533	consensus Aspartyl-tRNA synthetase [Translation, r	100.0
PRK09350	306	poxB regulator PoxA; Provisional	100.0
KOG0555	545	consensus Asparaginyl-tRNA synthetase [Translation	99.97
COG2269	322	Truncated, possibly inactive, lysyl-tRNA synthetas	99.96
PRK09537	417	pylS pyrolysyl-tRNA synthetase; Reviewed	99.42
cd00768	211	class_II_aaRS-like_core Class II tRNA amino-acyl s	99.42
PRK00488	339	pheS phenylalanyl-tRNA synthetase subunit alpha; V	99.33
PF01409	247	tRNA-synt_2d: tRNA synthetases class II core domai	99.32
COG0016	335	PheS Phenylalanyl-tRNA synthetase alpha subunit [T	99.29
TIGR02367	453	PylS pyrrolysyl-tRNA synthetase. PylS is the archa	99.29
COG0124	429	HisS Histidyl-tRNA synthetase [Translation, riboso	99.28
PTZ00326	494	phenylalanyl-tRNA synthetase alpha chain; Provisio	99.2
PLN02853	492	Probable phenylalanyl-tRNA synthetase alpha chain	99.17
cd00773	261	HisRS-like_core Class II Histidinyl-tRNA synthetas	99.13
TIGR00442	397	hisS histidyl-tRNA synthetase. This model finds a	99.08
PLN02530	487	histidine-tRNA ligase	99.06
CHL00201	430	syh histidine-tRNA synthetase; Provisional	99.06
PRK12292	391	hisZ ATP phosphoribosyltransferase regulatory subu	99.05
PLN02972	763	Histidyl-tRNA synthetase	99.04
PRK00037	412	hisS histidyl-tRNA synthetase; Reviewed	99.03
PLN02788	402	phenylalanine-tRNA synthetase	99.0
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	98.99
PF00587	173	tRNA-synt_2b: tRNA synthetase class II core domain	98.98
cd00670	235	Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_t	98.96
cd00496	218	PheRS_alpha_core Phenylalanyl-tRNA synthetase (Phe	98.95
PRK12420	423	histidyl-tRNA synthetase; Provisional	98.95
TIGR00443	314	hisZ_biosyn_reg ATP phosphoribosyltransferase, reg	98.94
PRK12421	392	ATP phosphoribosyltransferase regulatory subunit;	98.93
TIGR00468	294	pheS phenylalanyl-tRNA synthetase, alpha subunit.	98.91
cd00779	255	ProRS_core_prok Prolyl-tRNA synthetase (ProRS) cla	98.91
PF13393	311	tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI	98.88
PRK12293	281	hisZ ATP phosphoribosyltransferase regulatory subu	98.87
KOG2784	483	consensus Phenylalanyl-tRNA synthetase, beta subun	98.82
cd00772	264	ProRS_core Prolyl-tRNA synthetase (ProRS) class II	98.75
PRK09194	565	prolyl-tRNA synthetase; Provisional	98.73
cd00774	254	GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-lik	98.71
TIGR00409	568	proS_fam_II prolyl-tRNA synthetase, family II. Pro	98.68
cd00778	261	ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS)	98.67
PRK00413	638	thrS threonyl-tRNA synthetase; Reviewed	98.65
KOG1936	518	consensus Histidyl-tRNA synthetase [Translation, r	98.64
PRK12295	373	hisZ ATP phosphoribosyltransferase regulatory subu	98.59
PRK14799	545	thrS threonyl-tRNA synthetase; Provisional	98.58
cd00771	298	ThrRS_core Threonyl-tRNA synthetase (ThrRS) class	98.58
PRK12305	575	thrS threonyl-tRNA synthetase; Reviewed	98.58
TIGR00418	563	thrS threonyl-tRNA synthetase. This model represen	98.53
PRK12444	639	threonyl-tRNA synthetase; Reviewed	98.53
PLN02908	686	threonyl-tRNA synthetase	98.52
TIGR00408	472	proS_fam_I prolyl-tRNA synthetase, family I. Proly	98.44
PRK12325	439	prolyl-tRNA synthetase; Provisional	98.4
PRK08661	477	prolyl-tRNA synthetase; Provisional	98.36
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	98.3
PRK12294	272	hisZ ATP phosphoribosyltransferase regulatory subu	98.27
cd00770	297	SerRS_core Seryl-tRNA synthetase (SerRS) class II	98.22
TIGR00469	460	pheS_mito phenylalanyl-tRNA synthetase, mitochondr	98.15
PRK05431	425	seryl-tRNA synthetase; Provisional	98.09
PLN02837	614	threonine-tRNA ligase	98.06
PRK03991	613	threonyl-tRNA synthetase; Validated	97.98
COG3705	390	HisZ ATP phosphoribosyltransferase involved in his	97.95
COG0442	500	ProS Prolyl-tRNA synthetase [Translation, ribosoma	97.87
TIGR00470	533	sepS O-phosphoseryl-tRNA(Cys) synthetase. This fam	97.85
PLN02678	448	seryl-tRNA synthetase	97.71
PRK04173	456	glycyl-tRNA synthetase; Provisional	97.66
PLN02320	502	seryl-tRNA synthetase	97.64
COG0441	589	ThrS Threonyl-tRNA synthetase [Translation, riboso	97.12
KOG2324	457	consensus Prolyl-tRNA synthetase [Translation, rib	97.09
COG0172	429	SerS Seryl-tRNA synthetase [Translation, ribosomal	97.07
TIGR00415	520	serS_MJ seryl-tRNA synthetase, Methanococcus janna	97.07
PRK00960	517	seryl-tRNA synthetase; Provisional	97.07
PRK09616	552	pheT phenylalanyl-tRNA synthetase subunit beta; Re	97.06
COG0423	558	GRS1 Glycyl-tRNA synthetase (class II) [Translatio	96.99
KOG1035	1351	consensus eIF-2alpha kinase GCN2 [Translation, rib	96.78
TIGR00389	551	glyS_dimeric glycyl-tRNA synthetase, dimeric type.	96.55
cd00769	198	PheRS_beta_core Phenylalanyl-tRNA synthetase (PheR	95.97
KOG2509	455	consensus Seryl-tRNA synthetase [Translation, ribo	95.59
PRK14894	539	glycyl-tRNA synthetase; Provisional	95.48
KOG1637	560	consensus Threonyl-tRNA synthetase [Translation, r	93.98
PF03590	244	AsnA: Aspartate-ammonia ligase; InterPro: IPR00461	92.8
TIGR00471	551	pheT_arch phenylalanyl-tRNA synthetase, beta subun	92.5
PTZ00213	348	asparagine synthetase A; Provisional	91.45
cd00645	309	AsnA Asparagine synthetase (aspartate-ammonia liga	90.78
TIGR00669	330	asnA aspartate--ammonia ligase, AsnA-type. The fac	90.22
PRK05425	327	asparagine synthetase AsnA; Provisional	90.05
PLN02734	684	glycyl-tRNA synthetase	89.22
PLN02265	597	probable phenylalanyl-tRNA synthetase beta chain	88.13
COG2502	330	AsnA Asparagine synthetase A [Amino acid transport	87.84
PRK07080	317	hypothetical protein; Validated	85.02
COG0072	650	PheT Phenylalanyl-tRNA synthetase beta subunit [Tr	82.7
KOG2298	599	consensus Glycyl-tRNA synthetase and related class	80.14

>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial

Probab=100.00  E-value=1.3e-44  Score=318.66  Aligned_cols=162  Identities=58%  Similarity=1.032  Sum_probs=149.2

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+..+++|++||.|++++|+||.++||+||+||+|++++||+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       164 ~n~~~~~~~r~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~~~~~~~~~yLriSpELylKrlivgG~~rV  243 (496)
T TIGR00499       164 VNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLYLRIAPELYLKRLIVGGFEKV  243 (496)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEeecccCCCceEEecCHHHHHHHHHhCCCCce
Confidence            58999999999999999999999999999999999999998888899998777899999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+++++|+|||||||||+++++++|+|+++|+||+.++..+.+.+...+..       ..+++..||+|||
T Consensus       244 feIg~~FRnE~~~~rH~pEFTmlE~y~a~~d~~dlm~~~E~li~~i~~~l~~~~~~~~~~-------~~~~~~~pf~rit  316 (496)
T TIGR00499       244 YEIGRNFRNEGVDTTHNPEFTMIEFYQAYADYEDLMDLTENLFKFLAQELLGTTKITYGE-------LEIDFKKPFKRIT  316 (496)
T ss_pred             EEEecceecCCCCCcccchhheeehhhhcCCHHHHHHHHHHHHHHHHHHHhcccceecCc-------eeccCCCCceEEE
Confidence            999999999999999999999999999999999999999999999999998776655431       2356778999999


Q ss_pred             hhhccceee
Q 030343          162 FIYSCKWYK  170 (179)
Q Consensus       162 y~eAi~~l~  170 (179)
                      |.||++.|+
T Consensus       317 ~~eai~~~~  325 (496)
T TIGR00499       317 MVEAIKKYD  325 (496)
T ss_pred             HHHHHHHHH
Confidence            999999554

This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.

>PRK00484 lysS lysyl-tRNA synthetase; Reviewed

Probab=100.00  E-value=6.1e-44  Score=314.12  Aligned_cols=163  Identities=61%  Similarity=1.052  Sum_probs=150.2

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++||.+++++|+||.++||+||+||+|++++||+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       164 ~~~~~~~~~r~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~l~v~g~~rV  243 (491)
T PRK00484        164 VNPESRETFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDLYLRIAPELYLKRLIVGGFERV  243 (491)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCceeccCCCccceeeeeccccCCCceEeccCHHHHHHHHHhccCCcE
Confidence            58999999999999999999999999999999999998888888899988778999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||+|+++++|++||||+|+|+++++++|+|+++|++|+++++.+.+...+.+..       ..++++.||+|||
T Consensus       244 fei~~~FR~E~~~~rH~pEFt~lE~e~a~~d~~d~m~~~E~li~~i~~~~~~~~~i~~~~-------~~~~~~~pf~rit  316 (491)
T PRK00484        244 YEIGRNFRNEGIDTRHNPEFTMLEFYQAYADYNDMMDLTEELIRHLAQAVLGTTKVTYQG-------TEIDFGPPFKRLT  316 (491)
T ss_pred             EEEecceecCCCCCCcCCceEEEEEEEecCCHHHHHHHHHHHHHHHHHHHhCCceEecCC-------EeecCCCCceEEE
Confidence            999999999999999999999999999999999999999999999999998766555432       1356678999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+.+
T Consensus       317 y~eai~~~~g  326 (491)
T PRK00484        317 MVDAIKEYTG  326 (491)
T ss_pred             HHHHHHHHhC
Confidence            9999998864

>PRK12445 lysyl-tRNA synthetase; Reviewed

Probab=100.00  E-value=6.8e-44  Score=314.24  Aligned_cols=163  Identities=53%  Similarity=0.927  Sum_probs=149.8

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+..++++++||.|++++|+||.++||+||+||+|++++||+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       176 ~n~~~r~~~r~Rs~i~~~iR~f~~~~gFiEVeTPiL~~~~gGa~a~pF~t~~~~~~~~~yL~~SpELylKrlivgG~~rV  255 (505)
T PRK12445        176 ANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERV  255 (505)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeeEecCCCCcccceecccccCCcceeeecCHHHHHHHHHhccCCcE
Confidence            68999999999999999999999999999999999999999888899988788999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+++++|+|||||+|||+++++++|+|+++|+||++++..+.+.....+..       ..+++..||+|||
T Consensus       256 feIg~~FRnE~~~~rH~pEFTmlE~y~a~~d~~d~m~l~E~li~~l~~~~~~~~~~~~~~-------~~i~~~~pf~rit  328 (505)
T PRK12445        256 FEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGE-------HVFDFGKPFEKLT  328 (505)
T ss_pred             EEEehhccCCCCCCCcCcccceeeeeeecCCHHHHHHHHHHHHHHHHHHHhcccceecCc-------eeccCCCCceEEE
Confidence            999999999999999999999999999999999999999999999999988765544421       1246678999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+..
T Consensus       329 ~~eai~~~~~  338 (505)
T PRK12445        329 MREAIKKYRP  338 (505)
T ss_pred             HHHHHHHHhC
Confidence            9999999864

>PLN02502 lysyl-tRNA synthetase

Probab=100.00  E-value=2.2e-43  Score=313.05  Aligned_cols=163  Identities=75%  Similarity=1.199  Sum_probs=151.0

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+..+++|++||.|+++||+||.++||+||+||+|++++||+++++|.+++++++.++||++|||+|+|+++++|++||
T Consensus       221 ~n~~~~~i~r~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~gGA~a~pF~t~~n~~~~~~yL~~Spel~lK~L~v~g~~rV  300 (553)
T PLN02502        221 ANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGGFERV  300 (553)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeeeccCCCccccceeeecccCCcceeeecCHHHHHHHHHHhccCCE
Confidence            68999999999999999999999999999999999999988888899998778999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+++++|+|||||||||+++++++|+|+++|+||+.+++.+.+.+...+..       ..+++..||+|+|
T Consensus       301 feIg~~FRnE~~~~rH~pEFtmlE~y~a~~d~~dlm~~~E~li~~i~~~v~~~~~~~~~~-------~~i~~~~p~~rit  373 (553)
T PLN02502        301 YEIGRQFRNEGISTRHNPEFTTCEFYQAYADYNDMMELTEEMVSGMVKELTGSYKIKYHG-------IEIDFTPPFRRIS  373 (553)
T ss_pred             EEEcCeeeCCCCCCccccceeehhhhhhcCCHHHHHHHHHHHHHHHHHHHhcccccccCC-------ccccCCCCceecc
Confidence            999999999999999999999999999999999999999999999999999877665532       1356788999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+..
T Consensus       374 ~~e~l~~~~g  383 (553)
T PLN02502        374 MISLVEEATG  383 (553)
T ss_pred             HHHHHHHHhC
Confidence            9999988743

>PTZ00417 lysine-tRNA ligase; Provisional

Probab=100.00  E-value=3.2e-43  Score=313.20  Aligned_cols=169  Identities=56%  Similarity=1.020  Sum_probs=152.2

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+..+++|++||.|+++||+||.++||+||+||+|++++||+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       245 ~n~~~~~ifr~RS~Ii~aiR~Ff~~rGFlEVeTPiL~~~~GGA~a~PF~T~~n~~d~~lYLriSpEL~lKrLlvgG~~rV  324 (585)
T PTZ00417        245 INESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDLYLRIATELPLKMLIVGGIDKV  324 (585)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCeEEEeCCeeeccCCcccceeEEecccCCCcceEEeecHHHHHHHHHHhCCCCE
Confidence            58999999999999999999999999999999999999988888999998888999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+.+++|+|||||+|||++++|++|+|+++|+||++++..+.+.....+...+.+.....+++..||+|+|
T Consensus       325 feIgp~FRnE~~~~rHnpEFTmlE~y~ay~dy~dlM~l~E~Li~~v~~~v~g~~~~~~~~~g~~~~~~~i~~~~pf~rit  404 (585)
T PTZ00417        325 YEIGKVFRNEGIDNTHNPEFTSCEFYWAYADFYDLIKWSEDFFSQLVMHLFGTYKILYNKDGPEKDPIEIDFTPPYPKVS  404 (585)
T ss_pred             EEEcccccCCCCCCCccceeeeeeeeeecCCHHHHHHHHHHHHHHHHHHhcCcceeeecccccccccccccCCCCceecc
Confidence            99999999999999999999999999999999999999999999999999887666664332222223356788999999


Q ss_pred             hhhccceee
Q 030343          162 FIYSCKWYK  170 (179)
Q Consensus       162 y~eAi~~l~  170 (179)
                      |.||++.+.
T Consensus       405 ~~ea~~~~~  413 (585)
T PTZ00417        405 IVEELEKLT  413 (585)
T ss_pred             HHHHHHHHh
Confidence            999998664

>cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain

Probab=100.00  E-value=4.4e-43  Score=295.66  Aligned_cols=162  Identities=65%  Similarity=1.102  Sum_probs=145.4

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhee
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVY   82 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kvf   82 (179)
                      |+++++++++||.+++++|+||.++||+||+||+|+++++|+++++|.++.+++++++||++|||+|+|+++++|++|||
T Consensus         1 ~~~~~~~l~~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~~~~~~~f~~~~~~~~~~~yL~~Spql~~k~ll~~g~~~vf   80 (329)
T cd00775           1 NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVY   80 (329)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCCccceeEEeccCCCCcceeeccCHHHHHHHHHhcCCCcEE
Confidence            68899999999999999999999999999999999988887778889876678999999999999999999989999999


Q ss_pred             ecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccchh
Q 030343           83 EIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNF  162 (179)
Q Consensus        83 ~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rity  162 (179)
                      +||||||+|+++++|++||||+|||+++++++|+|+++|++|+++++.+.+...+.+...       .++...||+||||
T Consensus        81 ~i~~~FR~E~~~~rHl~EFt~le~e~~~~~~~~~m~~~e~li~~i~~~~~~~~~~~~~~~-------~~~~~~pf~rity  153 (329)
T cd00775          81 EIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTEDLFSGLVKKINGKTKIEYGGK-------ELDFTPPFKRVTM  153 (329)
T ss_pred             EEeccccCCCCCCCCCCceEEEEEeeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCCc-------cccCCCCceEEEH
Confidence            999999999999999999999999999999999999999999999998887654443211       1344579999999


Q ss_pred             hhccceeee
Q 030343          163 IYSCKWYKI  171 (179)
Q Consensus       163 ~eAi~~l~~  171 (179)
                      .||++.+.+
T Consensus       154 ~eA~~~~~g  162 (329)
T cd00775         154 VDALKEKTG  162 (329)
T ss_pred             HHHHHHHhC
Confidence            999998843

Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.

>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.1e-42  Score=299.65  Aligned_cols=165  Identities=59%  Similarity=1.007  Sum_probs=156.8

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      |+|++.+..+..||+|+++||+||.++||+||+||+|.+.+||+.++||.|+++..+.++|||++|++|+++++.+|++|
T Consensus       171 i~N~e~r~~f~~Rs~ii~~iR~fl~~~gFlEVETP~lq~i~GGA~ArPF~ThhNald~dlyLRIApELyLKRliVGG~er  250 (502)
T COG1190         171 IVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGFER  250 (502)
T ss_pred             hcCHHHHHHHHHHHHHHHHHHHHHHHCCCeEeccccccccCCCcccccceeeecccCCceEEeeccHHHHHHHHhcCchh
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||++||||..+++|+|||||+|+|++++|++|+|+++|+|++.+++.+.++..+.+...       .+++++||+||
T Consensus       251 VfEIgr~FRNEGid~tHNPEFTmlE~Y~AYaDy~D~m~ltE~Li~~~a~~v~gt~~v~y~~~-------~id~~~pf~ri  323 (502)
T COG1190         251 VFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLTEELIKELAKEVNGTTKVTYGGQ-------EIDFSKPFKRI  323 (502)
T ss_pred             heeeccccccCCCccccCcchhhHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCCeEEEECCE-------eEecCCCeeee
Confidence            99999999999999999999999999999999999999999999999999999888877533       47899999999


Q ss_pred             hhhhccceeeee
Q 030343          161 NFIYSCKWYKIY  172 (179)
Q Consensus       161 ty~eAi~~l~~d  172 (179)
                      ++.||++.+.+.
T Consensus       324 ~m~dal~e~~g~  335 (502)
T COG1190         324 TMVDALKEYLGV  335 (502)
T ss_pred             ehHHHHHHHhCc
Confidence            999999766553

>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type

Probab=100.00  E-value=6.5e-43  Score=311.10  Aligned_cols=159  Identities=32%  Similarity=0.567  Sum_probs=140.6

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceecccccccee-eeeechhhhhhhhhhccch
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL-YMRIAPELYLKELVVGGLD   79 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~-~L~~S~ql~~~~~~~~~~~   79 (179)
                      +.|+.+++++++||.+++++|+||.++||+||+||+|+++.+++ +++|.+....++..+ +|+||||+|+|+++++|++
T Consensus       129 LR~~~~~~~lr~Rs~i~~~iR~ff~~~gFiEVeTP~L~~s~~eG-ar~f~vp~~~~~~~~y~L~qSpQlykq~l~v~G~e  207 (583)
T TIGR00459       129 LRRPEMQQRLKLRHKVTKAVRNFLDQQGFLEIETPMLTKSTPEG-ARDYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVD  207 (583)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeeccCCCCC-CcceeeeeecCCCceeecCCCHHHHHHHHHhcccC
Confidence            35789999999999999999999999999999999999754443 356765444444444 5999999999999999999


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCccc
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~r  159 (179)
                      |||+||||||+|+.+++|.|||||||+|++|++++|+|+++|++++++++.+.+                 .++..||+|
T Consensus       208 rvfqI~~~FR~E~~~t~r~pEFT~le~E~af~d~~dvm~~~E~li~~v~~~v~~-----------------~~~~~pf~r  270 (583)
T TIGR00459       208 RYYQIARCFRDEDLRADRQPEFTQIDMEMSFMTQEDVMELIEKLVSHVFLEVKG-----------------IDLKKPFPV  270 (583)
T ss_pred             cEEEEcceeeCCCCCCCCCcccCcceeeecCCCHHHHHHHHHHHHHHHHHHHhC-----------------CCCCCCceE
Confidence            999999999999999877799999999999999999999999999999998764                 234689999


Q ss_pred             chhhhccceeeeecCCCC
Q 030343          160 LNFIYSCKWYKIYHPGRS  177 (179)
Q Consensus       160 ity~eAi~~l~~d~pd~~  177 (179)
                      +||.||++.||+|+||+|
T Consensus       271 ~ty~ea~~~yGsDkPDlR  288 (583)
T TIGR00459       271 MTYAEAMERYGSDKPDLR  288 (583)
T ss_pred             EEHHHHHHHHCCCCCccc
Confidence            999999999999999997

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.

>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=3.5e-43  Score=300.82  Aligned_cols=166  Identities=28%  Similarity=0.466  Sum_probs=142.7

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhee
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVY   82 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kvf   82 (179)
                      ++..+++|++|+.+++++|+||.++||+||+||+|++++++++++.|.+  +||+.++||+||||||+|.++ .+++|||
T Consensus       127 ~~~~~Av~kirs~i~~a~~eff~~~gF~eV~tP~i~~~~~EGg~elF~v--~yf~~~a~LtqS~QLyke~~~-~al~rVf  203 (435)
T COG0017         127 TPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGGGELFKV--DYFDKEAYLTQSPQLYKEALA-AALERVF  203 (435)
T ss_pred             ccchHHHHhHHHHHHHHHHHHHHhCCcEEecCceEeccCCCCCceeEEE--eecCcceEEecCHHHHHHHHH-HHhCceE
Confidence            5788999999999999999999999999999999999987777899986  889999999999999999654 5599999


Q ss_pred             ecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           83 EIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        83 ~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      +|||+||+|++++ |||+||||+|.||+|++++|+|+++|++++++++.+++.+..++.-.+.+...+....+.||+|||
T Consensus       204 ~igP~FRAE~s~T~RHL~EF~~ld~Emaf~~~~d~m~l~E~~i~~i~~~v~e~~~~el~~l~~~~~~l~~~~~~pf~rit  283 (435)
T COG0017         204 TIGPTFRAEKSNTRRHLSEFWMLDPEMAFADLNDVMDLAEELIKYLFKKVLEECADELEFLGRDNSELKRPESAPFPRIT  283 (435)
T ss_pred             EecCceecCCCCCcchhhhHheecceeccCcHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhccchhhcccccCCccEEE
Confidence            9999999999987 799999999999999999999999999999999999987654332222121122111157899999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |+||+++|++
T Consensus       284 Y~eAieiL~~  293 (435)
T COG0017         284 YKEAIEILEE  293 (435)
T ss_pred             HHHHHHHHHh
Confidence            9999999983

>PTZ00385 lysyl-tRNA synthetase; Provisional

Probab=100.00  E-value=1.1e-41  Score=305.01  Aligned_cols=171  Identities=39%  Similarity=0.742  Sum_probs=148.8

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+.++++|++||.|+++||+||.++||+||+||+|+++++|+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       225 ~n~~~~~ifr~Rs~I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~~n~~~~~~yL~~SPELylKrLivgG~erV  304 (659)
T PTZ00385        225 TNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDLFLRVAPELHLKQCIVGGMERI  304 (659)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEeecccCCCCEEecCChHHHHHHHhhcccCCE
Confidence            68999999999999999999999999999999999988888888999998878899999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+++++|++||||+|||+++++++|+|+++|++|++++..+.+...+.+....+......+++..||+|+|
T Consensus       305 yeIg~~FRnE~~~~rH~pEFTmlE~y~a~~d~~d~m~l~E~li~~~~~~v~g~~~~~~~~~~~~g~~~~i~~~~Pf~Rit  384 (659)
T PTZ00385        305 YEIGKVFRNEDADRSHNPEFTSCEFYAAYHTYEDLMPMTEDIFRQLAMRVNGTTVVQIYPENAHGNPVTVDLGKPFRRVS  384 (659)
T ss_pred             EEEeceecCCCCCCCccccccceeeeeecCCHHHHHHHHHHHHHHHHHHhcCCeeEEeeccccCCCcccccCCCCceEEe
Confidence            99999999999999999999999999999999999999999999999999987666653211000001246678999999


Q ss_pred             -hhhccceeeee
Q 030343          162 -FIYSCKWYKIY  172 (179)
Q Consensus       162 -y~eAi~~l~~d  172 (179)
                       ++++.+..|.|
T Consensus       385 ~~d~~~e~~G~d  396 (659)
T PTZ00385        385 VYDEIQRMSGVE  396 (659)
T ss_pred             HHHHHHHHhCCC
Confidence             55555555544

>PRK02983 lysS lysyl-tRNA synthetase; Provisional

Probab=100.00  E-value=1.1e-41  Score=321.06  Aligned_cols=168  Identities=42%  Similarity=0.704  Sum_probs=150.3

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      ++|+..++++++||.|+++||+||.++||+||+||+|++++||+++++|.++.++++.++||++|||+|+|+++++|++|
T Consensus       761 ~~n~~~~~~~r~Rs~i~~~iR~fl~~~gFlEVeTPiL~~~~gGa~a~pF~t~~~~~~~~~yLriSPELylKrLivgG~er  840 (1094)
T PRK02983        761 AVNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQVHGGANARPFVTHINAYDMDLYLRIAPELYLKRLCVGGVER  840 (1094)
T ss_pred             hcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCEeeccCCCcccceeEeeecCCCccchhhcChHHHHHHHHhcccCc
Confidence            36899999999999999999999999999999999999999998899999888999999999999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||||+++++|+|||||+|+|+++.|++|+|+++|++|+++++.+.+...+.+...  .....+++++.||+||
T Consensus       841 VFEIg~~FRnE~~~~rHnpEFTmLE~y~a~~dy~d~m~l~E~li~~i~~~v~~~~~~~~~~~--~~~~~~i~~~~pf~ri  918 (1094)
T PRK02983        841 VFELGRNFRNEGVDATHNPEFTLLEAYQAHADYDTMRDLTRELIQNAAQAAHGAPVVMRPDG--DGVLEPVDISGPWPVV  918 (1094)
T ss_pred             eEEEcceecCCCCCCCccccccchhhhhhcCCHHHHHHHHHHHHHHHHHHHhCCcEEeeCCc--cccccccccCCCceEE
Confidence            99999999999999999999999999999999999999999999999999987655433211  1111235678999999


Q ss_pred             hhhhccceee
Q 030343          161 NFIYSCKWYK  170 (179)
Q Consensus       161 ty~eAi~~l~  170 (179)
                      ||.||++.+.
T Consensus       919 t~~eai~~~~  928 (1094)
T PRK02983        919 TVHDAVSEAL  928 (1094)
T ss_pred             EHHHHHHHHh
Confidence            9999998653

>PLN02903 aminoacyl-tRNA ligase

Probab=100.00  E-value=9.4e-42  Score=305.39  Aligned_cols=159  Identities=27%  Similarity=0.548  Sum_probs=138.9

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhcc-CCceeeeccccccccccccCCCceeccc-cccceeeeeechhhhhhhhhhccch
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDN-LDFLEVETPMMNMIAGGAAARPFVTHHN-DLNMKLYMRIAPELYLKELVVGGLD   79 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~-~gF~ev~tP~l~~~~~~~~~~~f~~~~~-~~~~~~~L~~S~ql~~~~~~~~~~~   79 (179)
                      -++.+++++++||.+++++|+||.+ +||+||+||+|+.+.++++ ++|.+... ..+..+||+||||+|+|++|++|++
T Consensus       195 R~~~~q~~lr~Rs~i~~~iR~fl~~~~gFiEVeTPiL~~st~eGa-rdf~v~~~~~~g~~y~L~qSPQlykQ~Lm~~G~~  273 (652)
T PLN02903        195 RRPQMNANLRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEGA-RDYLVPSRVQPGTFYALPQSPQLFKQMLMVSGFD  273 (652)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEECCeeccCCCCCC-cccEEeeecCCCcccccCCCHHHHHHHHHhccCC
Confidence            4688999999999999999999997 9999999999997655443 45544322 2356678999999999999999999


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCccc
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~r  159 (179)
                      |||+||||||+|+.+++|.+||||||||++|++++|+|+++|++++++++.+.+                 .++..||+|
T Consensus       274 RvFqIa~~FR~E~~~t~RhpEFTqLE~E~sf~d~~dvm~~~E~li~~v~~~~~~-----------------~~~~~PF~r  336 (652)
T PLN02903        274 RYYQIARCFRDEDLRADRQPEFTQLDMELAFTPLEDMLKLNEDLIRQVFKEIKG-----------------VQLPNPFPR  336 (652)
T ss_pred             cEEEEehhhccCCCCCCcccceeeeeeeecCCCHHHHHHHHHHHHHHHHHHHhC-----------------CCCCCCceE
Confidence            999999999999999876799999999999999999999999999999987654                 133469999


Q ss_pred             chhhhccceeeeecCCCCC
Q 030343          160 LNFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       160 ity~eAi~~l~~d~pd~~~  178 (179)
                      |||.||++.|++||||||.
T Consensus       337 ity~eA~~~ygsDKPDlRf  355 (652)
T PLN02903        337 LTYAEAMSKYGSDKPDLRY  355 (652)
T ss_pred             EEHHHHHHHHcCCCCcccC
Confidence            9999999999999999984

>PF00152 tRNA-synt_2: tRNA synthetases class II (D, K and N) ; InterPro: IPR004364 The aminoacyl-tRNA synthetases (6

Probab=100.00  E-value=7.9e-42  Score=288.57  Aligned_cols=168  Identities=36%  Similarity=0.606  Sum_probs=141.9

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceec---cccccceeeeeechhhhhhhhhhccc
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH---HNDLNMKLYMRIAPELYLKELVVGGL   78 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~---~~~~~~~~~L~~S~ql~~~~~~~~~~   78 (179)
                      -++..++++++||.+++++|+||.++||+||+||+|+++++++++++|.+.   ..++++++||++|||+|+|+++++|+
T Consensus        14 r~~~~~~~~~~rs~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~~~~~~~~~~~~L~~Spql~~k~ll~~g~   93 (335)
T PF00152_consen   14 RTPAMSSILRIRSAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDSEPGKYFGEPAYLTQSPQLYLKRLLAAGL   93 (335)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEESTTEETTEEEEE-SSSHHHHHHHHHTTH
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHhCCceEEcCceeeccccCccccccccccchhhhcccceecCcChHHHHhhhccccc
Confidence            367889999999999999999999999999999999998777778999985   34889999999999999999999999


Q ss_pred             hheeecccccccccC-CCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCc
Q 030343           79 DRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPF  157 (179)
Q Consensus        79 ~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf  157 (179)
                      +|||+||||||+|++ +.+|++||||||||+++++++++|+++|++|+++++.+.+..+.. .        +..++..||
T Consensus        94 ~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~~~~lm~~~e~li~~i~~~~~~~~~~~-~--------~~~~~~~~f  164 (335)
T PF00152_consen   94 ERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFADYDDLMDLIEELIKYIFKELLENAKEL-S--------LNIDLPKPF  164 (335)
T ss_dssp             SEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSSHHHHHHHHHHHHHHHHHHHHHHHHHH-H--------TCEESSSS-
T ss_pred             hhhhheecceeccCcccccchhhhhhhhhccccCcHHHhHHHHHHHHHHHHHHHhccCccc-c--------ccccccCCc
Confidence            999999999999998 679999999999999999999999999999999999987541110 0        024556789


Q ss_pred             ccchhhhccceeeeecCCCCC
Q 030343          158 RSLNFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       158 ~rity~eAi~~l~~d~pd~~~  178 (179)
                      ++++|.||++.|++++|+++.
T Consensus       165 ~ri~~~ea~~~~~~~~~~~~~  185 (335)
T PF00152_consen  165 PRITYEEAFEIYGGDKPDLRF  185 (335)
T ss_dssp             EEEEHHHHHHHHHHTTTTTTT
T ss_pred             eEeeehHHHHHhhcccccchh
Confidence            999999999999999988763

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry includes the asparagine, aspartic acid and lysine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1N9W_B 1BBU_A 1BBW_A 4EX5_B 3E9I_A 3E9H_C 3A74_C 1NNH_A 3M4P_C 3M4Q_B ....

>PRK00476 aspS aspartyl-tRNA synthetase; Validated

Probab=100.00  E-value=1.5e-41  Score=303.78  Aligned_cols=159  Identities=31%  Similarity=0.552  Sum_probs=140.9

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccc-cccceeeeeechhhhhhhhhhccchh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHN-DLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~-~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      -++.+++++++||.+++++|+||.++||+||+||+|+++.+++ +++|.+... +.+..++|+||||+|+|+++++|++|
T Consensus       133 R~~~~~~~l~~Rs~i~~~iR~ff~~~gFiEV~TP~L~~s~~eg-a~~f~v~~~~~~~~~~~L~qSpql~kq~l~~~g~~r  211 (588)
T PRK00476        133 RRPEMQKNLKLRSKVTSAIRNFLDDNGFLEIETPILTKSTPEG-ARDYLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDR  211 (588)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeeecCCCCC-CccceecccccCCceeecCCCHHHHHHHHHhcccCc
Confidence            4788999999999999999999999999999999999765544 466776433 56677889999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||+|+++++|.+||||||||++|++++|+|+++|++++++++.+.+.                 ++..||+|+
T Consensus       212 vfqi~~~FR~E~~~~~r~~EFt~le~e~af~~~~dvm~~~E~li~~i~~~~~~~-----------------~~~~pf~r~  274 (588)
T PRK00476        212 YYQIARCFRDEDLRADRQPEFTQIDIEMSFVTQEDVMALMEGLIRHVFKEVLGV-----------------DLPTPFPRM  274 (588)
T ss_pred             eEEEeceeecCCCCCCcCcccccceeeecCCCHHHHHHHHHHHHHHHHHHHhCc-----------------cCCCCceEE
Confidence            999999999999887555599999999999999999999999999999987531                 336799999


Q ss_pred             hhhhccceeeeecCCCCC
Q 030343          161 NFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~~  178 (179)
                      ||.||++.||+||||+|.
T Consensus       275 ty~ea~~~yg~dkPDlR~  292 (588)
T PRK00476        275 TYAEAMRRYGSDKPDLRF  292 (588)
T ss_pred             EHHHHHHHHCCCCCcccC
Confidence            999999999999999984

>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=3.7e-41  Score=286.34  Aligned_cols=174  Identities=70%  Similarity=1.181  Sum_probs=164.4

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      |+|+.++..|++|++|+..||.||.++||+||+||++...+||++++||.|+++.++.+.|||++|+||+++++++|++|
T Consensus       216 ilN~~~r~~f~~RakII~~iRkfld~rgFlEVETPmmn~iaGGA~AkPFIT~hndldm~LylRiAPEL~lK~LvVGGldr  295 (560)
T KOG1885|consen  216 ILNPEVRDRFRIRAKIISYIRKFLDSRGFLEVETPMMNMIAGGATAKPFITHHNDLDMDLYLRIAPELYLKMLVVGGLDR  295 (560)
T ss_pred             HcCHHHHHHHHHHHHHHHHHHHHhhhcCceEecchhhccccCccccCceeecccccCcceeeeechHHHHHHHHhccHHH
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||+.||||..|.+|+||||.||+|++++|++|+|++.|+|++.++..+.+.+.+.+...+++...+++++++||+||
T Consensus       296 VYEIGr~FRNEGIDlTHNPEFTTcEfY~AYady~dlm~~TE~l~s~mv~~i~G~~~i~y~p~~~~~~~~eldf~~pfrri  375 (560)
T KOG1885|consen  296 VYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYEDLMDMTEELLSGMVKNITGSYKITYHPNGPEEPELELDFTRPFRRI  375 (560)
T ss_pred             HHHHHHHhhhcCcccccCCCcchHHHHHHHhhHHHHHHHHHHHHHHHHHhhcCceeEeecCCCCCCCceeeeccCCeeee
Confidence            99999999999999999999999999999999999999999999999999999999999888777677889999999999


Q ss_pred             hhhhccce-eeeecC
Q 030343          161 NFIYSCKW-YKIYHP  174 (179)
Q Consensus       161 ty~eAi~~-l~~d~p  174 (179)
                      ++-++++. ++.+=|
T Consensus       376 ~mi~~L~k~lgi~l~  390 (560)
T KOG1885|consen  376 EMIEELEKELGIKLP  390 (560)
T ss_pred             eHHHHHHHHhCCCCC
Confidence            99998753 454444

>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional

Probab=100.00  E-value=2.1e-41  Score=305.57  Aligned_cols=158  Identities=24%  Similarity=0.458  Sum_probs=137.2

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceecccccccee-eeeechhhhhhhhhhccchh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL-YMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~-~L~~S~ql~~~~~~~~~~~k   80 (179)
                      -++.+++++++||.+++++|+||.++||+||+||+|+.+.+++ +++|.+...+++..+ +|+||||+|+|+++++|++|
T Consensus       148 R~~~~~~~lr~Rs~i~~~iR~fl~~~gFiEVeTPiL~~s~~eG-Ar~~~~p~~~~~~~~y~L~qSPQlykq~lm~~G~~r  226 (706)
T PRK12820        148 RRPAMQDHLAKRHRIIKCARDFLDSRGFLEIETPILTKSTPEG-ARDYLVPSRIHPKEFYALPQSPQLFKQLLMIAGFER  226 (706)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCccccCCCCC-CcceEEeeecCCCcceecCCCHHHHHHHHHhccCCc
Confidence            4788999999999999999999999999999999999765444 355544444444444 59999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||+|+++++|.+||||||+|++|++++|+|+++|+|++++++ +.+                 .++..||+||
T Consensus       227 vfqI~~~FR~E~~~t~r~pEFT~LE~E~af~d~~dvm~l~E~li~~v~~-~~~-----------------~~~~~pf~r~  288 (706)
T PRK12820        227 YFQLARCFRDEDLRPNRQPEFTQLDIEASFIDEEFIFELIEELTARMFA-IGG-----------------IALPRPFPRM  288 (706)
T ss_pred             EEEEechhcCCCCCCCcCccccccceeeccCCHHHHHHHHHHHHHHHHH-hcC-----------------cCCCCCceEE
Confidence            9999999999999998779999999999999999999999999999886 111                 2346799999


Q ss_pred             hhhhccceeeeecCCCCC
Q 030343          161 NFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~~  178 (179)
                      ||.||++.||+||||+|.
T Consensus       289 ty~eA~~~yG~DKPDlR~  306 (706)
T PRK12820        289 PYAEAMDTTGSDRPDLRF  306 (706)
T ss_pred             EHHHHHHHhCCCCCcccc
Confidence            999999999999999983

>PLN02532 asparagine-tRNA synthetase

Probab=100.00  E-value=2e-41  Score=302.17  Aligned_cols=168  Identities=20%  Similarity=0.352  Sum_probs=139.6

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCcee-------------------------------
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVT-------------------------------   51 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~-------------------------------   51 (179)
                      ++.++++|++||.+..++|+||.++||+||+||+|+++.++++++.|++                               
T Consensus       228 t~~~~ailRiRS~i~~aiR~ff~~~GFiEV~TPiLT~s~~EGa~elF~v~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  307 (633)
T PLN02532        228 TTTVASVTRVRSALTHATHTFFQDHGFLYVQVPIITTTDATGFGEMFRVTTLLGKSDDKEEKKPVHETEGISLEAVKAAI  307 (633)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeecccCCCccccccceeccccccccccccccccccccccchhhhhhh
Confidence            5788999999999999999999999999999999998865554444322                               


Q ss_pred             --------------------------------------------------------ccccccceeeeeechhhhhhhhhh
Q 030343           52 --------------------------------------------------------HHNDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus        52 --------------------------------------------------------~~~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                                                                              ..+|||+++||++|||||+|++ +
T Consensus       308 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~dyFg~~ayLtqS~QLylE~~-~  386 (633)
T PLN02532        308 KEKTNLVEELKRSESNREALVAAEQDLRKTNQLASQLEAKEKLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESY-A  386 (633)
T ss_pred             hcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCCCeeeccCHHHHHHHH-H
Confidence                                                                    1258999999999999999965 5


Q ss_pred             ccchheeecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhccee--EEecCCCCC---CCce
Q 030343           76 GGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYK--IKYHASGLD---KDPI  149 (179)
Q Consensus        76 ~~~~kvf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~--~~~~~~~~~---~~~~  149 (179)
                      .+++|||+|||+||||++++ |||+||||+|+|++|++++|+|+++|++|+++++.+++++.  +++.....+   .+.+
T Consensus       387 ~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d~~dvM~l~E~lI~~v~k~v~~~~~~el~~l~~~~~~~~~~~l  466 (633)
T PLN02532        387 CALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSELEDAMNCAEDYFKFLCKWVLENCSEDMKFVSKRIDKTISTRL  466 (633)
T ss_pred             HhcCceEEEccceecCCCCCCcccccccceeeeehhcCHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccCCcchhhhh
Confidence            79999999999999999985 89999999999999999999999999999999999998754  333221111   1123


Q ss_pred             EeccCCCcccchhhhccceeee
Q 030343          150 EIDFTPPFRSLNFIYSCKWYKI  171 (179)
Q Consensus       150 ~~~~~~pf~rity~eAi~~l~~  171 (179)
                      +..++.||+||||.||+++|+.
T Consensus       467 e~~~~~pf~RIty~EAi~iL~~  488 (633)
T PLN02532        467 EAIISSSLQRISYTEAVDLLKQ  488 (633)
T ss_pred             hcccCCCceEEEHHHHHHHHHH
Confidence            3456789999999999998853

>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type

Probab=100.00  E-value=2.3e-41  Score=293.81  Aligned_cols=163  Identities=25%  Similarity=0.430  Sum_probs=141.7

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++||.+++++|+||.++||+||+||+|++++++++++.|.+  ++++.++||++|||+|+|+++++|++||
T Consensus       125 r~~~~~~~~r~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~v--~~~~~~~yL~~Spql~~q~li~~g~~rV  202 (428)
T TIGR00458       125 RRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPI--TYFEREAFLGQSPQLYKQQLMAAGFERV  202 (428)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCceecCCCCCCcceeee--EecCCcEEECcCHHHHHHHHHhcccCcE
Confidence            47899999999999999999999999999999999998776666777875  6789999999999999999999999999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      |+||||||||++++ +|++||||+|||+++++++|+|+++|++|+++++.+.+.+...+...+.+   + ...+.||+||
T Consensus       203 f~i~~~FR~E~~~t~rHl~EFt~lE~e~a~~~~~dlm~~~e~li~~i~~~~~~~~~~~~~~~~~~---~-~~~~~pf~ri  278 (428)
T TIGR00458       203 YEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDHHDVMDILEELVVRVFEDVPERCAHQLETLEFK---L-EKPEGKFVRL  278 (428)
T ss_pred             EEEecccccCCCCCccchheeeEeeeeeccCCHHHHHHHHHHHHHHHHHHHHhcchhhhhhcccc---c-ccCCCCceEE
Confidence            99999999999996 89999999999999999999999999999999999987654433211100   0 0125799999


Q ss_pred             hhhhccceee
Q 030343          161 NFIYSCKWYK  170 (179)
Q Consensus       161 ty~eAi~~l~  170 (179)
                      ||.||++++.
T Consensus       279 ty~eA~~~l~  288 (428)
T TIGR00458       279 TYDEAIEMAN  288 (428)
T ss_pred             EHHHHHHHHH
Confidence            9999998775

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).

>PRK05159 aspC aspartyl-tRNA synthetase; Provisional

Probab=100.00  E-value=5e-41  Score=292.52  Aligned_cols=165  Identities=27%  Similarity=0.450  Sum_probs=140.8

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.|+.+++++++||.+++++|+||.++||+||+||+|++++++++++.|.+  +++|.++||++|||+|+|+++++|++|
T Consensus       127 lr~~~~~~~l~~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~~--~~~~~~~~L~~Spql~~q~l~~~g~~r  204 (437)
T PRK05159        127 LRRPRVRAIFKIRSEVLRAFREFLYENGFTEIFTPKIVASGTEGGAELFPI--DYFEKEAYLAQSPQLYKQMMVGAGFER  204 (437)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCcccccCCCCCcceEeE--EecCCceEecCCHHHHHHHHHhcCCCc
Confidence            357889999999999999999999999999999999987655555666765  678999999999999999998899999


Q ss_pred             eeecccccccccCCC-CCCCCcchhhHHHhhcc-hhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcc
Q 030343           81 VYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        81 vf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~-~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      ||+||||||+|++++ +|++||||+|||+++++ ++++|+++|++|+.+++.+.+.++..+...+.+   +. ..+.||+
T Consensus       205 Vf~i~~~FR~E~~~t~rHl~EFt~lE~e~a~~~~~~~lm~~~e~lv~~i~~~~~~~~~~~i~~~~~~---~~-~~~~~f~  280 (437)
T PRK05159        205 VFEIGPVFRAEEHNTSRHLNEYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIE---LP-VPETPIP  280 (437)
T ss_pred             EEEEeceeeCCCCCCcccchhhheeeeeeeecccHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhccC---CC-cCCCCce
Confidence            999999999999996 89999999999999998 999999999999999999877543222111111   11 2457999


Q ss_pred             cchhhhccceeee
Q 030343          159 SLNFIYSCKWYKI  171 (179)
Q Consensus       159 rity~eAi~~l~~  171 (179)
                      ||||.||++++..
T Consensus       281 rit~~eA~~~l~~  293 (437)
T PRK05159        281 RITYDEAIEILKS  293 (437)
T ss_pred             EeEHHHHHHHHHH
Confidence            9999999998853

>PRK06462 asparagine synthetase A; Reviewed

Probab=100.00  E-value=9.2e-41  Score=282.09  Aligned_cols=165  Identities=23%  Similarity=0.374  Sum_probs=137.5

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccccCCCcee-ccccccceeeeeechhhhhhhhh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVT-HHNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~~~~f~~-~~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                      |.|+..++++++||.|++++|+||.++||+||+||+|+++.     +|+. .++.+ ..+++|+++||++|||+|+| ++
T Consensus        21 lr~~~~~~il~~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~~-~~~~~~~~~~~~~~~yL~~Spql~k~-ll   98 (335)
T PRK06462         21 ISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSD-LPVKQISIDFYGVEYYLADSMILHKQ-LA   98 (335)
T ss_pred             hcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCcccc-CCccccccccCCCceeeccCHHHHHH-HH
Confidence            46899999999999999999999999999999999998763     2222 44532 34688999999999999977 56


Q ss_pred             hccchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEe
Q 030343           75 VGGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEI  151 (179)
Q Consensus        75 ~~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (179)
                      ++|++|||+||||||+|++++   +|++||||||||+++++++|+|+++|++|+++++.+.+.++..+...+..   + .
T Consensus        99 ~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d~~dlm~~~e~lv~~i~~~~~~~~~~~i~~~~~~---~-~  174 (335)
T PRK06462         99 LRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDEVMDLIEDLIKYLVKELLEEHEDELEFFGRD---L-P  174 (335)
T ss_pred             HhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHhcCCc---c-c
Confidence            677999999999999999988   99999999999999999999999999999999999887654322111111   1 1


Q ss_pred             ccCCCcccchhhhccceeee
Q 030343          152 DFTPPFRSLNFIYSCKWYKI  171 (179)
Q Consensus       152 ~~~~pf~rity~eAi~~l~~  171 (179)
                      .++.||+||||.||++++..
T Consensus       175 ~~~~p~~rit~~eA~~~l~~  194 (335)
T PRK06462        175 HLKRPFKRITHKEAVEILNE  194 (335)
T ss_pred             cCCCCCeEEEHHHHHHHHHh
Confidence            34689999999999987653

>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain

Probab=100.00  E-value=1.3e-40  Score=280.03  Aligned_cols=167  Identities=28%  Similarity=0.433  Sum_probs=143.6

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .++..++++++|+.|.+++|+||.++||+||+||+|+++++++++++|.+  +++++++||++|||+|+|+++++ ++||
T Consensus        16 r~~~~~~~~~~rs~i~~~ir~~f~~~gf~eV~TP~l~~~~~e~~~~~f~~--~~~~~~~yL~~Spql~lk~l~~~-~~~v   92 (322)
T cd00776          16 RTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGAELFKV--SYFGKPAYLAQSPQLYKEMLIAA-LERV   92 (322)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCceecCCCCccCCcccc--ccCCCcceecCCHHHHHHHHHHh-hhhh
Confidence            47899999999999999999999999999999999999888888889986  78999999999999999988766 9999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCccc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~r  159 (179)
                      |+||||||+|++++ +|++||||+|||++++ +++|+|+++|++|+.+++.+.+.+...+...+ .......++..||+|
T Consensus        93 f~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~dlm~~~e~ll~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~r  171 (322)
T cd00776          93 YEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELVN-QLNRELLKPLEPFPR  171 (322)
T ss_pred             EEeccccccCCCCcCCCcceeeccceeeeccCCHHHHHHHHHHHHHHHHHHHHhccHHHHhhhh-ccCcccccCCCCceE
Confidence            99999999999776 8999999999999999 99999999999999999998876543221100 001112345689999


Q ss_pred             chhhhccceeeee
Q 030343          160 LNFIYSCKWYKIY  172 (179)
Q Consensus       160 ity~eAi~~l~~d  172 (179)
                      |||.||++++...
T Consensus       172 it~~eA~~~l~~~  184 (322)
T cd00776         172 ITYDEAIELLREK  184 (322)
T ss_pred             EEHHHHHHHHHHc
Confidence            9999999888644

Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.

>PLN02221 asparaginyl-tRNA synthetase

Probab=100.00  E-value=9.6e-41  Score=296.44  Aligned_cols=168  Identities=20%  Similarity=0.305  Sum_probs=139.1

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceec------------------------------
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH------------------------------   52 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~------------------------------   52 (179)
                      ++.++++||+||.+.+++|+||.++||+||+||+|+++.++++++.|.+.                              
T Consensus       164 ~~~~~Ai~RiRS~i~~aiR~ff~~~gFiEI~TP~Lt~s~~EGg~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (572)
T PLN02221        164 TNSISAVARIRNALAFATHSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTLINYTERLEQDLIDNPPPTEADVEAARLI  243 (572)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeeccccCCCCccceeeeecccccccccccccccCcccchhhhhhhhh
Confidence            56789999999999999999999999999999999998776666666541                              


Q ss_pred             ----------------------------------------------------------cccccceeeeeechhhhhhhhh
Q 030343           53 ----------------------------------------------------------HNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus        53 ----------------------------------------------------------~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                                                                                .+|||+++||++|||||+|++ 
T Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dyFg~~ayLtqS~QLy~e~~-  322 (572)
T PLN02221        244 VKERGEVVAQLKAAKASKEEITAAVAELKIAKESLAHIEERSKLKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVETY-  322 (572)
T ss_pred             hhhhcchhhhhhccccchhhhhhhhhhhhhhhhhhhhhhhhhhcccCCcccccccccccccCCCCeeeccCHHHHHHHH-
Confidence                                                                      168999999999999999964 


Q ss_pred             hccchheeecccccccccCC-CCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEE--ecCCCCC---CCc
Q 030343           75 VGGLDRVYEIGKQFRNEGID-LTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIK--YHASGLD---KDP  148 (179)
Q Consensus        75 ~~~~~kvf~i~~~fR~E~~~-~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~--~~~~~~~---~~~  148 (179)
                      +++++|||+||||||||+++ .|||+||||+|+|+++.+++|+|+++|++|+++++.+.+.+.-.  +.....+   .+.
T Consensus       323 ~~~l~rVfeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d~~dvm~l~E~lv~~i~~~l~~~~~~~l~~l~~~~~~~~~~~  402 (572)
T PLN02221        323 ACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFADLEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDR  402 (572)
T ss_pred             HHhcCCeEEEccceecCCCCCCcccccccceeeeeecCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCchhhhh
Confidence            57799999999999999985 58999999999999999999999999999999999998764322  2111111   112


Q ss_pred             eEeccCCCcccchhhhccceeee
Q 030343          149 IEIDFTPPFRSLNFIYSCKWYKI  171 (179)
Q Consensus       149 ~~~~~~~pf~rity~eAi~~l~~  171 (179)
                      +...++.||+||||.||++++..
T Consensus       403 l~~~~~~pf~RIty~EAi~~L~~  425 (572)
T PLN02221        403 LRMVASTPFGRITYTEAIELLEE  425 (572)
T ss_pred             hhhccCCCceEEEHHHHHHHHHh
Confidence            22234689999999999998753

>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=8.9e-40  Score=283.66  Aligned_cols=159  Identities=33%  Similarity=0.587  Sum_probs=143.3

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccc-cccceeeeeechhhhhhhhhhccchh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHN-DLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~-~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      -+|.++..+++|+++..++|.||.++||+||+||+|+.+..++ ++.|-|+.. ..|+-+.|.||||+|+|.+|++|++|
T Consensus       133 RR~~m~~~l~lR~kv~~~iR~~ld~~gF~EiETPiLtkSTPEG-ARDfLVPSRv~~G~FYALPQSPQlfKQLLMvsGfdR  211 (585)
T COG0173         133 RRPEMQKNLKLRSKVTKAIRNFLDDQGFLEIETPILTKSTPEG-ARDFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDR  211 (585)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHhhcCCeEeecCccccCCCcc-ccccccccccCCCceeecCCCHHHHHHHHHHhcccc
Confidence            3688999999999999999999999999999999999754333 477776432 45677889999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      +|+|++|||+|...+.+.|||||+|.||+|.+-+|+|+++|+|++++++.+.+                 +++..||+||
T Consensus       212 YyQIarCFRDEDlRaDRQPEFTQiD~EmSF~~~edv~~~~E~l~~~vf~~~~~-----------------i~l~~pFprm  274 (585)
T COG0173         212 YYQIARCFRDEDLRADRQPEFTQIDLEMSFVDEEDVMELIEKLLRYVFKEVKG-----------------IELKTPFPRM  274 (585)
T ss_pred             eeeeeeeecccccccccCCcceeEeEEeecCCHHHHHHHHHHHHHHHHHHhcC-----------------CccCCCcccc
Confidence            99999999999999999999999999999999999999999999999998654                 3556799999


Q ss_pred             hhhhccceeeeecCCCCC
Q 030343          161 NFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~~  178 (179)
                      ||.||+..||+||||||-
T Consensus       275 tY~eAm~~YGSDKPDlRf  292 (585)
T COG0173         275 TYAEAMRRYGSDKPDLRF  292 (585)
T ss_pred             cHHHHHHHhCCCCCcccC
Confidence            999999999999999983

>PTZ00425 asparagine-tRNA ligase; Provisional

Probab=100.00  E-value=1.7e-39  Score=288.36  Aligned_cols=167  Identities=19%  Similarity=0.323  Sum_probs=138.9

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceec------------------------------
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH------------------------------   52 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~------------------------------   52 (179)
                      ++.++++||+||.+..++|+||.++||+||+||+|+++.++++++.|.+.                              
T Consensus       208 ~~~~~avlRiRs~l~~a~r~ff~~~gF~eI~TPiit~s~~EGa~elF~V~t~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  287 (586)
T PTZ00425        208 SYFISSVIRIRNALAIATHLFFQSRGFLYIHTPLITTSDCEGGGEMFTVTTLLGEDADYRAIPRVNKKNKKGEKREDILN  287 (586)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeecccCCCCCcceEEeeeccccccccccccccccccccccccccccc
Confidence            57789999999999999999999999999999999998877666666641                              


Q ss_pred             -------------------------------cccccceeeeeechhhhhhhhhhccchheeecccccccccCCC-CCCCC
Q 030343           53 -------------------------------HNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDL-THNPE  100 (179)
Q Consensus        53 -------------------------------~~~~~~~~~L~~S~ql~~~~~~~~~~~kvf~i~~~fR~E~~~~-~Hl~E  100 (179)
                                                     .+|||+++||++|||||+|+ +++|++|||+||||||+|++++ ||++|
T Consensus       288 ~~~~~~~~~~~~~~~~~~~~q~~~~~~~~~~~~yF~k~ayL~~S~QLylE~-~~~g~~rVf~i~p~FRaE~s~t~RHL~E  366 (586)
T PTZ00425        288 TCNANNNNGNSSSSNAVSSPAYPDQYLIDYKKDFFSKQAFLTVSGQLSLEN-LCSSMGDVYTFGPTFRAENSHTSRHLAE  366 (586)
T ss_pred             cccccccccccccccccccccccccccccccccccCcceEEEcCchHHHHH-HHhccCCEEEEeceEeCCCCCCCCCCcc
Confidence                                           15899999999999999995 5688999999999999999875 89999


Q ss_pred             cchhhHHHhhcchhHHHHHHHHHHHhhhhhhhccee--EEecCCCCCCCc---eEeccCCCcccchhhhccceee
Q 030343          101 FTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYK--IKYHASGLDKDP---IEIDFTPPFRSLNFIYSCKWYK  170 (179)
Q Consensus       101 F~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~--~~~~~~~~~~~~---~~~~~~~pf~rity~eAi~~l~  170 (179)
                      |||+|+|++|++++++|+++|++|+++++.+++.+.  +.+.........   +...+..||+||||+||++++.
T Consensus       367 Ft~lE~E~af~d~~d~m~~~E~li~~v~~~vl~~~~~~i~~~~~~~~~~l~~~l~~~~~~pf~rIty~EAi~iL~  441 (586)
T PTZ00425        367 FWMIEPEIAFADLYDNMELAESYIKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDEDFAKITYTNVIDLLQ  441 (586)
T ss_pred             cceEEEEEecCCHHHHHHHHHHHHHHHHHHHhcccccccccccccccccHHHHHHHhcCCCCCcCCHHHHHHHHH
Confidence            999999999999999999999999999999887643  333221111111   1112357999999999999874

>PLN02603 asparaginyl-tRNA synthetase

Probab=100.00  E-value=1.5e-39  Score=288.74  Aligned_cols=168  Identities=20%  Similarity=0.271  Sum_probs=139.2

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceec----------------------------cc
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH----------------------------HN   54 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~----------------------------~~   54 (179)
                      ++..++++++||.+..++|+||.++||+||+||+|+++.+|++++.|.+.                            .+
T Consensus       219 t~~~~ai~RiRS~i~~air~ff~~~gF~eV~TPiLt~s~~EGA~e~F~Vttl~~~~~~~~~~~~~~lp~~~~~~~~~~~d  298 (565)
T PLN02603        219 TNTFGAVARVRNALAYATHKFFQENGFVWVSSPIITASDCEGAGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQD  298 (565)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeecccCCCccccCceeeeccccccccccccccccccCcccccccchh
Confidence            45689999999999999999999999999999999998766656666431                            25


Q ss_pred             cccceeeeeechhhhhhhhhhccchheeecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           55 DLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        55 ~~~~~~~L~~S~ql~~~~~~~~~~~kvf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                      |||+++||++|||||+|+ ++++++|||+||||||+|++++ |||+||||+|+|++|++++|+|+++|++|+++++.+++
T Consensus       299 yF~~~~~LtvS~QL~~E~-~~~~l~rVy~igp~FRaE~s~T~RHL~EF~mlE~E~af~dl~d~m~~~E~~l~~~~~~v~~  377 (565)
T PLN02603        299 FFGKPAFLTVSGQLNGET-YATALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYILE  377 (565)
T ss_pred             hhCcceeeccCchHHHHH-HHhcccceEEEecceeCCCCCCccccccceeeeeeeecCCHHHHHHHHHHHHHHHHHHHHc
Confidence            789999999999999995 6789999999999999999986 89999999999999999999999999999999999988


Q ss_pred             ceeEEe--cCCCCCCC---ceEeccCCCcccchhhhccceeee
Q 030343          134 SYKIKY--HASGLDKD---PIEIDFTPPFRSLNFIYSCKWYKI  171 (179)
Q Consensus       134 ~~~~~~--~~~~~~~~---~~~~~~~~pf~rity~eAi~~l~~  171 (179)
                      ++.-++  .....+..   .++..+..||+||||+||++++..
T Consensus       378 ~~~~el~~~~~~~~~~~~~~l~~~~~~~f~rity~EAi~iL~~  420 (565)
T PLN02603        378 NCKEDMEFFNTWIEKGIIDRLSDVVEKNFVQLSYTDAIELLLK  420 (565)
T ss_pred             ccHhHHHhcCCcccccHHHHHHHhcCCCCCCCCHHHHHHHHHH
Confidence            764332  21110110   111123579999999999998854

>PLN02850 aspartate-tRNA ligase

Probab=100.00  E-value=3.6e-39  Score=285.51  Aligned_cols=167  Identities=21%  Similarity=0.328  Sum_probs=139.2

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      -++.++++|++||.+++++|+||.++||+||+||+|+++.+++++.+|.+  +|+|+++||++|||+|+|+++++|++||
T Consensus       217 R~~~~qaifrirs~i~~~~R~fl~~~gF~EV~TP~L~~~~~egga~~F~v--~yf~~~~~L~qSpql~kq~li~~g~~rV  294 (530)
T PLN02850        217 RTPANQAIFRIQSQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRL--DYKGQPACLAQSPQLHKQMAICGDFRRV  294 (530)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCcEEEeCCccccCCCccccceeee--ccCCcceecCCCHHHHHHHHHHhcCCce
Confidence            36789999999999999999999999999999999987665555678987  6899999999999999999999999999


Q ss_pred             eecccccccccCC-CCCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCccc
Q 030343           82 YEIGKQFRNEGID-LTHNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        82 f~i~~~fR~E~~~-~~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~r  159 (179)
                      |+||||||||++. .+|++||||+||||++. +++|+|+++|+||++++..+.+.+..++...........+.+..+++|
T Consensus       295 feIgp~FRaE~s~t~RHl~EFt~Le~Em~~~~~y~evm~~~E~ll~~i~~~l~~~~~~el~~i~~~~~~~~~~~~~~~~r  374 (530)
T PLN02850        295 FEIGPVFRAEDSFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGLNERCKKELEAIREQYPFEPLKYLPKTLR  374 (530)
T ss_pred             EEEecccccCCCCCCccchhhccchhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhcccCCcchhhhcCCccc
Confidence            9999999999974 58999999999999987 699999999999999999887765333211111111011233457889


Q ss_pred             chhhhccceee
Q 030343          160 LNFIYSCKWYK  170 (179)
Q Consensus       160 ity~eAi~~l~  170 (179)
                      +||.||++++.
T Consensus       375 it~~ea~~~L~  385 (530)
T PLN02850        375 LTFAEGIQMLK  385 (530)
T ss_pred             CCHHHHHHHHH
Confidence            99999998885

>TIGR00457 asnS asparaginyl-tRNA synthetase

Probab=100.00  E-value=1.1e-39  Score=284.80  Aligned_cols=169  Identities=22%  Similarity=0.336  Sum_probs=140.2

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceecc-------ccccceeeeeechhhhhhhhhh
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHH-------NDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~-------~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      ++..++++++||.|++++|+||.++||+||+||+|+++++|+++++|.+..       +|+|+++||++|||+|+|+ ++
T Consensus       129 ~~~~~~~lr~Rs~i~~~~r~~~~~~gf~eV~TP~l~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~yL~~Spql~lq~-l~  207 (453)
T TIGR00457       129 TNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEGAGELFRVSTDGIDFSQDFFGKEAYLTVSGQLYLET-YA  207 (453)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEecCCeEeecCCCCCCCceEecccccccchhccCCccccccCHHHHHHH-Hh
Confidence            466789999999999999999999999999999999887777778887741       2799999999999999995 46


Q ss_pred             ccchheeecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCC-----Cce
Q 030343           76 GGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDK-----DPI  149 (179)
Q Consensus        76 ~~~~kvf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~-----~~~  149 (179)
                      +|++|||+||||||+|++++ ||++||||+|+|+++++++|+|+++|++++++++.+.+.+...+...+.+.     ..+
T Consensus       208 ~g~~rVf~i~~~FR~E~~~t~rHl~EFt~le~e~~~~~~~dvm~~~E~lv~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l  287 (453)
T TIGR00457       208 LALSKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFANLNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRL  287 (453)
T ss_pred             hcccCceEeeeccccCCCCCCcCcchhccceeeeecCCHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhccCCchHHHHH
Confidence            89999999999999999996 899999999999999999999999999999999998875432221111110     011


Q ss_pred             EeccCCCcccchhhhccceeeee
Q 030343          150 EIDFTPPFRSLNFIYSCKWYKIY  172 (179)
Q Consensus       150 ~~~~~~pf~rity~eAi~~l~~d  172 (179)
                      +..+..||+||||.||++++...
T Consensus       288 ~~~~~~~~~rit~~ea~~~l~~~  310 (453)
T TIGR00457       288 ENIINNKFARITYTDAIEILKES  310 (453)
T ss_pred             HHhcCCCCceeEHHHHHHHHHhc
Confidence            11235699999999999988643

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.

>PRK03932 asnC asparaginyl-tRNA synthetase; Validated

Probab=100.00  E-value=1.3e-39  Score=284.48  Aligned_cols=168  Identities=24%  Similarity=0.426  Sum_probs=139.7

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceecc-------ccccceeeeeechhhhhhhhhh
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHH-------NDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~-------~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      ++.+++++++||.|++++|+||.++||+||+||+|+++.+++++++|.+..       +++|.++||++|||+|+|+ ++
T Consensus       126 ~~~~~~~l~~Rs~i~~~iR~f~~~~gf~EV~TP~L~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~~L~~Spql~lq~-l~  204 (450)
T PRK03932        126 TNKFGAVMRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEA-YA  204 (450)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEecCCceeccCCCCCCCceEeecccccccccccCCCcccccCHHHHHHH-HH
Confidence            567899999999999999999999999999999999887777788898744       6899999999999999986 56


Q ss_pred             ccchheeecccccccccCC-CCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhccee--EEecCCCCCCCceE-e
Q 030343           76 GGLDRVYEIGKQFRNEGID-LTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYK--IKYHASGLDKDPIE-I  151 (179)
Q Consensus        76 ~~~~kvf~i~~~fR~E~~~-~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~--~~~~~~~~~~~~~~-~  151 (179)
                      +|++|||+||||||+|+++ .+|++||||+|||+++++++|+|+++|++|+.+++.+++.+.  +++.........+. .
T Consensus       205 ~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e~~~~~~~~~m~~~e~li~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  284 (450)
T PRK03932        205 MALGKVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFADLEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERL  284 (450)
T ss_pred             hccCCeEEeeeccccCCCCCccccccccccceEEeccCHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccccCchHHHHH
Confidence            8999999999999999985 599999999999999999999999999999999998876543  21111100001110 0


Q ss_pred             -c-cCCCcccchhhhccceeee
Q 030343          152 -D-FTPPFRSLNFIYSCKWYKI  171 (179)
Q Consensus       152 -~-~~~pf~rity~eAi~~l~~  171 (179)
                       + ++.||+||||.||++++..
T Consensus       285 ~~~~~~p~~rity~eA~~~l~~  306 (450)
T PRK03932        285 ENFIESPFPRITYTEAIEILQK  306 (450)
T ss_pred             HhhcCCCceEeEHHHHHHHHHH
Confidence             1 3579999999999987754

>TIGR00462 genX lysyl-tRNA synthetase-like protein GenX

Probab=100.00  E-value=1.5e-38  Score=265.58  Aligned_cols=138  Identities=30%  Similarity=0.542  Sum_probs=123.3

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeecccccccc-ccccCCCceecc---ccccceeeeeechhhhhhhhhhccchheeecc
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-GGAAARPFVTHH---NDLNMKLYMRIAPELYLKELVVGGLDRVYEIG   85 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-~~~~~~~f~~~~---~~~~~~~~L~~S~ql~~~~~~~~~~~kvf~i~   85 (179)
                      +++|+.+++++|+||.++||+||+||+|++++ +++++++|.+..   +.+++++||++|||+|+|+++++|++|||+||
T Consensus         1 l~~rs~i~~~ir~~f~~~gF~EV~TP~l~~~~~~e~~~~~F~~~y~~~~~~~~~~yL~~Spql~lk~ll~~g~~rVfeig   80 (304)
T TIGR00462         1 LRARARLLAAIRAFFAERGVLEVETPLLSPAPVTDPHLDAFATEFLGPDGEGRPLYLQTSPEYAMKRLLAAGSGPIFQIC   80 (304)
T ss_pred             ChHHHHHHHHHHHHHHHCCCEEEECCeEecCCCCCcCCcceeeeccCCCCCCcceeeecCHHHHHHHHHhccCCCEEEEc
Confidence            57899999999999999999999999999874 556688998732   23457999999999999999999999999999


Q ss_pred             cccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccchhhhc
Q 030343           86 KQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYS  165 (179)
Q Consensus        86 ~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rity~eA  165 (179)
                      ||||||+++.+|++||||||||+++.+++|+|+++|++++++++.                      ++.||+||||.||
T Consensus        81 p~FRaE~~~~rHl~EFtmLE~e~~~~d~~d~m~~~e~li~~i~~~----------------------~~~~~~~it~~ea  138 (304)
T TIGR00462        81 KVFRNGERGRRHNPEFTMLEWYRPGFDYHDLMDEVEALLQELLGD----------------------PFAPWERLSYQEA  138 (304)
T ss_pred             CceeCCCCCCCcccHHHhHHHHHHcCCHHHHHHHHHHHHHHHHHh----------------------cCCCcEEEEHHHH
Confidence            999999998999999999999999999999999999999998874                      1368999999999


Q ss_pred             ccee
Q 030343          166 CKWY  169 (179)
Q Consensus       166 i~~l  169 (179)
                      ++.+
T Consensus       139 ~~~~  142 (304)
T TIGR00462       139 FLRY  142 (304)
T ss_pred             HHHH
Confidence            7633

Many Gram-negative bacteria have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS. The protein is termed GenX after its designation in E. coli. Interestingly, genX often is located near a homolog of lysine-2,3-aminomutase. Its function is unknown.

>cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain

Probab=100.00  E-value=1.5e-38  Score=261.38  Aligned_cols=154  Identities=47%  Similarity=0.837  Sum_probs=134.5

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchheeecccccc
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFR   89 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kvf~i~~~fR   89 (179)
                      +++||.+++++|+||.++||+||+||+|+++++|+++++|.+....+|+++||++|||+|+|+++++|++|||+||||||
T Consensus         1 ~~~rs~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~~~~~g~~~~L~~Spql~~~~~~~~~~~~vf~i~~~fR   80 (269)
T cd00669           1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLFKKRLMVGGLDRVFEINRNFR   80 (269)
T ss_pred             CcHHHHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEeeecCCCCcEEeecCHHHHHHHHHhcCCCcEEEEeccee
Confidence            57999999999999999999999999999877777778887632224899999999999999888899999999999999


Q ss_pred             cccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccchhhhcccee
Q 030343           90 NEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWY  169 (179)
Q Consensus        90 ~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rity~eAi~~l  169 (179)
                      +|..+.+|++||||+|+|+++.+++|+|+++|++|+++++.+.+.+...+..       ...+++.||+||||.||++.|
T Consensus        81 ~e~~~~~hl~EF~~le~e~~~~~~~dvm~~~e~lv~~i~~~~~~~~~~~~~~-------~~~~~~~~~~rit~~ea~~~~  153 (269)
T cd00669          81 NEDLRARHQPEFTMMDLEMAFADYEDVIELTERLVRHLAREVLGVTAVTYGF-------ELEDFGLPFPRLTYREALERY  153 (269)
T ss_pred             CCCCCCCcccceeEEEEEEecCCHHHHHHHHHHHHHHHHHHHhccccccccc-------cccccCCCceEeeHHHHHHHh
Confidence            9988889999999999999999999999999999999999888765433311       113457899999999999988


Q ss_pred             e
Q 030343          170 K  170 (179)
Q Consensus       170 ~  170 (179)
                      +
T Consensus       154 ~  154 (269)
T cd00669         154 G  154 (269)
T ss_pred             C
Confidence            5

This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.

>PTZ00401 aspartyl-tRNA synthetase; Provisional

Probab=100.00  E-value=4.2e-38  Score=279.21  Aligned_cols=131  Identities=25%  Similarity=0.487  Sum_probs=121.0

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      -++.++++|++||.+++++|+||.++||+||+||+|++++++++++.|.+  +|||.++||++|||+|+|+++++|++||
T Consensus       205 R~~~~~~i~r~rs~i~~~~R~fl~~~gFiEV~TP~L~~~~~egga~~F~v--~yf~~~~~L~qSpql~kq~li~~g~~rV  282 (550)
T PTZ00401        205 RTPASGAIFRLQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKL--EYFNRFAYLAQSPQLYKQMVLQGDVPRV  282 (550)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCccccCCCCcccccccc--ccCCCCeecCCCHHHHHHHHHhcCCCCE
Confidence            36889999999999999999999999999999999998776666788976  7899999999999999998888899999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGS  134 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~  134 (179)
                      |+||||||+|++++ ||++||||||||+++. +++|+|+++|+||++++..+.+.
T Consensus       283 feI~p~FRaE~s~T~RHl~EFt~Le~E~~~~~~y~evm~~~e~l~~~i~~~l~~~  337 (550)
T PTZ00401        283 FEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERLATH  337 (550)
T ss_pred             EEEeCeEeCCCCCCCCCccchhhhhhhhHhcCCHHHHHHHHHHHHHHHHHHHHcc
Confidence            99999999999985 8999999999999985 79999999999999999988764

>cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain

Probab=100.00  E-value=1.3e-36  Score=251.09  Aligned_cols=143  Identities=31%  Similarity=0.593  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceecccc-ccceeeeeechhhhhhhhhhccchheeeccccc
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHND-LNMKLYMRIAPELYLKELVVGGLDRVYEIGKQF   88 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~~~~~kvf~i~~~f   88 (179)
                      +++||.+++++|+||.++||+||+||+|+++++++ +.+|.+.... .+..+||++|||+|+|+++++|++|||+|||||
T Consensus         1 l~~Rs~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g-~~~f~~~~~~~~~~~~~L~~Spql~lk~ll~~g~~~v~~i~~~f   79 (280)
T cd00777           1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEG-ARDFLVPSRLHPGKFYALPQSPQLFKQLLMVSGFDRYFQIARCF   79 (280)
T ss_pred             CchHHHHHHHHHHHHHHCCCEEEeCCeeecCCCCC-CCCceeccccCCCceeecccCHHHHHHHHHhcCcCcEEEeccce
Confidence            57999999999999999999999999999765543 3457653322 245566999999999999999999999999999


Q ss_pred             ccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccchhhhccce
Q 030343           89 RNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKW  168 (179)
Q Consensus        89 R~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rity~eAi~~  168 (179)
                      |+|+++++|.+||||+|||+++.+++|+|+++|++|+.+++.+.+.                 ++..||+||||.||++.
T Consensus        80 R~e~~~~~r~~Ef~~~e~e~~~~~~~dlm~~~e~li~~i~~~~~~~-----------------~~~~p~~rity~eA~~~  142 (280)
T cd00777          80 RDEDLRADRQPEFTQIDIEMSFVDQEDIMSLIEGLLKYVFKEVLGV-----------------ELTTPFPRMTYAEAMER  142 (280)
T ss_pred             eCCCCCCCccceeEEeEeeeccCCHHHHHHHHHHHHHHHHHHHhCC-----------------CCCCCCceeeHHHHHHH
Confidence            9999998777799999999999999999999999999999887642                 23579999999999998


Q ss_pred             ee
Q 030343          169 YK  170 (179)
Q Consensus       169 l~  170 (179)
                      ++
T Consensus       143 ~~  144 (280)
T cd00777         143 YG  144 (280)
T ss_pred             hC
Confidence            86

Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain.

>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.6e-36  Score=258.34  Aligned_cols=158  Identities=32%  Similarity=0.552  Sum_probs=140.8

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccC-Cceeeecccccc-ccccccCCCceeccccc-cceeeeeechhhhhhhhhhccc
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNL-DFLEVETPMMNM-IAGGAAARPFVTHHNDL-NMKLYMRIAPELYLKELVVGGL   78 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~-gF~ev~tP~l~~-~~~~~~~~~f~~~~~~~-~~~~~L~~S~ql~~~~~~~~~~   78 (179)
                      -+++++..+++||.+...+|+||.++ ||+||+||.|-. +|||+  +.|.+..... |.-+.|.||||+|+|++|++|+
T Consensus       170 R~~kmq~nLrlRS~~v~~iR~yl~n~~GFvevETPtLFkrTPgGA--~EFvVPtr~~~g~FYaLpQSPQQfKQlLMvsGi  247 (628)
T KOG2411|consen  170 RRPKMQNNLRLRSNVVKKIRRYLNNRHGFVEVETPTLFKRTPGGA--REFVVPTRTPRGKFYALPQSPQQFKQLLMVSGI  247 (628)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhhhcCeeeccCcchhccCCCcc--ceeecccCCCCCceeecCCCHHHHHHHHHHhch
Confidence            36889999999999999999999886 799999999976 57764  6777654433 6778899999999999999999


Q ss_pred             hheeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcc
Q 030343           79 DRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        79 ~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      +|+|+|++|||+|.....+.|||||+|.||+|.+.+|+|+++|+++++++....+                 .....||+
T Consensus       248 drYyQiARCfRDEdlR~DRQPEFTQvD~EMsF~~~~dim~liEdll~~~ws~~k~-----------------~~l~~PF~  310 (628)
T KOG2411|consen  248 DRYYQIARCFRDEDLRADRQPEFTQVDMEMSFTDQEDIMKLIEDLLRYVWSEDKG-----------------IQLPVPFP  310 (628)
T ss_pred             hhHHhHHhhhcccccCcccCCcceeeeeEEeccCHHHHHHHHHHHHHHhchhhcC-----------------CCCCCCcc
Confidence            9999999999999999999999999999999999999999999999998876432                 24478999


Q ss_pred             cchhhhccceeeeecCCCCC
Q 030343          159 SLNFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       159 rity~eAi~~l~~d~pd~~~  178 (179)
                      ||||.||+..||+||||.|.
T Consensus       311 riTY~~Am~~YG~DKPD~Rf  330 (628)
T KOG2411|consen  311 RITYADAMDKYGSDKPDTRF  330 (628)
T ss_pred             cccHHHHHHHhCCCCCcccC
Confidence            99999999999999999974

>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.4e-36  Score=250.86  Aligned_cols=168  Identities=21%  Similarity=0.328  Sum_probs=144.0

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceec------cccccceeeeeechhhhhhhhhhcc
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH------HNDLNMKLYMRIAPELYLKELVVGG   77 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~------~~~~~~~~~L~~S~ql~~~~~~~~~   77 (179)
                      ....+++|+||.+..++++||.+++|++|+||+|++++|++..+.|.+.      .++||+++||++|+|+|++ .++.+
T Consensus       126 ~~~~av~RvRs~~~~a~h~ffq~~~F~~i~tPiiTt~DCEGaGE~F~vtt~~d~~~~fFg~p~fLTVSgQLhlE-~~a~~  204 (446)
T KOG0554|consen  126 AKVGAVLRVRSALAFATHSFFQSHDFTYINTPIITTNDCEGAGEVFQVTTLTDYSKDFFGRPAFLTVSGQLHLE-AMACA  204 (446)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHcCceEecCcEeeccCCCCCcceEEEEecCcccccccCCceEEEEeceehHH-HHHhh
Confidence            3567999999999999999999999999999999999998878888763      3589999999999999999 78999


Q ss_pred             chheeecccccccccCCC-CCCCCcchhhHHHhhcc-hhHHHHHHHHHHHhhhhhhhccee--EEec--CCCCC-CCceE
Q 030343           78 LDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELTEKMLSGMIKEITGSYK--IKYH--ASGLD-KDPIE  150 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~-~~~lm~~~e~li~~~~~~~~~~~~--~~~~--~~~~~-~~~~~  150 (179)
                      +.|+|.+||+||+|++++ |||+||||+|.|++|++ ++|+|+++|.+++++++.+++++.  +++.  +..+. .+.+.
T Consensus       205 LsrvyTfgP~FRAEnS~tsRHLAEFwMlEaE~AF~~sl~d~m~~~e~~~K~mik~llek~~edmel~~k~~~~~~~~rl~  284 (446)
T KOG0554|consen  205 LSRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAESLDDLMSCAEAYIKHMIKYLLEKCIEDMELMHKNEDPGSIDRLE  284 (446)
T ss_pred             hcceEeeccceecccCCchhHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhheeccccCCCccchhh
Confidence            999999999999999986 89999999999999997 999999999999999999998753  3331  11111 22333


Q ss_pred             eccCCCcccchhhhccceeeee
Q 030343          151 IDFTPPFRSLNFIYSCKWYKIY  172 (179)
Q Consensus       151 ~~~~~pf~rity~eAi~~l~~d  172 (179)
                      ..++.+|.+|||.||+++|..-
T Consensus       285 ~~~~~~~~~~tYteAie~L~~a  306 (446)
T KOG0554|consen  285 LVAKENLLRITYTEAIELLQKA  306 (446)
T ss_pred             hhccchhhhccHHHHHHHHHHh
Confidence            3456779999999999998543

>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.8e-36  Score=253.28  Aligned_cols=166  Identities=23%  Similarity=0.401  Sum_probs=143.6

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhee
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVY   82 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kvf   82 (179)
                      .|.++++|++++.++.++|+++..+||+||+||.|.+.+.++++..|.+  +||+.++||+||||||+||+++++++|||
T Consensus       221 tptnqAiFriq~gvc~~FRe~L~~kgF~EIhTpKli~asSEGGanvF~v--~Yfk~~A~LAQSPQLyKQMaI~gdf~rVy  298 (533)
T KOG0556|consen  221 TPTNQAIFRIQAGVCFAFREYLRSKGFVEIHTPKLIGASSEGGANVFRV--SYFKQKAYLAQSPQLYKQMAICGDFERVY  298 (533)
T ss_pred             cccchheeehHHHHHHHHHHHHHhcCcceecccccccccCCCCceeEEE--EeccCcchhhcChHHHHHHHHhcchhhee
Confidence            5788999999999999999999999999999999998776666788986  89999999999999999999999999999


Q ss_pred             ecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           83 EIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        83 ~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      +||||||+|++.+ ||+.||+-||.||++. .|+|+|+++.+++..+++.+.+.+.-++...+......+..+..|--|+
T Consensus       299 eIGpVfRAEdSnthRhltEFvGLD~EMaf~~hYhEVm~~i~~lfv~IF~~l~ery~~Eie~Vr~qyp~e~fkf~~~~lrl  378 (533)
T KOG0556|consen  299 EIGPVFRAEDSNTHRHLTEFVGLDLEMAFNEHYHEVMDTIGELFVFIFKGLRERYAKEIETVRKQYPFEPFKFLEPPLRL  378 (533)
T ss_pred             eecceeeccccchhhhhHHhhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCceEe
Confidence            9999999999886 8999999999999996 6999999999999999999988765444222111111123445777899


Q ss_pred             hhhhccceee
Q 030343          161 NFIYSCKWYK  170 (179)
Q Consensus       161 ty~eAi~~l~  170 (179)
                      +|.||+++|.
T Consensus       379 ~~~e~v~mLr  388 (533)
T KOG0556|consen  379 TFKEGVAMLR  388 (533)
T ss_pred             ehHHHHHHHH
Confidence            9999999984

>PRK09350 poxB regulator PoxA; Provisional

Probab=100.00  E-value=2.3e-34  Score=240.55  Aligned_cols=139  Identities=32%  Similarity=0.502  Sum_probs=120.4

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc-ccccCCCceeccc----cccceeeeeechhhhhhhhhhccchhe
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-GGAAARPFVTHHN----DLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-~~~~~~~f~~~~~----~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      ..++++|+.+++++|+||.++||+||+||+|+..+ .++...+|.+...    ..|+.+||++|||+++|++++++++||
T Consensus         2 ~~~l~~r~~i~~~ir~~f~~~gf~EV~TP~l~~~~~~~~~~~~f~~~y~~~~~~~~~~~~L~~SPe~~~kr~la~~~~rv   81 (306)
T PRK09350          2 IPNLLKRAKIIAEIRRFFADRGVLEVETPILSQATVTDIHLVPFETRFVGPGASQGKTLWLMTSPEYHMKRLLAAGSGPI   81 (306)
T ss_pred             hHHHHHHHHHHHHHHHHHHHCCCEEEECCeEecccCCCccCCceeeeeccccccCCcceEEecCHHHHHHHHhhccccce
Confidence            47899999999999999999999999999998754 3445566765321    237899999999999999998999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||+|+++.+|++||||+|||+++++++|+|+++|+||+.++..                        .||++|+
T Consensus        82 f~i~~~FR~e~~~~~H~~EFt~lE~y~~~~d~~dlm~~~E~li~~i~~~------------------------~~~~~i~  137 (306)
T PRK09350         82 FQICKSFRNEEAGRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQVLDC------------------------EPAESLS  137 (306)
T ss_pred             EEecceeecCCCCCCCCcHHHhhhhhhhCCCHHHHHHHHHHHHHHHHhc------------------------CCceEEE
Confidence            9999999999998899999999999999999999999999999987642                        4677888


Q ss_pred             hhhcccee
Q 030343          162 FIYSCKWY  169 (179)
Q Consensus       162 y~eAi~~l  169 (179)
                      |.||++.+
T Consensus       138 ~~eaf~~~  145 (306)
T PRK09350        138 YQQAFLRY  145 (306)
T ss_pred             HHHHHHHH
Confidence            88887544

>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=1.7e-32  Score=229.97  Aligned_cols=160  Identities=22%  Similarity=0.372  Sum_probs=137.0

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc--cccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI--AGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~--~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .+.++++++|+.+++++|++|.+.||+||.+|.+.++  .||+  -.|..  +|+|.++||+||+|||++.++ +.+++|
T Consensus       237 e~~s~vLK~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQVEGGs--TLFkl--dYyGEeAyLTQSSQLYLEtcl-pAlgdv  311 (545)
T KOG0555|consen  237 ENASKVLKARAALLRAMRDHYFERGYTEVTPPTMVQTQVEGGS--TLFKL--DYYGEEAYLTQSSQLYLETCL-PALGDV  311 (545)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhcCceecCCCceEEEEecCcc--eEEee--cccCchhhccchhHHHHHHhh-hhcCce
Confidence            4678999999999999999999999999999999875  4554  45764  899999999999999999765 679999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEe-cCCCCCCCceEeccCCCccc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKY-HASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~pf~r  159 (179)
                      |+|+++||+|.+.+ |||+|||++|+|++|.+++++|+.+|+|+++.+.+++++....+ ...+++.+    ..++||.|
T Consensus       312 y~I~~SyRAEkSrTRRHLsEytHVEaE~afltfd~ll~~iE~lvc~~vdr~l~dp~~~li~~lnP~f~----~P~~PFkR  387 (545)
T KOG0555|consen  312 YCIQQSYRAEKSRTRRHLSEYTHVEAECAFLTFDDLLDRIEALVCDSVDRLLEDPIAPLIKQLNPDFK----APKRPFKR  387 (545)
T ss_pred             eEecHhhhhhhhhhhhhhhhheeeeeecccccHHHHHHHHHHHHHHHHHHHHhChhhhhHHHhCCCCC----CCCCchhc
Confidence            99999999999987 69999999999999999999999999999999999988643321 22233321    23799999


Q ss_pred             chhhhccceeeee
Q 030343          160 LNFIYSCKWYKIY  172 (179)
Q Consensus       160 ity~eAi~~l~~d  172 (179)
                      |.|.|||++|+..
T Consensus       388 m~Y~dAI~wLke~  400 (545)
T KOG0555|consen  388 MNYSDAIEWLKEH  400 (545)
T ss_pred             CCHHHHHHHHHhc
Confidence            9999999999654

>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=1.9e-30  Score=210.05  Aligned_cols=123  Identities=33%  Similarity=0.551  Sum_probs=109.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccccc-ccCCCceecc----ccccceeeeeechhhhhhhhhhccchhee
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGG-AAARPFVTHH----NDLNMKLYMRIAPELYLKELVVGGLDRVY   82 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~-~~~~~f~~~~----~~~~~~~~L~~S~ql~~~~~~~~~~~kvf   82 (179)
                      ..+..|+.|+++||+||.++||+||+||.|+.+++. ....+|+|..    ...+.+.||++||++++|++++.|.++||
T Consensus        14 ~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~a~vtd~hL~~F~Te~~~~~~~~~~~l~L~TSPEy~mKrLLAag~~~if   93 (322)
T COG2269          14 DNLLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLLAAGSGPIF   93 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCceEecchHhhcCCCCccceeeeeeEEeccCccccceeeeecCcHHHHHHHHHccCCcch
Confidence            458899999999999999999999999999877643 3456777621    12357899999999999999999999999


Q ss_pred             ecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhh
Q 030343           83 EIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKE  130 (179)
Q Consensus        83 ~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~  130 (179)
                      +||+||||++.+..|.|||||+|||.+++++..+|+.+.+|+..+++.
T Consensus        94 ql~kvfRN~E~G~~H~PEFTMLEWYrv~~d~~~lm~e~~~Ll~~vl~~  141 (322)
T COG2269          94 QLGKVFRNEEMGRLHNPEFTMLEWYRVGCDYYRLMNEVDDLLQLVLEC  141 (322)
T ss_pred             hhhHHHhcccccccCCCceeEeeeeccCCcHHHHHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999999999887774

>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed

Probab=99.42  E-value=1.8e-13  Score=118.15  Aligned_cols=125  Identities=21%  Similarity=0.366  Sum_probs=92.2

Q ss_pred             ChhhhhHHHH-----HHHHHHHHHHhhccCCceeeecccccccc----ccccC-CCceeccccccceeeee--echhhhh
Q 030343            3 NVEVRQIFKT-----RSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAA-RPFVTHHNDLNMKLYMR--IAPELYL   70 (179)
Q Consensus         3 ~~~~~~~~~~-----rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~-~~f~~~~~~~~~~~~L~--~S~ql~~   70 (179)
                      ++..++++.+     .+.+.+++|++|.+.||.||.||.|++..    .+... ..+.......+...+|+  ..|+++.
T Consensus       191 ~~~~~~~~~~g~~~~~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~~e~~g~~~g~~i~~~my~ideel~LRpsLtPsLlr  270 (417)
T PRK09537        191 KNDLKQMYEEDREDYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPGLYN  270 (417)
T ss_pred             chhhHHhhccCCCCHHHHHHHHHHHHHHHCCCEEEECCeeecHHHHHHhCCCCcccchhhheeeCCceEehhhhHHHHHH
Confidence            4567788888     99999999999999999999999997531    11110 11100011134568888  5677765


Q ss_pred             hhhh----hccchheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           71 KELV----VGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        71 ~~~~----~~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ....    .....|+|+||+|||+|..+.+|++||+|++++..+.  ++.|++.+++++++.+
T Consensus       271 ~la~n~k~~~~P~RIFEIG~VFR~E~~g~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~L  333 (417)
T PRK09537        271 YLRKLDRILPDPIKIFEIGPCYRKESDGKEHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHL  333 (417)
T ss_pred             HHHhhhhcccCCeeEEEEeceEecCCCCCCCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHC
Confidence            4211    1234689999999999998889999999999999875  4889998888888765

>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain

Probab=99.42  E-value=2.2e-13  Score=106.44  Aligned_cols=116  Identities=36%  Similarity=0.470  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHhhccCCceeeecccccccc----ccccCCCceeccccccceeeeeechhhhhhhhhhc----cchheee
Q 030343           12 TRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG----GLDRVYE   83 (179)
Q Consensus        12 ~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~----~~~kvf~   83 (179)
                      +|+.+.+.+|++|.+.||.||.||.+++..    .+...+......+..+...+|++|....+...++.    ...|+|+
T Consensus         1 ~~~~~~~~~r~~l~~~Gf~Ev~t~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfe   80 (211)
T cd00768           1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHIRKLPLRLAE   80 (211)
T ss_pred             CHHHHHHHHHHHHHHcCCEEeEcceecHHHHHHHcCccHhheeeeecCCCCEEEECCCCcHHHHHHHHhhcccCCEEEEE
Confidence            378899999999999999999999998742    11111112222234567789999999988766654    4579999


Q ss_pred             cccccccccCCC--CCCCCcchhhHHHhhcc------hhHHHHHHHHHHHhh
Q 030343           84 IGKQFRNEGIDL--THNPEFTTCEFYMAFAD------YNDLMELTEKMLSGM  127 (179)
Q Consensus        84 i~~~fR~E~~~~--~Hl~EF~~le~e~~~~~------~~~lm~~~e~li~~~  127 (179)
                      +|+|||.|..+.  +|+.||+|+++++.+.+      +.++++.++++++.+
T Consensus        81 ig~vfr~e~~~~~~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~~l  132 (211)
T cd00768          81 IGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRAL  132 (211)
T ss_pred             EcceeecCCCccccccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHHHc
Confidence            999999987655  78999999999998853      577888888888655

Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.

>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated

Probab=99.33  E-value=2e-12  Score=109.01  Aligned_cols=116  Identities=20%  Similarity=0.233  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHhhccCCceeeeccccccc---------cccccCCCceeccccccceeeee--echhhhhhhhhhccchhe
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMI---------AGGAAARPFVTHHNDLNMKLYMR--IAPELYLKELVVGGLDRV   81 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~---------~~~~~~~~f~~~~~~~~~~~~L~--~S~ql~~~~~~~~~~~kv   81 (179)
                      -+.+.+.||++|...||.|+.+|.|++.         |.+++++..+. ..|.+....||  +||.+..-+.-.....|+
T Consensus       110 l~~~~~~Ir~if~~mGF~ev~gpeIes~~~NFdaLn~P~dHPaR~~~D-TfyI~~~~lLRThTSp~qir~L~~~~~Piri  188 (339)
T PRK00488        110 ITQTIEEIEDIFVGMGFEVAEGPEIETDYYNFEALNIPKDHPARDMQD-TFYIDDGLLLRTHTSPVQIRTMEKQKPPIRI  188 (339)
T ss_pred             HHHHHHHHHHHHHhCCCEEEeCCccccHHHHHHHhCCCCCCcccccCc-eEEEcCCceeeccCcHHHHHHHHhcCCCeEE
Confidence            4678999999999999999999999863         34455555542 23445566776  667655432222345699


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhh--cchhHHHHHHHHHHHhhhh
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~lm~~~e~li~~~~~  129 (179)
                      |++|+|||++..|++|.++|+|+|+-+++  .++.++...++.+++.++.
T Consensus       189 f~~G~VyR~D~~DatH~~~FhQleglvvd~~vtf~dLK~~L~~fl~~~fg  238 (339)
T PRK00488        189 IAPGRVYRNDSDDATHSPMFHQVEGLVVDKNISFADLKGTLEDFLKAFFG  238 (339)
T ss_pred             EEeeeEEEcCCCCcccCcceeeEEEEEEeCCCCHHHHHHHHHHHHHHHcC
Confidence            99999999999999999999999997777  4799999999999999886

>PF01409 tRNA-synt_2d: tRNA synthetases class II core domain (F); InterPro: IPR002319 The aminoacyl-tRNA synthetases (6

Probab=99.32  E-value=1.8e-12  Score=105.52  Aligned_cols=116  Identities=25%  Similarity=0.322  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHhhccCCceeeeccccccc---------cccccCCCc----eeccccc--cceeeeee--chhhhhhhhh-
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMI---------AGGAAARPF----VTHHNDL--NMKLYMRI--APELYLKELV-   74 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~---------~~~~~~~~f----~~~~~~~--~~~~~L~~--S~ql~~~~~~-   74 (179)
                      -+.+.+.++++|...||.|+.+|.+++.         |.++.++..    .+.....  .....||+  ||.+..  .+ 
T Consensus        19 ~~~~~~~i~~~~~~~Gf~e~~~~~v~s~~~nFD~Ln~p~dHpaR~~~Dtfyi~~p~~~~~~~~vLRThts~~~~~--~l~   96 (247)
T PF01409_consen   19 ITKFIREIRDIFVGMGFQEVEGPEVESEFYNFDALNIPQDHPARDMQDTFYISNPYSAEEDYSVLRTHTSPGQLR--TLN   96 (247)
T ss_dssp             HHHHHHHHHHHHHCTTSEEESTTSEEEHHHHTGGGTSTTTSCGGCGTTSEBSCSSSBCECSSEEE-SSTHHHHHH--HHT
T ss_pred             HHHHHHHHHHHHHHCCCeEeeCCeEEeeHHHHHhhCcCCCccccccccceeeeccccccchhhhhhhhhhHHHHH--HHH
Confidence            4678899999999999999999999763         344444333    2211222  56677774  444442  33 


Q ss_pred             --hccchheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhhhhh
Q 030343           75 --VGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGMIKE  130 (179)
Q Consensus        75 --~~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~~~~  130 (179)
                        .....|+|++|+|||+|..|++|+++|+|+|.-+++.  ++.+++..++.+++.++..
T Consensus        97 ~~~~~p~kif~iG~VyR~D~~D~th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lfG~  156 (247)
T PF01409_consen   97 KHRPPPIKIFEIGKVYRRDEIDATHLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELFGI  156 (247)
T ss_dssp             TTSHSSEEEEEEEEEESSSCSBSSBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHHTT
T ss_pred             HhcCCCeEEEecCceEecCCcccccCccceeEeeEEEecccchhHHHHHHHHHHHHHhhc
Confidence              3456899999999999999999999999999988774  6999999999999988763

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases [].; GO: 0000049 tRNA binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3TUP_A 3HFV_A 3CMQ_A 3TEG_A 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B ....

>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]

Probab=99.29  E-value=3.1e-12  Score=107.45  Aligned_cols=117  Identities=22%  Similarity=0.296  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHhhccCCceeeeccccccc---------cccccCCCceeccccccce---eeee--echhhhhhhhhhcc-
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMI---------AGGAAARPFVTHHNDLNMK---LYMR--IAPELYLKELVVGG-   77 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~---------~~~~~~~~f~~~~~~~~~~---~~L~--~S~ql~~~~~~~~~-   77 (179)
                      -..+++.++++|.+.||.++..|.+++.         |..++++..+. ..|++..   .-||  +||-....+.-... 
T Consensus       113 l~~~~e~i~~iF~~mGF~~~~gp~IE~d~~NFDaLn~P~dHPARdmqD-TFy~~~~~~~~lLRTHTs~vq~R~l~~~~~~  191 (335)
T COG0016         113 LTQTIEEIEDIFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQD-TFYLKDDREKLLLRTHTSPVQARTLAENAKI  191 (335)
T ss_pred             HHHHHHHHHHHHHHcCceeccCCcccccccchhhhcCCCCCCcccccc-eEEEcCCCCceeecccCcHhhHHHHHhCCCC
Confidence            3568899999999999999999988863         45566666653 2344432   4565  56655444222122 


Q ss_pred             chheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhhhhh
Q 030343           78 LDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGMIKE  130 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~~~~  130 (179)
                      ..|+|++|+|||+|..|++|+++|+|+|.-+++-  ++.+|+.+++++++.++..
T Consensus       192 P~k~~~~grvyR~D~~DaTHs~~FhQiEGlvvd~~~s~~~Lkg~L~~f~~~~fg~  246 (335)
T COG0016         192 PIKIFSPGRVYRNDTVDATHSPEFHQIEGLVVDKNISFADLKGTLEEFAKKFFGE  246 (335)
T ss_pred             CceEecccceecCCCCCcccchheeeeEEEEEeCCccHHHHHHHHHHHHHHhcCC
Confidence            7899999999999999999999999999877664  6899999999999998863

>TIGR02367 PylS pyrrolysyl-tRNA synthetase

Probab=99.29  E-value=4e-12  Score=110.04  Aligned_cols=116  Identities=22%  Similarity=0.335  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHhhccCCceeeecccccccc----ccc-cCCCceeccccccceeeee--echhhhhhhhh----hccchh
Q 030343           12 TRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA-AARPFVTHHNDLNMKLYMR--IAPELYLKELV----VGGLDR   80 (179)
Q Consensus        12 ~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~-~~~~f~~~~~~~~~~~~L~--~S~ql~~~~~~----~~~~~k   80 (179)
                      -.+.+.+.+|++|...||.||.||+|++..    .+. ......-....++...+||  ..|+++.....    .....|
T Consensus       241 ~~~~Led~IRevfvg~GFqEV~TPtLt~eE~~E~m~~~~g~eI~n~Iyk~ee~lvLRPdLTPsLaR~La~N~~~l~~PqK  320 (453)
T TIGR02367       241 YLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPNLYNYLRKLDRALPDPIK  320 (453)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCeecchHHHHhhcCccCCcccccceEecCceEecccCHHHHHHHHHHhhhhccCCee
Confidence            467899999999999999999999997321    111 0000100011134567888  66777743211    123569


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      +|+||+|||+|..+.+|+.||+|+++++++.  ++.|+..++.++++.+
T Consensus       321 IFEIGkVFR~E~~~~thlREF~QL~~eIaG~~atfaDlealL~e~Lr~L  369 (453)
T TIGR02367       321 IFEIGPCYRKESDGKEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLDHL  369 (453)
T ss_pred             EEEEcCeEecCCCCCCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999885  5888888777777654

PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.

>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=99.28  E-value=6.7e-12  Score=109.10  Aligned_cols=125  Identities=18%  Similarity=0.227  Sum_probs=96.8

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc---CCCceeccccccceeeeeechhhhhhh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA---ARPFVTHHNDLNMKLYMRIAPELYLKE   72 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~---~~~f~~~~~~~~~~~~L~~S~ql~~~~   72 (179)
                      +++..-.-...|.++.+.+|+.|...||.||.||++...+      |+.+   .+...+..+..|+.+.||.-..-..-+
T Consensus        10 ~~D~lp~d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~telf~r~~Ge~td~v~kemY~F~Dkggr~laLRpe~Tapv~R   89 (429)
T COG0124          10 TRDFLPEDMALREYIESTIRKVFESYGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFKDKGGRSLALRPELTAPVAR   89 (429)
T ss_pred             ccccChHHHHHHHHHHHHHHHHHHHcCCEeccCccccchhHhhhccCCcccccccceEEEEeCCCCEEEecccCcHHHHH
Confidence            3455667788999999999999999999999999998642      3331   244444566788899998544444444


Q ss_pred             hhh------ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           73 LVV------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        73 ~~~------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      +++      ....|.|++|||||.|+++..+..||+|+++|+.+.+    -.|++.++-++++.
T Consensus        90 ~~~en~~~~~~p~k~yy~g~vfRyErPQ~GR~RqF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~~  153 (429)
T COG0124          90 AVAENKLDLPKPLKLYYFGPVFRYERPQKGRYRQFYQFGVEVIGSDSPDADAEVIALAVEILEA  153 (429)
T ss_pred             HHHhccccccCCeeEEEecceecCCCCCCCCceeeEEcCeEEeCCCCcccCHHHHHHHHHHHHH
Confidence            433      2347999999999999999999999999999999963    67888887777764

>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional

Probab=99.20  E-value=1.9e-11  Score=107.61  Aligned_cols=112  Identities=21%  Similarity=0.237  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHhhccCCceeeecc-ccccc---------cccccCCCceecccccc-------------------------
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETP-MMNMI---------AGGAAARPFVTHHNDLN-------------------------   57 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP-~l~~~---------~~~~~~~~f~~~~~~~~-------------------------   57 (179)
                      -..+.+.+|++|.+.||.|+.+| .+.+.         |..++++..+. ..|.+                         
T Consensus       231 l~~~~~~i~~if~~mGF~e~~~~~~ves~f~NFDaL~~PqdHPARd~~D-TFyl~~~~~~~~~~~p~~~~~~Vk~~He~G  309 (494)
T PTZ00326        231 LLKVRREFREILLEMGFEEMPTNRYVESSFWNFDALFQPQQHPARDAQD-TFFLSKPETSKVNDLDDDYVERVKKVHEVG  309 (494)
T ss_pred             HHHHHHHHHHHHHhCCCEEecCCCCccccchhhhhhcCCCCCCCCCcCc-eEEEcCccccccccCcHHHHHHHHHHhccC
Confidence            35788899999999999999876 56653         44555554432 11111                         


Q ss_pred             ----------------ceeeee--echhhhhhhhhhc-----------cchheeecccccccccCCCCCCCCcchhhHHH
Q 030343           58 ----------------MKLYMR--IAPELYLKELVVG-----------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYM  108 (179)
Q Consensus        58 ----------------~~~~L~--~S~ql~~~~~~~~-----------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~  108 (179)
                                      ...-||  +|+....  .++.           ...|+|+||+|||+|..|++|++||+|+|+.+
T Consensus       310 ~~gS~Gw~y~W~~e~a~~~vLRtHtTa~~aR--~l~~~~~~~~~~~~~~P~k~fsigrVfR~d~~DatH~~eFhQ~Eg~v  387 (494)
T PTZ00326        310 GYGSIGWRYDWKLEEARKNILRTHTTAVSAR--MLYKLAQEYKKTGPFKPKKYFSIDRVFRNETLDATHLAEFHQVEGFV  387 (494)
T ss_pred             CcCCcccccccccchhccccccCCCCHHHHH--HHHhhccccccccCCCCceEEecCCEecCCCCCCCcCceeEEEEEEE
Confidence                            234555  3333322  1221           26799999999999999999999999999999


Q ss_pred             hhc--chhHHHHHHHHHHHhh
Q 030343          109 AFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus       109 ~~~--~~~~lm~~~e~li~~~  127 (179)
                      ++.  ++.+|+.++.++++.+
T Consensus       388 i~~~~s~~~L~~~l~~f~~~l  408 (494)
T PTZ00326        388 IDRNLTLGDLIGTIREFFRRI  408 (494)
T ss_pred             EeCCCCHHHHHHHHHHHHHhc
Confidence            885  5889999988888775

>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain

Probab=99.17  E-value=3.5e-11  Score=105.59  Aligned_cols=114  Identities=22%  Similarity=0.238  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHhhccCCceee-eccccccc---------cccccCCCceecccccc-------------------------
Q 030343           13 RSKIVSYIRRFLDNLDFLEV-ETPMMNMI---------AGGAAARPFVTHHNDLN-------------------------   57 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev-~tP~l~~~---------~~~~~~~~f~~~~~~~~-------------------------   57 (179)
                      -..+.+.||++|.+.||.|+ ..|.+.+.         |..++++..+. ..|.+                         
T Consensus       223 l~~~~~ei~~if~~mGF~e~~~g~~ves~f~NFDaL~~PqdHPARd~qD-TFyl~~~~~~~~~p~~~~erVk~~He~G~~  301 (492)
T PLN02853        223 LLKVRQQFRKIFLQMGFEEMPTNNFVESSFWNFDALFQPQQHPARDSHD-TFFLKAPATTRQLPEDYVERVKTVHESGGY  301 (492)
T ss_pred             HHHHHHHHHHHHHhCCCEEecCCCCeechhhhhhhhcCCCCCCCCCccc-eEEEcCccccccCcHHHHHHHHHHHhcCCC
Confidence            35678899999999999999 57888763         45555554432 11111                         


Q ss_pred             --------------ceeeee--echhhhhhhh-hh-c--cchheeecccccccccCCCCCCCCcchhhHHHhhc--chhH
Q 030343           58 --------------MKLYMR--IAPELYLKEL-VV-G--GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYND  115 (179)
Q Consensus        58 --------------~~~~L~--~S~ql~~~~~-~~-~--~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~  115 (179)
                                    ...-||  +|+-....+. ++ .  ...|+|+||+|||+|..|++|++||+|+|.-+++.  ++.+
T Consensus       302 gS~Gw~y~W~~~~a~~~vLRTHTTa~s~r~L~~~~~~~~~p~k~fsigrVfR~d~iDatH~~eFhQ~EG~vvd~~~t~~~  381 (492)
T PLN02853        302 GSIGYGYDWKREEANKNLLRTHTTAVSSRMLYKLAQKGFKPKRYFSIDRVFRNEAVDRTHLAEFHQVEGLVCDRGLTLGD  381 (492)
T ss_pred             CccccccccccchhcccccCCCCCHHHHHHHHHhhccCCCCcEEEeccceecCCCCCcccCccceeEEEEEEeCCCCHHH
Confidence                          234554  3332221111 11 1  35699999999999999999999999999988864  6999


Q ss_pred             HHHHHHHHHHhh
Q 030343          116 LMELTEKMLSGM  127 (179)
Q Consensus       116 lm~~~e~li~~~  127 (179)
                      |+.+++++++.+
T Consensus       382 L~g~l~~f~~~l  393 (492)
T PLN02853        382 LIGVLEDFFSRL  393 (492)
T ss_pred             HHHHHHHHHHHc
Confidence            999999998875

>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain

Probab=99.13  E-value=1.5e-10  Score=94.71  Aligned_cols=116  Identities=18%  Similarity=0.228  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeecccccccc----c-cc--cCCCceeccccccceeeeeechhhhhhhhhh------c
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----G-GA--AARPFVTHHNDLNMKLYMRIAPELYLKELVV------G   76 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~-~~--~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~------~   76 (179)
                      .+++..+.+.+++.|.++||.||.||.+.+..    + +.  ..+.|.. .+..|+.+.|+.-.....-+..+      .
T Consensus         2 ~~~~~~l~~~l~~~f~~~Gy~~v~tP~le~~~~~~~~~~~~~~~~~~~~-~d~~g~~l~LRpd~T~~iaR~~a~~~~~~~   80 (261)
T cd00773           2 AALRRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDEVSKEMYRF-KDKGGRDLALRPDLTAPVARAVAENLLSLP   80 (261)
T ss_pred             hHHHHHHHHHHHHHHHHcCCEEeeccceeeHHHhcccccccccceEEEE-ECCCCCEEEeCCCCcHHHHHHHHhcCccCC
Confidence            46789999999999999999999999998742    1 11  1223332 24456788888444333333332      2


Q ss_pred             cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           77 GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        77 ~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      ...|+|++|+|||.|..+..|..||+|+++|+.+.+    ..|++.++.++++.
T Consensus        81 ~p~k~~y~g~vfR~e~~~~g~~re~~Q~g~Eiig~~~~~~daE~i~l~~~~l~~  134 (261)
T cd00773          81 LPLKLYYIGPVFRYERPQKGRYREFYQVGVEIIGSDSPLADAEVIALAVEILEA  134 (261)
T ss_pred             CCeEEEEEcCEEecCCCCCCCccceEEeceeeeCCCChHHHHHHHHHHHHHHHH
Confidence            356999999999999998889999999999998863    23455555555543

HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.

>TIGR00442 hisS histidyl-tRNA synthetase

Probab=99.08  E-value=3.3e-10  Score=97.79  Aligned_cols=122  Identities=17%  Similarity=0.206  Sum_probs=85.6

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc-----CCCceeccccccceeeeeechhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA-----ARPFVTHHNDLNMKLYMRIAPELYLKEL   73 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~-----~~~f~~~~~~~~~~~~L~~S~ql~~~~~   73 (179)
                      .....-.+++..+.+.+++.|.++||.||.||++....     +|..     .+.|.. .+..|+.+.|+.-.....-+.
T Consensus         8 d~~p~~~~~~~~i~~~i~~~f~~~Gy~~i~~P~le~~~~~~~~~g~~~~~~~~~~~~~-~d~~g~~l~LRpD~T~~iaR~   86 (397)
T TIGR00442         8 DFLPEEMIKWQYIEETIREVFELYGFKEIRTPIFEYTELFARKVGEETDIVEKEMYTF-KDKGGRSLTLRPEGTAPVARA   86 (397)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHcCCeEecCcccchHHHhhhccCccccccccceEEE-ECCCCCEEeecCCCcHHHHHH
Confidence            34556778999999999999999999999999998631     1111     122332 244577888884433333333


Q ss_pred             hhc------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           74 VVG------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        74 ~~~------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      ++.      ...|+|++|+|||.|+.+..|..||+|+++|+.+.+    -.|++.++.+++..
T Consensus        87 ~~~~~~~~~~p~r~~y~g~vfR~e~~~~gr~ref~Q~g~eiig~~~~~~d~E~i~l~~e~l~~  149 (397)
T TIGR00442        87 VIENKLLLPKPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSDSPLADAEIIALAAEILKE  149 (397)
T ss_pred             HHhcccccCCCeEEEEEcCeecCCCCCCCcccceEEcCeeeeCCCCHHHHHHHHHHHHHHHHH
Confidence            321      246999999999999988889999999999998854    23555555555543

This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.

>PLN02530 histidine-tRNA ligase

Probab=99.06  E-value=3.7e-10  Score=100.20  Aligned_cols=125  Identities=14%  Similarity=0.153  Sum_probs=91.5

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc------cccccCCCceeccccccceeeeeechhhhhhhhhhc
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI------AGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG   76 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~------~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~   76 (179)
                      ++....-.+.+..+.+.+++.|..+||.||.||++...      .|+...+......+..|+.+.||.-.....-++++.
T Consensus        77 ~D~lp~~~~~~~~i~~~~~~~~~~~Gy~~I~tP~lE~~el~~~~~g~~~~~~~y~f~D~~g~~l~LRpD~T~~iaR~~~~  156 (487)
T PLN02530         77 RDFPPEDMRLRNWLFDHFREVSRLFGFEEVDAPVLESEELYIRKAGEEITDQLYNFEDKGGRRVALRPELTPSLARLVLQ  156 (487)
T ss_pred             CcCCHHHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHhccccCcccccceEEEECCCCCEEecCCCCcHHHHHHHHh
Confidence            34556678899999999999999999999999999873      122222222222455677888885544444444432


Q ss_pred             ------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHhh
Q 030343           77 ------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSGM  127 (179)
Q Consensus        77 ------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~~  127 (179)
                            ..-|.|++|+|||.|+.+..+..||+|+++|+.+.+    ..|++.++.+.++.+
T Consensus       157 ~~~~~~~P~r~~y~g~vfR~e~~q~gr~REf~Q~giEiiG~~~~~aDaEvi~l~~~~l~~l  217 (487)
T PLN02530        157 KGKSLSLPLKWFAIGQCWRYERMTRGRRREHYQWNMDIIGVPGVEAEAELLAAIVTFFKRV  217 (487)
T ss_pred             cccccCCCeEEEEEcCEEcCcCCCCCCccceEEcCeeEeCCCCcchhHHHHHHHHHHHHHc
Confidence                  235999999999999999999999999999998853    557777766666543

>CHL00201 syh histidine-tRNA synthetase; Provisional

Probab=99.06  E-value=3.7e-10  Score=98.77  Aligned_cols=123  Identities=13%  Similarity=0.161  Sum_probs=88.5

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc----CCCceeccccccceeeeeechhhhhhh
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA----ARPFVTHHNDLNMKLYMRIAPELYLKE   72 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~   72 (179)
                      ++....-...+..+.+.+++.|..+||.+|.||++....      |+..    .+.|.. .+..|+.+.||.-.....-+
T Consensus        11 ~D~lp~~~~~~~~i~~~i~~~~~~~Gy~~I~TP~~E~~e~~~~~~G~~~~~~~~~my~~-~d~~g~~l~LRpd~T~~iaR   89 (430)
T CHL00201         11 KDILPDEINYWQFIHDKALTLLSLANYSEIRTPIFENSSLYDRGIGETTDIVNKEMYRF-TDRSNRDITLRPEGTAGIVR   89 (430)
T ss_pred             CcCCHHHHHHHHHHHHHHHHHHHHcCCeeecCcccchHHHHhcccCCcccccccceEEE-EcCCCCEEEeCCCCcHHHHH
Confidence            344556778899999999999999999999999998631      2221    123332 34456788898544444444


Q ss_pred             hhhc-------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           73 LVVG-------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        73 ~~~~-------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      +.+.       .+-|.|++|+|||.|+++.....||+|+++|+.+.+    -.|++.++-+.++.
T Consensus        90 ~~~~~~~~~~~~p~R~~y~g~vfR~e~~q~GR~Ref~Q~g~EiiG~~~~~aD~Evi~l~~~~l~~  154 (430)
T CHL00201         90 AFIENKMDYHSNLQRLWYSGPMFRYERPQSGRQRQFHQLGIEFIGSIDARADTEVIHLAMQIFNE  154 (430)
T ss_pred             HHHHccccccCCCeEEEEEcceecCCCCcCCccceeEEeceEEECCCChhhHHHHHHHHHHHHHH
Confidence            3211       235999999999999999999999999999998853    34666666666544

>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=99.05  E-value=3.8e-10  Score=97.53  Aligned_cols=123  Identities=16%  Similarity=0.184  Sum_probs=89.8

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc-CCCceecccc-ccceeeeeechhhhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA-ARPFVTHHND-LNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~-~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~   75 (179)
                      +....-.+.+..+.+.+++.|..+||.+|.||++....      |+.. .+.+.. .+. .|+.+.||.-.....-+.++
T Consensus        11 D~lp~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~e~~~~~~g~~~~~~~~~f-~d~~~g~~l~LRpD~T~~iaR~~a   89 (391)
T PRK12292         11 DLLPEEARKIEEIRRRLLDLFRRWGYEEVITPTLEYLDTLLAGGGAILDLRTFKL-VDQLSGRTLGLRPDMTAQIARIAA   89 (391)
T ss_pred             hcCHHHHHHHHHHHHHHHHHHHHcCCceeeCcchhhHHHHhccCCccchhhhEEE-eecCCCCEEEECCCCcHHHHHHHH
Confidence            44556678899999999999999999999999998531      1111 223332 344 57788888444444444443


Q ss_pred             c------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHhh
Q 030343           76 G------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSGM  127 (179)
Q Consensus        76 ~------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~~  127 (179)
                      .      ...|+|++|+|||.|+.+..+..||+|+++|+.+.+    -.|++.++-+.++.+
T Consensus        90 ~~~~~~~~p~r~~y~g~vfR~~~~~~gr~ref~Q~g~EiiG~~~~~aDaEvi~l~~~~l~~l  151 (391)
T PRK12292         90 TRLANRPGPLRLCYAGNVFRAQERGLGRSREFLQSGVELIGDAGLEADAEVILLLLEALKAL  151 (391)
T ss_pred             HhccCCCCCeEEEeeceeeecCCCcCCCccchhccceEEeCCCCchHHHHHHHHHHHHHHHc
Confidence            2      245999999999999999999999999999998853    356777766666544

>PLN02972 Histidyl-tRNA synthetase

Probab=99.04  E-value=3.9e-10  Score=103.67  Aligned_cols=124  Identities=15%  Similarity=0.218  Sum_probs=92.3

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccccCCCceeccccccceeeeeechhhhhhhhhhcc
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGG   77 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~   77 (179)
                      ++....-..+|..+...+++.|..+||.||.||++....     .|...+......+..|+.+.||.-.....-+.++..
T Consensus       334 rD~lP~e~~~re~I~~~L~~vFk~hGy~eI~TPvfE~~Ell~~k~Ged~k~mY~f~D~gGr~LaLRPDlTvPiAR~vA~n  413 (763)
T PLN02972        334 RDFAKEQMAIREKAFSIITSVFKRHGATALDTPVFELRETLMGKYGEDSKLIYDLADQGGELCSLRYDLTVPFARYVAMN  413 (763)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHcCCEEccCCcccchHHhhcccCcchhheEEEECCCCCEEEeCCCChHHHHHHHHhC
Confidence            345556788999999999999999999999999998631     122222222234556788888865555555555422


Q ss_pred             ---chheeecccccccccCCCCCCCCcchhhHHHhhc-c----hhHHHHHHHHHHHh
Q 030343           78 ---LDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA-D----YNDLMELTEKMLSG  126 (179)
Q Consensus        78 ---~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~-~----~~~lm~~~e~li~~  126 (179)
                         ..|.|++|+|||.|+++..+..||+|+++|+.+. +    -.|++.++-+.++.
T Consensus       414 ~~~p~KrYyiG~VFR~e~pqkGR~REF~Q~G~EIIG~~~~~~aDAEVI~La~E~L~~  470 (763)
T PLN02972        414 GITSFKRYQIAKVYRRDNPSKGRYREFYQCDFDIAGVYEPMGPDFEIIKVLTELLDE  470 (763)
T ss_pred             CCCcceEEEeccEEecCCCCCCCCccceEEeEEEEcCCCcchhhHHHHHHHHHHHHh
Confidence               4589999999999999889999999999999884 2    46777777777754

>PRK00037 hisS histidyl-tRNA synthetase; Reviewed

Probab=99.03  E-value=7.9e-10  Score=95.80  Aligned_cols=122  Identities=16%  Similarity=0.207  Sum_probs=86.7

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc-----CCCceeccccccceeeeeechhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA-----ARPFVTHHNDLNMKLYMRIAPELYLKEL   73 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~-----~~~f~~~~~~~~~~~~L~~S~ql~~~~~   73 (179)
                      .....-.+.+..+.+.+++.|.++||.||.||.+....     +|..     .+.|.. .+..|+.+.|+.-.....-+.
T Consensus        12 d~~p~~~~~~~~i~~~i~~~~~~~Gy~ei~tP~le~~~~~~~~~g~~~~~~~~~~~~~-~d~~g~~l~LRpd~T~~~ar~   90 (412)
T PRK00037         12 DILPEESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKVGEETDIVEKEMYTF-QDKGGRSLTLRPEGTAPVVRA   90 (412)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHcCCeEeeccccchHHHhccccCcccccccceeEEE-EcCCCCEEEecCCCcHHHHHH
Confidence            34456678899999999999999999999999997631     1211     122332 233577888884432222223


Q ss_pred             hhc---cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           74 VVG---GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        74 ~~~---~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      ++.   ...|+|++|+|||+|+++..|..||+|+++|+.+.+    ..|++.++.++++.
T Consensus        91 ~~~~~~~p~r~~~~g~vfR~e~~~~gr~ref~Q~g~ei~g~~~~~~d~E~i~~~~~~l~~  150 (412)
T PRK00037         91 VIEHKLQPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSDSPLADAEVIALAADILKA  150 (412)
T ss_pred             HHhCCCCCeEEEEEcCccccCCCCCCcccceEEcCeeeeCCCCcchhHHHHHHHHHHHHH
Confidence            332   457999999999999988889999999999998853    25666666665543

>PLN02788 phenylalanine-tRNA synthetase

Probab=99.00  E-value=5.5e-10  Score=96.35  Aligned_cols=114  Identities=19%  Similarity=0.338  Sum_probs=86.1

Q ss_pred             HHHHHHHHHhhccC---Cceeee--cccccc--------ccccccCCCceeccccccceeeee--echhhhhhhhhhccc
Q 030343           14 SKIVSYIRRFLDNL---DFLEVE--TPMMNM--------IAGGAAARPFVTHHNDLNMKLYMR--IAPELYLKELVVGGL   78 (179)
Q Consensus        14 s~i~~~ir~ff~~~---gF~ev~--tP~l~~--------~~~~~~~~~f~~~~~~~~~~~~L~--~S~ql~~~~~~~~~~   78 (179)
                      +.+.+.|+++|.+.   ||.+++  +|+.+.        .|.++.++.... ..|.+...-||  +|+-..  ++|..+.
T Consensus        71 ~~~~~~i~~~f~~~~~~gf~~~~~~~~iv~~~~NFD~L~~P~dHPaR~~~D-Tfy~~~~~lLRTHTSa~q~--~~l~~~~  147 (402)
T PLN02788         71 GILKNAIYDYFDENYSNKFKKFDDLSPIVSTKQNFDDVLVPPDHVSRSYND-TYYVDAQTVLRCHTSAHQA--ELLRAGH  147 (402)
T ss_pred             HHHHHHHHHHHhhcccCCcEEecCCCCccchhhhhhhhCCCCCCCccCccc-eEEecCCccccCCCcHHHH--HHHHhCC
Confidence            46778889999987   999999  555443        145566666652 34667777787  555433  2445566


Q ss_pred             hheeecccccccccCCCCCCCCcchhhHHHhh--------------cchhHHHHHHHHHHHhhhhh
Q 030343           79 DRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF--------------ADYNDLMELTEKMLSGMIKE  130 (179)
Q Consensus        79 ~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~--------------~~~~~lm~~~e~li~~~~~~  130 (179)
                      .+++.+|.|||+|..|++|+|+|+|+|.-+.+              .+..++...++.+++.++..
T Consensus       148 ~~~~~~g~VyRrD~iD~tH~p~FhQ~EG~~v~~~~~~~~~~~~~~~~~~~dLKg~Le~l~~~lfg~  213 (402)
T PLN02788        148 THFLVTGDVYRRDSIDATHYPVFHQMEGVRVFSPEEWEASGLDGTDLAAEDLKKTLEGLARHLFGD  213 (402)
T ss_pred             CcEEEEeeEeecCCCCcccCccceeEEEEEEecccccccccccccccCHHHHHHHHHHHHHHhcCC
Confidence            79999999999999999999999999988775              45789999999999877653

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=98.99  E-value=6.2e-10  Score=98.83  Aligned_cols=120  Identities=20%  Similarity=0.342  Sum_probs=85.4

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc---------cccccCCCce----ec-------------------c--
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI---------AGGAAARPFV----TH-------------------H--   53 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~---------~~~~~~~~f~----~~-------------------~--   53 (179)
                      .-...+..+.+.+|+.|...||.||.||.+.++         |..++++...    ..                   .  
T Consensus       230 ~~~~~~~~~~~~~~~~f~~~Gf~e~~~p~vE~~~~nfd~lf~p~~hpaR~~~dtf~~~~~~~~~~~~~~~~~v~~~he~g  309 (489)
T PRK04172        230 GKKHPYREFIDEVRDILVEMGFEEMKGPLVETEFWNFDALFQPQDHPAREMQDTFYLKYPGIGDLPEELVERVKEVHEHG  309 (489)
T ss_pred             CCCChHHHHHHHHHHHHHHCCCEEeeCCeeeecCcccccccCCCCCCCCCccceEEECCcccccCcHHHHHHHHHHHhcc
Confidence            345568899999999999999999999999853         2222222211    00                   0  


Q ss_pred             -------------ccccceeeeeechhhhhhhhhh---ccchheeecccccccccCCCCCCCCcchhhHHHhhc--chhH
Q 030343           54 -------------NDLNMKLYMRIAPELYLKELVV---GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYND  115 (179)
Q Consensus        54 -------------~~~~~~~~L~~S~ql~~~~~~~---~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~  115 (179)
                                   +..++...||.+..-..-++++   ....|+|+||+|||+|..+.+|++||+|+++.+.+.  ++.+
T Consensus       310 ~~~~~~~~~y~~~~~~~~~~~LR~~~T~~~~r~l~~~~~~p~rlFeiGrVFR~e~~d~~~l~Ef~ql~~~i~G~~~~f~e  389 (489)
T PRK04172        310 GDTGSRGWGYKWDEDIAKRLVLRTHTTALSARYLASRPEPPQKYFSIGRVFRPDTIDATHLPEFYQLEGIVMGEDVSFRD  389 (489)
T ss_pred             CCCCCccccCCcchhhhhccccccCChHHHHHHHHhcCCCCeEEEEecceEcCCCCCcccCCchheEEEEEEeCCCCHHH
Confidence                         0012345666443333333333   335799999999999999999999999999999985  5889


Q ss_pred             HHHHHHHHHHhh
Q 030343          116 LMELTEKMLSGM  127 (179)
Q Consensus       116 lm~~~e~li~~~  127 (179)
                      ++.+++++++.+
T Consensus       390 lkg~l~~ll~~l  401 (489)
T PRK04172        390 LLGILKEFYKRL  401 (489)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

>PF00587 tRNA-synt_2b: tRNA synthetase class II core domain (G, H, P, S and T) This Prosite entry contains all class II enzymes

Probab=98.98  E-value=6.1e-10  Score=85.69  Aligned_cols=115  Identities=24%  Similarity=0.282  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHhhc-cCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh----c--
Q 030343           12 TRSKIVSYIRRFLD-NLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV----G--   76 (179)
Q Consensus        12 ~rs~i~~~ir~ff~-~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~--   76 (179)
                      +++.|.+.+++.+. +.||.||.||.|.+..    .|.    ....|.+ .+..+..++|+.+.....-.++.    .  
T Consensus         1 l~~~l~~~~~~~~~~~~G~~ev~~P~l~~~~~~~~sg~~~~~~~~~~~~-~~~~~~~~~L~pt~~~~~~~~~~~~~~~~~   79 (173)
T PF00587_consen    1 LRNALERFIREEFVLKFGFQEVDTPILIPSEVWEKSGHWDNFSDEMFKV-KDRGDEEYCLRPTSEPGIYSLFKNEIRSSY   79 (173)
T ss_dssp             HHHHHHHHHHHHHHHHTTEEEEB--SEEEHHHHHHHSHHHHHGGGSEEE-EETTTEEEEE-SSSHHHHHHHHHHHEEBHG
T ss_pred             CHHHHHHHHHHHhHHhcCCEEEECCeEEehHHhhhccccccccCCeeee-eecccccEEeccccccceeeeecceeeecc
Confidence            57899999999999 9999999999998742    221    1223433 23334678998665444332221    1  


Q ss_pred             --cchheeeccccccccc-C--CCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhh
Q 030343           77 --GLDRVYEIGKQFRNEG-I--DLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMI  128 (179)
Q Consensus        77 --~~~kvf~i~~~fR~E~-~--~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~  128 (179)
                        -.-++|++|+|||+|. .  +..++.||+|.|++....+ ++..+..++++..+.
T Consensus        80 ~~LP~~~~~~g~~fR~E~~~~~gl~R~reF~~~e~~~f~~~-~~~~~~~~~~~~~~~  135 (173)
T PF00587_consen   80 RDLPLKLYQIGTCFRNEARPTRGLFRLREFTMDEMHIFCTP-EQSEEEFEELLELYK  135 (173)
T ss_dssp             GGSSEEEEEEEEEEBSSSSSBSTTTS-SEEEEEEEEEEESS-HHHHHHHHHHHHHHH
T ss_pred             ccCCeEEeecccccccccccccccceeeEeeeeceEEEeCC-cccHHHHHHHHHHHH
Confidence              2469999999999994 3  3479999999999987766 666666665554333

seryl tRNA synthetase structure; InterPro: IPR002314 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain includes the glycine, histidine, proline, threonine and serine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3UH0_A 3UGT_C 3UGQ_A 1B76_B 1GGM_B 1ATI_A 1ADY_C 1ADJ_C 2I4O_A 2I4M_B ....

>cd00670 Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain

Probab=98.96  E-value=1.1e-09  Score=87.52  Aligned_cols=117  Identities=17%  Similarity=0.236  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceeccccc----cceeeeeechhhhhhhhhh--
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDL----NMKLYMRIAPELYLKELVV--   75 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~----~~~~~L~~S~ql~~~~~~~--   75 (179)
                      .+++..|.+.+++.|.+.||.||.||.|.+..    ++..    ...+.+ .+..    +..++|+.......-...+  
T Consensus         2 ~~~~~~l~~~~~~~~~~~G~~ei~~P~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~LrP~~~~~i~~~~~~~   80 (235)
T cd00670           2 TALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTF-EDKGRELRDTDLVLRPAACEPIYQIFSGE   80 (235)
T ss_pred             HHHHHHHHHHHHHHHHHcCCEEEECCeEcCHHHHhhcCCcccchhhcCee-ccCcccccCCeEEEecCCCHHHHHHHhcc
Confidence            36788999999999999999999999998742    2211    122222 1222    4678888544333322222  


Q ss_pred             -----ccchheeecccccccccCC---CCCCCCcchhhHHHhhcc------hhHHHHHHHHHHHhh
Q 030343           76 -----GGLDRVYEIGKQFRNEGID---LTHNPEFTTCEFYMAFAD------YNDLMELTEKMLSGM  127 (179)
Q Consensus        76 -----~~~~kvf~i~~~fR~E~~~---~~Hl~EF~~le~e~~~~~------~~~lm~~~e~li~~~  127 (179)
                           ...-|++++|+|||+|...   ..++.||+|.|++..+.+      ..++++++.++++.+
T Consensus        81 ~~~~~~lP~r~~~~g~~fR~E~~~~~gl~R~reF~q~e~~~~~~~~~~~~~~~e~~~~~~~~l~~l  146 (235)
T cd00670          81 ILSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEPEEAEEERREWLELAEEIAREL  146 (235)
T ss_pred             CccchhcCeeeeeecccccCCCCCCCCChhheeeeeceEEEEcCHHHHHHHHHHHHHHHHHHHHHc
Confidence                 2356999999999999976   468999999999987754      345555555555443

This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.

>cd00496 PheRS_alpha_core Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain

Probab=98.95  E-value=1.3e-09  Score=87.17  Aligned_cols=114  Identities=24%  Similarity=0.309  Sum_probs=79.7

Q ss_pred             HHHHHHHHhhccCCceeeeccccccccccccCCCceec--------cccccc--eeeeeechhhhhhhhhhc--cchhee
Q 030343           15 KIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH--------HNDLNM--KLYMRIAPELYLKELVVG--GLDRVY   82 (179)
Q Consensus        15 ~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~--------~~~~~~--~~~L~~S~ql~~~~~~~~--~~~kvf   82 (179)
                      .+.+.+|++|...||.|+.|+.+++.......-.+...        .-....  ..+||+|.--.+-..++.  ...|+|
T Consensus         5 ~~~~~ir~~L~~~Gf~Ev~tys~~~~~~~~~~~~~~~~~~~~~~~~~v~l~NP~~~~LR~sLlp~LL~~l~~N~~~~~lF   84 (218)
T cd00496           5 KVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYINDPARLLLRTHTSAVQARALAKLKPPIRIF   84 (218)
T ss_pred             HHHHHHHHHHHHCCCEEEeCCcccccchhhhhcCCCCCCcccccCceEEECCCceEEEeccCcHHHHHHHHhcCCCeeEE
Confidence            56778999999999999999999875211000000000        001112  367776643332234444  567999


Q ss_pred             ecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhhh
Q 030343           83 EIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGMI  128 (179)
Q Consensus        83 ~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~~  128 (179)
                      +||+|||+++.+..|++||+|+++.+++.  ++.|++..++.+++.+-
T Consensus        85 EiG~Vf~~~~~~~~~~~E~~~l~~~~~g~~~df~dlkg~ve~ll~~l~  132 (218)
T cd00496          85 SIGRVYRNDEIDATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELF  132 (218)
T ss_pred             EEcCeEECCCCCCCcCCccEEEEEEEECCCCCHHHHHHHHHHHHHHhc
Confidence            99999999876778899999999999986  89999999999997553

PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer.

>PRK12420 histidyl-tRNA synthetase; Provisional

Probab=98.95  E-value=2.1e-09  Score=93.79  Aligned_cols=124  Identities=20%  Similarity=0.280  Sum_probs=90.3

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----c-ccc----CCCceeccccccceeeeeechhhhhhhh
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----G-GAA----ARPFVTHHNDLNMKLYMRIAPELYLKEL   73 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~-~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~   73 (179)
                      ++....-..++..+.+.+++.|..+||.||.||++....    . |.+    .+.+. ..+..|+.+.|+.-.....-+.
T Consensus        11 ~d~~p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~~~~~~~~~~~~~~~~~~~~-~~D~~g~~l~LRpD~T~~iaR~   89 (423)
T PRK12420         11 KDYLPEEQVLRNKIKRALEDVFERYGCKPLETPTLNMYELMSSKYGGGDEILKEIYT-LTDQGKRDLALRYDLTIPFAKV   89 (423)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHHhcccCCCcccccceEE-EecCCCceecccccccHHHHHH
Confidence            445566788899999999999999999999999998731    1 211    12233 2344577888884444443333


Q ss_pred             hhc-----cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHhh
Q 030343           74 VVG-----GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSGM  127 (179)
Q Consensus        74 ~~~-----~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~~  127 (179)
                      ++.     ..-|.|++|+|||.|+.+..+..||+|+++|+.+.+    ..|++.++-+.++.+
T Consensus        90 va~~~~~~~p~r~~y~g~vfR~~~~~~gr~rE~~Q~g~EiiG~~~~~adaEvi~la~~~l~~l  152 (423)
T PRK12420         90 VAMNPNIRLPFKRYEIGKVFRDGPIKQGRFREFIQCDVDIVGVESVMAEAELMSMAFELFRRL  152 (423)
T ss_pred             HHhCcCCCCCeeEEEEcceECCCCCCCCccceeEECCeeeECCCCCcccHHHHHHHHHHHHHC
Confidence            332     134899999999999988889999999999998853    567777777776643

>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit

Probab=98.94  E-value=2.3e-09  Score=90.10  Aligned_cols=120  Identities=18%  Similarity=0.204  Sum_probs=84.8

Q ss_pred             hhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccc-cCCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            6 VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGA-AARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         6 ~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~-~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      ...-.+.+..+.+.+++.|.++||.+|.||++....     ++. ..+.|.. .+..|+.+.|+.-.....-+.++    
T Consensus         4 ~p~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~le~~~~~~~~~~~~~~~~~~~-~d~~g~~l~LRpD~T~~iaR~~~~~~~   82 (314)
T TIGR00443         4 LPEEAARKEEIERQLQDVFRSWGYQEIITPTLEYLDTLSAGGGILNEDLFKL-FDSLGRVLGLRPDMTTPIARAVSTRLR   82 (314)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCeeccCcchhhHHHhcccCCcchhceEEE-ECCCCCEEeecCcCcHHHHHHHHHhcc
Confidence            345577899999999999999999999999998731     221 1223332 34457788888433222223322    


Q ss_pred             --ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           76 --GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        76 --~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                        ....|+|++|+|||.|+.+..+..||+|+++|+.+.+    -.|++.++-+.++.
T Consensus        83 ~~~~p~r~~y~g~VfR~~~~~~gr~re~~Q~g~Eiig~~~~~adaEvi~l~~~~l~~  139 (314)
T TIGR00443        83 DRPLPLRLCYAGNVFRTNESGAGRSREFTQAGVELIGAGGPAADAEVIALLIEALKA  139 (314)
T ss_pred             cCCCCeEEEEeceEeecCCCcCCCcccccccceEEeCCCCchhHHHHHHHHHHHHHH
Confidence              1246999999999999999999999999999998753    34666666655544

Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.

>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=98.93  E-value=2.7e-09  Score=92.34  Aligned_cols=123  Identities=9%  Similarity=0.058  Sum_probs=87.8

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc-CCCceecccc-ccceeeeeechhhhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA-ARPFVTHHND-LNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~-~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~   75 (179)
                      +....-.+.+..+.+.+++.|..+||.||.||+++...      |+.. ...|.. .+. .|+...||.-.....-++.+
T Consensus        15 D~lp~e~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~e~~~~~~g~~~~~~~y~f-~D~~~g~~l~LRpD~T~~iaR~~a   93 (392)
T PRK12421         15 DVLPEEAQKIERLRRRLLDLFASRGYQLVMPPLIEYLESLLTGAGQDLKLQTFKL-IDQLSGRLMGVRADITPQVARIDA   93 (392)
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHcCCEEeeCcchhhHHHHhccCCccchhceEEE-EcCCCCcEEEECCcCCHHHHHHHH
Confidence            34456678899999999999999999999999998631      2211 123332 343 35667787433333333322


Q ss_pred             -----ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHhh
Q 030343           76 -----GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSGM  127 (179)
Q Consensus        76 -----~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~~  127 (179)
                           ....|.|++|+|||.++.+.....||+|+++|+.+.+    -.|++.++-+.++.+
T Consensus        94 ~~~~~~~p~R~~Y~g~VfR~~~~~~gr~rEf~Q~GvEiiG~~~~~aDaEvi~l~~e~l~~l  154 (392)
T PRK12421         94 HLLNREGVARLCYAGSVLHTLPQGLFGSRTPLQLGAELYGHAGIEADLEIIRLMLGLLRNA  154 (392)
T ss_pred             hhcCCCCceEEEEeeeEEEcCCCcCCCcCccceeceEEeCCCCchhHHHHHHHHHHHHHHc
Confidence                 2357999999999999988889999999999998853    457888877777654

>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit

Probab=98.91  E-value=2.1e-09  Score=89.71  Aligned_cols=117  Identities=22%  Similarity=0.311  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHhhccCCceeeecccccccc---------ccccCCCceeccccccceeeeeechhhhhhhhhhc---cch
Q 030343           12 TRSKIVSYIRRFLDNLDFLEVETPMMNMIA---------GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG---GLD   79 (179)
Q Consensus        12 ~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~---------~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~---~~~   79 (179)
                      -...+.+.+|++|...||.|+.||.+++..         .+++++... ...+......||+|----+-+.++.   ...
T Consensus        73 p~~~~~~~ir~~l~~~Gf~Ev~~~~~~s~~~~fd~l~~~~~hpar~~~-d~~~l~d~~vLRtsl~p~ll~~l~~N~~~pi  151 (294)
T TIGR00468        73 PLTRVIDEIRDIFLGLGFTEEKGPEVETDFWNFDALNIPQDHPARDMQ-DTFYIKDRLLLRTHTTAVQLRTMEENEKPPI  151 (294)
T ss_pred             HHHHHHHHHHHHHHHCCCEEeeCCceeccHHHHHHhCCCCCCcchhhc-cceeecCCcceecccHHHHHHHHHhcCCCCc
Confidence            346778889999999999999999998641         111111110 0011223456775432222223333   347


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhh--cchhHHHHHHHHHHHhhhh
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~lm~~~e~li~~~~~  129 (179)
                      |+|++|+|||++..+.+|++||+|+++-+.+  .++.|+...++.++..+..
T Consensus       152 rlFEiGrVfr~d~~d~~~~pef~ql~gl~~~~~~~f~dLKg~le~ll~~l~~  203 (294)
T TIGR00468       152 RIFSPGRVFRNDTVDATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFLKKMFG  203 (294)
T ss_pred             eEEEecceEEcCCCCCccCChhhEEEEEEECCCCCHHHHHHHHHHHHHHhCC
Confidence            9999999999988888999999999998765  3799999999999986643

Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.

>cd00779 ProRS_core_prok Prolyl-tRNA synthetase (ProRS) class II core catalytic domain

Probab=98.91  E-value=4.4e-09  Score=86.05  Aligned_cols=116  Identities=20%  Similarity=0.240  Sum_probs=78.6

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhh----hh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKEL----VV   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~----~~   75 (179)
                      .-.+++..|.+.+++.|.+.||.||.||++.+..    .|.    ..+.|.+ .+..+++++|+..++-.+-.+    +.
T Consensus        29 ~g~~l~~~i~~~~~~~~~~~G~~ei~~P~l~~~~~~~~sg~~~~~~~emy~~-~d~~~~~l~LrPt~e~~~t~~~~~~i~  107 (255)
T cd00779          29 LGLRVLKKIENIIREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELLRL-KDRHGKEFLLGPTHEEVITDLVANEIK  107 (255)
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCccccCcccEEE-ecCCCCeEEEecCCcHHHHHHHHhccc
Confidence            4567899999999999999999999999998731    222    1122332 233456788886533222111    11


Q ss_pred             ---ccchheeecccccccc-cCCCC--CCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           76 ---GGLDRVYEIGKQFRNE-GIDLT--HNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E-~~~~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                         .-.-|+|++++|||+| +....  +..||+|.|.+..+.+..+.....++++
T Consensus       108 s~~~LPlr~~~~~~~FR~E~~~~~Gl~R~reF~q~e~~~~~~~~~~a~~~~~~i~  162 (255)
T cd00779         108 SYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDIDEESLEETYEKMY  162 (255)
T ss_pred             cHhhCCHHHHhCcceecCCCCCCCceeeeeeEeHhhheeccCCHHHHHHHHHHHH
Confidence               2246999999999999 55455  9999999999988865444444333443

ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes.

>PF13393 tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI_E 3HRK_A 3LC0_A 1Z7N_A 1Z7M_D 3NET_A 1H4V_B 3OD1_A 4E51_B 3RAC_A

Probab=98.88  E-value=2.9e-09  Score=88.96  Aligned_cols=121  Identities=21%  Similarity=0.318  Sum_probs=85.1

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------ccccCCCceeccccccceeeeeechhhhhhhhhhc-
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG-   76 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~-   76 (179)
                      +....-.+.+..+.+.+++.|..+||.+|.||++....      +....+.+.. .+..|..+.|+.-.....-+.++. 
T Consensus         4 d~~~~~~~~~~~i~~~l~~~f~~~Gy~~i~~P~le~~~~~~~~~~~~~~~~~~~-~D~~G~~l~LR~D~T~~iaR~~a~~   82 (311)
T PF13393_consen    4 DLLPEEARKRERIESKLREVFERHGYEEIETPLLEYYELFLDKSGEDSDNMYRF-LDRSGRVLALRPDLTVPIARYVARN   82 (311)
T ss_dssp             -B-HHHHHHHHHHHHHHHHHHHHTT-EE-B--SEEEHHHHHCHSSTTGGCSEEE-ECTTSSEEEE-SSSHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHcCCEEEECCeEeecHHhhhccccchhhhEEE-EecCCcEeccCCCCcHHHHHHHHHh
Confidence            34556678899999999999999999999999998631      1222233443 345678888885554444444443 


Q ss_pred             ----cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           77 ----GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        77 ----~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                          ...|+|++|+|||.++.+..+..||+|+.+|+.+.+    -.|++.++-+++.
T Consensus        83 ~~~~~~~r~~y~g~vfR~~~~~~g~~re~~Q~g~Eiig~~~~~~daEvi~l~~e~l~  139 (311)
T PF13393_consen   83 LNLPRPKRYYYIGPVFRYERPGKGRPREFYQCGFEIIGSSSLEADAEVIKLADEILD  139 (311)
T ss_dssp             CGSSSSEEEEEEEEEEEEETTTTTBESEEEEEEEEEESSSSHHHHHHHHHHHHHHHH
T ss_pred             cCcCCCceEEEEcceeeccccCCCCCceeEEEEEEEECCCCHHHHHHHHHHHHHHHH
Confidence                347899999999999998899999999999998853    4477777777775

...

>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=98.87  E-value=5.6e-09  Score=86.64  Aligned_cols=117  Identities=14%  Similarity=0.178  Sum_probs=83.1

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccc--c-ccCCCceeccccccceeeeeechhhhhhhhhhc----
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAG--G-AAARPFVTHHNDLNMKLYMRIAPELYLKELVVG----   76 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~--~-~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~----   76 (179)
                      +....-.+.+..+.+.+++.|..+||.+|.||++.....  . ...+.|.. .+..|+.+.||.-.....-+.++.    
T Consensus        13 D~lp~e~~~~~~i~~~l~~vf~~~Gy~~I~tP~lE~~e~~~~~~~~~~y~~-~D~~g~~l~LRpD~T~~iaR~~a~~~~~   91 (281)
T PRK12293         13 LYFGKSAKLKREIENVASEILYENGFEEIVTPFFSYHQHQSIADEKELIRF-SDEKNHQISLRADSTLDVVRIVTKRLGR   91 (281)
T ss_pred             ccCcHHHHHHHHHHHHHHHHHHHcCCeEeeccceeehhhhcccchhceEEE-ECCCCCEEEECCcCCHHHHHHHHHhccc
Confidence            445566788999999999999999999999999986321  1 11223332 344567788884444333333332    


Q ss_pred             --cchheeecccccccccCCCCCCCCcchhhHHHhhc-chhHHHHHHHHHHHhh
Q 030343           77 --GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA-DYNDLMELTEKMLSGM  127 (179)
Q Consensus        77 --~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~  127 (179)
                        ..-|.|++|+|||.|.      .||+|+++|+.+. +..|++.++-+.++.+
T Consensus        92 ~~~p~r~~Y~g~vfR~~~------rEf~Q~GvEliG~~~~~Evi~la~~~l~~l  139 (281)
T PRK12293         92 STEHKKWFYIQPVFRYPS------NEIYQIGAELIGEEDLSEILNIAAEIFEEL  139 (281)
T ss_pred             CCCceeEEEeccEEecCC------CcccccCeEeeCCCCHHHHHHHHHHHHHHc
Confidence              2459999999999884      7999999999996 4667777777666554

>KOG2784 consensus Phenylalanyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]

Probab=98.82  E-value=2.6e-09  Score=90.09  Aligned_cols=50  Identities=28%  Similarity=0.440  Sum_probs=45.8

Q ss_pred             chheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           78 LDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ..|.|+|-+|||||..|++||+||+|+|.-+++.  ++.+||.++++++..+
T Consensus       333 p~K~FSIDrVFRNEtvDaTHLAEFHQVEGviad~gltLgdLig~l~~ff~~l  384 (483)
T KOG2784|consen  333 PAKYFSIDRVFRNETVDATHLAEFHQVEGVIADKGLTLGDLIGILMEFFTKL  384 (483)
T ss_pred             cccccchhhhhhccccchHHHHHHhhhceeeecCCCcHHHHHHHHHHHHhcc
Confidence            3899999999999999999999999999999885  6999999999998643

>cd00772 ProRS_core Prolyl-tRNA synthetase (ProRS) class II core catalytic domain

Probab=98.75  E-value=2.4e-08  Score=82.19  Aligned_cols=116  Identities=17%  Similarity=0.133  Sum_probs=80.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccccC-----CCceecccccc----ceeeeeechhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAA-----RPFVTHHNDLN----MKLYMRIAPELYLKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~-----~~f~~~~~~~~----~~~~L~~S~ql~~~~~~   74 (179)
                      .-.+++..|.+.+++-+.+.||.||.||.+.+..    .|...     +.+.+ .+..+    ..++|+...+..+-.+.
T Consensus        30 ~g~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~g~~~~~~~~e~~~~-~~~~~~~~~~~l~LrPt~e~~~~~~~  108 (264)
T cd00772          30 LAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELAVF-KDAGDEELEEDFALRPTLEENIGEIA  108 (264)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCeEEECCeeccHHHHhhcCCcccccCccceEE-EeCCCCccCceEEECCCCCHHHHHHH
Confidence            4467899999999999999999999999998732    22211     12222 12222    67889855554332222


Q ss_pred             h-------ccchheeecccccccccCC-CC--CCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           75 V-------GGLDRVYEIGKQFRNEGID-LT--HNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        75 ~-------~~~~kvf~i~~~fR~E~~~-~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                      +       .-.-|+|++++|||.|..+ ..  +..||+|.|.+..+.+.++....++.++
T Consensus       109 ~~~i~s~~~LPlrl~~~~~~fR~E~r~~~Gl~R~reF~~~e~~~~~~~~e~a~~e~~~~~  168 (264)
T cd00772         109 AKFIKSWKDLPQHLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHADAEEADEEFLNML  168 (264)
T ss_pred             HhhhhhhhccCeeEEEEeCeEeCcCCCCCCcceeeEEEEeeeEEecCCHHHHHHHHHHHH
Confidence            1       1246999999999999544 33  9999999999887677666666666666

ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.

>PRK09194 prolyl-tRNA synthetase; Provisional

Probab=98.73  E-value=2.3e-08  Score=90.31  Aligned_cols=117  Identities=20%  Similarity=0.229  Sum_probs=79.8

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhh----
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELV----   74 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~----   74 (179)
                      ..-++++.+|.+.+++.|.+.||.||.||.|.+..    +|.    ..+.|.. .+..+++++|+...+-..-.++    
T Consensus        44 P~g~~~~~~i~~~i~~~~~~~G~~ei~~P~l~~~~l~~~sg~~~~~~~emf~~-~d~~~~~l~LrPt~e~~~~~~~~~~~  122 (565)
T PRK09194         44 PLGLRVLRKIENIVREEMNKIGAQEVLMPALQPAELWQESGRWEEYGPELLRL-KDRHGRDFVLGPTHEEVITDLVRNEI  122 (565)
T ss_pred             ccHHHHHHHHHHHHHHHHHHcCCEEEECcccCcHHHHhhcCCccccchhceEE-ecCCCCEEEECCCChHHHHHHHHhhh
Confidence            34578999999999999999999999999998741    221    1123432 2445678888854332221111    


Q ss_pred             -h--ccchheeecccccccc-cCCCC--CCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           75 -V--GGLDRVYEIGKQFRNE-GIDLT--HNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        75 -~--~~~~kvf~i~~~fR~E-~~~~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                       +  .-.-|+|+|++|||.| +....  +..||+|.|.+..+.+-++.....++++
T Consensus       123 ~s~~~LP~r~yqi~~~fR~E~rp~~Gl~R~reF~q~d~~~f~~~~~~a~~~~~~~~  178 (565)
T PRK09194        123 KSYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHADEESLDETYDAMY  178 (565)
T ss_pred             hhcccCCeEEEEeeCCccCCCCCCCcccccccEEEeeEEEEcCChHHHHHHHHHHH
Confidence             1  2246999999999999 55555  9999999999998865444333333333

>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain

Probab=98.71  E-value=2.3e-08  Score=81.79  Aligned_cols=98  Identities=24%  Similarity=0.207  Sum_probs=69.4

Q ss_pred             hHHHHHHHHHHHHHHhhccCC--ceeeeccccccccccccCCCceec---cccccceeeeeechh----hhhhhhhh---
Q 030343            8 QIFKTRSKIVSYIRRFLDNLD--FLEVETPMMNMIAGGAAARPFVTH---HNDLNMKLYMRIAPE----LYLKELVV---   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~g--F~ev~tP~l~~~~~~~~~~~f~~~---~~~~~~~~~L~~S~q----l~~~~~~~---   75 (179)
                      .-.++++.|.+.+|+.|...|  |.||.||+|.+.      ..|.+.   .+..+..++|+....    ....+...   
T Consensus        30 ~g~~l~~~i~~~~~~~~~~~g~~~~~i~tP~i~~~------~mf~~~~g~~d~~~~~~~Lrp~~~~~~~~~~~~~~~~~~  103 (254)
T cd00774          30 LGVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPE------LMFKTSIGPVESGGNLGYLRPETAQGIFVNFKNLLEFNR  103 (254)
T ss_pred             hHHHHHHHHHHHHHHHHHhcCCCeEEEeccccCCH------HHheeeecccCCCCcccccCCcccchHHHHHHHHHHHhC
Confidence            457899999999999999885  999999999874      223221   012345677773221    11122211   


Q ss_pred             -ccchheeecccccccccCCC---CCCCCcchhhHHHhhc
Q 030343           76 -GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFA  111 (179)
Q Consensus        76 -~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~  111 (179)
                       .-.-++|+||+|||+|.+..   .+..||+|.|++.-..
T Consensus       104 ~~lP~~~~qig~~fR~E~~~~~gl~R~ReF~q~d~~~f~~  143 (254)
T cd00774         104 RKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVD  143 (254)
T ss_pred             CCCCchhhhhchhhccccCcccceeeeccchhhheeeeEC
Confidence             23479999999999999765   7999999999998663

GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly

>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II

Probab=98.68  E-value=4.9e-08  Score=88.18  Aligned_cols=122  Identities=17%  Similarity=0.222  Sum_probs=82.7

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhh----hh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKEL----VV   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~----~~   75 (179)
                      .-.+++.+|.+.+|+.+.+.||.||.||.+.+..    +|.    ..+.|.. .+..++.++|+...+-.+-.+    +.
T Consensus        45 ~g~rv~~~I~~~i~~~~~~~G~~ei~~P~l~~~el~~~sg~~~~~~~emf~~-~dr~~~~l~LrPT~Ee~~t~~~~~~i~  123 (568)
T TIGR00409        45 LGLRVLKKVENIVREEMNKDGAIEVLLPALQPAELWQESGRWDTYGPELLRL-KDRKGREFVLGPTHEEVITDLARNEIK  123 (568)
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHhhcCCCCccchhcEEE-ecCCCCEEEEcCCCcHHHHHHHHHHHh
Confidence            4578899999999999999999999999999741    221    1233443 244567888885422111111    11


Q ss_pred             ---ccchheeecccccccc-cCCCC--CCCCcchhhHHHhhcchhHHHHHHHHHH---Hhhhhh
Q 030343           76 ---GGLDRVYEIGKQFRNE-GIDLT--HNPEFTTCEFYMAFADYNDLMELTEKML---SGMIKE  130 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E-~~~~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li---~~~~~~  130 (179)
                         .-.-++|+|+++||.| +....  +..||+|.|.|..+.+..+.....+.++   ..+++.
T Consensus       124 syr~LPlrlyqi~~~fR~E~rpr~Gl~R~REF~~~d~~~f~~~~~~a~~e~~~~~~~y~~if~~  187 (568)
T TIGR00409       124 SYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHSDEESLDATYQKMYQAYSNIFSR  187 (568)
T ss_pred             hccccCeEEEEeeCEeeCCCCCCCCccccccEEEEEEEEEeCChHHHHHHHHHHHHHHHHHHHH
Confidence               2246999999999999 55555  9999999999998876555544444443   444444

Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.

>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain

Probab=98.67  E-value=3.7e-08  Score=80.83  Aligned_cols=117  Identities=14%  Similarity=0.018  Sum_probs=80.8

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc----CCCceeccccc----cceeeeeechhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA----ARPFVTHHNDL----NMKLYMRIAPELYLKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~----~~~f~~~~~~~----~~~~~L~~S~ql~~~~~~   74 (179)
                      .-.+++.+|.+.+++.+.+.||.||.||.|.+..     +|..    .+.|.+. +..    +..++|+...+-.+-.+.
T Consensus        30 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~sg~~~~f~~~~f~~~-~~~~~~~~~~~~L~Pt~e~~~~~~~  108 (261)
T cd00778          30 YGYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVT-HGGLEELEEPLALRPTSETAIYPMF  108 (261)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHhhhhhcchhhcCcceEEEE-ecCCcccCCcEEEcCCCCHHHHHHH
Confidence            4568899999999999999999999999998631     2221    1223321 111    236788765433322121


Q ss_pred             h-------ccchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           75 V-------GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        75 ~-------~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                      +       .-.-|+|++++|||+|..++   .+..||+|.|.+..+++.++..+..++++.
T Consensus       109 ~~~i~s~r~LPlr~~~~~~~fR~E~~~~~Gl~R~reF~~~d~h~~~~~~e~~~~~~~~~~~  169 (261)
T cd00778         109 SKWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHATEEEAEEEVLQILD  169 (261)
T ss_pred             HhhccchhhcCHHHHhhhhhccCCCCCCCceeEeeeeeeeceeeccCCHHHHHHHHHHHHH
Confidence            1       12579999999999999873   499999999998877776666666665553

ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.

>PRK00413 thrS threonyl-tRNA synthetase; Reviewed

Probab=98.65  E-value=3.7e-08  Score=89.97  Aligned_cols=119  Identities=18%  Similarity=0.146  Sum_probs=80.2

Q ss_pred             hhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh--
Q 030343            6 VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV--   75 (179)
Q Consensus         6 ~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~--   75 (179)
                      ...-.+++..+.+.+++.|...||.||.||++....    +|+    ..+.|.+ .+..|+.+.|+....-..-++.+  
T Consensus       266 lp~~~~~~~~i~~~~~~~~~~~Gy~ei~tP~le~~~l~~~~g~~~~~~~~my~~-~d~~~~~~~LRP~~~~~~~r~~~~~  344 (638)
T PRK00413        266 HPKGWTIRRELERYIRRKLRKAGYQEVKTPQILDRELWETSGHWDHYRENMFPT-TESDGEEYALKPMNCPGHVQIYKQG  344 (638)
T ss_pred             cccHHHHHHHHHHHHHHHHHHCCCEEEECCeeCCHHHHHhcCChhhhhhcccee-ecCCCcEEEEecCCcHHHHHHHhCc
Confidence            345678899999999999999999999999998642    232    1223432 24456788887432222111221  


Q ss_pred             -----ccchheeecccccccccCCC----CCCCCcchhhHHHhhcc------hhHHHHHHHHHHH
Q 030343           76 -----GGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFAD------YNDLMELTEKMLS  125 (179)
Q Consensus        76 -----~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~------~~~lm~~~e~li~  125 (179)
                           .-+-|.|++|+|||.|.++.    .+..||+|+|+++.+.+      ..+++.++.++++
T Consensus       345 ~~s~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~~~g~~~~~~~e~~eii~l~~~~~~  409 (638)
T PRK00413        345 LRSYRDLPLRLAEFGTVHRYEPSGALHGLMRVRGFTQDDAHIFCTPEQIEEEVKKVIDLILDVYK  409 (638)
T ss_pred             CCChhhCCceeeeccCeecCCCCCCCcCcceeeeeEEeeEEEEcCHHHHHHHHHHHHHHHHHHHH
Confidence                 12469999999999999863    48899999999985431      1345555555554

>KOG1936 consensus Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=6.2e-08  Score=83.38  Aligned_cols=122  Identities=16%  Similarity=0.216  Sum_probs=91.1

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc------cccccCCCceeccccccceeeeeechhhhhhhhhhc
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI------AGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG   76 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~------~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~   76 (179)
                      ++....-+.+|.++.+.+.+.|+..|...|+||++.--      .|+. ++......+..|+-.-||.--.....+.++.
T Consensus        67 rD~~p~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElkeiL~gKYGEd-skLiYdlkDQGGEl~SLRYDLTVPfARylAm  145 (518)
T KOG1936|consen   67 RDFSPEQMALREKIFSTIKEVFKRHGAETIDTPVFELKEILTGKYGED-SKLIYDLKDQGGELCSLRYDLTVPFARYLAM  145 (518)
T ss_pred             CcCCHHHHHHHHHHHHHHHHHHHHcCCeeccccchhHHHHHhhhcccc-cceeEehhhcCCcEEEeecccccHHHHHHHH
Confidence            45566778999999999999999999999999998742      3443 4666555567777777775554445555443


Q ss_pred             c---chheeecccccccccC--CCCCCCCcchhhHHHhhc-----chhHHHHHHHHHHH
Q 030343           77 G---LDRVYEIGKQFRNEGI--DLTHNPEFTTCEFYMAFA-----DYNDLMELTEKMLS  125 (179)
Q Consensus        77 ~---~~kvf~i~~~fR~E~~--~~~Hl~EF~~le~e~~~~-----~~~~lm~~~e~li~  125 (179)
                      +   --+.|.|+++||-+.+  ...+..||+|+|+.+++.     .-.|++..+-+++.
T Consensus       146 Nki~sikRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG~~d~M~pdaE~lkiv~e~L~  204 (518)
T KOG1936|consen  146 NKITSIKRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAGQFDPMIPDAECLKIVVEILS  204 (518)
T ss_pred             cccccceeeeEEEEEeccCchhhchhhhhhhccCccccccCCCCCchHHHHHHHHHHHh
Confidence            3   2588999999999987  457999999999999982     25566666555553

>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=98.59  E-value=9.2e-08  Score=82.35  Aligned_cols=111  Identities=16%  Similarity=0.225  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHhhccCCceeeecccccccc------ccccC-CCceeccccccceeeeeechhhhhhhhhh----ccchhe
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAAA-RPFVTHHNDLNMKLYMRIAPELYLKELVV----GGLDRV   81 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~~-~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~~~~kv   81 (179)
                      ...+.+.+++.|..+||.||.||++....      ++... +.+. ..+..|+.+.||.-.....-+..+    ....|.
T Consensus         7 ~~~i~~~i~~~f~~~Gy~~I~tP~lE~~e~~~~~~g~~~~~~~~~-f~D~~G~~l~LRpD~T~piaR~~~~~~~~~p~R~   85 (373)
T PRK12295          7 SAAAAEALLASFEAAGAVRVDPPILQPAEPFLDLSGEDIRRRIFV-TSDENGEELCLRPDFTIPVCRRHIATAGGEPARY   85 (373)
T ss_pred             HHHHHHHHHHHHHHcCCEEeeCCccccHHHhhhccCchhhcceEE-EECCCCCEEeeCCCCcHHHHHHHHHcCCCCCeEE
Confidence            34789999999999999999999998742      22111 2233 234457778888333333322221    334699


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhc-c----hhHHHHHHHHHHHhh
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFA-D----YNDLMELTEKMLSGM  127 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~-~----~~~lm~~~e~li~~~  127 (179)
                      |++|+|||.+   ..+..||+|+++|+.+. +    ..|++.++-+.++.+
T Consensus        86 ~Y~g~VfR~~---~gr~rEf~Q~GvEiiG~~~~~~aDaEvi~l~~~~L~~l  133 (373)
T PRK12295         86 AYLGEVFRQR---RDRASEFLQAGIESFGRADPAAADAEVLALALEALAAL  133 (373)
T ss_pred             EEEccEEECC---CCCCCcceEeeEEeeCCCCCccchHHHHHHHHHHHHHc
Confidence            9999999998   45789999999999884 3    448888877777543

>PRK14799 thrS threonyl-tRNA synthetase; Provisional

Probab=98.58  E-value=1.3e-07  Score=84.99  Aligned_cols=116  Identities=16%  Similarity=0.103  Sum_probs=80.8

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc---C-CCceeccccccceeeeeechhhhhhhhhh---
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA---A-RPFVTHHNDLNMKLYMRIAPELYLKELVV---   75 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~---~-~~f~~~~~~~~~~~~L~~S~ql~~~~~~~---   75 (179)
                      -.-.++|..|.+.+|+.+.+.||.||.||.|...    .+|+.   . ..|.+  +..++.++|+.-.....-++.+   
T Consensus       165 P~G~~i~~~L~~~~r~~~~~~Gy~eV~TP~i~~~eL~k~SGh~~~y~~~mf~~--~~~~e~~~LrPm~cp~~~~~~~~~~  242 (545)
T PRK14799        165 PKGQTIRNELIAFMREINDSMGYQEVYTSHVFKTDIWKISGHYTLYRDKLIVF--NMEGDEYGVKPMNCPAHILIYKSKP  242 (545)
T ss_pred             ChHHHHHHHHHHHHHHHHHHcCCeEEECCccchHHHHhhccccccchhhccee--eccCceEEeccCCCHHHHHHHhccc
Confidence            3457899999999999999999999999998763    23321   1 22322  3346788888443333322222   


Q ss_pred             ----ccchheeecccccccccCCC----CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           76 ----GGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                          .-+-|+|++|+|||.|.++.    .+..||+|.|+.+ +++.+.+.+.+.+++.
T Consensus       243 ~SyrdLPlR~~e~g~vfR~E~sg~l~GL~RvReF~Q~DaHi-f~~~~q~~~E~~~~l~  299 (545)
T PRK14799        243 RTYRDLPIRFSEFGHVYRWEKKGELYGLLRVRGFVQDDGHI-FLREDQLREEIKMLIS  299 (545)
T ss_pred             cChhhCCHhhEEecceecCCCCCCccccccceeEEEcccEE-EeCHHHHHHHHHHHHH
Confidence                22469999999999999875    6999999999988 6665555455544443

>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain

Probab=98.58  E-value=1.4e-07  Score=78.74  Aligned_cols=117  Identities=16%  Similarity=0.152  Sum_probs=77.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      .-.+++..|.+.+++.+.+.||.||.||.|....    +|.    ..+.|.+  ...++.++|+.......-++.+    
T Consensus        28 ~g~~l~~~l~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sg~~~~~~~~my~~--~~~~~~l~LRP~~~~~~~~~~~~~~~  105 (298)
T cd00771          28 KGAIIRNELEDFLRELQRKRGYQEVETPIIYNKELWETSGHWDHYRENMFPF--EEEDEEYGLKPMNCPGHCLIFKSKPR  105 (298)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCeecCHHHHhhCCCccccccCceEe--ccCCceEEEcccCCHHHHHHHHhhcc
Confidence            4567899999999999999999999999998631    232    1123333  2234578887443322211221    


Q ss_pred             ---ccchheeecccccccccCCC----CCCCCcchhhHHHhhcc------hhHHHHHHHHHHHh
Q 030343           76 ---GGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFAD------YNDLMELTEKMLSG  126 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~------~~~lm~~~e~li~~  126 (179)
                         .-.-|++++|+|||+|..+.    .+..||+|.|+++....      ..++++++.++++.
T Consensus       106 s~~~LPlr~~~~g~vfR~E~~~~~~Gl~R~reF~q~e~~i~~~~e~~~~e~~e~l~~~~~~l~~  169 (298)
T cd00771         106 SYRDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSD  169 (298)
T ss_pred             chhhCCeEEEEecCcccCCCCCCCCCccccccEEECCEEEEeCCcchHHHHHHHHHHHHHHHHH
Confidence               12469999999999998752    48899999999987432      22355555555543

ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.

>PRK12305 thrS threonyl-tRNA synthetase; Reviewed

Probab=98.58  E-value=1.7e-07  Score=84.74  Aligned_cols=103  Identities=17%  Similarity=0.084  Sum_probs=71.9

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhhhhhhhh---
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVV---   75 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~---   75 (179)
                      ..-.++++.|.+.+++.|.+.||.||.||+|...    .+|+.    .+.|.+ .+..|+.+.|+....-..-++.+   
T Consensus       203 p~~~~~~~~l~~~~~~~~~~~Gy~ev~tP~le~~~l~~~sg~~~~~~~~my~~-~d~~~~~~~LRP~~~~~~~~~~~~~~  281 (575)
T PRK12305        203 PKGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSDLWKTSGHLDNYKENMFPP-MEIDEEEYYLKPMNCPGHILIYKSRL  281 (575)
T ss_pred             ccHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCCcccchhhcccc-cccCCceEEEecCCCHHHHHHHhccc
Confidence            3557889999999999999999999999999874    23321    123432 23356788888322222111111   


Q ss_pred             ----ccchheeecccccccccCCC----CCCCCcchhhHHHhh
Q 030343           76 ----GGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAF  110 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~  110 (179)
                          .-+-|.|++|+|||+|.++.    .+..||+|.|+++.+
T Consensus       282 ~s~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~if~  324 (575)
T PRK12305        282 RSYRDLPLRLAEFGTVYRYEKSGVLHGLTRVRGFTQDDAHIFC  324 (575)
T ss_pred             CChhhCCHhhEEecccccCCCCCCCcCcccccCeEEcceEEEe
Confidence                12469999999999999852    488999999999744

>TIGR00418 thrS threonyl-tRNA synthetase

Probab=98.53  E-value=2.3e-07  Score=83.61  Aligned_cols=118  Identities=19%  Similarity=0.172  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhhhhhhhhc--
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVVG--   76 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~--   76 (179)
                      ..-.+++..|.+.+++.+...||.||.||++...    .+|..    .+.|.. .+..|+.++|+.......-++.+.  
T Consensus       197 p~g~~~~~~i~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sg~~~~~~~emy~~-~d~~~~~~~LrP~~~~~i~~~~~~~~  275 (563)
T TIGR00418       197 PKGATIRNLLEDFVRQKQIKYGYMEVETPIMYDLELWEISGHWDNYKERMFPF-TELDNREFMLKPMNCPGHFLIFKSSL  275 (563)
T ss_pred             ccHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCcccchhhccee-ccCCCceEEEecCCCHHHHHHHhCcC
Confidence            3456789999999999999999999999999864    23321    122322 233467889985544433222221  


Q ss_pred             -----cchheeecccccccccCCC----CCCCCcchhhHHHhhcc------hhHHHHHHHHHHH
Q 030343           77 -----GLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFAD------YNDLMELTEKMLS  125 (179)
Q Consensus        77 -----~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~------~~~lm~~~e~li~  125 (179)
                           -+-|+|++|+|||.|..+.    .++.||+|.|++..+..      +.++++++.++++
T Consensus       276 ~s~~~lP~rl~~~g~~fR~E~~g~~~Gl~R~reF~q~~~~~~~~~~~~~~e~~~~i~~~~~~~~  339 (563)
T TIGR00418       276 RSYRDLPLRIAELGYSHRYEQSGELHGLMRVRGFTQDDAHIFCTEDQIKEEFKNQFRLIQKVYS  339 (563)
T ss_pred             CChHHCCceeeEeccccCCCCCcCCcCcccccceEEeeeEEEcCHHHHHHHHHHHHHHHHHHHH
Confidence                 2469999999999996542    48999999999886541      3335555555554

This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..

>PRK12444 threonyl-tRNA synthetase; Reviewed

Probab=98.53  E-value=2e-07  Score=85.29  Aligned_cols=113  Identities=14%  Similarity=0.126  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceeccccccceeeeeechhhhhhhhhhc----
Q 030343            9 IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVVG----   76 (179)
Q Consensus         9 ~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~----   76 (179)
                      -.+++..|.+.+++.+.+.||.||.||+|.+..    +|..    .+.|.  .+..++.++|+..+....-++...    
T Consensus       273 g~~~~~~i~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sG~~~~~~~emy~--~d~~~~~~~LrP~~~~~~~~~~~~~~~s  350 (639)
T PRK12444        273 GQIIRNELEAFLREIQKEYNYQEVRTPFMMNQELWERSGHWDHYKDNMYF--SEVDNKSFALKPMNCPGHMLMFKNKLHS  350 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCChhhhhhhcCe--ecCCCcEEEEccCCCHHHHHHHhCcccC
Confidence            356788899999999999999999999998741    2321    12221  133456778885554444333221    


Q ss_pred             ---cchheeecccccccccCCC--C--CCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           77 ---GLDRVYEIGKQFRNEGIDL--T--HNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        77 ---~~~kvf~i~~~fR~E~~~~--~--Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                         -+-|.|++|+|||.|.++.  .  +..||+|.|++ ++++-++....+++++
T Consensus       351 y~~LP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~d~~-~f~~~~~~~~e~~~~~  404 (639)
T PRK12444        351 YRELPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAH-LFVTPDQIEDEIKSVM  404 (639)
T ss_pred             hhhCCceeEEeccccCCCCCcCCcCcceeeeeEEccEE-EECCHHHHHHHHHHHH
Confidence               1469999999999999753  3  89999999998 4555444444433333

>PLN02908 threonyl-tRNA synthetase

Probab=98.52  E-value=2.3e-07  Score=85.62  Aligned_cols=118  Identities=18%  Similarity=0.132  Sum_probs=82.0

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhhhhhhhh---
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVV---   75 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~---   75 (179)
                      ..-.++++.+.+.+|+.+.+.||.||.||.|.+.    .+|+.    ...|.+  +..+..++|+.......-.+.+   
T Consensus       318 P~g~~i~~~l~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sGh~~~~~~~mf~~--~~~~~~~~Lrp~~~~~~~~~~~~~~  395 (686)
T PLN02908        318 PHGARIYNKLMDFIREQYWERGYDEVITPNIYNMDLWETSGHAAHYKENMFVF--EIEKQEFGLKPMNCPGHCLMFAHRV  395 (686)
T ss_pred             chHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhccEE--ecCCeeEEEcCCCcHHHHHHHhccc
Confidence            3457899999999999999999999999999874    23321    122332  2345778887443332221211   


Q ss_pred             ----ccchheeecccccccccCC----CCCCCCcchhhHHHhhcchhHHHHHHHHHHHhh
Q 030343           76 ----GGLDRVYEIGKQFRNEGID----LTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM  127 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~----~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~  127 (179)
                          .-+-|+|++|+|||+|.++    -.+..||+|.|.++ ++..+++.+.+++++..+
T Consensus       396 ~s~r~LPlr~~~~g~~fR~E~~~~l~Gl~RvReF~q~d~~i-f~~~~q~~~e~~~~l~~~  454 (686)
T PLN02908        396 RSYRELPLRLADFGVLHRNELSGALTGLTRVRRFQQDDAHI-FCREDQIKDEVKGVLDFL  454 (686)
T ss_pred             cChhhCCHhHEEeeccccCCCCcCCcCccccccEEEeeEEE-EcCHHHHHHHHHHHHHHH
Confidence                2256999999999999984    36999999999988 655566666665555433

>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I

Probab=98.44  E-value=8.7e-07  Score=78.52  Aligned_cols=118  Identities=20%  Similarity=0.129  Sum_probs=84.1

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc----CCCceeccccc----cceeeeeechhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA----ARPFVTHHNDL----NMKLYMRIAPELYLKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~----~~~f~~~~~~~----~~~~~L~~S~ql~~~~~~   74 (179)
                      .-.+++..|.+.+++-+.+.||.||.||.|.+..     +++.    .+.|.+. +..    +.+++|+...+-.+-.+.
T Consensus        36 ~g~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~f~v~-~~g~~~~~e~l~LrPt~e~~i~~~~  114 (472)
T TIGR00408        36 YGFKIWKNIQKILRNILDEIGHEEVYFPMLIPESELAKEKDHIKGFEPEVYWIT-HGGLSKLDEPLALRPTSETAMYPMF  114 (472)
T ss_pred             CHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhhcchhhhcchhcEEEe-cCCCCccCCcEEEeCCCcHHHHHHH
Confidence            3467899999999999999999999999998631     2221    1233331 222    478899855544332111


Q ss_pred             ----h---ccchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHHh
Q 030343           75 ----V---GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLSG  126 (179)
Q Consensus        75 ----~---~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~  126 (179)
                          .   .-.-|+|++++|||.|..++   .+..||+|.|.+..+++.++..+.++.++..
T Consensus       115 ~~~i~S~rdLPlr~~q~~~vfR~E~~~~~gl~R~rEF~~~e~h~~~~~~e~a~~e~~~~l~~  176 (472)
T TIGR00408       115 KKWVKSYTDLPLKINQWVNVFRYETKHTRPFLRTREFTWQEAHTAHATAEEAEEQVLRALDI  176 (472)
T ss_pred             hccccChhhcCHHHhheeeeecCCCCCCCCcceeeeeehhhhhhhhCCHHHHHHHHHHHHHH
Confidence                1   12579999999999999864   4999999999998888877777766666643

Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.

>PRK12325 prolyl-tRNA synthetase; Provisional

Probab=98.40  E-value=6.9e-07  Score=78.47  Aligned_cols=116  Identities=16%  Similarity=0.124  Sum_probs=78.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----cccc----cCCCceeccccccceeeeeech-hhhhh----hhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGA----AARPFVTHHNDLNMKLYMRIAP-ELYLK----ELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~----~~~~f~~~~~~~~~~~~L~~S~-ql~~~----~~~   74 (179)
                      .-.+++..|.+.+++-+.+.||.||.||.|.+.    ..|+    ..+.|.+ .+..+..++|+... ..+..    ...
T Consensus        45 ~g~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~emf~~-~d~~~~~~~L~Pt~e~~~~~~~~~~~~  123 (439)
T PRK12325         45 LGLKVLKKIENIVREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEMLRI-KDRHDREMLYGPTNEEMITDIFRSYVK  123 (439)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhheEE-ecCCCCEEEEcCCCcHHHHHHHHHHhh
Confidence            446899999999999999999999999999874    1222    1233432 23346778887433 22222    111


Q ss_pred             h--ccchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           75 V--GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        75 ~--~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                      +  .-.-|+|++|++||+|..+.   .+..||+|-|.+....+.+++.+..++++
T Consensus       124 syrdLPlrl~q~~~~fR~E~~~~~GL~R~reF~~~D~h~f~~~~~~a~~~~~~~~  178 (439)
T PRK12325        124 SYKDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLDEEGARHSYNRMF  178 (439)
T ss_pred             hchhhchHheEecCEecCCCCCCCCccccceEeEeccEEEeCCHHHHHHHHHHHH
Confidence            1  23579999999999996442   39999999888776666555544444443

>PRK08661 prolyl-tRNA synthetase; Provisional

Probab=98.36  E-value=8.8e-07  Score=78.60  Aligned_cols=117  Identities=17%  Similarity=0.034  Sum_probs=82.1

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc----CCCceeccccc----cceeeeeechh-----hh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA----ARPFVTHHNDL----NMKLYMRIAPE-----LY   69 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~----~~~f~~~~~~~----~~~~~L~~S~q-----l~   69 (179)
                      .-.+++..|.+.+++.|.+.||.||.||.|.+..     +|+.    .+.|.+. +..    +.+++|+..++     ++
T Consensus        42 ~g~~i~~~i~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~~~v~-~~~~~~~~e~l~LrPtsE~~i~~~~  120 (477)
T PRK08661         42 YGYAIWENIQKILDKLFKETGHENVYFPLLIPESLLEKEKEHVEGFAPEVAWVT-HGGGEKLEEKLALRPTSETIIYPMY  120 (477)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhhcCchhhcccccEEEE-ccCCCccCceEEEecCCcHHHHHHH
Confidence            4568899999999999999999999999998631     2321    1233331 112    46788985542     22


Q ss_pred             hhhhhh--ccchheeecccccccccCCC--CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           70 LKELVV--GGLDRVYEIGKQFRNEGIDL--THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        70 ~~~~~~--~~~~kvf~i~~~fR~E~~~~--~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                      ...+.+  .-+-|+|++++|||.|....  .+..||+|.|.+..+++.++..+.++.++.
T Consensus       121 ~~~i~SyrdLPlrl~q~~~vfR~E~~~rgl~R~rEF~~~E~h~~~~~~eea~~e~~~~l~  180 (477)
T PRK08661        121 KKWIQSYRDLPLLYNQWVNVVRWETKTRPFLRTREFLWQEGHTAHATEEEAEEETLEMLE  180 (477)
T ss_pred             HhhhcchhhcCHHHhcccceeeCCCCCCCcceeeeEEEcceeeeeCCHHHHHHHHHHHHH
Confidence            221111  22579999999999999833  499999999999888887777666666554

>TIGR00414 serS seryl-tRNA synthetase

Probab=98.30  E-value=1.8e-06  Score=75.46  Aligned_cols=114  Identities=18%  Similarity=0.209  Sum_probs=78.7

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      ...+++.++.+.+++.+.+.||.||.||.|.+.    .+|..    .+.|.+    -+...+|.-.++..+-.+.+    
T Consensus       171 ~g~~l~~aL~~~~~~~~~~~G~~~v~~P~lv~~~~~~~~G~~~~f~~~~y~i----~~~~~~L~pTsE~~~~~~~~~~i~  246 (418)
T TIGR00414       171 DGAKLERALINFMLDLLEKNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFKL----EDTDLYLIPTAEVPLTNLHRNEIL  246 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCccccccccceEe----cCCCEEEEeCCcHHHHHHHhCcCC
Confidence            457889999999999999999999999999874    23321    122322    14567888665554432222    


Q ss_pred             ---ccchheeecccccccccCC----C---CCCCCcchhhHHHhhcchhHHHHHHHHHHHh
Q 030343           76 ---GGLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYNDLMELTEKMLSG  126 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~  126 (179)
                         .-.-|++++|+|||+|...    +   -+..||+|.|. ..+++-++..+..++++..
T Consensus       247 s~~~LPlr~~~~s~~FR~E~g~~G~~t~GL~Rv~qF~k~E~-~~f~~~e~s~~~~~~~~~~  306 (418)
T TIGR00414       247 EEEELPIKYTAHSPCFRSEAGSYGKDTKGLIRVHQFNKVEL-VKFCKPEESAEELEEMTSD  306 (418)
T ss_pred             ChHhCCeeEEEEcccccCCCCccCCCCCccccccceeeeeE-EEEcCHHHHHHHHHHHHHH
Confidence               1257999999999999742    2   39999999999 4465555555555555543

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.

>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=98.27  E-value=2.4e-06  Score=70.68  Aligned_cols=100  Identities=8%  Similarity=-0.016  Sum_probs=70.7

Q ss_pred             hhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----cccc--CCCceeccccccceeeeeechhhhhhhhhhc---
Q 030343            6 VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA--ARPFVTHHNDLNMKLYMRIAPELYLKELVVG---   76 (179)
Q Consensus         6 ~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~--~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~---   76 (179)
                      ++..+..+..+.+.+++.|.++||.+|.||++....    .+..  ...+....+..|+..-||.-.....-+..+.   
T Consensus         3 ~~~~~~~~~~ie~~l~~~f~~~GY~~I~tP~~E~~d~~~~~~~~~~~~~~~~~~~~~Gr~laLRpD~T~~iAR~~a~~~~   82 (272)
T PRK12294          3 NSEQLIALKESETAFLKYFNKADYELVDFSVIEKLDWKQLNHEDLQQMGERSFWQHEHQIYALRNDFTDQLLRYYSMYPT   82 (272)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHcCCeEeeCCcchhHHhhhccccchhhhheeeeecCCCCEEEEcCCCCHHHHHHHHhcCC
Confidence            456677888999999999999999999999997532    1111  1222221233578888885544444444432   


Q ss_pred             cchheeecccccccccCCCCCCCCcchhhHHHhhcc
Q 030343           77 GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD  112 (179)
Q Consensus        77 ~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~  112 (179)
                      +..|.|++|+|||.++       +|+|+.+|..+.+
T Consensus        83 ~~~Rl~Y~g~VfR~~~-------~~~Q~GvEliG~~  111 (272)
T PRK12294         83 AATKVAYAGLIIRNNE-------AAVQVGIENYAPS  111 (272)
T ss_pred             CCceEEEeccEeccCC-------CcceeceEEECCC
Confidence            4569999999999874       3899999998843

>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain

Probab=98.22  E-value=2.2e-06  Score=71.65  Aligned_cols=113  Identities=19%  Similarity=0.219  Sum_probs=77.9

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----cccc----cCCCceeccccccceeeeeechhhhhhhhhhc---
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVVG---   76 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~---   76 (179)
                      ...+++.+|.+.+++.+.+.||.||.||.|.+.    .+|.    ..+.|.+    .+..++|+-..+..+-.+++.   
T Consensus        50 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~~~f~v----~~~~~~L~pt~e~~~~~l~~~~~~  125 (297)
T cd00770          50 DGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYKV----EGEDLYLIATAEVPLAALHRDEIL  125 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECcccccHHHHhhcCcCccChhcccEe----cCCCEEEeecCCHHHHHHHhcccC
Confidence            457899999999999999999999999999874    2332    1123333    136788886655554433322   


Q ss_pred             ----cchheeecccccccccCC-------CCCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           77 ----GLDRVYEIGKQFRNEGID-------LTHNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        77 ----~~~kvf~i~~~fR~E~~~-------~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                          -.-|+|++|+|||+|...       --+..||+|.|.+. ++.-++..+..++++.
T Consensus       126 s~~~LPlr~~~~~~~fR~E~~~~g~~~~GL~R~reF~~~e~~~-f~~~e~~~~~~~~~l~  184 (297)
T cd00770         126 EEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFV-FTKPEESWEELEELIS  184 (297)
T ss_pred             CHhhCCchheecChhHhCccccCCCCCCCceEEEeeeeeeEEE-EECchHHHHHHHHHHH
Confidence                257999999999999762       14899999999964 4433444444444443

SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.

>TIGR00469 pheS_mito phenylalanyl-tRNA synthetase, mitochondrial

Probab=98.15  E-value=4.3e-06  Score=73.23  Aligned_cols=90  Identities=20%  Similarity=0.279  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhhccC--------Cceeeec--ccccc--------ccccccCCCceeccccccceeeee--echhhhhhhh
Q 030343           14 SKIVSYIRRFLDNL--------DFLEVET--PMMNM--------IAGGAAARPFVTHHNDLNMKLYMR--IAPELYLKEL   73 (179)
Q Consensus        14 s~i~~~ir~ff~~~--------gF~ev~t--P~l~~--------~~~~~~~~~f~~~~~~~~~~~~L~--~S~ql~~~~~   73 (179)
                      +.+.+.|.++|.+.        ||.-++.  |+.+.        .|.++.++.... ..|.+....||  +|+-..  ++
T Consensus        45 ~~~~~~I~~~F~~~~~~~~~~~gf~v~~~~~Pvvt~~~NFD~Ln~P~dHPaR~~~D-T~Yi~~~~lLRTHTSa~q~--~~  121 (460)
T TIGR00469        45 GIIRDLIEKKFNGADNNQRGNPLFKIFDNFKPVVTTMENFDNLGFPADHPGRQKSD-CYYINEQHLLRAHTSAHEL--EC  121 (460)
T ss_pred             HHHHHHHHHHHHhhhcccccCCCeEEeeCCCCccchhhhhhhcCCCCCCcccCccc-ceEecCCceeCCCCcHHHH--HH
Confidence            34667777888776        8977777  94332        145555665542 34667778887  565443  23


Q ss_pred             hhccc-----hh--eeecccccccccCCCCCCCCcchhhH
Q 030343           74 VVGGL-----DR--VYEIGKQFRNEGIDLTHNPEFTTCEF  106 (179)
Q Consensus        74 ~~~~~-----~k--vf~i~~~fR~E~~~~~Hl~EF~~le~  106 (179)
                      |..+.     .+  +...|.|||.+..|++|.|.|+|+|.
T Consensus       122 ~~~~~~~~~~~~~~~i~~G~VYRrD~iDatH~p~FHQ~EG  161 (460)
T TIGR00469       122 FQGGLDDSDNIKSGFLISADVYRRDEIDKTHYPVFHQADG  161 (460)
T ss_pred             HHhccccCCCcceeeEeecceeeCCCCccccCccceeeEE
Confidence            33332     33  88999999999999999999999994

Unlike all other known phenylalanyl-tRNA synthetases, the mitochondrial form demonstrated from yeast is monomeric. It is similar to but longer than the alpha subunit (PheS) of the alpha 2 beta 2 form found in Bacteria, Archaea, and eukaryotes, and shares the characteristic motifs of class II aminoacyl-tRNA ligases. This alignment models the experimental example from Saccharomyces cerevisiae (designated MSF1) and its orthologs from other eukaryotic species.

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=98.09  E-value=7.4e-06  Score=71.75  Aligned_cols=114  Identities=15%  Similarity=0.164  Sum_probs=79.1

Q ss_pred             hHHHHHHHHHHHHHHhhc-cCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhhhhhhhhc--
Q 030343            8 QIFKTRSKIVSYIRRFLD-NLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVVG--   76 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~-~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~--   76 (179)
                      ...++..++.+.+++.+. +.||.||.||.|.+.    .+|..    ...|.+    -+.+.||.-..+..+-.+++.  
T Consensus       168 ~ga~L~~aL~~~~~~~~~~~~G~~ev~~P~lv~~~~~~~~G~~~~f~~~ly~i----~~~~~~L~pTsE~~l~~l~~~~~  243 (425)
T PRK05431        168 DGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEESMYGTGQLPKFEEDLYKI----EDDDLYLIPTAEVPLTNLHRDEI  243 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCEEEeccccccHHHHhhcCccccchhhceEe----cCCCEEEEeCCcHHHHHHHhccc
Confidence            456788999999988888 999999999999873    23321    122332    145788986665555433321  


Q ss_pred             -----cchheeecccccccccCC----C---CCCCCcchhhHHHhhcchhHHHHHHHHHHHh
Q 030343           77 -----GLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYNDLMELTEKMLSG  126 (179)
Q Consensus        77 -----~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~  126 (179)
                           -.-|++++++|||.|...    +   -+..||+|.|.. +++.-++..+..++++..
T Consensus       244 ~s~~dLPlr~~~~s~~fR~Eag~~g~~~~GL~Rv~qF~k~E~~-~f~~~e~s~~~~~~~l~~  304 (425)
T PRK05431        244 LDEEELPLKYTAYSPCFRSEAGSAGRDTRGLIRVHQFDKVELV-KFTKPEDSYAELEELTAN  304 (425)
T ss_pred             CCHHhCCeeEEEEcCEecCCCCcCCCCCCceeeeeeeeeeeEE-EEECHHHHHHHHHHHHHH
Confidence                 257999999999999843    2   389999999997 455556666666655543

>PLN02837 threonine-tRNA ligase

Probab=98.06  E-value=1.1e-05  Score=73.79  Aligned_cols=117  Identities=15%  Similarity=0.062  Sum_probs=79.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhh-----hhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELY-----LKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~-----~~~~~   74 (179)
                      .-.+++.++.+.+++...++||.+|.||.|...    .+|.-    .+.|.+ .+.-+..+.|+.+..-.     .....
T Consensus       245 ~G~~l~~~L~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sGh~~~~~~~mf~~-~~~~~~~y~l~p~~~p~~~~~~~~~~~  323 (614)
T PLN02837        245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKADLWKTSGHLDFYKENMYDQ-MDIEDELYQLRPMNCPYHILVYKRKLH  323 (614)
T ss_pred             hHHHHHHHHHHHHHHHHHHCCCEEEECCccCCHHHHhhcCCcccchhhcccc-cCCCCceEEECCCCcHHHHHHHhCccC
Confidence            457889999999999999999999999999874    23321    122322 11123445666444332     11111


Q ss_pred             --hccchheeecccccccccCCC----CCCCCcchhhHHHhhcchhHHHHHHHHHHHh
Q 030343           75 --VGGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFADYNDLMELTEKMLSG  126 (179)
Q Consensus        75 --~~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~  126 (179)
                        ..-+-+++++|+|||+|.++.    -+..||+|.|... |+..++..+.+++++..
T Consensus       324 SyrdLPlr~~~~~~~~R~E~~g~~~GL~RvreF~~~e~h~-f~~~~q~~~e~~~~l~~  380 (614)
T PLN02837        324 SYRDLPIRVAELGTVYRYELSGSLHGLFRVRGFTQDDAHI-FCLEDQIKDEIRGVLDL  380 (614)
T ss_pred             ChhHCCHhhEeecccccCCCCCCCcCcccccceEECeEEE-EeCHHHHHHHHHHHHHH
Confidence              123579999999999999752    4899999999986 77666666666666643

>PRK03991 threonyl-tRNA synthetase; Validated

Probab=97.98  E-value=1.7e-05  Score=72.45  Aligned_cols=120  Identities=21%  Similarity=0.221  Sum_probs=81.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc---c-ccc----cCCCceeccccccceeeeeechhhhhhhh-----h
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI---A-GGA----AARPFVTHHNDLNMKLYMRIAPELYLKEL-----V   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~---~-~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~-----~   74 (179)
                      .-.+++..|.+.+++.+.+.||.+|.||.+...   . .|+    ..+.|.+.  .-+..++|+.......-..     .
T Consensus       225 ~G~~i~~~L~~~~~~~~~~~G~~~V~tP~~~~~~~~~~sgh~~~f~e~my~v~--~~~e~l~Lrp~~c~~~~~~~~~~~~  302 (613)
T PRK03991        225 KGRLIRDLLEDYVYNLVVELGAMPVETPIMYDLSHPAIREHADKFGERQYRVK--SDKKDLMLRFAACFGQFLMLKDMTI  302 (613)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCeecChhHHhhcccccccchhceEec--CCCceEEEecCCCHHHHHHHhCCcC
Confidence            457899999999999999999999999998432   1 111    12334331  1246788874443222111     1


Q ss_pred             h--ccchheeeccc-ccccccCCC----CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhh
Q 030343           75 V--GGLDRVYEIGK-QFRNEGIDL----THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        75 ~--~~~~kvf~i~~-~fR~E~~~~----~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~  129 (179)
                      +  .-.-|+|++|+ |||+|.++.    .++.||+|.|......+.++.++..++++..+..
T Consensus       303 SyrdLPlr~~e~~~~~fR~E~~g~l~GL~RvReF~~~D~h~f~~~~eqa~~e~~~~l~~~~~  364 (613)
T PRK03991        303 SYKNLPLKMYELSTYSFRLEQRGELVGLKRLRAFTMPDMHTLCKDMEQAMEEFEKQYEMILE  364 (613)
T ss_pred             chhhCChhhheecchheeCCCCCCCcCcccccceEeeeEEEEECCHHHHHHHHHHHHHHHHH
Confidence            1  22578999999 999998753    4999999999977544567777766666654333

>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]

Probab=97.95  E-value=3.4e-05  Score=66.62  Aligned_cols=121  Identities=18%  Similarity=0.217  Sum_probs=86.3

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc----cc-ccc--CCCceeccccccceeeeeechhhhhhhh---
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AG-GAA--ARPFVTHHNDLNMKLYMRIAPELYLKEL---   73 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~-~~~--~~~f~~~~~~~~~~~~L~~S~ql~~~~~---   73 (179)
                      +.+..-.+....|.+.+++.|..+||..|+||+|+..    .+ |..  .+.|++ .+..|+...||.--....-+.   
T Consensus        11 d~Lp~e~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~~l~~~g~~l~~~~f~l-~d~~g~~l~LRpD~T~pVaR~~~~   89 (390)
T COG3705          11 DVLPLEARRKEEIRDQLLALFRAWGYERVETPTLEPADPLLDGAGEDLRRRLFKL-EDETGGRLGLRPDFTIPVARIHAT   89 (390)
T ss_pred             hcchhHHhhHHHHHHHHHHHHHHhCCccccccccchhhhhhhccchhhhhhheEE-ecCCCCeEEecccccHHHHHHHHH
Confidence            3444566778899999999999999999999999974    22 322  466775 455667799984433333222   


Q ss_pred             -hhccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           74 -VVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        74 -~~~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                       +.....|.++.|+|||..+...+...||+|..+|.-+.+    -.|++.++-..++
T Consensus        90 ~~~~~P~Rl~Y~G~Vfr~~~~~~g~~~Ef~QaGiEllG~~~~~ADaEvi~la~~~L~  146 (390)
T COG3705          90 LLAGTPLRLSYAGKVFRAREGRHGRRAEFLQAGIELLGDDSAAADAEVIALALAALK  146 (390)
T ss_pred             hcCCCCceeeecchhhhcchhccCcccchhhhhhHHhCCCcchhhHHHHHHHHHHHH
Confidence             334578999999999999555578889999999998852    4455555444444

>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=97.87  E-value=3.4e-05  Score=68.66  Aligned_cols=117  Identities=25%  Similarity=0.268  Sum_probs=88.8

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      .-++++.+|.+.+|+-|++-|-.||.-|.|.++.    .|.    +.+.|.+ .+..++++.|+..++--.--++.    
T Consensus        45 ~g~rv~~kI~~iir~em~~~G~~Evl~P~L~p~eLwkEs~r~~~f~~El~~v-~drg~~~l~L~PTsEe~it~~~~~~i~  123 (500)
T COG0442          45 LGLRVLEKIENIIREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGPELFRV-KDRGDRPLALRPTSEEVITDMFRKWIR  123 (500)
T ss_pred             cHHHHHHHHHHHHHHHHHhcCceEEechhcCHHHHHHHhChhhhcchhhEEE-EccCCceeeeCCCcHHHHHHHHHHHhh
Confidence            4578999999999999999999999999999852    221    1233433 35568899998554432221221    


Q ss_pred             ---ccchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           76 ---GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                         .-.-++|||+.+||.|...+   -+..||+|=|.+-.++|.+++....+.++.
T Consensus       124 SYkdLPl~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~~e~a~~~y~~~~~  179 (500)
T COG0442         124 SYKDLPLKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHADEEDAEETYEKMLD  179 (500)
T ss_pred             hhhhCCcceeeeeeEEeccccCCCCccchheeeecccccccCCHHHHHHHHHHHHH
Confidence               23579999999999998643   599999999999999999998888887774

>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase

Probab=97.85  E-value=8.3e-06  Score=71.59  Aligned_cols=52  Identities=17%  Similarity=0.226  Sum_probs=47.0

Q ss_pred             ccchheeeccccccccc-CCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           76 GGLDRVYEIGKQFRNEG-IDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        76 ~~~~kvf~i~~~fR~E~-~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ...-|+|++|+|||+|. .|++|+++|+|+|+-+++.  ++.|++.+++.+++.+
T Consensus       205 ~~PiRIFsIGRVfRrD~~~DaTHl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~L  259 (533)
T TIGR00470       205 KLPLKLFSIDRCFRREQREDRSHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQF  259 (533)
T ss_pred             CCCeEEEeeeeEEecCCCCCCccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence            35689999999999996 6899999999999988884  6999999999999887

This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.

>PLN02678 seryl-tRNA synthetase

Probab=97.71  E-value=5.8e-05  Score=66.46  Aligned_cols=114  Identities=15%  Similarity=0.142  Sum_probs=70.7

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeech-----hhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAP-----ELYLKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~-----ql~~~~~~   74 (179)
                      ...+++.++++.++++..++||+||.||.|...    .+|..    ...|.+.  ..+...||.-.+     -+|....+
T Consensus       172 ~ga~L~~AL~~y~ld~~~~~Gy~~V~~P~lv~~~~~~~sG~~~~f~e~my~i~--~~~~~~yLi~TaE~~l~~~h~~~~~  249 (448)
T PLN02678        172 AGVLLNQALINFGLAFLRKRGYTPLQTPFFMRKDVMAKCAQLAQFDEELYKVT--GEGDDKYLIATSEQPLCAYHRGDWI  249 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECcccccHHHHhhcCCcccchhcCceec--CCCCceeeecccccccChHHhcccC
Confidence            457889999999999999999999999999863    23321    1222221  012345554321     12221112


Q ss_pred             --hccchheeecccccccccC----CC---CCCCCcchhhHHHhhcchhH--HHHHHHHHH
Q 030343           75 --VGGLDRVYEIGKQFRNEGI----DL---THNPEFTTCEFYMAFADYND--LMELTEKML  124 (179)
Q Consensus        75 --~~~~~kvf~i~~~fR~E~~----~~---~Hl~EF~~le~e~~~~~~~~--lm~~~e~li  124 (179)
                        ..-.-|.+.+++|||+|..    ++   .+..+|+++|... ++.-++  .....|+++
T Consensus       250 s~~eLPlr~~~~s~cfR~Eags~G~~~~GL~RvhqF~KvE~f~-~~~pe~~~s~~~~e~~l  309 (448)
T PLN02678        250 DPKELPIRYAGYSTCFRKEAGSHGRDTLGIFRVHQFEKVEQFC-ITSPNGNESWEMHEEML  309 (448)
T ss_pred             CHHhCCceeEEeccccccccccCCCcCCcceEEEEEEEEEEEE-EECCCchhHHHHHHHHH
Confidence              1235799999999999986    22   4899999999833 333333  444444444

>PRK04173 glycyl-tRNA synthetase; Provisional

Probab=97.66  E-value=8.8e-05  Score=65.58  Aligned_cols=50  Identities=24%  Similarity=0.130  Sum_probs=37.3

Q ss_pred             chheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhh
Q 030343           78 LDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLSGMI  128 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~  128 (179)
                      +-++.++|+|||+|.+..   .+..||+|.|.. .|++.+++.+.+..++..+.
T Consensus       186 Plr~aq~g~~~RnE~s~~~gL~RvReF~q~e~h-iF~~peq~~~e~~~~l~~~~  238 (456)
T PRK04173        186 PFGIAQIGKSFRNEITPRNFIFRTREFEQMELE-FFVKPGTDNEWFAYWIELRK  238 (456)
T ss_pred             CeeeeEEchhHhCccCCCCCceeeceeeeeEEE-EEECcChHHHHHHHHHHHHH
Confidence            579999999999998753   367999999997 57776666555555554333

>PLN02320 seryl-tRNA synthetase

Probab=97.64  E-value=9.7e-05  Score=65.77  Aligned_cols=116  Identities=10%  Similarity=0.080  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeeccccccc----cccccC--CCceeccccccceeeeeechh-----hhhhhhhh--c
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAAA--RPFVTHHNDLNMKLYMRIAPE-----LYLKELVV--G   76 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~~--~~f~~~~~~~~~~~~L~~S~q-----l~~~~~~~--~   76 (179)
                      .++..++++.+++...++||.||.||.|...    .+|...  +....+ ..-+...||.-..+     +|....+.  .
T Consensus       233 a~Le~ALi~f~ld~~~~~Gy~eV~tP~lv~~~l~~~sG~~p~~e~~~~y-~ie~ed~~Li~TaE~Pl~~~~~~~ils~~d  311 (502)
T PLN02320        233 VLLEMALVNWTLSEVMKKGFTPLTTPEIVRSSVVEKCGFQPRGDNTQVY-SIDGSDQCLIGTAEIPVGGIHMDSILLESA  311 (502)
T ss_pred             HHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHHhcCCCcccccCcee-EECCCceEEeecccccccccccccccCHhh
Confidence            4466788888888889999999999999863    233211  010100 11245677742222     23322221  2


Q ss_pred             cchheeecccccccccC--C--C---CCCCCcchhhHHHhhcchhHHHHHHHHHHHhh
Q 030343           77 GLDRVYEIGKQFRNEGI--D--L---THNPEFTTCEFYMAFADYNDLMELTEKMLSGM  127 (179)
Q Consensus        77 ~~~kvf~i~~~fR~E~~--~--~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~  127 (179)
                      -.-|...+|+|||.|..  +  +   -+..+|+++|.-+ ++..++..+..++++..+
T Consensus       312 LPlRy~~~s~cFR~EAgs~G~d~rGL~RvhQF~KvE~~i-f~~peqs~~e~e~ll~~~  368 (502)
T PLN02320        312 LPLKYVAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFV-ICRPEESESFHEELIQIE  368 (502)
T ss_pred             CCceeEEeccccccccccCCCcCCCceeeeeeecccEEE-EECHHHHHHHHHHHHHHH
Confidence            25799999999999976  2  2   3899999999843 555555555555555433

>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=97.12  E-value=0.00061  Score=61.85  Aligned_cols=117  Identities=19%  Similarity=0.268  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceeccccccceeeeee--ch---hhhhhhhhh-
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDLNMKLYMRI--AP---ELYLKELVV-   75 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~~~~~~L~~--S~---ql~~~~~~~-   75 (179)
                      ..+|+.+.+.+|.-..+.||.||.||.+....    .|+-    .+.|.+.  .-++.+.|+.  .|   +.++...-+ 
T Consensus       220 ~~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~l~~~SGH~~~y~e~mf~~~--~~~~~~~lKpmNCpgh~~ifk~~~~SY  297 (589)
T COG0441         220 ATIRNLLEDYVRTKLRSYGYQEVKTPVLADLELWELSGHWDNYKEDMFLTE--SDDREYALKPMNCPGHILIFKSGLRSY  297 (589)
T ss_pred             ccHHHHHHHHHHHHHHhcCceEecCCeeeecccchhccchhhccccceeec--cCChhheeeeccCHhHHHHHhcCCcce
Confidence            46899999999999999999999999997532    2221    0111110  0112233331  11   122221111 


Q ss_pred             -ccchheeecccccccccCCC----CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhh
Q 030343           76 -GGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        76 -~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~  129 (179)
                       .-.-|++++|.|+|.|.++.    +++..|||=|.-+ ++..+.+.+.+.+.+..+..
T Consensus       298 R~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdDaHi-fc~~dQi~~E~~~~~~~i~~  355 (589)
T COG0441         298 RELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHI-FCTPDQIKDEFKGILELILE  355 (589)
T ss_pred             eccchhhhhcceeecccCcchhhccccccceeecccce-eccHHHHHHHHHHHHHHHHH
Confidence             12469999999999999874    5889999999855 55666666666666655544

>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=97.09  E-value=0.0015  Score=55.81  Aligned_cols=111  Identities=17%  Similarity=0.225  Sum_probs=80.1

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----cc----ccCCCceeccccccceeeeeechhhhhhhhhhc---
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GG----AAARPFVTHHNDLNMKLYMRIAPELYLKELVVG---   76 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~----~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~---   76 (179)
                      --+|+-+++.+.++.-|..-|=.+|.-|+|++..    .|    .+++.|.. .+..|+.++|+..-+=-.-.+|+.   
T Consensus        50 lg~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~~LWekTgRw~~~gsEl~rl-~Dr~gkq~cL~pThEE~iT~lmat~~~  128 (457)
T KOG2324|consen   50 LGLRVLNKLCRLLDNEMQSGGAQKISLPILSSKELWEKTGRWDAMGSELFRL-HDRKGKQMCLTPTHEEDITALMATYIP  128 (457)
T ss_pred             chHHHHHHHHHHHHHHHHhccCeeEeecccChHHHHHhcCcccccchhheEe-eccCCCEeccCCchHHHHHHHHHhcCc
Confidence            3468889999999999999999999999998741    11    23455654 567788888875443322223331   


Q ss_pred             -----cchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHH
Q 030343           77 -----GLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMEL  119 (179)
Q Consensus        77 -----~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~  119 (179)
                           -.-++|+||+=||+|-..+   -+-.||.|-|.|--..+-++.|+.
T Consensus       129 lsykqlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYsFd~~~etA~qT  179 (457)
T KOG2324|consen  129 LSYKQLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYSFDSDEETAQQT  179 (457)
T ss_pred             cccccCcEEeeeechhhhhccCccccchhhHHHHHhhhhcccCCHHHHHHH
Confidence                 1468999999999998532   588999999998866565555553

>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=97.07  E-value=0.0017  Score=56.74  Aligned_cols=115  Identities=17%  Similarity=0.197  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHHHhhccCCceeeecccccccc---ccccCCCceecccc-ccceeeeeechhhhhhhh-----hh--cc
Q 030343            9 IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA---GGAAARPFVTHHND-LNMKLYMRIAPELYLKEL-----VV--GG   77 (179)
Q Consensus         9 ~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~---~~~~~~~f~~~~~~-~~~~~~L~~S~ql~~~~~-----~~--~~   77 (179)
                      +.++-.++.+.+-++..++||.|+.+|.|....   |.+-..-|.-...+ -+.++||....+..+--+     +.  ..
T Consensus       173 ~a~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtgqlpkf~e~~y~v~~~~~~LipTaEvpl~~l~~~Eil~~~~L  252 (429)
T COG0172         173 GARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPKFEEDLYKVEDPDLYLIPTAEVPLTNLHRDEILDEEDL  252 (429)
T ss_pred             HHHHHHHHHHHHHHHHHHcCceEeeCceeecHHHhhccCCCCCCcccceEecCCCEEEEecchhhhHHhhcccccccccC
Confidence            345556677777777789999999999998632   22211112210000 123678876655544322     22  13


Q ss_pred             chheeecccccccccCC----C---CCCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           78 LDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                      ..+.+-.+||||.|...    +   .+..+|..+|.-. ++..++.....|+|+
T Consensus       253 P~k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v~-~~~Pe~S~~~~E~m~  305 (429)
T COG0172         253 PIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVV-ITKPEESEEELEEML  305 (429)
T ss_pred             CeeeEEEChhhhcccccccccccceeeeeeeeeEEEEE-EeCcchhHHHHHHHH
Confidence            57888899999999743    3   4888999998732 334444444444444

>TIGR00415 serS_MJ seryl-tRNA synthetase, Methanococcus jannaschii family

Probab=97.07  E-value=0.0015  Score=58.35  Aligned_cols=117  Identities=12%  Similarity=0.061  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHHHhh-ccCCceeeecccccccc----ccccCCCc-----eecc-----------------------cc
Q 030343            9 IFKTRSKIVSYIRRFL-DNLDFLEVETPMMNMIA----GGAAARPF-----VTHH-----------------------ND   55 (179)
Q Consensus         9 ~~~~rs~i~~~ir~ff-~~~gF~ev~tP~l~~~~----~~~~~~~f-----~~~~-----------------------~~   55 (179)
                      ..+++..+.+.+.+.. .+.||.|+.+|.|.+..    +|. ...|     .+..                       ..
T Consensus       222 ga~L~rAL~~~~ld~~~~k~Gy~ev~fP~LIp~e~l~k~gh-l~gF~~e~y~Vt~~~~d~d~~~~f~~~~~~~~eipi~~  300 (520)
T TIGR00415       222 ITALFRALEEFFIEEIVKKIGFQECLFPKLIPLDIMNKMRY-LEGLPEGMYYCCAPKRDPELFEEFKNELIIKKEIPIDK  300 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCeEEeCCcEecHHHHcccCC-CCCCchhheEEecCCCCcchhhcccccccccccccccc
Confidence            4567777888886544 55699999999998741    221 1112     1100                       00


Q ss_pred             -----ccceeeeeechhhhhhhhhh------cc-chheeecc-cccccccCCC---CCCCCcchhhHHHhhcchhHHHHH
Q 030343           56 -----LNMKLYMRIAPELYLKELVV------GG-LDRVYEIG-KQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMEL  119 (179)
Q Consensus        56 -----~~~~~~L~~S~ql~~~~~~~------~~-~~kvf~i~-~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~  119 (179)
                           -+.+++|+.+++..+-.+++      .. ..++++++ +|||.|..++   .++.||+|.|.-. .++.++..+.
T Consensus       301 L~~~le~~~~vL~PTSE~ply~~~a~~Ils~~dLPlk~~~~s~~CFR~EaGstrGL~RvhEF~kvE~v~-~~tpEea~e~  379 (520)
T TIGR00415       301 LKNGIKDPGYVIAPAQCEPFYQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVW-IAEPEETEEI  379 (520)
T ss_pred             ccccccCCceEEeCccHHHHHHHHhccccChhhCCeeEEEEecCeEeCCCCCCCCCceeeEEEEEEEEE-EeCHHHHHHH
Confidence                 11256687666655532222      11 36788855 7999999543   5999999999977 6677777777


Q ss_pred             HHHHHHhh
Q 030343          120 TEKMLSGM  127 (179)
Q Consensus       120 ~e~li~~~  127 (179)
                      .++++...
T Consensus       380 ~e~mle~~  387 (520)
T TIGR00415       380 RDKTLELA  387 (520)
T ss_pred             HHHHHHHH
Confidence            77777543

The seryl-tRNA synthetases from a few of the Archaea, represented by this model, are very different from the set of mutually more closely related seryl-tRNA synthetases from Eubacteria, Eukaryotes, and other Archaea. Although distantly homologous, the present set differs enough not to be recognized by the pfam model tRNA-synt_2b that recognizes the remainder of seryl-tRNA synthetases among oither class II amino-acyl tRNA synthetases.

>PRK00960 seryl-tRNA synthetase; Provisional

Probab=97.07  E-value=0.00065  Score=60.85  Aligned_cols=118  Identities=16%  Similarity=0.129  Sum_probs=70.4

Q ss_pred             hHHHHHHHHHHHHHHh-hccCCceeeecccccccc----cccc----CCCceecccc-----c-----------------
Q 030343            8 QIFKTRSKIVSYIRRF-LDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHND-----L-----------------   56 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~f-f~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~-----~-----------------   56 (179)
                      ...+++..+.+.+++. +.+.||.||.+|.|.+..    +|.-    ...|.+....     +                 
T Consensus       221 ~Ga~L~~aL~~~i~d~~~~k~Gyeev~~P~Li~~ell~ksGhl~~F~e~my~V~~~~~d~e~~~~~~~~l~~T~Evpl~~  300 (517)
T PRK00960        221 PMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEVMYKMRYLEGLPEGMYYVCPPKRDPEYFEEFVDEMMVKKEVPIEK  300 (517)
T ss_pred             hHHHHHHHHHHHHHHhhHhhcCCeEEECCcccCHHHHhhcCCccCChhhceEeeccccccccccchhhhccccccccccc
Confidence            3467788888888876 566799999999998731    2210    1112221000     0                 


Q ss_pred             ------cceeeeeechh--hh---hhhhhh-cc-chheee-cccccccccCCC---CCCCCcchhhHHHhhcchhHHHHH
Q 030343           57 ------NMKLYMRIAPE--LY---LKELVV-GG-LDRVYE-IGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMEL  119 (179)
Q Consensus        57 ------~~~~~L~~S~q--l~---~~~~~~-~~-~~kvf~-i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~  119 (179)
                            +..+.|+.+.-  .|   ....+. .+ .-|+++ .|+|||.|....   .+..||+|.|.- .+++.+++.+.
T Consensus       301 ~~~~L~~~~yvLrPa~Cp~~y~~~~~~ils~rdLPLrl~e~sG~cFR~EsGs~~GL~RV~eF~kvE~h-~f~tpEqs~ee  379 (517)
T PRK00960        301 LKEKLRDPGYVLAPAQCEPFYQFFQGETVDVDELPIKFFDRSGWTYRWEGGGAHGLERVNEFHRIEIV-WLGTPEQVEEI  379 (517)
T ss_pred             cccccccccccccccCcHHHHHHHhCCcCChhhCCHHHhhccCCceeCCCCCCCCCcccceeEEEEEE-EEeCHHHHHHH
Confidence                  01112222211  11   111111 11 358899 569999996322   599999999997 57778888888


Q ss_pred             HHHHHHh
Q 030343          120 TEKMLSG  126 (179)
Q Consensus       120 ~e~li~~  126 (179)
                      .++++.+
T Consensus       380 ~e~ll~~  386 (517)
T PRK00960        380 RDELLKY  386 (517)
T ss_pred             HHHHHHH
Confidence            8888743

>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed

Probab=97.06  E-value=0.00094  Score=60.43  Aligned_cols=114  Identities=14%  Similarity=0.099  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHhhccCCceeeeccccccccc--c---ccC--CCceeccccccceeeeeechhhhhhhhhhcc-----chh
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIAG--G---AAA--RPFVTHHNDLNMKLYMRIAPELYLKELVVGG-----LDR   80 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~--~---~~~--~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~-----~~k   80 (179)
                      ...+.+.+|++|...||.|+-|..+++...  .   -..  ..+......-..-.+||+|----+-..++.+     --+
T Consensus       361 ~~~~~~~ir~~L~~~Gf~Ev~tys~~s~~~~~~~~~~~~~~~~i~l~NPls~e~svLRtsLlpgLL~~~~~N~~~~~~~~  440 (552)
T PRK09616        361 IEKLERAIRDLMVGLGFQEVMNFTLTSEEVLFEKMNLEPEEDYVEVLNPISEDYTVVRTSLLPSLLEFLSNNKHREYPQK  440 (552)
T ss_pred             HHHHHHHHHHHHHhCCcceeccceEechHHHHHHhCCCCCCCeEEEcCCCccchheEeccchHHHHHHHHhccCCCCCee
Confidence            456678899999999999999999986421  1   001  1222221222344577766332222222211     258


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHh
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSG  126 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~  126 (179)
                      +|+||+||+.+..+..|..|++++.+-+++.  ++.++...++.++..
T Consensus       441 lFEiG~Vf~~~~~~~~~~~e~~~l~~~~~g~~~df~dlKg~ve~ll~~  488 (552)
T PRK09616        441 IFEIGDVVLIDESTETGTRTERKLAAAIAHSEASFTEIKSVVQALLRE  488 (552)
T ss_pred             EEEeeEEEecCCccccCcchhhEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence            9999999998765556888999998877773  799999999999864

>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=96.99  E-value=0.0014  Score=58.27  Aligned_cols=30  Identities=20%  Similarity=0.335  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHhhcc--CCceeeecccccc
Q 030343           10 FKTRSKIVSYIRRFLDN--LDFLEVETPMMNM   39 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~--~gF~ev~tP~l~~   39 (179)
                      ..+++.|.++-|++|..  .|++||+||+|.+
T Consensus        40 ~~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p   71 (558)
T COG0423          40 VELKNNIKEAWRKSFVTEREDVVEIDTPIILP   71 (558)
T ss_pred             HHHHHHHHHHHHHHHeeccCCeEEecccccCc
Confidence            35788999999999976  4899999999986

>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]

Probab=96.78  E-value=0.0025  Score=61.56  Aligned_cols=117  Identities=15%  Similarity=0.187  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeecccccc-ccc-cccCCCceeccccccceeeeeechhhhhhhhhhcc---chheeec
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNM-IAG-GAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGG---LDRVYEI   84 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~-~~~-~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~---~~kvf~i   84 (179)
                      -.+|..+...+.+.|++.|++|++||-+.. +++ -...++..+ .+..|..+-|..---+..-+.++.+   .-|.|+|
T Consensus       932 ~~l~~~v~e~~~~ifr~Hga~~l~tpp~~~~~~~~~~~~~~v~~-ld~sG~~v~Lp~DLr~pfar~vs~N~~~~~Kry~i 1010 (1351)
T KOG1035|consen  932 NELREYVVEEVVKIFRKHGAIELETPPLSLRNACAYFSRKAVEL-LDHSGDVVELPYDLRLPFARYVSRNSVLSFKRYCI 1010 (1351)
T ss_pred             HHHHHHHHHHHHHHHHHhcceeccCCccccccccchhccceeee-ecCCCCEEEeeccccchHHHHhhhchHHHHHHhhh
Confidence            357888999999999999999999996654 221 112333433 2344444444433222223333322   3689999


Q ss_pred             ccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHhhhh
Q 030343           85 GKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSGMIK  129 (179)
Q Consensus        85 ~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~~~~  129 (179)
                      ++|||-+. .. |-.|++.+++.+.+-+    -.|++.++-+++..++.
T Consensus      1011 ~rVyr~~~-~~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~~l~ 1057 (1351)
T KOG1035|consen 1011 SRVYRPAI-HN-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTEILH 1057 (1351)
T ss_pred             heeecccc-cC-CCccccceeeeEecCCCCccHHHHHHHHHHHHHHHhc
Confidence            99999988 44 9999999999998843    67888888888876444

>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type

Probab=96.55  E-value=0.0035  Score=56.63  Aligned_cols=30  Identities=27%  Similarity=0.427  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHhhc-cCCceeeecccccc
Q 030343           10 FKTRSKIVSYIRRFLD-NLDFLEVETPMMNM   39 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~-~~gF~ev~tP~l~~   39 (179)
                      ..+++.|.+..|+.|. ..|+.||++|+|++
T Consensus        37 ~~lk~ni~~~wr~~~v~~~~~~ei~~~~i~~   67 (551)
T TIGR00389        37 AVLKNNIKNAWRKFFIKNERVLEIDTPIITP   67 (551)
T ss_pred             HHHHHHHHHHHHHHHHhcCCceEeeccccCC
Confidence            5688999999999994 77899999999987

This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.

>cd00769 PheRS_beta_core Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain

Probab=95.97  E-value=0.0075  Score=47.29  Aligned_cols=110  Identities=19%  Similarity=0.156  Sum_probs=60.4

Q ss_pred             HHHHHHHHHhhccCCceeeecccccccc-cc----ccCCCceeccccccceeeeeech--hhhhhhh--hhc--cchhee
Q 030343           14 SKIVSYIRRFLDNLDFLEVETPMMNMIA-GG----AAARPFVTHHNDLNMKLYMRIAP--ELYLKEL--VVG--GLDRVY   82 (179)
Q Consensus        14 s~i~~~ir~ff~~~gF~ev~tP~l~~~~-~~----~~~~~f~~~~~~~~~~~~L~~S~--ql~~~~~--~~~--~~~kvf   82 (179)
                      ..+.+.+|+++...||.|+-|..+++.. ..    ....+.++....-..-.+||+|-  .+..-..  ...  ..-++|
T Consensus         3 ~~~~~~ir~~L~~~G~~E~~tys~~~~~~~~~~~~~~~~~i~l~NPis~e~~~lR~sLlp~LL~~~~~N~~~~~~~~~lF   82 (198)
T cd00769           3 QKLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGGLDEAVELSNPLSEEYSVLRTSLLPGLLDALARNLNRKNKPLRLF   82 (198)
T ss_pred             hHHHHHHHHHHHHCCCceeecccCCCHHHHHhccCCCCCeEEEcCCCchhHHHHHHHHHHHHHHHHHHHhcCCCCCEeEE
Confidence            3567789999999999999999998641 10    11112222111112233555552  3322211  111  246999


Q ss_pred             ecccccccccCCCCCCCCcchhhHHHhh-------------cchhHHHHHHHHHHHh
Q 030343           83 EIGKQFRNEGIDLTHNPEFTTCEFYMAF-------------ADYNDLMELTEKMLSG  126 (179)
Q Consensus        83 ~i~~~fR~E~~~~~Hl~EF~~le~e~~~-------------~~~~~lm~~~e~li~~  126 (179)
                      +||+||..+..   +..|.+.+-+-+++             .++.|+...++.++..
T Consensus        83 EiG~vf~~~~~---~~~e~~~l~~~~~g~~~~~~w~~~~~~~~f~~~Kg~ve~ll~~  136 (198)
T cd00769          83 EIGRVFLKDED---GPEEEEHLAALLSGNREPESWQGKGRPVDFYDAKGILEALLRA  136 (198)
T ss_pred             EeEeEEecCCC---CCcchheEEEEEECCCccccccCCCCccCHhhHHHHHHHHHHH
Confidence            99999976431   22233333222222             2677788888888864

PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. While the alpha chain contains a catalytic core domain, the beta chain has a non-catalytic core domain.

>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=95.59  E-value=0.023  Score=49.56  Aligned_cols=117  Identities=14%  Similarity=0.194  Sum_probs=73.4

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----cccccC----CCceeccccccceeeeeechhhhhhhh-----h
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAAA----RPFVTHHNDLNMKLYMRIAPELYLKEL-----V   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~~----~~f~~~~~~~~~~~~L~~S~ql~~~~~-----~   74 (179)
                      ....+..++++..-+|+.++||+-+.||.|...    .||-..    ...++ .+ .+.+.||.-.++..+-.+     +
T Consensus       183 ~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rkeVm~~cg~~~~~d~~~~y~-ld-~~~~~~LiaTaE~plAa~~~~e~~  260 (455)
T KOG2509|consen  183 AGAFLEQALINYALDFLNAKGYTPLTTPDILRKEVMQKCGQLPRFDEEQYYV-LD-GGDEKYLIATAEQPLAAYHRDEWL  260 (455)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCccccCchhhhHHHHHHhccCcCCCcceEEe-ec-CCccceeEeeccchhhhhhccccc
Confidence            345677889999999999999999999999863    243211    11221 11 223457764444444311     1


Q ss_pred             hc--cchheeeccccccccc-C---CCC---CCCCcchhhHHH------hhcchhHHHHHHHHHHHh
Q 030343           75 VG--GLDRVYEIGKQFRNEG-I---DLT---HNPEFTTCEFYM------AFADYNDLMELTEKMLSG  126 (179)
Q Consensus        75 ~~--~~~kvf~i~~~fR~E~-~---~~~---Hl~EF~~le~e~------~~~~~~~lm~~~e~li~~  126 (179)
                      ..  -.-|+-..+.|||.|- +   +++   +..+|+.+|--+      +..-++++++..+++++.
T Consensus       261 ~~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF~KVE~Fvit~Pe~S~~~~eEmi~~~eef~qs  327 (455)
T KOG2509|consen  261 EEDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDSWEMLEEMINNQEEFYQS  327 (455)
T ss_pred             ccccCceeeeehhHHHHHHhhhcccccccceeeeeeeeeEEEEecCcchhHHHHHHHHHHHHHHHHH
Confidence            11  1367888999999997 2   232   778898888622      112267777777777753

>PRK14894 glycyl-tRNA synthetase; Provisional

Probab=95.48  E-value=0.028  Score=50.27  Aligned_cols=100  Identities=20%  Similarity=0.174  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHHhhc--cCCceeeeccccccc----ccccc------------------------------C------C
Q 030343           10 FKTRSKIVSYIRRFLD--NLDFLEVETPMMNMI----AGGAA------------------------------A------R   47 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~--~~gF~ev~tP~l~~~----~~~~~------------------------------~------~   47 (179)
                      ..+++.|.+.-+++|.  ..+..+|++|+|.+.    +.|+-                              +      +
T Consensus        40 ~~lk~ni~~~W~~~~v~~~~~~~~id~~il~~~~v~~aSGH~~~F~DpmV~CkkCk~ryRaD~LiikCP~CGs~dLTe~~  119 (539)
T PRK14894         40 VELKNNIIADWWRTNVYERDDMEGLDAAILMNRLVWKYSGHEETFNDPLVDCRDCKMRWRADHIQGVCPNCGSRDLTEPR  119 (539)
T ss_pred             HHHHHHHHHHHHHHHeeccCCEEEeeccccCCHhHeeeccCCCCCCCceeECCCCCccccCccceeeCCCCCCcCCCcce
Confidence            3567888888888884  557789999998752    11110                              0      0


Q ss_pred             C----ceecc-ccc--cceeeeee--c--hhhhhhhhhh----ccchheeecccccccccCCC---CCCCCcchhhHHHh
Q 030343           48 P----FVTHH-NDL--NMKLYMRI--A--PELYLKELVV----GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMA  109 (179)
Q Consensus        48 ~----f~~~~-~~~--~~~~~L~~--S--~ql~~~~~~~----~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~  109 (179)
                      +    |++.. ...  +...|||.  +  --+..+.++.    .-...+-+||++||||-+.+   -++.||+|.|+|.-
T Consensus       120 ~FNLMF~T~iGp~~~~~~~~yLRPETAQGiFvnFk~ll~~~~~klPFgiaQIGk~FRNEIsPr~~l~R~REF~q~EiE~F  199 (539)
T PRK14894        120 PFNMMFRTQIGPVADSDSFAYLRPETAQGIFVNFANVLATSARKLPFGIAQVGKAFRNEINPRNFLFRVREFEQMEIEYF  199 (539)
T ss_pred             eccccceeccccCCCcCcceeeCcccchHHHHHHHHHHHhcCCCCCeeEEeeeccccCccCCCCceeecccchhheEEEE
Confidence            1    11110 001  13578882  2  2222233322    11367899999999996432   49999999999873

>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=93.98  E-value=0.084  Score=46.67  Aligned_cols=117  Identities=18%  Similarity=0.175  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceecc--cccc-ce-----eeee--echhhhhh
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHH--NDLN-MK-----LYMR--IAPELYLK   71 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~--~~~~-~~-----~~L~--~S~ql~~~   71 (179)
                      -++.+.++..||.=+..+||.||-||.|-.+    ..|+.    .+.|.+..  +.++ ++     -+|.  .-+--|.+
T Consensus       192 ~~iyN~Lv~fir~ey~~rGf~EVitPniy~~~LWe~SGHwqnY~enmF~~e~eke~~~LKPMNCPgHcLmf~~r~rS~re  271 (560)
T KOG1637|consen  192 TRIYNTLVDFIRAEYRKRGFTEVITPNIYNKKLWETSGHWQNYSENMFKFEVEKEEFALKPMNCPGHCLMFAHRDRSYRE  271 (560)
T ss_pred             chHHHHHHHHHHHHHHhcCCceecCcchhhhhhhhhccchhhhhhhceeeeechhhhccCccCCCccccccccCCccHhh
Confidence            3688999999999999999999999998653    23321    12333211  1111 00     0111  11112222


Q ss_pred             hhhhccchheeecccccccccCCC----CCCCCcchhhHHHhhcc---hhHHHHHHHHHHHhhhhhhhc
Q 030343           72 ELVVGGLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFAD---YNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        72 ~~~~~~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~---~~~lm~~~e~li~~~~~~~~~  133 (179)
                           -.-|.=.+|+.-|||-+++    +|+..|.|=|.-+ |++   ..+-+.-+-++++++.. +.+
T Consensus       272 -----LPlR~aDFg~LHRnE~SGaLsGLTRvRrFqQDDaHI-FCt~~Qi~~Eik~~l~fl~~vY~-~fg  333 (560)
T KOG1637|consen  272 -----LPLRFADFGVLHRNEASGALSGLTRVRRFQQDDAHI-FCTPDQVKEEIKGCLDFLDYVYG-VFG  333 (560)
T ss_pred             -----CCccccCcceeeeccccccccccceeeeecccCceE-EecCccHHHHHHHHHHHHHHHHH-hcc
Confidence                 1346667899999999864    7999999998855 554   44444444455666665 444

>PF03590 AsnA: Aspartate-ammonia ligase; InterPro: IPR004618 Aspartate--ammonia ligase (asparagine synthetase) 6

Probab=92.80  E-value=0.2  Score=40.54  Aligned_cols=120  Identities=14%  Similarity=0.268  Sum_probs=62.5

Q ss_pred             HHHHHHHHHhhc-----cCCceeeecccccccccc------ccCCCceeccccc-cceeeeeechhhhhhhhhh-ccc--
Q 030343           14 SKIVSYIRRFLD-----NLDFLEVETPMMNMIAGG------AAARPFVTHHNDL-NMKLYMRIAPELYLKELVV-GGL--   78 (179)
Q Consensus        14 s~i~~~ir~ff~-----~~gF~ev~tP~l~~~~~~------~~~~~f~~~~~~~-~~~~~L~~S~ql~~~~~~~-~~~--   78 (179)
                      ...+..|.++|.     +.+.+.|..|.+.....|      +..++........ +..+-.-+|-.-++.+++. .++  
T Consensus         7 q~aI~~iK~~F~~~L~~~LnL~rVsAPLfv~~~sGlNDnLnG~ErpVsF~~k~~~~~~~EIVhSLAKWKR~aL~~y~f~~   86 (244)
T PF03590_consen    7 QKAIKFIKDTFERELSKALNLTRVSAPLFVEKGSGLNDNLNGVERPVSFDIKDIPDETAEIVHSLAKWKRMALKRYGFPP   86 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-EEE----SEEETTSS-S--TTST----EE--TTSTT--EEE-S--TTHHHHHHHHTT--T
T ss_pred             HHHHHHHHHHHHHHHHHHhCceEecCCeEEecCCCCcCCCCCeEeeEEEEccCCCCceeeeehhHHHHHHHHHHHcCCCC
Confidence            455666666664     459999999999875322      1234443222222 4556666888888776654 233  


Q ss_pred             -hheeecccccc-ccc-CCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           79 -DRVYEIGKQFR-NEG-IDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        79 -~kvf~i~~~fR-~E~-~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                       +.+|+=..+.| .|. .+..|..=.-|.|||.+-..-+..+..+.+.++.+...+.+
T Consensus        87 geGlyTdMnAiR~~de~ld~~HSiYVDQWDWEkvI~~~~Rnl~~Lk~tV~~Iy~aik~  144 (244)
T PF03590_consen   87 GEGLYTDMNAIRPDDEELDNIHSIYVDQWDWEKVISKEDRNLEFLKETVRKIYKAIKE  144 (244)
T ss_dssp             T-EEEEEEEEE-TT-SS--SS--SEEEEEEEEEE--TT--SHHHHHHHHHHHHHHHHH
T ss_pred             CceEeecCceeecchhccCcceEEEecccCHhhhcCcccccHHHHHHHHHHHHHHHHH
Confidence             68999999999 775 68999999999999998865555566666666666666554

3.1.1 from EC catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. This family represents one of two non-homologous forms of aspartate--ammonia ligase found in Escherichia coli. This type is also found in Haemophilus influenzae, Treponema pallidum and Lactobacillus delbrueckii, but appears to have a very limited distribution. The fact that the protein from the H. influenzae is more than 70% identical to that from the spirochete T. pallidum, but less than 65% identical to that from the closely related E. coli, strongly suggests lateral transfer.; GO: 0004071 aspartate-ammonia ligase activity, 0006529 asparagine biosynthetic process, 0005737 cytoplasm; PDB: 11AS_B 12AS_A.

>TIGR00471 pheT_arch phenylalanyl-tRNA synthetase, beta subunit

Probab=92.50  E-value=0.15  Score=46.25  Aligned_cols=114  Identities=15%  Similarity=0.156  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHhhccCCceeeecccccccc-c-cc---cC-CCceeccccccceeeeeechhhhhhhhhhcc-----chhe
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIA-G-GA---AA-RPFVTHHNDLNMKLYMRIAPELYLKELVVGG-----LDRV   81 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-~-~~---~~-~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~-----~~kv   81 (179)
                      .....+.+|+++...||.|+-|-.+++.. . ..   .. .........-..--+||+|----+-..++.+     --++
T Consensus       364 ~~~~~~~ir~~L~~~Gf~E~itysf~s~~~~~~~~~~~~~~~v~l~NPis~e~s~lR~SLlp~LL~~~~~N~~~~~~~~l  443 (551)
T TIGR00471       364 LNKVSDIIREIMVGLGFQEVIPLTLTSEEVNFKRMRIEDNNDVKVANPKTLEYTIVRTSLLPGLLETLSENKHHELPQKI  443 (551)
T ss_pred             HHHHHHHHHHHHHhCCceeeccceEccHHHHHHHhccCCCCcEEeCCCCchhhhHhHhhhHHHHHHHHHhcccCCCCeeE
Confidence            45677889999999999999999998741 1 10   00 1111111111223466655322221222222     2489


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhh--cchhHHHHHHHHHHHh
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYNDLMELTEKMLSG  126 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~lm~~~e~li~~  126 (179)
                      |+||+||...+.+..+..++.++-+-+++  .++.|+...++.++..
T Consensus       444 FEiG~Vf~~~~~~~~~e~~~~~l~~~~~g~~~df~d~Kg~ve~ll~~  490 (551)
T TIGR00471       444 FEIGDVVVKDDKSETRSRVVTKLAVGITHSEANFNEIKSIVAALARE  490 (551)
T ss_pred             EEEEEEEEcCCccccccceeeEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence            99999996533211233344556555544  3788999999988864

Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from eukaryotic cytosol, the Archaea, and spirochetes.

>PTZ00213 asparagine synthetase A; Provisional

Probab=91.45  E-value=1.2  Score=37.85  Aligned_cols=125  Identities=13%  Similarity=0.229  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHHHHhhcc-----CCceeeeccccccccccc------cCCCceecccc-ccceeeeeechhhhhhhhhh-
Q 030343            9 IFKTRSKIVSYIRRFLDN-----LDFLEVETPMMNMIAGGA------AARPFVTHHND-LNMKLYMRIAPELYLKELVV-   75 (179)
Q Consensus         9 ~~~~rs~i~~~ir~ff~~-----~gF~ev~tP~l~~~~~~~------~~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~-   75 (179)
                      .++.....+..+.++|..     .+.+.|..|.+.....|-      ..++....... .+..+-..+|-.-++.+++. 
T Consensus         7 ~~~~~q~aI~~iK~~F~~~L~~~LnL~rVsaPLfv~~~~GlnDnLnG~ErpV~f~~k~~~~~~~evVhSLAKWKR~aL~~   86 (348)
T PTZ00213          7 AYIDLQEQILKVKQIFSEALAKELNLIRVEAPLLAEVGDGTQDNLSGVEKAVQVHVKGIPNSVFEVVHSLAKWKRLTLGE   86 (348)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCeeEecCCeEEcCCCCcccCCCCeeeeeEEecCCCCCceeEEehhhHHHHHHHHHh
Confidence            344455566667777754     499999999998643221      12343322222 24555566787778776654 


Q ss_pred             ccc---hheeecccccccc-cCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           76 GGL---DRVYEIGKQFRNE-GIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        76 ~~~---~kvf~i~~~fR~E-~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                      .++   +.+|+=.++.|.+ ..|..|..=--|.|||.+-..-+..++.+.+.++.+++.+..
T Consensus        87 y~f~~geGlytdMnAiR~dE~ldn~HS~yVDQWDWEkvI~~~~R~~~~Lk~tV~~iy~~ik~  148 (348)
T PTZ00213         87 HKFPVGEGIYTDMNALRVEEELDNIHSVYVDQWDWEMVIAPADRNLEYLKNTVRRLYAAIRK  148 (348)
T ss_pred             cCCCCCceeeeccccccCCcccCccceeEeccccHHHhcCccccCHHHHHHHHHHHHHHHHH
Confidence            233   6789988888875 468899999999999998865555555555555555555443

>cd00645 AsnA Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia

Probab=90.78  E-value=1.1  Score=37.53  Aligned_cols=108  Identities=14%  Similarity=0.227  Sum_probs=71.6

Q ss_pred             cCCceeeecccccccccc------ccCCCceecccc-ccceeeeeechhhhhhhhhhc-cc---hheeeccccccc-ccC
Q 030343           26 NLDFLEVETPMMNMIAGG------AAARPFVTHHND-LNMKLYMRIAPELYLKELVVG-GL---DRVYEIGKQFRN-EGI   93 (179)
Q Consensus        26 ~~gF~ev~tP~l~~~~~~------~~~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~~-~~---~kvf~i~~~fR~-E~~   93 (179)
                      +.+.+.|..|.+.....|      +..++....... .+..+-.-+|-.-++.+++.. ++   +.+|+=..+.|. |..
T Consensus        18 ~LnL~rvsaPlfv~~~sGlnD~LnG~E~pV~f~~k~~~~~~~eiVhSLAKWKR~aL~~y~f~~geGlytdMnAiR~dE~l   97 (309)
T cd00645          18 ELNLIRVSAPLFVEKGSGLNDNLNGVEKPVSFKVKALPDATLEVVHSLAKWKRLALARYGFSLGEGLYTDMNAIRPDEDL   97 (309)
T ss_pred             HhCeEEecCCeEEecCCCCccCCCCcccceEeecCCCCCceeEEeeehHHHHHHHHHhcCCCCCceeccCCccccCCccc
Confidence            459999999999864333      123444322222 245555667888887766542 33   678998888887 557


Q ss_pred             CCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           94 DLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        94 ~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                      |..|..=--|.|||.+-..-+..++.+.+.++.++..+..
T Consensus        98 dn~HS~yVDQWDWEkvI~~~~R~~~~Lk~tV~~iy~~ik~  137 (309)
T cd00645          98 DNIHSIYVDQWDWEKVISKGERNLETLKETVNKIYKAIKE  137 (309)
T ss_pred             CccceeEeccccHHhhcCccccCHHHHHHHHHHHHHHHHH
Confidence            8999999999999998865445555555555555555443

AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II aminoacyl-tRNA synthetases. Ammonia-dependent AsnA is not homologous to the glutamine-dependent asparagine synthetase AsnB.

>TIGR00669 asnA aspartate--ammonia ligase, AsnA-type

Probab=90.22  E-value=1.7  Score=36.79  Aligned_cols=124  Identities=10%  Similarity=0.248  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHHhhcc-----CCceeeecccccccccc------ccCCCceecccc-ccceeeeeechhhhhhhhhh-c
Q 030343           10 FKTRSKIVSYIRRFLDN-----LDFLEVETPMMNMIAGG------AAARPFVTHHND-LNMKLYMRIAPELYLKELVV-G   76 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~-----~gF~ev~tP~l~~~~~~------~~~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~-~   76 (179)
                      ++.....+..+.++|..     .+.+.|..|.+.....|      +..+|....... .+..+-.-+|-.-++.+++. .
T Consensus         5 ~~~tq~aI~~iK~~F~~~L~~~L~L~rVsAPLfv~~~sGlnD~LnG~ErpV~f~~k~~~~~~~evVhSLAKWKR~aL~~y   84 (330)
T TIGR00669         5 FILQQQQISFVKSTFTQQLEERLGLIEVQGPILSQVGDGTQDNLSGREKAVQVKVKAIPDAQFEVVHSLAKWKRHTLARH   84 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCeEEeccceEEcCCCCCcCCCCCeecceEeecCCCCCceeEEehhhHHHHHHHHHhc
Confidence            44455556666666644     48999999999864322      123444322222 24556666888888776654 2


Q ss_pred             cc---hheeecccccccc-c-CCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           77 GL---DRVYEIGKQFRNE-G-IDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        77 ~~---~kvf~i~~~fR~E-~-~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                      ++   +.+|+=.++.|.+ . .|..|..=--|.|||.+-..-+..++.+.+.++.+++.+..
T Consensus        85 ~f~~geGlytdMnAiR~De~~ldn~HS~yVDQWDWEkvI~~~~R~~~~Lk~tV~~Iy~~ik~  146 (330)
T TIGR00669        85 DFSAGEGLFVHMKALRPDEDRLDPLHSVYVDQWDWEKVMPDGERNFAYLKSTVEAIYAAIRA  146 (330)
T ss_pred             CCCCCceeeeccccccCCccccCccceeeeccccHHHhcCcccccHHHHHHHHHHHHHHHHH
Confidence            33   5789988999885 4 48899999999999998865555555555555555555443

The fact that the protein from the H. influenzae is more than 70 % identical to that from the spirochete Treponema pallidum, but less than 65 % identical to that from the closely related E. coli, strongly suggests lateral transfer.

>PRK05425 asparagine synthetase AsnA; Provisional

Probab=90.05  E-value=1.9  Score=36.58  Aligned_cols=122  Identities=15%  Similarity=0.321  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHhhc-----cCCceeeecccccccccc------ccCCCceeccccc-cceeeeeechhhhhhhhhh-ccc
Q 030343           12 TRSKIVSYIRRFLD-----NLDFLEVETPMMNMIAGG------AAARPFVTHHNDL-NMKLYMRIAPELYLKELVV-GGL   78 (179)
Q Consensus        12 ~rs~i~~~ir~ff~-----~~gF~ev~tP~l~~~~~~------~~~~~f~~~~~~~-~~~~~L~~S~ql~~~~~~~-~~~   78 (179)
                      -....+..+.++|.     +.+.+.|..|.+.....|      +..+|........ +..+-..+|-.-++.+++. .++
T Consensus        10 ~tq~aI~~iK~~F~~~L~~~LnL~rvsaPlfv~~~sGlnD~LnG~E~pV~F~~k~~~~~~~eiVhSLAKWKR~aL~~y~f   89 (327)
T PRK05425         10 ETQQAISFVKDFFERQLAKKLNLIRVSAPLFVRVGSGLNDNLNGVEKPVSFKVKDLPDATFEVVHSLAKWKRLALKRYGF   89 (327)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhCeeEecCCeEEcCCCCcccCCCCeecceEeeccCCCCCeeEEEeehHHHHHHHHHhcCC
Confidence            33444555555553     359999999999864322      1134433222222 3455567888888876664 233


Q ss_pred             ---hheeeccccccc-ccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           79 ---DRVYEIGKQFRN-EGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        79 ---~kvf~i~~~fR~-E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                         +.+|+=..+.|. |..|..|..=--|.|||.+-..-+..++.+.+.++.++..+..
T Consensus        90 ~~geGlytdMnAiR~dE~ld~~HS~yVDQWDWEkvI~~~~Rn~~~Lk~tV~~Iy~~ik~  148 (327)
T PRK05425         90 SAGEGLYTDMNAIRPDEDLDNTHSVYVDQWDWEKVIGKEERNLDYLKETVEKIYKAIKA  148 (327)
T ss_pred             CCCceeccCCccccCCcccCcccceEeccccHHHhCCccccCHHHHHHHHHHHHHHHHH
Confidence               578998888887 5578999999999999998865555555555556555555543

>PLN02734 glycyl-tRNA synthetase

Probab=89.22  E-value=0.15  Score=47.37  Aligned_cols=31  Identities=32%  Similarity=0.256  Sum_probs=26.2

Q ss_pred             chheeecccccccccCC-C--CCCCCcchhhHHH
Q 030343           78 LDRVYEIGKQFRNEGID-L--THNPEFTTCEFYM  108 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~-~--~Hl~EF~~le~e~  108 (179)
                      ...+-|||++||||=+. .  -++.||+|.|+|.
T Consensus       275 PF~~AQIGk~FRNEIsPR~gl~R~REF~qaEiE~  308 (684)
T PLN02734        275 PFAAAQIGQAFRNEISPRQGLLRVREFTLAEIEH  308 (684)
T ss_pred             CeeeeeccHhhhcccCcccceeeechhhhhhhhe
Confidence            36789999999999543 2  5999999999987

>PLN02265 probable phenylalanyl-tRNA synthetase beta chain

Probab=88.13  E-value=0.55  Score=43.10  Aligned_cols=114  Identities=8%  Similarity=-0.011  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHhhccCCceeeeccccccccc-----c-ccC--CCceeccccccceeeeeechhhhhhhhhhcc-----ch
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIAG-----G-AAA--RPFVTHHNDLNMKLYMRIAPELYLKELVVGG-----LD   79 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~-----~-~~~--~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~-----~~   79 (179)
                      .+.+.+.+|+.+...||.|+-|-.|++...     + ...  ....+....-..--.||+|----+=..++.+     .-
T Consensus       399 ~~~~~~~iR~~l~~~Gf~Ev~t~sl~s~~~~~~~~~~~~~~~~~v~I~NP~s~e~~vlRtSLlPgLL~~l~~N~~~~~p~  478 (597)
T PLN02265        399 LNQFSDLLRAEVAMAGFTEVLTWILCSHKENFAMLNREDDGNSAVIIGNPRSADFEVVRTSLLPGLLKTLGHNKDAPKPI  478 (597)
T ss_pred             HHHHHHHHHHHHHHCCceeeeceeeCChHHHHHhhcCCccCCceEEECCCcchhHHHHHHhhHHHHHHHHHHhhcCCCCe
Confidence            467778899999999999999999986411     0 000  1122111111122355555322221122222     35


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhh--cchhHHHHHHHHHHHh
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYNDLMELTEKMLSG  126 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~lm~~~e~li~~  126 (179)
                      |+|+||.||-.+.....-..|-.++-+-.++  +++.++..+++.++..
T Consensus       479 klFEiG~V~~~~~~~~~~~~e~~~la~~~~g~~~~f~~ikg~le~ll~~  527 (597)
T PLN02265        479 KLFEVSDVVLLDESKDVGARNSRRLAALYCGTTSGFEVIHGLVDRIMEV  527 (597)
T ss_pred             eEEEeEeEEecCCcccCCcchhhEEEEEEECCCCCHhhHHHHHHHHHHH
Confidence            8999999995432211111233344333333  3688888888888864

>COG2502 AsnA Asparagine synthetase A [Amino acid transport and metabolism]

Probab=87.84  E-value=2.2  Score=35.19  Aligned_cols=115  Identities=13%  Similarity=0.222  Sum_probs=70.6

Q ss_pred             HHHHHhhc-cCCceeeecccccccccc------ccCCCceeccccccce-eeeeechhhhhhhhhh-cc---chheeecc
Q 030343           18 SYIRRFLD-NLDFLEVETPMMNMIAGG------AAARPFVTHHNDLNMK-LYMRIAPELYLKELVV-GG---LDRVYEIG   85 (179)
Q Consensus        18 ~~ir~ff~-~~gF~ev~tP~l~~~~~~------~~~~~f~~~~~~~~~~-~~L~~S~ql~~~~~~~-~~---~~kvf~i~   85 (179)
                      ..+...|. ..|.+||..|+++....|      +..++.++........ +-.-.|-.-++...++ .+   -+.+|.=.
T Consensus        17 n~Ft~~l~~~L~lieVq~Pils~vg~G~qDnLsg~ekaVsv~vk~~p~a~fEvVhSLAKWKR~tL~r~~f~~~eGlythM   96 (330)
T COG2502          17 NTFTQHLEERLGLIEVQAPILSRVGDGLQDNLSGTEKAVSVKVKKLPDATFEVVHSLAKWKRHTLARYGFSAGEGLYTHM   96 (330)
T ss_pred             HHHHHHHHHhcCeEEeecceEeccCCcccccccccccceEEEEeecCCchhhhhHHHHHHHHHHHHhcCCcCCCceeeec
Confidence            33344443 359999999999864322      1234444322222111 2233566666665544 23   37889999


Q ss_pred             cccccccC--CCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhh
Q 030343           86 KQFRNEGI--DLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEIT  132 (179)
Q Consensus        86 ~~fR~E~~--~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~  132 (179)
                      ++.|.++.  +..|.-=--|.|||.+-.+-+..+..+.+.++.+...+.
T Consensus        97 ~AlRpDeD~ld~~HSvYVDQWDWEkvi~~g~rNl~yLK~tV~kIY~~ir  145 (330)
T COG2502          97 KALRPDEDRLDPIHSVYVDQWDWEKVIPDGDRNLAYLKSTVEKIYAAIR  145 (330)
T ss_pred             hhcCCCcccccchheEEecccchhhhcCCccccHHHHHHHHHHHHHHHH
Confidence            99999664  678999999999999876555555555666665555544

>PRK07080 hypothetical protein; Validated

Probab=85.02  E-value=0.35  Score=40.83  Aligned_cols=48  Identities=15%  Similarity=0.188  Sum_probs=35.2

Q ss_pred             hheeec-ccccccccC-CCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhh
Q 030343           79 DRVYEI-GKQFRNEGI-DLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM  127 (179)
Q Consensus        79 ~kvf~i-~~~fR~E~~-~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~  127 (179)
                      +++|.+ |.|||+|++ +..++-||+|-|+-..+ +-+.+.+.-+..+...
T Consensus       152 g~~~dv~g~CFR~E~s~dl~Rl~~F~mrE~V~iG-t~e~v~~~r~~w~e~~  201 (317)
T PRK07080        152 GRLVDVASYCFRHEPSLDPARMQLFRMREYVRIG-TPEQIVAFRQSWIERG  201 (317)
T ss_pred             CcEEEeeeeeeccCCCCCcHHHhheeeeEEEEec-CHHHHHHHHHHHHHHH
Confidence            466665 779999996 45799999999998777 5556666655555443

>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]

Probab=82.70  E-value=2.4  Score=39.37  Aligned_cols=113  Identities=20%  Similarity=0.097  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHhhccCCceeeecccccccc-----ccccCCCceeccccccceeeeeechhhhhhhhhhc------cchh
Q 030343           12 TRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG------GLDR   80 (179)
Q Consensus        12 ~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~------~~~k   80 (179)
                      ..+...+.+|+++...||.||-|-.+++..     +....+...+....-..-..+|+|---.+-..++.      .-.+
T Consensus       352 ~~~~~~r~vr~~l~~~G~~Evitysl~s~e~~~~~~~~~~~~~~l~NPiS~e~s~mR~sLlp~LL~~~~~N~~r~~~~~~  431 (650)
T COG0072         352 PLQKFRRKVRRALVGLGFQEVITYSLTSPEEAKLFGLENDEALELANPISEEYSVLRTSLLPGLLEALSYNKNRKNPDVR  431 (650)
T ss_pred             hHHHHHHHHHHHHHhCCcceEeeeccCCHHHHHHhccCCCcceEecCCcchhHHHHHHHHHHHHHHHHHHhhccCCCCee
Confidence            456678889999999999999999998731     11111112211111112235555543333223321      1278


Q ss_pred             eeecccccccccCC---C----------CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhh
Q 030343           81 VYEIGKQFRNEGID---L----------THNPEFTTCEFYMAFADYNDLMELTEKMLSGMI  128 (179)
Q Consensus        81 vf~i~~~fR~E~~~---~----------~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~  128 (179)
                      +|+||++|-.+...   .          .+ .+-|+-.   ...++.++...++.+++.+-
T Consensus       432 iFEiG~v~~~~~~~~~~~~~~~~l~~g~~~-~~~w~~~---~~v~f~d~Kg~ve~ll~~lg  488 (650)
T COG0072         432 IFEIGDVFVKDEEAERETRHLAGLAAGLAG-EESWQGK---RPVDFYDAKGDLEALLEALG  488 (650)
T ss_pred             EEEeeeeEecCCcccchhHHHHHHhhcccc-ccccccC---CCcCHHHHHHHHHHHHHHhC
Confidence            99999999986321   0          12 3333332   23467888888888887654

>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=80.14  E-value=0.52  Score=42.00  Aligned_cols=30  Identities=30%  Similarity=0.398  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHhh-ccCCceeeeccccccc
Q 030343           11 KTRSKIVSYIRRFL-DNLDFLEVETPMMNMI   40 (179)
Q Consensus        11 ~~rs~i~~~ir~ff-~~~gF~ev~tP~l~~~   40 (179)
                      .+++-|++.-|+.| .+.+..||++|+|++.
T Consensus        47 alk~Nil~~WRkhFilEE~MlEvdct~ltP~   77 (599)
T KOG2298|consen   47 ALKSNILSLWRKHFILEEDMLEVDCTMLTPE   77 (599)
T ss_pred             hhHHhHHHHHHHHHhhhhcceeeccCcCCcH
Confidence            46788888899988 5679999999999873

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	179
3bju_A	521	Crystal Structure Of Tetrameric Form Of Human Lysyl		8e-68
4dpg_A	513	Crystal Structure Of Human Lysrs: P38/aimp2 Complex		8e-68
1bbu_A	504	Lysyl-Trna Synthetase (Lyss) Complexed With Lysine		5e-48
3e9h_A	493	Lysyl-Trna Synthetase From Bacillus Stearothermophi		2e-47
1lyl_A	504	Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexe		2e-46
4ex5_A	529	Crystal Structure Of Lysyl-Trna Synthetase Lysrs Fr		7e-44
1efw_A	580	Crystal Structure Of Aspartyl-Trna Synthetase From		1e-14
1c0a_A	585	Crystal Structure Of The E. Coli Aspartyl-Trna Synt		2e-14
1eqr_A	590	Crystal Structure Of Free Aspartyl-Trna Synthetase		2e-14
3a5y_A	345	Crystal Structure Of Genx From Escherichia Coli In		5e-13
3a5z_A	328	Crystal Structure Of Escherichia Coli Genx In Compl		6e-13
1wyd_A	429	Crystal Structure Of Aspartyl-Trna Synthetase From		2e-12
3g1z_A	326	Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthe		2e-12
4ah6_A	617	Human Mitochondrial Aspartyl-Trna Synthetase Length		5e-11
1n9w_A	422	Crystal Structure Of The Non-Discriminating And Arc		4e-10
3nel_A	438	Aspartyl-Trna Synthetase Complexed With Aspartic Ac		4e-09
1b8a_A	438	Aspartyl-trna Synthetase Length = 438		5e-09
1eov_A	487	Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.1		2e-07
1asy_A	490	Class Ii Aminoacyl Transfer Rna Synthetases: Crysta		2e-07
3i7f_A	548	Aspartyl Trna Synthetase From Entamoeba Histolytica		3e-07

>pdb|3BJU|A Chain A, Crystal Structure Of Tetrameric Form Of Human Lysyl-Trna Synthetase Length = 521

Iteration: 1
 Score =  252 bits (644), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 116/163 (71%), Positives = 139/163 (85%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct: 167 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 226
Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct: 227 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 286
Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKM+SGM+K ITGSYK+ YH  G +    ++DFTPPFR +N +
Sbjct: 287 EKMVSGMVKHITGSYKVTYHPDGPEGQAYDVDFTPPFRRINMV 329

>pdb|4DPG|A Chain A, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I Length = 513

Iteration: 1
 Score =  252 bits (643), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 116/163 (71%), Positives = 139/163 (85%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct: 167 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 226
Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct: 227 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 286
Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKM+SGM+K ITGSYK+ YH  G +    ++DFTPPFR +N +
Sbjct: 287 EKMVSGMVKHITGSYKVTYHPDGPEGQAYDVDFTPPFRRINMV 329

>pdb|1BBU|A Chain A, Lysyl-Trna Synthetase (Lyss) Complexed With Lysine Length = 504

Iteration: 1
 Score =  186 bits (472), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 89/168 (52%), Positives = 116/168 (69%), Gaps = 7/168 (4%)
Query: 3   NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYM 62
           N E R  FK RS+I+S IR+F+ N  F+EVETPMM +I GGAAARPF+THHN L++ +Y+
Sbjct: 176 NDESRNTFKVRSQILSGIRQFMVNRGFMEVETPMMQVIPGGAAARPFITHHNALDLDMYL 235
Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEK 122
           RIAPELYLK LVVGG +RV+EI + FRNEGI + HNPEFT  E YMA+ADY DL+ELTE 
Sbjct: 236 RIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYKDLIELTES 295
Query: 123 MLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYK 170
           +   + ++I G  ++ Y         + +DF  PF  L    + K Y+
Sbjct: 296 LFRTLAQDILGKTEVTY-------GDVTLDFGKPFEKLTMREAIKKYR 336

>pdb|3E9H|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus Complexed With L-Lysylsulfamoyl Adenosine Length = 493

Iteration: 1
 Score =  184 bits (467), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 88/169 (52%), Positives = 122/169 (72%), Gaps = 7/169 (4%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N E ++ F TRS I+  +RR+LD+  +LEVETPMM+ +AGGAAARPF+THHN L+M L
Sbjct: 165 IMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTL 224
Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIA EL+LK L+VGGL++VYEIG+ FRNEGI   HNPEFT  E Y A+AD+ D+M+LT
Sbjct: 225 YMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLT 284
Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWY 169
           E +++ +  E+ G+ KI+Y           +D TP +R L+ + + K Y
Sbjct: 285 ENLIAHIATEVLGTTKIQYGEHL-------VDLTPEWRRLHMVDAIKEY 326

>pdb|1LYL|A Chain A, Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexed With Lysine Length = 504

Iteration: 1
 Score =  181 bits (459), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/170 (51%), Positives = 116/170 (68%), Gaps = 7/170 (4%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           + N + RQ F  RSKI++ IR+F+    F+EVETPMM +I GGA+ARPF+THHN L++ +
Sbjct: 174 IANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDM 233
Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIAPELYLK LVVGG +RV+EI + FRNEGI + HNPEFT  E YMA+ADY+DL+ELT
Sbjct: 234 YLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELT 293
Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYK 170
           E +   + +E+ G+ K+ Y            DF  PF  L    + K Y+
Sbjct: 294 ESLFRTLAQEVLGTTKVTYGEHVF-------DFGKPFEKLTMREAIKKYR 336

>pdb|4EX5|A Chain A, Crystal Structure Of Lysyl-Trna Synthetase Lysrs From Burkholderia Thailandensis Bound To Lysine Length = 529

Iteration: 1
 Score =  172 bits (437), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 78/169 (46%), Positives = 112/169 (66%), Gaps = 7/169 (4%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++  E R  F+ R+K ++ IR+F+ + DF+EVETPM++ I GGAAA+PFVTHHN L+M++
Sbjct: 195 IVTPETRTTFRARTKAIASIRKFMGDADFMEVETPMLHPIPGGAAAKPFVTHHNALDMEM 254
Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           ++RIAPELYLK L+VGG +RV+EI + FRNEG+   HNPEFT  EFY A+ DY  LM+ T
Sbjct: 255 FLRIAPELYLKRLIVGGFERVFEINRNFRNEGVSPRHNPEFTMMEFYAAYTDYRWLMDFT 314
Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWY 169
           E+++     +  G+  I+Y          E+D   PF  L    + + Y
Sbjct: 315 ERLIRQAAVDALGTATIQYQGR-------ELDLAQPFHRLTITQAIQKY 356

>pdb|1EFW|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus Thermophilus Complexed To Trnaasp From Escherichia Coli Length = 580

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 35/128 (27%), Positives = 72/128 (56%)
Query: 6   VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIA 65
           +++  + R +++  I  FLD   F++VETP +       A    V + ++  +   +  +
Sbjct: 140 MQENLRLRHRVIKAIWDFLDREGFVQVETPFLTKSTPEGARDFLVPYRHEPGLFYALPQS 199
Query: 66  PELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLS 125
           P+L+ + L+V GLDR ++I + FR+E +     P+FT  +  M+F +  D++EL E++++
Sbjct: 200 PQLFKQMLMVAGLDRYFQIARCFRDEDLRADRQPDFTQLDLEMSFVEVEDVLELNERLMA 259
Query: 126 GMIKEITG 133
            + +E  G
Sbjct: 260 HVFREALG 267

>pdb|1C0A|A Chain A, Crystal Structure Of The E. Coli Aspartyl-Trna Synthetase : Trnaasp : Aspartyl-Adenylate Complex Length = 585

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/130 (33%), Positives = 72/130 (55%), Gaps = 2/130 (1%)
Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY-MR 63
           E+ Q  KTR+KI S +RRF+D+  FL++ETPM+   A    AR ++        K Y + 
Sbjct: 133 EMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTK-ATPEGARDYLVPSRVHKGKFYALP 191
Query: 64  IAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKM 123
            +P+L+ + L++ G DR Y+I K FR+E +     PEFT  +   +F     + E+ E +
Sbjct: 192 QSPQLFKQLLMMSGFDRYYQIVKCFRDEDLRADRQPEFTQIDVETSFMTAPQVREVMEAL 251
Query: 124 LSGMIKEITG 133
           +  +  E+ G
Sbjct: 252 VRHLWLEVKG 261

>pdb|1EQR|A Chain A, Crystal Structure Of Free Aspartyl-Trna Synthetase From Escherichia Coli Length = 590

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/130 (33%), Positives = 72/130 (55%), Gaps = 2/130 (1%)
Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY-MR 63
           E+ Q  KTR+KI S +RRF+D+  FL++ETPM+   A    AR ++        K Y + 
Sbjct: 133 EMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTK-ATPEGARDYLVPSRVHKGKFYALP 191
Query: 64  IAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKM 123
            +P+L+ + L++ G DR Y+I K FR+E +     PEFT  +   +F     + E+ E +
Sbjct: 192 QSPQLFKQLLMMSGFDRYYQIVKCFRDEDLRADRQPEFTQIDVETSFMTAPQVREVMEAL 251
Query: 124 LSGMIKEITG 133
           +  +  E+ G
Sbjct: 252 VRHLWLEVKG 261

>pdb|3A5Y|A Chain A, Crystal Structure Of Genx From Escherichia Coli In Complex With Lysyladenylate Analog Length = 345

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 47/150 (31%), Positives = 75/150 (50%), Gaps = 9/150 (6%)
Query: 13  RSKIVSYIRRFLDNLDFLEVETPMMNM-----IAGGAAARPFVTHHNDLNMKLYMRIAPE 67
           R+ I++ IRRF  +   LEVETP M+      I        FV   +   M L++  +PE
Sbjct: 39  RAAIMAEIRRFFADRGVLEVETPCMSQATVTDIHLVPFETRFVGPGHSQGMNLWLMTSPE 98
Query: 68  LYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM 127
            ++K L+V G   V+++ + FRNE +   HNPEFT  E+Y    D   LM   + +L  +
Sbjct: 99  YHMKRLLVAGCGPVFQLCRSFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQV 158
Query: 128 IKEITGSYKIKYHASG---LDKDPIEIDFT 154
           + +   +  + Y  +    L+ DP+  D T
Sbjct: 159 L-DCPAAESLSYQQAFLRYLEIDPLSADKT 187

>pdb|3A5Z|A Chain A, Crystal Structure Of Escherichia Coli Genx In Complex With Elongation Factor P Length = 328

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 47/150 (31%), Positives = 75/150 (50%), Gaps = 9/150 (6%)
Query: 13  RSKIVSYIRRFLDNLDFLEVETPMMNM-IAGGAAARPFVTH----HNDLNMKLYMRIAPE 67
           R+ I++ IRRF  +   LEVETP M+          PF T      +   M L++  +PE
Sbjct: 22  RAAIMAEIRRFFADRGVLEVETPCMSQATVTDIHLVPFETRFVGPGHSQGMNLWLMTSPE 81
Query: 68  LYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM 127
            ++K L+V G   V+++ + FRNE +   HNPEFT  E+Y    D   LM   + +L  +
Sbjct: 82  YHMKRLLVAGCGPVFQLCRSFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQV 141
Query: 128 IKEITGSYKIKYHASG---LDKDPIEIDFT 154
           + +   +  + Y  +    L+ DP+  D T
Sbjct: 142 L-DCPAAESLSYQQAFLRYLEIDPLSADKT 170

>pdb|1WYD|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Sulfolobus Tokodaii Length = 429

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/130 (33%), Positives = 72/130 (55%), Gaps = 8/130 (6%)
Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETP--MMNMIAGGAAARPFVTHHNDLNMKLYM 62
           E++ + K +S  +   R  L    F+E+ TP  + +   GGA   P +        + ++
Sbjct: 129 EMQAVIKIQSLALKAFRETLYKEGFIEIFTPKIIASATEGGAQLFPVIY----FGKEAFL 184
Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELTE 121
             +P+LY KEL+ G ++RV+E+   +R E  D   H  EF + +  MAFADYND+M+L E
Sbjct: 185 AQSPQLY-KELMAGVVERVFEVAPAWRAEESDTPFHLAEFISMDVEMAFADYNDVMQLLE 243
Query: 122 KMLSGMIKEI 131
           K+L  ++K I
Sbjct: 244 KILHNIVKTI 253

>pdb|3G1Z|A Chain A, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase From Salmonella Typhimurium Length = 326

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 75/152 (49%), Gaps = 13/152 (8%)
Query: 13  RSKIVSYIRRFLDNLDFLEVETPMMNM-IAGGAAARPFVT------HHNDLNMKLYMRIA 65
           R+ I++ IRRF  +   LEVETP M+          PF T      H   +N  LY+  +
Sbjct: 20  RAAIMAEIRRFFADRGVLEVETPCMSQATVTDIHLFPFETRFVGPGHSQGIN--LYLMTS 77
Query: 66  PELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLS 125
           PE ++K L+  G   V+++ + FRNE +   HNPEFT  E+Y    D   LM   + +L 
Sbjct: 78  PEYHMKRLLAAGCGPVFQLCRSFRNEEMGRHHNPEFTMLEWYRPHYDMYRLMNEVDDLLQ 137
Query: 126 GMIKEITGSYKIKYHAS---GLDKDPIEIDFT 154
            ++ +   +  + Y  +    L+ DP+  D T
Sbjct: 138 QVL-DCQPAESLSYQQAFQRHLEIDPLSADKT 168

>pdb|4AH6|A Chain A, Human Mitochondrial Aspartyl-Trna Synthetase Length = 617

Iteration: 1
 Score = 63.9 bits (154), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 45/167 (26%), Positives = 79/167 (47%), Gaps = 22/167 (13%)
Query: 10  FKTRSKIVSYIRRFLDNL-DFLEVETPMM-NMIAGGAAARPFVTHHNDLNMKLYMRIAPE 67
            + RS++V  +R +L NL  F+++ETP +     GGA  + F+    +      +  +P+
Sbjct: 148 LRLRSQMVMKMREYLCNLHGFVDIETPTLFKRTPGGA--KEFLVPSREPGKFYSLPQSPQ 205
Query: 68  LYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM 127
            + + L+VGGLDR +++ + +R+EG      PEFT  +  M+F D   +  L E +L   
Sbjct: 206 QFKQLLMVGGLDRYFQVARCYRDEGSRPDRQPEFTQIDIEMSFVDQTGIQSLIEGLLQ-- 263
Query: 128 IKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHP 174
                       ++   DKDP+ +    PF ++ F      Y    P
Sbjct: 264 ------------YSWPNDKDPVVV----PFPTMTFAEVLATYGTDKP 294

>pdb|1N9W|A Chain A, Crystal Structure Of The Non-Discriminating And Archaeal- Type Aspartyl-Trna Synthetase From Thermus Thermophilus Length = 422

Iteration: 1
 Score = 60.8 bits (146), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 69/128 (53%), Gaps = 5/128 (3%)
Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI 64
           + R   K ++ +V   RR+LD  DF E+ TP   ++  GA     +   +    + Y+  
Sbjct: 120 KARAPLKVQAALVRGFRRYLDRQDFTEIFTP--KVVRAGAEGGSGLFGVDYFEKRAYLAQ 177
Query: 65  APELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAF-ADYNDLMELTEK 122
           +P+LY K+++VG  +RVYE+   +R E    + H  E+ + +  M F AD  DLM L E 
Sbjct: 178 SPQLY-KQIMVGVFERVYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMRLEEA 236
Query: 123 MLSGMIKE 130
           +L+ M++E
Sbjct: 237 LLAEMLEE 244

>pdb|3NEL|A Chain A, Aspartyl-Trna Synthetase Complexed With Aspartic Acid Length = 438

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 71/145 (48%), Gaps = 13/145 (8%)
Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA--GGAAARPFVTHHNDLNMKLYM 62
           EV  IFK RS +   +R F     F+E+ TP +   A  GG    P      D     ++
Sbjct: 132 EVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKYFEEDA----FL 187
Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAF-ADYNDLMELT 120
             +P+LY + ++  GLDRVYEI   FR E  + T H  E  + +  MAF  D  ++M   
Sbjct: 188 AQSPQLYKQIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFL 247
Query: 121 EKMLSGMIKEITGSYKIKYHASGLD 145
           E++++  I     +Y  +++A  LD
Sbjct: 248 ERLVAHAI-----NYVREHNAKELD 267

>pdb|1B8A|A Chain A, Aspartyl-trna Synthetase Length = 438

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 71/145 (48%), Gaps = 13/145 (8%)
Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA--GGAAARPFVTHHNDLNMKLYM 62
           EV  IFK RS +   +R F     F+E+ TP +   A  GG    P      D     ++
Sbjct: 132 EVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKYFEEDA----FL 187
Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAF-ADYNDLMELT 120
             +P+LY + ++  GLDRVYEI   FR E  + T H  E  + +  MAF  D  ++M   
Sbjct: 188 AESPQLYKEIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFL 247
Query: 121 EKMLSGMIKEITGSYKIKYHASGLD 145
           E++++  I     +Y  +++A  LD
Sbjct: 248 ERLVAHAI-----NYVREHNAKELD 267

>pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.12) From Yeast Length = 487

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 58/115 (50%), Gaps = 5/115 (4%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETP-MMNMIAGGAAARPFVTHHNDLNMK 59
           +  V  + IF+ ++ +    R +L    F EV TP ++   + G ++   VT+      K
Sbjct: 169 LRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTY---FKGK 225
Query: 60  LYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFADY 113
            Y+  +P+   ++L+V   +RVYEIG  FR E  +   H  EFT  +  MAF ++
Sbjct: 226 AYLAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEH 280

>pdb|1ASY|A Chain A, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal Structure Of Yeast Aspartyl-Trna Synthetase Complexed With Trna Asp Length = 490

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 58/115 (50%), Gaps = 5/115 (4%)
Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETP-MMNMIAGGAAARPFVTHHNDLNMK 59
           +  V  + IF+ ++ +    R +L    F EV TP ++   + G ++   VT+      K
Sbjct: 172 LRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTY---FKGK 228
Query: 60  LYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFADY 113
            Y+  +P+   ++L+V   +RVYEIG  FR E  +   H  EFT  +  MAF ++
Sbjct: 229 AYLAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEH 283

>pdb|3I7F|A Chain A, Aspartyl Trna Synthetase From Entamoeba Histolytica Length = 548

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/129 (25%), Positives = 63/129 (48%), Gaps = 4/129 (3%)
Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPEL 68
           IF+ +S      R FL +  F+E+ TP +   +    +  F   + D   K Y+  +P+L
Sbjct: 243 IFRIQSACCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNIFEVKYFD--RKAYLAQSPQL 300
Query: 69  YLKELVVGGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELTEKMLSG 126
           Y +  ++G   +V+E+G  FR E  +   H  EF   +  M   + Y++ +++ EK+ + 
Sbjct: 301 YKQMAIMGDFRKVFEVGPVFRAENSNTRRHLTEFEGLDIEMEIVENYHECIDVMEKLFTF 360
Query: 127 MIKEITGSY 135
           +  EI   +
Sbjct: 361 IFDEIPKRF 369

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	179
3bju_A	521	Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase,	1e-115
3a74_A	493	Lysyl-tRNA synthetase; aminoacyl tRNA synthetase,	6e-96
4ex5_A	529	Lysine--tRNA ligase; structural genomics, niaid, n	1e-95
1e1o_A	504	Lysyl-tRNA synthetase, heat inducible; ligase, ami	1e-95
3a5y_A	345	GENX, putative lysyl-tRNA synthetase; aminoacyl-tR	1e-76
1c0a_A	585	Aspartyl tRNA synthetase; protein-RNA complex, lig	5e-20
1l0w_A	580	Aspartyl-tRNA synthetase; space-grown crystal, dim	2e-19
1wyd_A	429	Hypothetical aspartyl-tRNA synthetase; archaea, LI	6e-19
1nnh_A	294	Asparaginyl-tRNA synthetase-related peptide; struc	1e-18
1eov_A	487	ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA sy	4e-18
1n9w_A	422	Aspartyl-tRNA synthetase 2; biosynthetic protein;	3e-17
3i7f_A	548	Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-bi	7e-17
3nem_A	438	Aspartyl-tRNA synthetase; rossmann fold, OB fold,	2e-16
2xgt_A	435	Asparaginyl-tRNA synthetase, cytoplasmic; ligase,	2e-15
3m4p_A	456	Ehasnrs, asparaginyl-tRNA synthetase, putative; am	6e-15
1x54_A	434	Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthe	1e-14
3qtc_A	290	Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthet	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04

>3bju_A Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP- binding, cytoplasm, ligase, nucleotide-binding, phosphoprotein, polymorphism; HET: LYS ATP; 2.31A {Homo sapiens} Length = 521

 Score =  336 bits (864), Expect = e-115
 Identities = 116/163 (71%), Positives = 139/163 (85%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           +LN  VRQ F  RSKI++YIR FLD L FLE+ETPMMN+I GGA A+PF+T+HN+L+M L
Sbjct: 167 ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNL 226

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIAPELY K LVVGG+DRVYEIG+QFRNEGIDLTHNPEFTTCEFYMA+ADY+DLME+T
Sbjct: 227 YMRIAPELYHKMLVVGGIDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEIT 286

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           EKM+SGM+K ITGSYK+ YH  G +    ++DFTPPFR +N +
Sbjct: 287 EKMVSGMVKHITGSYKVTYHPDGPEGQAYDVDFTPPFRRINMV 329

>3a74_A Lysyl-tRNA synthetase; aminoacyl tRNA synthetase, ligase, protein biosynthesis, AMI tRNA synthetase, ATP-binding, magnesium; HET: B4P LYN; 1.80A {Geobacillus stearothermophilus} PDB: 3e9h_A* 3e9i_A* Length = 493

 Score =  285 bits (732), Expect = 6e-96
 Identities = 86/163 (52%), Positives = 119/163 (73%), Gaps = 7/163 (4%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++N E ++ F TRS I+  +RR+LD+  +LEVETPMM+ +AGGAAARPF+THHN L+M L
Sbjct: 165 IMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTL 224

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           YMRIA EL+LK L+VGGL++VYEIG+ FRNEGI   HNPEFT  E Y A+AD+ D+M+LT
Sbjct: 225 YMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLT 284

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E +++ +  E+ G+ KI+Y           +D TP +R L+ +
Sbjct: 285 ENLIAHIATEVLGTTKIQY-------GEHLVDLTPEWRRLHMV 320

>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: LYS; 2.40A {Burkholderia thailandensis} Length = 529

 Score =  285 bits (733), Expect = 1e-95
 Identities = 77/163 (47%), Positives = 109/163 (66%), Gaps = 7/163 (4%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++  E R  F+ R+K ++ IR+F+ + DF+EVETPM++ I GGAAA+PFVTHHN L+M++
Sbjct: 195 IVTPETRTTFRARTKAIASIRKFMGDADFMEVETPMLHPIPGGAAAKPFVTHHNALDMEM 254

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           ++RIAPELYLK L+VGG +RV+EI + FRNEG+   HNPEFT  EFY A+ DY  LM+ T
Sbjct: 255 FLRIAPELYLKRLIVGGFERVFEINRNFRNEGVSPRHNPEFTMMEFYAAYTDYRWLMDFT 314

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFI 163
           E+++     +  G+  I+Y          E+D   PF  L   
Sbjct: 315 ERLIRQAAVDALGTATIQY-------QGRELDLAQPFHRLTIT 350

>1e1o_A Lysyl-tRNA synthetase, heat inducible; ligase, aminoacyl-tRNA synthetase, protein biosynthesis; HET: LYS; 2.12A {Escherichia coli} SCOP: b.40.4.1 d.104.1.1 PDB: 1e1t_A* 1e22_A* 1e24_A* 1lyl_A 1bbu_A* 1bbw_A 1krs_A 1krt_A Length = 504

 Score =  285 bits (731), Expect = 1e-95
 Identities = 87/170 (51%), Positives = 116/170 (68%), Gaps = 7/170 (4%)

Query: 1   MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           + N + RQ F  RSKI++ IR+F+    F+EVETPMM +I GGA+ARPF+THHN L++ +
Sbjct: 174 IANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDM 233

Query: 61  YMRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELT 120
           Y+RIAPELYLK LVVGG +RV+EI + FRNEGI + HNPEFT  E YMA+ADY+DL+ELT
Sbjct: 234 YLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELT 293

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYK 170
           E +   + +E+ G+ K+ Y            DF  PF  L    + K Y+
Sbjct: 294 ESLFRTLAQEVLGTTKVTY-------GEHVFDFGKPFEKLTMREAIKKYR 336

>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase paralog, translation, lysyl- synthetase, lysyladenylate analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A* 3g1z_A* Length = 345

 Score =  231 bits (592), Expect = 1e-76
 Identities = 46/155 (29%), Positives = 73/155 (47%), Gaps = 9/155 (5%)

Query: 7   RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMN-MIAGGAAARPFVTHH----NDLNMKLY 61
                 R+ I++ IRRF  +   LEVETP M+          PF T      +   M L+
Sbjct: 33  IPNLLKRAAIMAEIRRFFADRGVLEVETPCMSQATVTDIHLVPFETRFVGPGHSQGMNLW 92

Query: 62  MRIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTE 121
           +  +PE ++K L+V G   V+++ + FRNE +   HNPEFT  E+Y    D   LM   +
Sbjct: 93  LMTSPEYHMKRLLVAGCGPVFQLCRSFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEVD 152

Query: 122 KMLSGMIKEITGSYKIKYHAS---GLDKDPIEIDF 153
            +L   + +   +  + Y  +    L+ DP+  D 
Sbjct: 153 DLLQQ-VLDCPAAESLSYQQAFLRYLEIDPLSADK 186

>1c0a_A Aspartyl tRNA synthetase; protein-RNA complex, ligase/RNA complex; HET: 4SU H2U QUO G7M 5MU PSU AMP AMO; 2.40A {Escherichia coli} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1il2_A* 1eqr_A* Length = 585

 Score = 85.2 bits (212), Expect = 5e-20
 Identities = 49/145 (33%), Positives = 74/145 (51%), Gaps = 32/145 (22%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAA----ARPFV----THHNDL 56
           E+ Q  KTR+KI S +RRF+D+  FL++ETPM+       A    AR ++     H    
Sbjct: 133 EMAQRLKTRAKITSLVRRFMDDHGFLDIETPML-----TKATPEGARDYLVPSRVHKG-- 185

Query: 57  NMKLYMRIA----PELYLKELVVGGLDRVYEIGKQFRNEGIDLTHN--PEFTT--CEFYM 108
             K Y   A    P+L+ + L++ G DR Y+I K FR+E  DL  +  PEFT    E   
Sbjct: 186 --KFY---ALPQSPQLFKQLLMMSGFDRYYQIVKCFRDE--DLRADRQPEFTQIDVE--T 236

Query: 109 AFADYNDLMELTEKMLSGMIKEITG 133
           +F     + E+ E ++  +  E+ G
Sbjct: 237 SFMTAPQVREVMEALVRHLWLEVKG 261

>1l0w_A Aspartyl-tRNA synthetase; space-grown crystal, dimeric enzyme, flexible domains, ligase; 2.01A {Thermus thermophilus} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1efw_A* 1g51_A Length = 580

 Score = 83.3 bits (207), Expect = 2e-19
 Identities = 40/143 (27%), Positives = 73/143 (51%), Gaps = 28/143 (19%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAA----ARPFV----THHNDL 56
            +++  + R +++  I  FLD   F++VETP +       +    AR F+          
Sbjct: 139 RMQENLRLRHRVIKAIWDFLDREGFVQVETPFL-----TKSTPEGARDFLVPYRHEPG-- 191

Query: 57  NMKLYMRIA----PELYLKELVVGGLDRVYEIGKQFRNEGIDLTHN--PEFTTCEFYMAF 110
               Y   A    P+L+ + L+V GLDR ++I + FR+E  DL  +  P+FT  +  M+F
Sbjct: 192 --LFY---ALPQSPQLFKQMLMVAGLDRYFQIARCFRDE--DLRADRQPDFTQLDLEMSF 244

Query: 111 ADYNDLMELTEKMLSGMIKEITG 133
            +  D++EL E++++ + +E  G
Sbjct: 245 VEVEDVLELNERLMAHVFREALG 267

>1wyd_A Hypothetical aspartyl-tRNA synthetase; archaea, LIGA; HET: EPE; 2.30A {Sulfolobus tokodaii} Length = 429

 Score = 81.8 bits (203), Expect = 6e-19
 Identities = 46/153 (30%), Positives = 74/153 (48%), Gaps = 18/153 (11%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGA--AARPFVTHHNDLNMKLYMRIA- 65
           + K +S  +   R  L    F+E+ TP +  IA      A+ F        +  + + A 
Sbjct: 133 VIKIQSLALKAFRETLYKEGFIEIFTPKI--IASATEGGAQLF-------PVIYFGKEAF 183

Query: 66  ----PELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELT 120
               P+LY KEL+ G ++RV+E+   +R E  D   H  EF + +  MAFADYND+M+L 
Sbjct: 184 LAQSPQLY-KELMAGVVERVFEVAPAWRAEESDTPFHLAEFISMDVEMAFADYNDVMQLL 242

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF 153
           EK+L  ++K I    K +      +   ++I  
Sbjct: 243 EKILHNIVKTIKEEGKEELKILNYEPPEVKIPI 275

>1nnh_A Asparaginyl-tRNA synthetase-related peptide; structural genomics, PSI, protein structure initiative, southeast COLL for structural genomics; 1.65A {Pyrococcus furiosus} SCOP: d.104.1.1 PDB: 3p8t_A 3p8v_A 3p8y_A 3reu_A* 3rex_A* 3rl6_A* Length = 294

 Score = 79.6 bits (197), Expect = 1e-18
 Identities = 26/157 (16%), Positives = 57/157 (36%), Gaps = 20/157 (12%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPM----MNMIAGGAAARPFVTHHNDL-NMKLYMR 63
               ++KI+ Y+  F     F  +   +     + +    A         ++  +K+ + 
Sbjct: 14  TLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPAEVEIYGVKMRLT 73

Query: 64  IAPELYLKELVVGGLDRVYEIGKQFRNEGIDLT---HNPEFTTCEFYMAFADYNDLMELT 120
            +  L+ +  +  GL +++ +    R E        H  EFT  +F +  A   D+M L 
Sbjct: 74  HSMILHKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAKMEDIMRLI 133

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPF 157
           E+++ G+ ++              +    E   T  F
Sbjct: 134 ERLVYGLFRKA------------EEWTGREFPKTKRF 158

>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A* 1asz_A* Length = 487

 Score = 79.7 bits (197), Expect = 4e-18
 Identities = 34/165 (20%), Positives = 68/165 (41%), Gaps = 20/165 (12%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGA--AARPFVTHHNDLNMKLYMRIA- 65
           IF+ ++ +    R +L    F EV TP +  +   +   +  F        +  +   A 
Sbjct: 177 IFRIQAGVCELFREYLATKKFTEVHTPKL--LGAPSEGGSSVF-------EVTYFKGKAY 227

Query: 66  ----PELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFAD-YNDLMEL 119
               P+   ++L+V   +RVYEIG  FR E  +   H  EFT  +  MAF + Y+++++ 
Sbjct: 228 LAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDT 287

Query: 120 TEKMLSGMIKEITGSYK--IKYHASGLDKDPIEIDFTPPFRSLNF 162
             ++   +  E+   +   I+        +  ++        L +
Sbjct: 288 LSELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTY 332

>1n9w_A Aspartyl-tRNA synthetase 2; biosynthetic protein; 2.30A {Thermus thermophilus} SCOP: b.40.4.1 d.104.1.1 PDB: 3kfu_A* Length = 422

 Score = 77.2 bits (191), Expect = 3e-17
 Identities = 43/154 (27%), Positives = 71/154 (46%), Gaps = 19/154 (12%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGA--AARPFVTHHNDLNMKLYMRIA- 65
             K ++ +V   RR+LD  DF E+ TP +  +  GA   +  F        +  + + A 
Sbjct: 124 PLKVQAALVRGFRRYLDRQDFTEIFTPKV--VRAGAEGGSGLF-------GVDYFEKRAY 174

Query: 66  ----PELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAF-ADYNDLMEL 119
               P+LY K+++VG  +RVYE+   +R E    + H  E+ + +  M F AD  DLM L
Sbjct: 175 LAQSPQLY-KQIMVGVFERVYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMRL 233

Query: 120 TEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF 153
            E +L+ M++E   +   +    G        D 
Sbjct: 234 EEALLAEMLEEALNTAGDEIRLLGATWPSFPQDI 267

>3i7f_A Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-binding, aminoacyl-tRNA synthetase, LI nucleotide-binding, protein biosynthesis; 2.80A {Entamoeba histolytica} Length = 548

 Score = 76.4 bits (188), Expect = 7e-17
 Identities = 39/163 (23%), Positives = 70/163 (42%), Gaps = 19/163 (11%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGA--AARPFVTHHNDLNMKLYMRIA- 65
           IF+ +S      R FL +  F+E+ TP +  I   +   +  F        +K + R A 
Sbjct: 243 IFRIQSACCGLFREFLTSQKFVEIHTPKL--IGCSSEGGSNIF-------EVKYFDRKAY 293

Query: 66  ----PELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFAD-YNDLMEL 119
               P+LY +  ++G   +V+E+G  FR E  +   H  EF   +  M   + Y++ +++
Sbjct: 294 LAQSPQLYKQMAIMGDFRKVFEVGPVFRAENSNTRRHLTEFEGLDIEMEIVENYHECIDV 353

Query: 120 TEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNF 162
            EK+ + +  EI   +  +         P E     PF  L +
Sbjct: 354 MEKLFTFIFDEIPKRFPDELKVIRKQY-PFEDLIYRPFLRLTY 395

>3nem_A Aspartyl-tRNA synthetase; rossmann fold, OB fold, ligase; HET: AMO ATP; 1.89A {Thermococcus kodakarensis} PDB: 3nel_A* 3nen_A 1b8a_A* Length = 438

 Score = 74.9 bits (185), Expect = 2e-16
 Identities = 42/154 (27%), Positives = 67/154 (43%), Gaps = 18/154 (11%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGA--AARPFVTHHNDLNMKLYMRIA- 65
           IFK RS +   +R F     F+E+ TP +  IA         F        MK +   A 
Sbjct: 136 IFKIRSSVFKAVRDFFHENGFIEIHTPKI--IATATEGGTELF-------PMKYFEEDAF 186

Query: 66  ----PELYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAF-ADYNDLMEL 119
               P+LY + ++  GLDRVYEI   FR E  + T H  E  + +  MAF  D  ++M  
Sbjct: 187 LAQSPQLYKQIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSF 246

Query: 120 TEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF 153
            E++++  I  +      +      + +  ++ F
Sbjct: 247 LERLVAHAINYVREHNAKELDILNFELEEPKLPF 280

>2xgt_A Asparaginyl-tRNA synthetase, cytoplasmic; ligase, ATP-binding, protein biosynthesis; HET: NSS; 1.90A {Brugia malayi} PDB: 2xti_A* Length = 435

 Score = 71.8 bits (177), Expect = 2e-15
 Identities = 29/148 (19%), Positives = 57/148 (38%), Gaps = 6/148 (4%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPEL 68
           + + R+     +R    N  ++EV  P +        +  F    +    + ++  + +L
Sbjct: 131 LLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEGGSTLFNL--DYFGEQSFLTQSSQL 188

Query: 69  YLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELTEKMLSGM 127
           YL E  +  L  V+ I + +R E      H  E+   E    F   +DLME  E+++   
Sbjct: 189 YL-ETCIPTLGDVFCIAQSYRAEKSRTRRHLAEYAHVEAECPFITLDDLMEKIEELVCDT 247

Query: 128 IKEITGSYKIKYHASGLDKD--PIEIDF 153
           +  +    + K     ++    P E  F
Sbjct: 248 VDRLLADEEAKKLLEHINPKFQPPERPF 275

>3m4p_A Ehasnrs, asparaginyl-tRNA synthetase, putative; aminoacyl-tRNA synthetase, tRNA ligase, AARS, translation, ATP-binding, nucleotide-binding; HET: 4AD; 2.83A {Entamoeba histolytica} PDB: 3m4q_A Length = 456

 Score = 70.7 bits (174), Expect = 6e-15
 Identities = 27/125 (21%), Positives = 56/125 (44%), Gaps = 6/125 (4%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPF-VTHHNDLNMKLYMRIAPE 67
           + + RS+I  Y R++  +  F E++ P +        +  F + + N+     Y+  + +
Sbjct: 155 VLQLRSEIQWYFRKYYHDNHFTEIQPPTIVKTQCEGGSTLFKLQYFNE---PAYLTQSSQ 211

Query: 68  LYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELTEKMLSG 126
           LYL E V+  L + + +   +R E      H  E+   E  + F  + DL+   E ++  
Sbjct: 212 LYL-ESVIASLGKSFCMLSSYRAEQSRTVRHLAEYLHLEAELPFISFEDLLNHLEDLVCT 270

Query: 127 MIKEI 131
           +I  +
Sbjct: 271 VIDNV 275

>1x54_A Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken structural genomics/proteom initiative, RSGI, structural genomics, ligase; HET: 4AD; 1.45A {Pyrococcus horikoshii} PDB: 1x55_A* 1x56_A Length = 434

 Score = 69.9 bits (172), Expect = 1e-14
 Identities = 35/147 (23%), Positives = 64/147 (43%), Gaps = 18/147 (12%)

Query: 9   IFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPF-VTHHNDLNMKLYMRIAPE 67
           I K +  ++   R +L    + EV  P++   A    A  F + + +      Y+  + +
Sbjct: 134 IMKVKETLIMAAREWLLKDGWHEVFPPILVTGAVEGGATLFKLKYFDK---YAYLSQSAQ 190

Query: 68  LYLKELVVGGLDRVYEIGKQFRNEGIDLT-HNPEFTTCEFYMAFADYNDLMELTEKMLSG 126
           LYL E  + GL++V+ +   FR E      H  EF   E   A+ D  D+M++ E+++S 
Sbjct: 191 LYL-EAAIFGLEKVWSLTPSFRAEKSRTRRHLTEFWHLELEAAWMDLWDIMKVEEELVSY 249

Query: 127 MIKEITGSYKIKYHASGLDKDPIEIDF 153
           M++              L+    EI+ 
Sbjct: 250 MVQRT------------LELRKKEIEM 264

>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B O-methyl tyrosine binding, magnesium binding, aminoacylatio esterification; HET: 0A1 ANP; 1.75A {Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A* 2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A* Length = 290

 Score = 45.6 bits (108), Expect = 2e-06
 Identities = 28/135 (20%), Positives = 52/135 (38%), Gaps = 17/135 (12%)

Query: 8   QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVTHHNDLNMKLYM 62
           +      K+   I RF  +  FLE+++P++  +      G             ++    +
Sbjct: 74  ERENYLGKLEREITRFFVDRGFLEIKSPILIPLEYIERMGIDNDTELSKQIFRVDKNFCL 133

Query: 63  RIAPEL------YLKELVVGGLD--RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYN 114
           R  P L      YL++L     D  +++EIG  +R E     H  EFT   F+   +   
Sbjct: 134 R--PMLTPNLYNYLRKLDRALPDPIKIFEIGPCYRKESDGKEHLEEFTMLVFWQMGSGCT 191

Query: 115 --DLMELTEKMLSGM 127
             +L  +    L+ +
Sbjct: 192 RENLESIITDFLNHL 206

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

 Score = 38.7 bits (89), Expect = 7e-04
 Identities = 27/200 (13%), Positives = 65/200 (32%), Gaps = 47/200 (23%)

Query: 2   LNVEVRQIFKTRSKIVS-YIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKL 60
           ++ E  +       I+S +   F+DN D  +V+    ++++        +   + ++  L
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS-KEEIDHIIMSKDAVSGTL 65

Query: 61  YM----RIAPELYLKELVVGGLDRVYE-IGKQFRNEGIDLT---------HNPEFTTCEF 106
            +        E  +++ V   L   Y+ +    + E    +          +  +   + 
Sbjct: 66  RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ- 124

Query: 107 YMAFADYN-----DLMELTEKMLS----------GMIKEITGSYKIKYHASGLDKDPIEI 151
              FA YN       ++L + +L           G++    GS K            ++ 
Sbjct: 125 --VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL----GSGKTWVALDVCLSYKVQC 178

Query: 152 DFTPPFRSLNFIYSCKWYKI 171
                F+    I+   W  +
Sbjct: 179 KM--DFK----IF---WLNL 189

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	179
3bju_A	521	Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase,	100.0
4ex5_A	529	Lysine--tRNA ligase; structural genomics, niaid, n	100.0
1e1o_A	504	Lysyl-tRNA synthetase, heat inducible; ligase, ami	100.0
3a74_A	493	Lysyl-tRNA synthetase; aminoacyl tRNA synthetase,	100.0
1l0w_A	580	Aspartyl-tRNA synthetase; space-grown crystal, dim	100.0
4ah6_A	617	Aspartate--tRNA ligase, mitochondrial; 3.70A {Homo	100.0
1c0a_A	585	Aspartyl tRNA synthetase; protein-RNA complex, lig	100.0
3nem_A	438	Aspartyl-tRNA synthetase; rossmann fold, OB fold,	100.0
3m4p_A	456	Ehasnrs, asparaginyl-tRNA synthetase, putative; am	100.0
3a5y_A	345	GENX, putative lysyl-tRNA synthetase; aminoacyl-tR	100.0
2xgt_A	435	Asparaginyl-tRNA synthetase, cytoplasmic; ligase,	100.0
3i7f_A	548	Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-bi	100.0
1wyd_A	429	Hypothetical aspartyl-tRNA synthetase; archaea, LI	100.0
1eov_A	487	ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA sy	100.0
1x54_A	434	Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthe	100.0
1n9w_A	422	Aspartyl-tRNA synthetase 2; biosynthetic protein;	100.0
1nnh_A	294	Asparaginyl-tRNA synthetase-related peptide; struc	100.0
3qtc_A	290	Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthet	99.71
2rhq_A	294	Phenylalanyl-tRNA synthetase alpha chain; heterote	99.36
1b7y_A	350	Phers, protein (phenylalanyl-tRNA synthetase); enz	99.33
3dsq_A	288	Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-t	99.3
1z7m_A	344	ATP phosphoribosyltransferase regulatory subunit;	99.14
3od1_A	400	ATP phosphoribosyltransferase regulatory subunit;	99.12
3lc0_A	456	Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-t	99.1
3net_A	465	Histidyl-tRNA synthetase; aminoacyl-tRNA synthetas	99.06
4g85_A	517	Histidine-tRNA ligase, cytoplasmic; synthetase; 3.	99.05
1wu7_A	434	Histidyl-tRNA synthetase; ligase, structural genom	99.04
4g84_A	464	Histidine--tRNA ligase, cytoplasmic; synthetase; 2	99.04
3rac_A	373	Histidine-tRNA ligase; structural genomics, PSI-bi	99.02
1qe0_A	420	Histidyl-tRNA synthetase; class II tRNA synthetase	99.02
4e51_A	467	Histidine--tRNA ligase; seattle structural genomic	99.01
12as_A	330	Asparagine synthetase; ligase, nitrogen fixation;	99.0
3pco_A	327	Phenylalanyl-tRNA synthetase, alpha subunit; amino	99.0
1htt_A	423	Histidyl-tRNA synthetase; complex (tRNA synthetase	98.99
1h4v_B	421	Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA	98.99
2i4l_A	458	Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseud	98.96
3l4g_A	508	Phenylalanyl-tRNA synthetase alpha chain; aminoacy	98.94
1evl_A	401	Threonyl-tRNA synthetase; amino acid recognition,	98.91
2j3l_A	572	Prolyl-tRNA synthetase; class II aminoacyl- T synt	98.82
1hc7_A	477	Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase,	98.8
1nj8_A	459	Proline-tRNA synthetase, proline--tRNA ligase; cla	98.77
1nyr_A	645	Threonyl-tRNA synthetase 1; ATP, threonine, ligase	98.77
3a32_A	471	Probable threonyl-tRNA synthetase 1; aeropyrum per	98.76
2dq3_A	425	Seryl-tRNA synthetase; coiled-coil, homodimer, str	98.72
1qf6_A	642	THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, m	98.68
3uh0_A	460	Threonyl-tRNA synthetase, mitochondrial; threonine	98.66
1nj1_A	501	PROR, proline-tRNA synthetase, proline--tRNA ligas	98.64
1usy_A	275	ATP phosphoribosyltransferase regulatory subunit;	98.59
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	98.58
2dq0_A	455	Seryl-tRNA synthetase; coiled-coil, homodimer, str	98.55
3ial_A	518	Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase,	98.53
4hvc_A	519	Bifunctional glutamate/proline--tRNA ligase; ligas	98.52
3cmq_A	415	Phenylalanyl-tRNA synthetase, mitochondrial; class	98.52
2cja_A	522	Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE	98.42
1wle_A	501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	98.34
3vbb_A	522	Seryl-tRNA synthetase, cytoplasmic; coiled-coil, l	98.33
3lss_A	484	Seryl-tRNA synthetase; aminoacyl-tRNA synthetase,	98.32
1ati_A	505	Glycyl-tRNA synthetase; protein biosynthesis, liga	98.31
2du7_A	549	O-phosphoseryl-tRNA synthetase; alpha4 tetramer, l	98.31
3err_A	536	Fusion protein of microtubule binding domain from	98.22
3qne_A	485	Seryl-tRNA synthetase, cytoplasmic; amino acid bio	98.21
2odr_B	648	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	98.2
2odr_A	665	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	98.19
2odr_D	685	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	98.18
2odr_C	701	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	98.17
2du3_A	534	O-phosphoseryl-tRNA synthetase; alpha4 tetramer, l	98.05
2zt5_A	693	Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP	97.87
3mf2_A	346	BLL0957 protein; aminoacyl-tRNA synthetase, seryl-	97.77
3ikl_A	459	DNA polymerase subunit gamma-2, mitochondrial; tra	97.27
1g5h_A	454	Mitochondrial DNA polymerase accessory subunit; in	97.13
3l4g_B	589	Phenylalanyl-tRNA synthetase beta chain; aminoacyl	97.12
2rhq_B	795	Phenylalanyl-tRNA synthetase beta chain; heterotet	97.04
3ig2_A	213	Phenylalanyl-tRNA synthetase beta chain; phers, MC	96.91
3ica_A	213	Phenylalanyl-tRNA synthetase beta chain; APC61692.	96.72
1b7y_B	785	Phers, protein (phenylalanyl-tRNA synthetase); enz	95.53
3pco_B	795	Phenylalanyl-tRNA synthetase, beta chain; aminoacy	90.28

>3bju_A Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP- binding, cytoplasm, ligase, nucleotide-binding, phosphoprotein, polymorphism; HET: LYS ATP; 2.31A {Homo sapiens}

Probab=100.00  E-value=5.5e-46  Score=327.94  Aligned_cols=170  Identities=68%  Similarity=1.134  Sum_probs=158.6

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+.++++|++||.|++++|+||.++||+||+||+|++++||+++++|.++.+++|.++||++|||+|+|+++++|++||
T Consensus       168 ~~~~~~~~~r~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~gGa~a~~F~t~~~~~~~~~yL~~SpqL~lk~liv~g~~rV  247 (521)
T 3bju_A          168 LNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNLYMRIAPELYHKMLVVGGIDRV  247 (521)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCSSSCCCCEEEETTTTEEEEECSCSHHHHHHHHHTTCCEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCceeeccCCCccccceeeecccCCcceEeeCCHHHHHHHHHhcCcCce
Confidence            47899999999999999999999999999999999999999988899998888999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+++++|+|||||||+|+++++++|+|+++|+||+++++.+.+++.+.+...+++...+.+++..||+|+|
T Consensus       248 yeig~~FR~E~~~trH~pEFtmlE~e~af~d~~dlm~l~E~li~~v~~~v~~~~~~~~~~~~~d~~~~~~d~~~pf~rit  327 (521)
T 3bju_A          248 YEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYHDLMEITEKMVSGMVKHITGSYKVTYHPDGPEGQAYDVDFTPPFRRIN  327 (521)
T ss_dssp             EEEEEEECCSCCBTTBCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHSSSEEEECTTCTTSCCEEEECCSSCEEEE
T ss_pred             EEEEcceeCCCCCCccchhhhhhhhhhhcCCHHHHHHHHHHHHHHHHHHHhCCceEEecccccccccceeccCCCccccc
Confidence            99999999999999999999999999999999999999999999999999998888886665555556677889999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+..
T Consensus       328 ~~eai~~~~g  337 (521)
T 3bju_A          328 MVEELEKALG  337 (521)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            9999987743

>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: LYS; 2.40A {Burkholderia thailandensis}

Probab=100.00  E-value=7.9e-46  Score=326.36  Aligned_cols=163  Identities=48%  Similarity=0.898  Sum_probs=153.3

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+.++++|++||.|+++||+||.++||+||+||+|++++||+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       196 ~~~~~~~~fr~Rs~i~~~iR~ff~~~gFlEVeTPiL~~~~gGA~a~pF~t~~n~~~~~~yL~~SpqLylk~L~v~G~~rV  275 (529)
T 4ex5_A          196 VTPETRTTFRARTKAIASIRKFMGDADFMEVETPMLHPIPGGAAAKPFVTHHNALDMEMFLRIAPELYLKRLIVGGFERV  275 (529)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCSSSSCCCEEEETTTTEEEEECSCSHHHHHHHHHTTCSEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeeeccCCCCcccccccccccCCcceecccCHHHHHHHHHhcCCCcE
Confidence            48899999999999999999999999999999999999999988899998888999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||||+++++|+|||||||+|++|++++|+|+++|+||+++++.+.+++.+.+..       ..+++..||+|||
T Consensus       276 yeIg~~FR~E~~~~rH~pEFtmlE~e~af~d~~dlm~l~E~li~~v~~~v~~~~~~~~~~-------~~id~~~pf~Rit  348 (529)
T 4ex5_A          276 FEINRNFRNEGVSPRHNPEFTMMEFYAAYTDYRWLMDFTERLIRQAAVDALGTATIQYQG-------RELDLAQPFHRLT  348 (529)
T ss_dssp             EEEEEEECCSCCBTTBCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHSCSEEEETT-------EEEETTSCCEEEE
T ss_pred             EEeehheecCCCCCCcccHhHhhhhhhhcCCHHHHHHHHHHHHHHHHHHHhCcCceecCc-------eeeccCCCceEEE
Confidence            999999999999999999999999999999999999999999999999999987777642       2467889999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+++
T Consensus       349 y~eAi~~~~~  358 (529)
T 4ex5_A          349 ITQAIQKYAP  358 (529)
T ss_dssp             HHHHHHHHCT
T ss_pred             HHHHHHHHhC
Confidence            9999999875

>1e1o_A Lysyl-tRNA synthetase, heat inducible; ligase, aminoacyl-tRNA synthetase, protein biosynthesis; HET: LYS; 2.12A {Escherichia coli} SCOP: b.40.4.1 d.104.1.1 PDB: 1e1t_A* 1e22_A* 1e24_A* 1lyl_A 1bbu_A* 1bbw_A 1krs_A 1krt_A

Probab=100.00  E-value=3.7e-45  Score=321.44  Aligned_cols=163  Identities=53%  Similarity=0.931  Sum_probs=151.7

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++||.|++++|+||.++||+||+||+|+++++|+++++|.++.++++.++||++|||+|+|+++++|++||
T Consensus       175 ~~~~~~~~~r~Rs~i~~~iR~f~~~~gFlEVeTPiL~~~~~Ga~ar~F~t~~~~~~~~~yL~~SpqLylk~L~v~G~~rV  254 (504)
T 1e1o_A          175 ANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERV  254 (504)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHHHHHTTTCEECCCCSEESSCCSSCCCCCEEEETTTTEEEEECSCSHHHHHHHHHHTCCEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeEEecCCCCcccceEeccCCCCceEEeccCHHHHHHHHhhcCCCcE
Confidence            47899999999999999999999999999999999999999888899998778999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||+|+++++|+|||||+|+|++|++++|+|+++|+||+++++.+.+.+.+.+...       .+++..||+|||
T Consensus       255 yeIg~~FR~E~~~~rH~pEFt~lE~e~af~d~~dlm~l~E~li~~~~~~v~~~~~i~~~~~-------~i~~~~pf~rit  327 (504)
T 1e1o_A          255 FEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEH-------VFDFGKPFEKLT  327 (504)
T ss_dssp             EEEEEEECCCCCCC-CCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHHSSSEEEETTE-------EEETTSCCEEEE
T ss_pred             EEEcccccCCCCCccccCceeeeeeeecCCCHHHHHHHHHHHHHHHHHHHhCCceeeeCCE-------eeccCCCceEEe
Confidence            9999999999999999999999999999999999999999999999999999887766321       356788999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+++
T Consensus       328 y~eAi~~~~~  337 (504)
T 1e1o_A          328 MREAIKKYRP  337 (504)
T ss_dssp             HHHHHHHHST
T ss_pred             HHHHHHHHcC
Confidence            9999999986

>3a74_A Lysyl-tRNA synthetase; aminoacyl tRNA synthetase, ligase, protein biosynthesis, AMI tRNA synthetase, ATP-binding, magnesium; HET: B4P LYN; 1.80A {Geobacillus stearothermophilus} PDB: 3e9h_A* 3e9i_A*

Probab=100.00  E-value=5e-44  Score=313.67  Aligned_cols=163  Identities=54%  Similarity=0.905  Sum_probs=152.1

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      +|+.+++++++||.|++++|+||.++||+||+||+|+++++|+++++|.+..+++|+++||++|||+|+|+++++|++||
T Consensus       166 ~~~~~~~~~r~Rs~i~~~iR~ff~~~gF~EVeTPiL~~~~~Ga~a~~F~~~~~~~~~~~yLr~SpqLylk~l~v~G~~rV  245 (493)
T 3a74_A          166 MNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKV  245 (493)
T ss_dssp             HCTHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCSSSSCCCEEEETTTTEEEEECSCSHHHHHHHHHTTCCEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHhCCeEEEECCeEEecCCCCcccceEecccCCCceeEEecCHHHHHHHHhhcccCce
Confidence            47899999999999999999999999999999999999998888899998778899999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||+|+++++|+|||||+|+|++|++++|+|+++|+||+++++.+.+.+.+.+..       ..+++..||+|||
T Consensus       246 yeig~~FR~E~~~~rH~pEFT~lE~e~af~d~~dlm~l~E~ll~~l~~~v~~~~~i~~~~-------~~i~~~~pf~rit  318 (493)
T 3a74_A          246 YEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGE-------HLVDLTPEWRRLH  318 (493)
T ss_dssp             EEEEEEECCCCCBTTBCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHSCSEEEETT-------EEEECCSSCEEEE
T ss_pred             EEECccccCCCCCcccCCceeEEEEEecCCCHHHHHHHHHHHHHHHHHHHhCCceEeeCC-------EeeccCCCcceee
Confidence            999999999999999999999999999999999999999999999999999988776632       1356788999999


Q ss_pred             hhhccceeee
Q 030343          162 FIYSCKWYKI  171 (179)
Q Consensus       162 y~eAi~~l~~  171 (179)
                      |.||++.+++
T Consensus       319 y~eai~~~~~  328 (493)
T 3a74_A          319 MVDAIKEYVG  328 (493)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhC
Confidence            9999999976

>1l0w_A Aspartyl-tRNA synthetase; space-grown crystal, dimeric enzyme, flexible domains, ligase; 2.01A {Thermus thermophilus} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1efw_A* 1g51_A

Probab=100.00  E-value=1.2e-43  Score=316.17  Aligned_cols=158  Identities=27%  Similarity=0.532  Sum_probs=142.2

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceee-eeechhhhhhhhhhccchh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLY-MRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~-L~~S~ql~~~~~~~~~~~k   80 (179)
                      .|+.+++++++||.+++++|+||.++||+||+||+|+.+.+|+ +++|.++.+.++..+| |+||||+|+|++|++|++|
T Consensus       136 R~~~~~~~l~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~s~~eG-Ar~F~v~~~~~~~~~y~L~qSPQl~kq~Lmv~G~~r  214 (580)
T 1l0w_A          136 RRRRMQENLRLRHRVIKAIWDFLDREGFVQVETPFLTKSTPEG-ARDFLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDR  214 (580)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSS-SCCCEEECTTSTTEEEECCSCSHHHHHHHHHTTCSE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEeCCEEecCCCCC-CCCccccccccCCceeECccCHHHHHHHHHHhccCC
Confidence            4789999999999999999999999999999999999754443 4779886665555554 9999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||+|+.+++|.+||||||+|++|++++|+|+++|+||+++++.+.+.                 ++..||+||
T Consensus       215 vfqI~~~FR~E~~~~~r~pEFT~lE~e~af~d~~dvm~~~E~li~~i~~~v~~~-----------------~~~~pf~ri  277 (580)
T 1l0w_A          215 YFQIARCFRDEDLRADRQPDFTQLDLEMSFVEVEDVLELNERLMAHVFREALGV-----------------ELPLPFPRL  277 (580)
T ss_dssp             EEEEEEEECCCCCCSSCCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHTCC-----------------CCCSSCCEE
T ss_pred             eEEEeceeeCCCCCCCcCCCccceeeeecCCCHHHHHHHHHHHHHHHHHHHhCC-----------------ccCCCccEE
Confidence            999999999999999999999999999999999999999999999999988641                 335699999


Q ss_pred             hhhhccceeeeecCCCC
Q 030343          161 NFIYSCKWYKIYHPGRS  177 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~  177 (179)
                      ||.||++.||+|+||+|
T Consensus       278 ty~eA~~~~g~dkpd~r  294 (580)
T 1l0w_A          278 SYEEAMERYGSDKPDLR  294 (580)
T ss_dssp             EHHHHHHHHSSSSCCCS
T ss_pred             EHHHHHHHhcCCCcccc
Confidence            99999999999999987

>4ah6_A Aspartate--tRNA ligase, mitochondrial; 3.70A {Homo sapiens}

Probab=100.00  E-value=5.9e-43  Score=312.25  Aligned_cols=157  Identities=25%  Similarity=0.434  Sum_probs=141.6

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhc-cCCceeeeccccccc-cccccCCCceeccccccceeeeeechhhhhhhhhhccch
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLD-NLDFLEVETPMMNMI-AGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLD   79 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~-~~gF~ev~tP~l~~~-~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~   79 (179)
                      -++.+++++++||.+++++|+||. ++||+||+||+|+++ ++|+  .+|.++.+..|..+||+||||+|+|+++++|++
T Consensus       140 R~~~~~~~lr~Rs~i~~~iR~f~~~~~gF~EVeTPiL~~st~~GA--~~F~v~~~~~g~~~~L~qSpql~kq~l~v~g~~  217 (617)
T 4ah6_A          140 RSFQMQYNLRLRSQMVMKMREYLCNLHGFVDIETPTLFKRTPGGA--KEFLVPSREPGKFYSLPQSPQQFKQLLMVGGLD  217 (617)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHTTSCCEECCCCSSBCCCCSSS--CCCEEECSSTTCEEECCSSTTHHHHHHHHTSCS
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHhcCCeEEEeCCeeccCCCCCC--cCceeccccCCcccccccCHHHHHHHHHhcccC
Confidence            356889999999999999999996 799999999999864 4443  578887677789999999999999999999999


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCccc
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~r  159 (179)
                      |||+||||||+|+.+++|+|||||+|+|++|++++|+|+++|+|++++++.+.                  .++..||+|
T Consensus       218 rvfqi~~~FR~E~~~t~r~pEFt~lE~e~af~d~~d~m~~~E~l~~~~~~~~~------------------~~~~~pf~r  279 (617)
T 4ah6_A          218 RYFQVARCYRDEGSRPDRQPEFTQIDIEMSFVDQTGIQSLIEGLLQYSWPNDK------------------DPVVVPFPT  279 (617)
T ss_dssp             EEEEEEEEECCCSSCSSSCSEEEEEEEEEESCCHHHHHHHHHHHHHHHSCSSS------------------CCCCSSCCE
T ss_pred             cEEEEEhheecccCCCCcCcceecceeeecCCCHHHHHHHHHHHHHHHHHHhc------------------CccCCCceE
Confidence            99999999999999999999999999999999999999999999999877531                  134679999


Q ss_pred             chhhhccceeeeecCCCCC
Q 030343          160 LNFIYSCKWYKIYHPGRSL  178 (179)
Q Consensus       160 ity~eAi~~l~~d~pd~~~  178 (179)
                      |||.||++.||+||||+|.
T Consensus       280 ~ty~eA~~~ygsDkPDlR~  298 (617)
T 4ah6_A          280 MTFAEVLATYGTDKPDTRF  298 (617)
T ss_dssp             EEHHHHHHHTSSSSCCSSS
T ss_pred             eEHHHHHHHHcCCCCcccc
Confidence            9999999999999999984

>1c0a_A Aspartyl tRNA synthetase; protein-RNA complex, ligase/RNA complex; HET: 4SU H2U QUO G7M 5MU PSU AMP AMO; 2.40A {Escherichia coli} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1il2_A* 1eqr_A*

Probab=100.00  E-value=7.2e-42  Score=305.36  Aligned_cols=157  Identities=30%  Similarity=0.498  Sum_probs=139.9

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccce-eeeeechhhhhhhhhhccchh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMK-LYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~-~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      .|+.+++++++||.+++++|+||.++||+||+||+|+.+.+|+ +++|.++.+.++.. +||+||||+|+|++|++|++|
T Consensus       130 R~~~~~~~l~~Rs~i~~~iR~fl~~~gFlEVeTPiL~~s~~eG-Ar~F~v~~~~~~~~~y~L~qSPQl~kq~Lmv~G~~r  208 (585)
T 1c0a_A          130 RRPEMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTKATPEG-ARDYLVPSRVHKGKFYALPQSPQLFKQLLMMSGFDR  208 (585)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSS-SCCCEEECSSSTTCEEECCSCSHHHHHHHHHTTCCE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEeCCEEecCCCCC-CccceecccccCCceEeCccCHHHHHHHHHhcCCCc
Confidence            4789999999999999999999999999999999999654443 46798866655444 459999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||+|+.+++|.+||||||+|++|++++|+|+++|+||+++++.+.+.                 ++.. |+||
T Consensus       209 vfqI~~~FR~E~~~t~r~pEFT~lE~e~af~d~~dvm~~~E~li~~i~~~v~~~-----------------~~~~-f~r~  270 (585)
T 1c0a_A          209 YYQIVKCFRDEDLRADRQPEFTQIDVETSFMTAPQVREVMEALVRHLWLEVKGV-----------------DLGD-FPVM  270 (585)
T ss_dssp             EEEEEEEECCCCCBTTBCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHHSC-----------------CCCS-CCEE
T ss_pred             eEEEeceeecCCCCCCcCcccceeeeeecCCCHHHHHHHHHHHHHHHHHHHhCC-----------------Cccc-ccee
Confidence            999999999999999988899999999999999999999999999999988642                 1223 9999


Q ss_pred             hhhhccceeeeecCCCC
Q 030343          161 NFIYSCKWYKIYHPGRS  177 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~  177 (179)
                      ||.||++.|++|+||+|
T Consensus       271 ty~ea~~~~g~dkpd~r  287 (585)
T 1c0a_A          271 TFAEAERRYGSDKPDLR  287 (585)
T ss_dssp             EHHHHHHHHSCSSCCTT
T ss_pred             eHHHHHHHhcCCCcccc
Confidence            99999999999999986

>3nem_A Aspartyl-tRNA synthetase; rossmann fold, OB fold, ligase; HET: AMO ATP; 1.89A {Thermococcus kodakarensis} PDB: 3nel_A* 3nen_A 1b8a_A*

Probab=100.00  E-value=1.6e-41  Score=294.11  Aligned_cols=164  Identities=24%  Similarity=0.390  Sum_probs=140.2

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.|+.+++++++||.+++++|+||.++||+||+||+|++++++++++.|.+  +++++++||++|||+|+|+++++|++|
T Consensus       128 lr~~~~~~~~~~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~~eg~~~~f~~--~~~~~~~yL~~Spql~~q~l~~~g~~r  205 (438)
T 3nem_A          128 LRRPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPM--KYFEEDAFLAQSPQLYKQIMMASGLDR  205 (438)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCSSCSSSCCEE--EETTEEEEECSCSHHHHHHGGGTTCCE
T ss_pred             hcCHHHHHHHHHHHHHHHHHHHHHHHCCcEEEeCCEEecCCCCCCccceeE--eeCCccEEEecChHHHHHHHHhcCCCc
Confidence            357899999999999999999999999999999999998765555566765  578999999999999999999999999


Q ss_pred             eeecccccccccCCC-CCCCCcchhhHHHhhcc-hhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcc
Q 030343           81 VYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        81 vf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~-~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      ||+||||||+|++++ ||++||||+|+|+++++ ++|+|+++|+||+++++.+.+.+...+...+.+   + ..++.||+
T Consensus       206 vf~i~~~FR~E~~~t~RH~pEFt~le~e~a~~~~~~d~m~~~E~li~~~~~~v~~~~~~~l~~~~~~---l-~~~~~pf~  281 (438)
T 3nem_A          206 VYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFE---L-EEPKLPFP  281 (438)
T ss_dssp             EEEEEEEECCCSSCCTTCCSEEEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHCHHHHHHTTCC---C-CCCCSSCC
T ss_pred             eEEEcceEECCCCCCcccccceeeeeeeeccCccHHHHHHHHHHHHHHHHHHHHhhhhhhHhhcccc---c-ccCCCCce
Confidence            999999999999986 89999999999999998 999999999999999999887553222111111   1 12357999


Q ss_pred             cchhhhccceee
Q 030343          159 SLNFIYSCKWYK  170 (179)
Q Consensus       159 rity~eAi~~l~  170 (179)
                      ||||.||++++.
T Consensus       282 rity~eai~~l~  293 (438)
T 3nem_A          282 RVSYDKALEILG  293 (438)
T ss_dssp             EEEHHHHHHHHH
T ss_pred             EEEHHHHHHHHH
Confidence            999999998764

>3m4p_A Ehasnrs, asparaginyl-tRNA synthetase, putative; aminoacyl-tRNA synthetase, tRNA ligase, AARS, translation, ATP-binding, nucleotide-binding; HET: 4AD; 2.83A {Entamoeba histolytica} PDB: 3m4q_A

Probab=100.00  E-value=8.2e-42  Score=297.19  Aligned_cols=162  Identities=19%  Similarity=0.351  Sum_probs=134.7

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.|+.+++++++||.+++++|+||.++||+||+||+|+++.+++++..|.+  +++|+++||++|||+|+|++++ |++|
T Consensus       147 lR~~~~~~~lr~Rs~i~~~iR~ff~~~gF~EVeTPiL~~s~~eGg~~~f~~--~~~~~~~~L~~SpqL~lq~l~~-g~~r  223 (456)
T 3m4p_A          147 IRSEHTQQVLQLRSEIQWYFRKYYHDNHFTEIQPPTIVKTQCEGGSTLFKL--QYFNEPAYLTQSSQLYLESVIA-SLGK  223 (456)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEC------CCCCEE--EETTEEEEECSCCHHHHHTTHH-HHSS
T ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHhCCCEEEeCCeeecCCCCCccccccc--cccCCCcccccCHHHHHHHHHh-ccCc
Confidence            458899999999999999999999999999999999987654444567864  7899999999999999998775 6999


Q ss_pred             eeecccccccccCC-CCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCccc
Q 030343           81 VYEIGKQFRNEGID-LTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRS  159 (179)
Q Consensus        81 vf~i~~~fR~E~~~-~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~r  159 (179)
                      ||+||||||||+++ .||++||||||||++|++++|+|+++|+||+++++.+.+.+...+...+.+.    .....||+|
T Consensus       224 Vyeig~~FR~E~~~t~rH~pEFtmlE~e~af~d~~d~m~~~E~li~~~~~~v~~~~~~~~~~~~~~~----~~~~~pf~r  299 (456)
T 3m4p_A          224 SFCMLSSYRAEQSRTVRHLAEYLHLEAELPFISFEDLLNHLEDLVCTVIDNVMAVHGDKIRKMNPHL----KLPTRPFKR  299 (456)
T ss_dssp             EEEEEEEECCCSCCCSSCCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTC----CCCCSSCEE
T ss_pred             EEEEEhheecCCCCCCcchHHHHHhHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhhhHhhcCccc----ccCCCCCeE
Confidence            99999999999987 5899999999999999999999999999999999998775432221111111    123579999


Q ss_pred             chhhhcccee
Q 030343          160 LNFIYSCKWY  169 (179)
Q Consensus       160 ity~eAi~~l  169 (179)
                      |||.||++++
T Consensus       300 ity~eAi~~l  309 (456)
T 3m4p_A          300 MTYADAIKYC  309 (456)
T ss_dssp             EEHHHHHHHH
T ss_pred             eeHHHHHHHH
Confidence            9999999987

>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase paralog, translation, lysyl- synthetase, lysyladenylate analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A* 3g1z_A*

Probab=100.00  E-value=3.8e-41  Score=284.11  Aligned_cols=144  Identities=32%  Similarity=0.491  Sum_probs=130.5

Q ss_pred             hhhHHHHHHHHHHHHHHhhccCCceeeeccccccccc-cccCCCceecccccc------ceeeeeechhhhhhhhhhccc
Q 030343            6 VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAG-GAAARPFVTHHNDLN------MKLYMRIAPELYLKELVVGGL   78 (179)
Q Consensus         6 ~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~-~~~~~~f~~~~~~~~------~~~~L~~S~ql~~~~~~~~~~   78 (179)
                      .++++++||.|+++||+||.++||+||+||+|+++++ |+.+++|.+  ++++      .++||++|||+|+|+++++|+
T Consensus        32 ~~~~lr~Rs~i~~~iR~ff~~~gF~EVeTPiL~~~~~~~a~~~~F~~--~~~~~~~~~~~~~yL~~Spql~~k~l~~~g~  109 (345)
T 3a5y_A           32 SIPNLLKRAAIMAEIRRFFADRGVLEVETPCMSQATVTDIHLVPFET--RFVGPGHSQGMNLWLMTSPEYHMKRLLVAGC  109 (345)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCCCTTCCCCEE--EECCSTTSCCEEEEECSCSHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEecCCCCCccceEEE--EecCcccccCCCEeecCCHHHHHHHHHHcCC
Confidence            6799999999999999999999999999999997654 456889987  4454      789999999999999999999


Q ss_pred             hheeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcc
Q 030343           79 DRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        79 ~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      +|||+||||||+|+++++|+|||||||+|+++++++|+|+++|+||+++++.                        .||+
T Consensus       110 ~rvyqIg~~FR~E~~~~rH~pEFt~lE~e~af~d~~d~m~~~E~li~~v~~~------------------------~~~~  165 (345)
T 3a5y_A          110 GPVFQLCRSFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQVLDC------------------------PAAE  165 (345)
T ss_dssp             CSEEEEEEEECCCCCBTTBCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHCC------------------------CCCE
T ss_pred             CcEEEEEcceeCCCCcccccchhheeeeeeeCCCHHHHHHHHHHHHHHHHcC------------------------CCCc
Confidence            9999999999999999999999999999999999999999999999998871                        2899


Q ss_pred             cchhhhcccee-eeecCC
Q 030343          159 SLNFIYSCKWY-KIYHPG  175 (179)
Q Consensus       159 rity~eAi~~l-~~d~pd  175 (179)
                      ||||.||++.+ |+|.|+
T Consensus       166 rity~ea~~~~~g~d~~~  183 (345)
T 3a5y_A          166 SLSYQQAFLRYLEIDPLS  183 (345)
T ss_dssp             EEEHHHHHHHHTCCCTTC
T ss_pred             EeeHHHHHHHHhCCCCCC
Confidence            99999999887 666664

>2xgt_A Asparaginyl-tRNA synthetase, cytoplasmic; ligase, ATP-binding, protein biosynthesis; HET: NSS; 1.90A {Brugia malayi} PDB: 2xti_A*

Probab=100.00  E-value=3.3e-41  Score=292.25  Aligned_cols=164  Identities=18%  Similarity=0.313  Sum_probs=137.9

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.|+.+++++++||.+++++|+||.++||+||+||+|+++.++++++.|.+  +++|+++||++|||+|+|+++ +|++|
T Consensus       123 lr~~~~~~~~r~Rs~i~~~iR~ff~~~gFlEVeTPiL~~s~~eG~~~~F~~--~~~g~~~~L~~SpqLylq~l~-~g~~r  199 (435)
T 2xgt_A          123 IRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEGGSTLFNL--DYFGEQSFLTQSSQLYLETCI-PTLGD  199 (435)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESCCSSCTTSCCEE--EETTEEEEECSCSHHHHHHHH-HHHCS
T ss_pred             ecCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeEeeccCCCchhceee--ccCCcccccCCChHHHHHHhh-hccCc
Confidence            357899999999999999999999999999999999987655555678875  789999999999999999877 47999


Q ss_pred             eeecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEE--ecCCCCCCCceEeccCCCc
Q 030343           81 VYEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIK--YHASGLDKDPIEIDFTPPF  157 (179)
Q Consensus        81 vf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~pf  157 (179)
                      ||+||||||+|++++ ||++||||||||+++++++|+|+++|+|++++++.+.+.+...  +...+.+..    ....||
T Consensus       200 vfeIg~~FR~E~~~t~RH~~EFT~lE~e~af~d~~d~m~~~E~li~~~~~~v~~~~~~~~~~~~~~~~~~----~~~~pf  275 (435)
T 2xgt_A          200 VFCIAQSYRAEKSRTRRHLAEYAHVEAECPFITLDDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQ----PPERPF  275 (435)
T ss_dssp             EEEEEEEECCCSSCCTTCCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHHTSHHHHHHHHHHSTTCC----CCCSSC
T ss_pred             eEEEecceecCCCCccccccceeEEEEEEecCCHHHHHHHHHHHHHHHHHHHhccccchhhhhhcccccc----ccCCCc
Confidence            999999999999886 8999999999999999999999999999999999987653211  110011100    124799


Q ss_pred             ccchhhhccceeee
Q 030343          158 RSLNFIYSCKWYKI  171 (179)
Q Consensus       158 ~rity~eAi~~l~~  171 (179)
                      +||||.||++.++.
T Consensus       276 ~rity~ea~~~~~~  289 (435)
T 2xgt_A          276 LRMEYKDAIKWLQE  289 (435)
T ss_dssp             EEEEHHHHHHHHHH
T ss_pred             eEEEHHHHHHHHHh
Confidence            99999999987754

>3i7f_A Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-binding, aminoacyl-tRNA synthetase, LI nucleotide-binding, protein biosynthesis; 2.80A {Entamoeba histolytica}

Probab=100.00  E-value=4.9e-41  Score=296.56  Aligned_cols=163  Identities=22%  Similarity=0.418  Sum_probs=123.9

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      -++.+++++++||.+++++|+||.++||+||+||+|+++++++++++|.+  ++++.++||++|||+|+|+++++|++||
T Consensus       236 R~~~~~~~~r~Rs~i~~~iR~ff~~~gF~EVeTPiL~~~~~egga~~F~v--~~~~~~~yL~~Spql~~k~ll~~g~~rV  313 (548)
T 3i7f_A          236 RTVTNIAIFRIQSACCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNIFEV--KYFDRKAYLAQSPQLYKQMAIMGDFRKV  313 (548)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSBC---------------------CCBCSCTHHHHHHHHTTTCCEE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHhCCCEEEeCCEEecccCCCCcceeEE--ecCCCceEeccCHHHHHHHHHhcCcCcE
Confidence            46889999999999999999999999999999999999887777889976  6789999999999999999999999999


Q ss_pred             eecccccccccCC-CCCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEe---cCCCCCCCceEeccCCC
Q 030343           82 YEIGKQFRNEGID-LTHNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKY---HASGLDKDPIEIDFTPP  156 (179)
Q Consensus        82 f~i~~~fR~E~~~-~~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~p  156 (179)
                      |+||||||+|+++ .||++||||||||+++. +++|+|+++|+||+++++.+.+.+..++   ....+. ..  +.+ .|
T Consensus       314 feI~~~FR~E~~~t~RHl~EFtmlE~e~af~~d~~d~m~~~E~li~~i~~~~~~~~~~el~~~~~~~~~-~~--~~~-~p  389 (548)
T 3i7f_A          314 FEVGPVFRAENSNTRRHLTEFEGLDIEMEIVENYHECIDVMEKLFTFIFDEIPKRFPDELKVIRKQYPF-ED--LIY-RP  389 (548)
T ss_dssp             EEEEEECCCSCCCSSSCCSCEEEEEEEEECSSCTHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHSCC-CC--CCC-CS
T ss_pred             EEEeeeEecCCCCCCCcchhhhchhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhcCCc-cc--ccc-CC
Confidence            9999999999986 58999999999999997 7999999999999999998875442111   000000 11  122 79


Q ss_pred             cccchhhhccceee
Q 030343          157 FRSLNFIYSCKWYK  170 (179)
Q Consensus       157 f~rity~eAi~~l~  170 (179)
                      |+||||.||++++.
T Consensus       390 f~rit~~eai~~l~  403 (548)
T 3i7f_A          390 FLRLTYKEAIEMLR  403 (548)
T ss_dssp             CEEEEHHHHHHHHH
T ss_pred             cceeEHHHHHHHHH
Confidence            99999999999873

>1wyd_A Hypothetical aspartyl-tRNA synthetase; archaea, LIGA; HET: EPE; 2.30A {Sulfolobus tokodaii}

Probab=100.00  E-value=1.3e-38  Score=275.38  Aligned_cols=160  Identities=28%  Similarity=0.431  Sum_probs=139.5

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++|+.+++++|+||.++||+||+||+|+++.+|++.++|.+  +++|+++||++|||+|+|+ +++|++||
T Consensus       126 r~~~~~~~~~~rs~i~~~ir~ff~~~gF~eV~TP~l~~~~~e~~~~~f~~--~~~~~~~~L~~Spql~~~~-~~~g~~rv  202 (429)
T 1wyd_A          126 RRQEMQAVIKIQSLALKAFRETLYKEGFIEIFTPKIIASATEGGAQLFPV--IYFGKEAFLAQSPQLYKEL-MAGVVERV  202 (429)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCSSTTCCCCEE--EETTEEEEECSCCHHHHHH-HHHHHSEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHhhCCCEEEECCEEEeeCCCCCceeEEE--ecCCceEEecCCcHHHHHH-HHhCcCce
Confidence            37889999999999999999999999999999999998877777788987  6889999999999999998 77889999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhccee--EEecCCCCCCCceEeccCCCcc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYK--IKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      |+||||||+|++++ ||+|||||+|+|+++.+++|+|+++|++++++++.+.+.+.  +++...  .   ++ .+..||+
T Consensus       203 f~ig~~FR~E~~~~~RH~pEFtqle~e~~~~~~~dlm~~~e~ll~~l~~~~~~~~~~~l~~~~~--~---~~-~l~~pf~  276 (429)
T 1wyd_A          203 FEVAPAWRAEESDTPFHLAEFISMDVEMAFADYNDVMQLLEKILHNIVKTIKEEGKEELKILNY--E---PP-EVKIPIK  276 (429)
T ss_dssp             EEEEEEECCCCCCSSSCCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHTC--C---CC-CCCSSCE
T ss_pred             EEEcccccccCCccccccceeeEeeeeecCCCHHHHHHHHHHHHHHHHHHHhccchhhhhhccc--c---cc-cCCCCcc
Confidence            99999999999986 89999999999999999999999999999999999876432  222111  1   10 1257999


Q ss_pred             cchhhhccceee
Q 030343          159 SLNFIYSCKWYK  170 (179)
Q Consensus       159 rity~eAi~~l~  170 (179)
                      ||||.||++.+.
T Consensus       277 rity~eA~~~~~  288 (429)
T 1wyd_A          277 RLKYTEAIEILR  288 (429)
T ss_dssp             EEEHHHHHHHHH
T ss_pred             EEEHHHHHHHHH
Confidence            999999999884

>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A* 1asz_A*

Probab=100.00  E-value=1.5e-38  Score=278.78  Aligned_cols=164  Identities=22%  Similarity=0.403  Sum_probs=138.5

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .++.+++++++|+.+++++|+||.++||+||+||+|+++++|+++++|.+  .++|+++||++|||+|+|+++++|++||
T Consensus       170 r~~~~~~~~~~rs~i~~~ir~~~~~~gF~EV~TPil~~~~~~~ga~~f~~--~~~~~~~~L~~Spql~~k~l~~~g~~rv  247 (487)
T 1eov_A          170 RTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEV--TYFKGKAYLAQSPQFNKQQLIVADFERV  247 (487)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCSSSSSCCCEE--EETTEEEEECSCTHHHHHHHHHTTCCEE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEeCCEEEEecCCCCccccee--ccCCccEEcccChHHHHHHHHhcCCCce
Confidence            47889999999999999999999999999999999999877777899987  4689999999999999999999999999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecC--CCCCCCceEecc--CC
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHA--SGLDKDPIEIDF--TP  155 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~--~~  155 (179)
                      |+||||||+|++++ ||++||||+|+|+++. +++|+|+++|+|++++++.+.+.+..++..  ......  ..++  ..
T Consensus       248 y~ig~~FR~E~~~~~Rh~pEFt~le~e~af~~~~~dlm~l~E~ll~~l~~~v~~~~~~~l~~~~~~~~~~--~~~~~~~~  325 (487)
T 1eov_A          248 YEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELFVFIFSELPKRFAHEIELVRKQYPVE--EFKLPKDG  325 (487)
T ss_dssp             EEEEEEECCCCCCCTTCCSEEEEEEEEEECSSCTHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHSCCC--CCCCCTTC
T ss_pred             EEEeccEecCCCCCCccchhhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhchhHHHhhhhhcCCc--ceecccCC
Confidence            99999999999975 8999999999999986 699999999999999999887654322100  000000  1122  24


Q ss_pred             Ccccchhhhcccee
Q 030343          156 PFRSLNFIYSCKWY  169 (179)
Q Consensus       156 pf~rity~eAi~~l  169 (179)
                      ||+|++|.||++++
T Consensus       326 ~~~ri~~~ea~~~l  339 (487)
T 1eov_A          326 KMVRLTYKEGIEML  339 (487)
T ss_dssp             CCEEEEHHHHHHHH
T ss_pred             CeeEEEHHHHHHHH
Confidence            99999999999765

>1x54_A Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken structural genomics/proteom initiative, RSGI, structural genomics, ligase; HET: 4AD; 1.45A {Pyrococcus horikoshii} PDB: 1x55_A* 1x56_A

Probab=100.00  E-value=2e-38  Score=274.68  Aligned_cols=165  Identities=22%  Similarity=0.308  Sum_probs=140.8

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++|+.+++++|+||.++||+||+||+|+++.++++.++|.+  +++|+++||++|||+|+|+ ++++++||
T Consensus       127 r~~~~~~~~~~rs~i~~~ir~~f~~~gF~eVeTP~l~~~~~e~~~~~f~~--~~~~~~~~Lr~Spel~~~~-~~~g~~rv  203 (434)
T 1x54_A          127 RTPKASAIMKVKETLIMAAREWLLKDGWHEVFPPILVTGAVEGGATLFKL--KYFDKYAYLSQSAQLYLEA-AIFGLEKV  203 (434)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESCCSSCGGGCCEE--EETTEEEEECSCSHHHHHH-HHHHHSEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCcEEEeecCCCCceeEEE--eecCCcEEeccChHHHHHH-HhcCccce
Confidence            47899999999999999999999999999999999998877776788887  6889999999999999997 77889999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      |+||||||+|++++ ||++||||+|+|+++.+++|+|+++|++++++++.+.+.+..++...+...+.+ ..++.||+|+
T Consensus       204 f~ig~~FR~E~~~~~RH~pEFtqle~e~~~~~~~dlm~~~e~ll~~l~~~v~~~~~~~i~~~~~~~~~~-~~~~~pf~ri  282 (434)
T 1x54_A          204 WSLTPSFRAEKSRTRRHLTEFWHLELEAAWMDLWDIMKVEEELVSYMVQRTLELRKKEIEMFRDDLTTL-KNTEPPFPRI  282 (434)
T ss_dssp             EEEEEEECCCCCCCSSCCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHHHCHHHHHTTCSCCHHH-HTCCSSCCEE
T ss_pred             EEEecceecCCCCCcccccEEEEeeEEEcCCCHHHHHHHHHHHHHHHHHHHhhhchhhhhhcCcccccc-cccCCCCcEE
Confidence            99999999999986 899999999999999999999999999999999998775432221111111111 1135799999


Q ss_pred             hhhhccceee
Q 030343          161 NFIYSCKWYK  170 (179)
Q Consensus       161 ty~eAi~~l~  170 (179)
                      ||.||++.|.
T Consensus       283 ty~ea~~~~~  292 (434)
T 1x54_A          283 SYDEAIDILQ  292 (434)
T ss_dssp             EHHHHHHHHH
T ss_pred             EHHHHHHHHH
Confidence            9999999885

>1n9w_A Aspartyl-tRNA synthetase 2; biosynthetic protein; 2.30A {Thermus thermophilus} SCOP: b.40.4.1 d.104.1.1 PDB: 3kfu_A*

Probab=100.00  E-value=2.5e-38  Score=273.14  Aligned_cols=161  Identities=25%  Similarity=0.373  Sum_probs=103.4

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++|+.+++++|+||.++||+||+||+|+++.+|+++++|.+  +++|+++||++|||+|+|+++ +|++||
T Consensus       117 r~~~~~~~~~~rs~i~~~ir~~f~~~gF~EV~TPil~~~~~e~~~~~f~~--~~~g~~~~L~~Spel~~~~l~-~g~~rv  193 (422)
T 1n9w_A          117 RGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEGGSGLFGV--DYFEKRAYLAQSPQLYKQIMV-GVFERV  193 (422)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCC------------------------------CHHHHHHHH-HHHSEE
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEEeCCCCCceeEEE--eeCCCcEEeeeCHHHHHHHHh-hCCCce
Confidence            47899999999999999999999999999999999998877766778876  678999999999999999876 779999


Q ss_pred             eecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEecc-CCCcc
Q 030343           82 YEIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDF-TPPFR  158 (179)
Q Consensus        82 f~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~pf~  158 (179)
                      |+||||||+|++++ ||+|||||+|+|++++ +++|+|+++|++++++++.+.+.+...+...+..     ++. ..||+
T Consensus       194 f~ig~~FR~E~~~~~RH~pEFtqle~e~~~~~d~~dlm~l~e~ll~~l~~~~~~~~~~~i~~~~~~-----~~~~~~pf~  268 (422)
T 1n9w_A          194 YEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGAT-----WPSFPQDIP  268 (422)
T ss_dssp             EEEEEC-------------CCEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHSHHHHHHTTCC-----CCCCSSSCC
T ss_pred             eEEeCceECCCCCCCcccceeEEeeeeeeCCCCHHHHHHHHHHHHHHHHHHHhccchhhhhhcCcc-----ccccCCCcc
Confidence            99999999999987 8999999999999999 9999999999999999999876542221111111     111 27999


Q ss_pred             cchhhhccceee
Q 030343          159 SLNFIYSCKWYK  170 (179)
Q Consensus       159 rity~eAi~~l~  170 (179)
                      ||||.||++.|+
T Consensus       269 rity~eA~~~~~  280 (422)
T 1n9w_A          269 RLTHAEAKRILK  280 (422)
T ss_dssp             EEEHHHHHHHHH
T ss_pred             eeEHHHHHHHHH
Confidence            999999999885

>1nnh_A Asparaginyl-tRNA synthetase-related peptide; structural genomics, PSI, protein structure initiative, southeast COLL for structural genomics; 1.65A {Pyrococcus furiosus} SCOP: d.104.1.1 PDB: 3p8t_A 3p8v_A 3p8y_A 3reu_A* 3rex_A* 3rl6_A*

Probab=100.00  E-value=6.1e-36  Score=247.68  Aligned_cols=152  Identities=19%  Similarity=0.285  Sum_probs=133.0

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc--------cccccCCCceeccccccceeeeeechhhhhhhh
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI--------AGGAAARPFVTHHNDLNMKLYMRIAPELYLKEL   73 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~--------~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~   73 (179)
                      -|+ .++++++|+.+++++|+||.++||+||+||+|+++        .+++ +++|.+  ++++++++|++|||+|+|++
T Consensus         8 r~~-~~~~~~~rs~i~~~ir~~f~~~GF~EVeTP~l~~~~~~~~~~~~~e~-a~~f~~--~~~~~~~~L~~Spe~~~~~l   83 (294)
T 1nnh_A            8 SRE-ISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEG-MEPAEV--EIYGVKMRLTHSMILHKQLA   83 (294)
T ss_dssp             TSC-CHHHHHHHHHHHHHHHHHHHHTTCEEECCCCEESCCCCCCSCTTCCC-CCCCEE--EETTEEEEECSCSHHHHHHH
T ss_pred             hcc-hHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEEccchhccCCCCCc-ceeEEE--EcCCCCEEeccChHHHHHHH
Confidence            467 89999999999999999999999999999999988        5665 788886  47889999999999999999


Q ss_pred             hhccchheeeccccccccc--CC-CCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceE
Q 030343           74 VVGGLDRVYEIGKQFRNEG--ID-LTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIE  150 (179)
Q Consensus        74 ~~~~~~kvf~i~~~fR~E~--~~-~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (179)
                      +++|+.|||+||||||+|+  .+ .||++||||+|+|+++.+++|+|+++|++++.+++.+.+....            .
T Consensus        84 ~~~g~~rvf~ig~~FR~E~pq~~~~RH~~EFtqle~e~~~~~~~~l~~~~e~l~~~l~~~~~~~~~~------------~  151 (294)
T 1nnh_A           84 IAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAKMEDIMRLIERLVYGLFRKAEEWTGR------------E  151 (294)
T ss_dssp             HHTTCCEEEEEEEEECCCCGGGCSSSCCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHHHHSS------------C
T ss_pred             hhcCccceEEEEccEeCCCCCCCCCccccceeEEEEEecCCCHHHHHHHHHHHHHHHHHHHHhhhcc------------c
Confidence            9889999999999999999  66 4999999999999999999999999999999999877641110            1


Q ss_pred             ec-cCCCcccchhhhccceee
Q 030343          151 ID-FTPPFRSLNFIYSCKWYK  170 (179)
Q Consensus       151 ~~-~~~pf~rity~eAi~~l~  170 (179)
                      ++ +. +|+|++|.||++.++
T Consensus       152 i~~~~-~~~r~~y~ea~~~~g  171 (294)
T 1nnh_A          152 FPKTK-RFEVFEYSEVLEEFG  171 (294)
T ss_dssp             CCCCS-SCEEEEHHHHHHHTS
T ss_pred             cccCC-CceEeEHHHHHHHhC
Confidence            12 23 399999999997665

>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B O-methyl tyrosine binding, magnesium binding, aminoacylatio esterification; HET: 0A1 ANP; 1.75A {Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A* 2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A* 3vqv_A* 3vqw_A* 3vqx_A* 3vqy_A*

Probab=99.71  E-value=1.1e-17  Score=137.75  Aligned_cols=124  Identities=22%  Similarity=0.374  Sum_probs=98.1

Q ss_pred             hhhhhHHHH-----HHHHHHHHHHhhccCCceeeeccccccccc----c-ccCCCceeccccccceeeee--echhhhhh
Q 030343            4 VEVRQIFKT-----RSKIVSYIRRFLDNLDFLEVETPMMNMIAG----G-AAARPFVTHHNDLNMKLYMR--IAPELYLK   71 (179)
Q Consensus         4 ~~~~~~~~~-----rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~----~-~~~~~f~~~~~~~~~~~~L~--~S~ql~~~   71 (179)
                      +.+++++++     ++.+.+.+|++|.+.||.||.||+|++...    + ....++.....+++...+|+  +||+++..
T Consensus        65 ~~~~~i~~~g~~~~~~~i~~~ir~~l~~~Gf~EV~Tp~l~~~~~~~~~~~~~~~p~~~~~~~~~~~~~LR~slsp~L~~~  144 (290)
T 3qtc_A           65 KDLQQIYAEERENYLGKLEREITRFFVDRGFLEIKSPILIPLEYIERMGIDNDTELSKQIFRVDKNFCLRPMLTPNLYNY  144 (290)
T ss_dssp             HHHHHHHHTTCCCHHHHHHHHHHHHHHHTTCEEECCCSEEETHHHHHTTCCTTSSGGGGCCEETTTEEECSCSHHHHHHH
T ss_pred             chHHHHhccccccHHHHHHHHHHHHHHHCCCEEEECCceeeHHHHHhcCCCcCCchhhhheeeCCCeeEcccChHHHHHH
Confidence            567788888     999999999999999999999999987521    1 11122211123456789999  99999965


Q ss_pred             hhhh----ccchheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           72 ELVV----GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        72 ~~~~----~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ....    .+..|+|+||+|||+|..+.+|++||+|+|+++++.  ++.+++.+++++++.+
T Consensus       145 l~~n~~~~~~p~rlfeiG~vFR~E~~~~~~~~Ef~ql~~~~~g~~~~f~elkg~le~ll~~l  206 (290)
T 3qtc_A          145 LRKLDRALPDPIKIFEIGPCYRKESDGKEHLEEFTMLVFWQMGSGCTRENLESIITDFLNHL  206 (290)
T ss_dssp             HHHHTTTSCSSEEEEEEEEEECCCSCSSSCCSEEEEEEEEEESTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHhhccCCCCeEEEEEcCEEecCCCCCcCcchheEEEEEEEcCChHHHHHHHHHHHHHHHc
Confidence            4322    456899999999999988889999999999999885  4888888888888764

>2rhq_A Phenylalanyl-tRNA synthetase alpha chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_A*

Probab=99.36  E-value=4e-13  Score=110.80  Aligned_cols=118  Identities=16%  Similarity=0.099  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHHhhccCCceeeeccccccccccccCCCceec--------cccccceeeeeechhhhhhhhhhcc----ch
Q 030343           12 TRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTH--------HNDLNMKLYMRIAPELYLKELVVGG----LD   79 (179)
Q Consensus        12 ~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~--------~~~~~~~~~L~~S~ql~~~~~~~~~----~~   79 (179)
                      -.+.+.+.+|++|...||.||++|.+.+...+-....+...        .-+......||+|.-..+.++++.+    ..
T Consensus        54 ~~~~~~~~iR~~l~~~Gf~Ev~~s~l~~~~~nf~~l~~~~~~par~~~d~~~l~e~~vLRtsl~p~ll~~l~~N~~~~~~  133 (294)
T 2rhq_A           54 PLTRTVEEIEDLFLGLGYEIVDGYEVEQDYYNFEALNLPKSHPARDMQDSFYITDEILMRTHTSPVQARTMEKRNGQGPV  133 (294)
T ss_dssp             HHHHHHHHHHHHHHTTTCEECCCCSEEEHHHHTGGGTCCTTCGGGCTTTSCBSSSSEEECSSSHHHHHHHHHHTTTCSCE
T ss_pred             HHHHHHHHHHHHHHHCCCEEEcCcceeeehhhHHhhCCCCCccccccCCcEEEcCcceeeccCHHHHHHHHHhcCCCCCc
Confidence            35678999999999999999999998763210000001000        0112245677776665556677766    68


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhh--cchhHHHHHHHHHHHhhhh
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~lm~~~e~li~~~~~  129 (179)
                      |+|+||+|||++..+.+|++||+|+++.+++  .++.+++..++.+++.++.
T Consensus       134 riFEiG~Vfr~d~~d~~h~~Ef~~Le~~~~g~~~df~dlKg~le~ll~~l~g  185 (294)
T 2rhq_A          134 KIICPGKVYRRDSDDATHSHQFTQIEGLVVDKNIKMSDLKGTLELVAKKLFG  185 (294)
T ss_dssp             EEEEEEEEECCCCCBTTBCSEEEEEEEEEEESSCCHHHHHHHHHHHHHHHHC
T ss_pred             cEEEEcCEEecCCCCCCCCChhhEEEEEEECCCCCHHHHHHHHHHHHHHHhC
Confidence            9999999999987678899999999999998  5799999999999987754

>1b7y_A Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: d.104.1.1 PDB: 1b70_A* 1eiy_A 1jjc_A* 1pys_A 2iy5_A* 3hfz_A* 3teh_A* 2aly_A* 2akw_A* 2amc_A*

Probab=99.33  E-value=1.1e-12  Score=110.45  Aligned_cols=115  Identities=18%  Similarity=0.190  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHhhccCCceeeecccccccc---------ccccC----CCceeccccc----------cceeeee--echh
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIA---------GGAAA----RPFVTHHNDL----------NMKLYMR--IAPE   67 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~---------~~~~~----~~f~~~~~~~----------~~~~~L~--~S~q   67 (179)
                      .+.+.+.||++|...||.||.+|.+.+..         ..+++    +.|.+....-          .....||  +||.
T Consensus       103 ~~~~~~~Ir~~f~~~Gf~Ev~~p~v~~~~~nfd~L~~p~~hpar~~~dt~~l~nP~s~~~~~~~~~~~~~~vLRt~tsp~  182 (350)
T 1b7y_A          103 ITLMERELVEIFRALGYQAVEGPEVESEFFNFDALNIPEHHPARDMWDTFWLTGEGFRLEGPLGEEVEGRLLLRTHTSPM  182 (350)
T ss_dssp             HHHHHHHHHHHHHTTTCEECCCCSEEEHHHHTTTTTCCSSSTTTTSSCCCBEECSSCCCBCTTSCBCCSCEEECSSSTHH
T ss_pred             HHHHHHHHHHHHHHCCCEEEECcchhcchhHHHhhCCCCCCccccccccEEEcCccccccccccccccccceeeccchHH
Confidence            56789999999999999999999997631         11111    2232211110          1334455  5666


Q ss_pred             hhhhhhhhc--cchheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhhhh
Q 030343           68 LYLKELVVG--GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        68 l~~~~~~~~--~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~~~  129 (179)
                      +.  +.++.  ...|+|++|+|||+|..+.+|++||+|+|+.+++.  ++.|++..++.+++.++.
T Consensus       183 ll--r~l~~~~~piriFEiGrVFR~d~~d~tH~pEF~qlegl~~g~~v~f~dLKg~le~ll~~lfG  246 (350)
T 1b7y_A          183 QV--RYMVAHTPPFRIVVPGRVFRFEQTDATHEAVFHQLEGLVVGEGIAMAHLKGAIYELAQALFG  246 (350)
T ss_dssp             HH--HHHHHCCSSEEEEEEEEEECCCCCCSSCCSEEEEEEEEEEETTCCHHHHHHHHHHHHHHHSC
T ss_pred             HH--HHHHhcCCCeeEEEeeeEEECCCCCCCCCChhHEEEEEEECCCCCHHHHHHHHHHHHHhhcC
Confidence            55  34543  34689999999999887888999999999999986  799999999999988765

>3dsq_A Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-tRNA synthetase, ligase; 2.10A {Desulfitobacterium hafniense} PDB: 2znj_A 2zni_A

Probab=99.30  E-value=1.7e-12  Score=106.69  Aligned_cols=115  Identities=23%  Similarity=0.288  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHhhccCCceeeecccccccc----ccccCC-Cceeccccccceeeeee--chhhhh--hhhhh--ccchhe
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAAR-PFVTHHNDLNMKLYMRI--APELYL--KELVV--GGLDRV   81 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~~-~f~~~~~~~~~~~~L~~--S~ql~~--~~~~~--~~~~kv   81 (179)
                      ...+.+.+|++|...||.||.||.|++..    .|...+ .+....+..+...+|++  +|.+..  ...+.  ...-|+
T Consensus        73 ~~~l~~~ir~~~~~~Gf~EV~tP~Le~~~l~~~~g~~~~~~m~~~~npl~e~~~LRp~l~p~l~~~~r~~~~~~~~Plrl  152 (288)
T 3dsq_A           73 LLELEEKLAKALHQQGFVQVVTPTIITKSALAKMTIGEDHPLFSQVFWLDGKKCLRPMLAPNLYTLWRELERLWDKPIRI  152 (288)
T ss_dssp             HHHHHHHHHHHHHTTTCEECCCCSEEEHHHHHTTSSCC--CCTTTSCEEETTEEECSCSHHHHHHHHHHHTTTSCSCEEE
T ss_pred             HHHHHHHHHHHHHHCCCEEEECCeeecHHHHhhcCCCcccccEEeecccccchhhhhcChHHHHHHHHHHHhCCCCCEEE
Confidence            47899999999999999999999998732    222111 22111234456678884  455441  11111  123599


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhc----chhHHHHHHHHHHHhh
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFA----DYNDLMELTEKMLSGM  127 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~----~~~~lm~~~e~li~~~  127 (179)
                      |++|+|||+|..+..|++||+|+|+++.+.    ++.+++.+++++++.+
T Consensus       153 feiG~vFR~E~~~~~r~~EF~qle~~i~g~~~~~~f~elkg~le~ll~~L  202 (288)
T 3dsq_A          153 FEIGTCYRKESQGAQHLNEFTMLNLTELGTPLEERHQRLEDMARWVLEAA  202 (288)
T ss_dssp             EEEEEEECSCCSSSCCCSEEEEEEEEEETCCGGGHHHHHHHHHHHHHHHH
T ss_pred             EEEeeEEecCCCCCCcCccEEEEEEEEEcCCchhhHHHHHHHHHHHHHHc
Confidence            999999999999999999999999988774    4788888888888765

>1z7m_A ATP phosphoribosyltransferase regulatory subunit; ATP-PRT, histidine biosynthesis, hiszg, alloste evolution; 2.90A {Lactococcus lactis} SCOP: d.104.1.1 PDB: 1z7n_A*

Probab=99.14  E-value=6.6e-11  Score=99.45  Aligned_cols=120  Identities=16%  Similarity=0.151  Sum_probs=79.8

Q ss_pred             hhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------ccc----cCCCceeccccccceeeeeechhhhhhhhh
Q 030343            5 EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         5 ~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                      ..-.-.+++..+.+.+|+.|...||.||.||++.+..      ++.    ..+.|.. .+..|+.+.|+.-.....-+++
T Consensus        31 ~lP~~~~~~~~i~~~i~~~~~~~Gy~eI~tP~le~~el~~~s~~g~~~~~~~~my~~-~D~~g~~l~LRpd~T~~~aR~~  109 (344)
T 1z7m_A           31 MTLNQVKSLRQIEGRLRKLFSLKNYQEVMPPSFEYTQLYTALESNGKTFNQEKMFQF-IKHEGQSITLRYDFTLPLVRLY  109 (344)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHHHHCSSSCCCTTSCCEE-ECTTCCEEEECCCSHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCEEecCcccCcHHHHhhccCCccccccccEEEE-ECCCCCEEecCCCCcHHHHHHH
Confidence            3456678999999999999999999999999998731      121    1233432 3556788888854433333333


Q ss_pred             hc----cchheeecccccccccCCCCCCCCcchhhHHHhhcch----hHHHHHHHHHHH
Q 030343           75 VG----GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADY----NDLMELTEKMLS  125 (179)
Q Consensus        75 ~~----~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~----~~lm~~~e~li~  125 (179)
                      +.    ..-|.|++|+|||+|+++..|..||+|+++|+.+.+-    .|++.++.++++
T Consensus       110 ~~~~~~~P~rl~y~g~vfR~e~p~~gR~REF~Q~g~ei~g~~~~~aDaEvi~l~~~~l~  168 (344)
T 1z7m_A          110 SQIKDSTSARYSYFGKIFRKEKRHKGRSTENYQIGIELFGESADKSELEILSLALQVIE  168 (344)
T ss_dssp             HTCCSCCCEEEEEEEECCCCCC-------CCEEEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             HhcCCCCCeEEEEECcEEccCCCCCCCcceeEEEEEEEEcCCCcHHHHHHHHHHHHHHH
Confidence            32    3579999999999999888899999999999988542    355555555544

>3od1_A ATP phosphoribosyltransferase regulatory subunit; structural genomics, PSI-2, protein structure initiative; 1.97A {Bacillus halodurans}

Probab=99.12  E-value=5.7e-11  Score=101.72  Aligned_cols=122  Identities=14%  Similarity=0.135  Sum_probs=84.4

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccc-cCCCceeccccccceeeeeechhhhhhhhhh--
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGA-AARPFVTHHNDLNMKLYMRIAPELYLKELVV--   75 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~-~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~--   75 (179)
                      .....-.+++..+.+.+++.|...||.||.||++....     ++. ..+.|.. .+..|+.+.|+.-.....-+.++  
T Consensus        18 d~lP~~~~~~~~i~~~l~~~~~~~Gy~eI~tP~lE~~el~~~~g~~~~~~my~f-~D~~g~~l~LRpd~T~~~aR~~~~~   96 (400)
T 3od1_A           18 DTLPEWYKTKKNICDQMTEEINLWGYDMIETPTLEYYETVGVVSAILDQQLFKL-LDQQGNTLVLRPDMTAPIARLVASS   96 (400)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEETTTHHHHSSSCGGGSCEE-ECTTSCEEEECSCSHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCCccccceEEE-ECCCCCEEEECCCCHHHHHHHHHhh
Confidence            34456678999999999999999999999999997632     221 1233432 35567788888443333333332  


Q ss_pred             ----ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           76 ----GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                          ...-|.|++|+|||.|+++..|..||+|+++|+.+.+    -.|++.++.++++.
T Consensus        97 ~~~~~~P~r~~y~g~vfR~e~~~~gR~Ref~Q~g~ei~G~~~~~aDaEvi~l~~~~l~~  155 (400)
T 3od1_A           97 LKDRAYPLRLAYQSNVYRAQQNEGGKPAEFEQLGVELIGDGTASADGEVIALMIAALKR  155 (400)
T ss_dssp             CSSSCSCEEEEEEEEEECCCC---CCCSEEEEEEEEEESCCSHHHHHHHHHHHHHHHHH
T ss_pred             cccCCCCeEEEEEcCEEeCCCCCCCCCCccEEeEEEEECCCChHhHHHHHHHHHHHHHH
Confidence                2246999999999999998899999999999998853    23556665555543

>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase, ligase, structural G medical structural genomics of pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi} PDB: 3hrk_A* 3hri_A

Probab=99.10  E-value=5.6e-11  Score=103.35  Aligned_cols=123  Identities=14%  Similarity=0.154  Sum_probs=84.0

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc--CCCceeccccccceeeeeechhhhhhhhhhc
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA--ARPFVTHHNDLNMKLYMRIAPELYLKELVVG   76 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~--~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~   76 (179)
                      .....-.+++..+.+.+|+.|...||.||.||++....     .|..  .+.|. ..+..|+.+.|+.-.....-++++.
T Consensus        37 d~lP~~~~~~~~i~~~i~~~~~~~Gy~eI~tP~lE~~el~~~~~G~~~~~~my~-f~D~~g~~l~LRpd~T~~~aR~~~~  115 (456)
T 3lc0_A           37 DFPPEAMRCRRHLFDVFHATAKTFGFEEYDAPVLESEELYIRKAGEEITEQMFN-FITKGGHRVALRPEMTPSLARLLLG  115 (456)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEGGGGCCCSCCHHHHTCEE-EECSSSCEEEECSCSHHHHHHHHHH
T ss_pred             ccCHhHHHHHHHHHHHHHHHHHHCCCEEEECCcEeehhhhccccccchhhceEE-EEcCCCCEEecCCcCHHHHHHHHHh
Confidence            34456678999999999999999999999999998742     1221  22343 2355677888885443333333332


Q ss_pred             ------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHhh
Q 030343           77 ------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSGM  127 (179)
Q Consensus        77 ------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~~  127 (179)
                            ..-|.|++|+|||.|+++..|..||+|+++|+.+.+    -.|++.++.++++.+
T Consensus       116 ~~~~~~~P~r~~y~g~vfR~e~~~~gR~ReF~Q~g~ei~G~~~~~~DaEvi~l~~~~l~~l  176 (456)
T 3lc0_A          116 KGRSLLLPAKWYSIPQCWRYEAITRGRRREHYQWNMDIVGVKSVSAEVELVCAACWAMRSL  176 (456)
T ss_dssp             SCTTCCSSEEEEECCEEECCCC-----CCEEEEEEEEEESCCSTHHHHHHHHHHHHHHHHT
T ss_pred             cCcccCCCEEEEEeccEEecCCCCCCCccceEEEEEEEEcCCChHhhHHHHHHHHHHHHHc
Confidence                  257999999999999998899999999999998753    245666666666543

>3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, structural genomics, PSI- nostoc, protein structure initiative; 2.70A {Nostoc SP}

Probab=99.06  E-value=1.1e-10  Score=101.57  Aligned_cols=122  Identities=13%  Similarity=0.160  Sum_probs=80.2

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc----cccccCC--Cceecccc---------------ccceeee
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAAAR--PFVTHHND---------------LNMKLYM   62 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~~~--~f~~~~~~---------------~~~~~~L   62 (179)
                      +....-.+++..+.+.+++.|...||.||.||++...    .+|...+  .|.. .+.               .|+.+.|
T Consensus        20 D~lP~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~~E~~~~~~~~G~~~ke~m~~~-~d~~~~g~~~~~~~~~~~~g~~l~L   98 (465)
T 3net_A           20 EFLPSEKRLELYLLDTIRRVYESYGFTPIETPAVERLEVLQAKGNQGDNIIYGL-EPILPPNRQAEKDKSGDTGSEARAL   98 (465)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHGGGCC--CBEEEE-EEEC----------------CCEEE
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHcCCEEeeccccccHHHHhccCCCCccceEEE-ecccccccccccccccCCCCCEEEe
Confidence            4455677899999999999999999999999999753    1222222  3332 233               1577888


Q ss_pred             eechhhhhhhhhh------ccchheeecccccccccCCCCCCCCcchhhHHHhhcc--hh----HHHHHHHHHHHh
Q 030343           63 RIAPELYLKELVV------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD--YN----DLMELTEKMLSG  126 (179)
Q Consensus        63 ~~S~ql~~~~~~~------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~--~~----~lm~~~e~li~~  126 (179)
                      +.-.....-++++      ...-|.|++|||||.|+++..|..||+|+++|+.+.+  ..    |++.++-++++.
T Consensus        99 Rpd~T~~~aR~~~~~~~~~~~p~r~~y~g~vfR~e~~~~gr~Ref~Q~g~ei~G~~~~~a~~DaEvi~l~~~~l~~  174 (465)
T 3net_A           99 KFDQTVPLAAYIARHLNDLTFPFARYQMDVVFRGERAKDGRFRQFRQCDIDVVGREKLSLLYDAQMPAIITEIFEA  174 (465)
T ss_dssp             CSCSHHHHHHHHHHHGGGSCSSEEEEECCEEECBC------CCEEEEEEEEEECSSCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHhcccccCCCeEEEEeccEEecCCCCCCCcceeEEeeEEEECCCCccchhhHHHHHHHHHHHHH
Confidence            8444433333332      1246999999999999999999999999999998853  22    567766666654

>4g85_A Histidine-tRNA ligase, cytoplasmic; synthetase; 3.11A {Homo sapiens}

Probab=99.05  E-value=1.5e-10  Score=101.83  Aligned_cols=123  Identities=17%  Similarity=0.224  Sum_probs=81.0

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccccCCCceeccccccceeeeeechhhhhhhhhhc-
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG-   76 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~-   76 (179)
                      ++..-.-.++|..|.+.+|+.|...||.||.||++....     .|...+......+..|+.+.|+.-.....-+.++. 
T Consensus        74 ~D~lP~~~~~~~~ie~~i~~~~~~~Gy~eI~tP~lE~~el~~~~~ge~~~~my~f~D~~g~~l~LRPd~T~~~aR~~~~~  153 (517)
T 4g85_A           74 RDYSPRQMAVREKVFDVIIRCFKRHGAEVIDTPVFELKETLMGKYGEDSKLIYDLKDQGGELLSLRYDLTVPFARYLAMN  153 (517)
T ss_dssp             CCBCHHHHHHHHHHHHHHHHHHHHHTCEECBCCSEEEHHHHHCC------CSCBBCCTTSCCEEECSCSHHHHHHHHHHT
T ss_pred             CccCHHHHHHHHHHHHHHHHHHHHCCCeEEECcccCcHHHhhcccCcCcceeEEEECCCCCEEEeCCcCcHHHHHHHHhC
Confidence            344556688999999999999999999999999998631     22222332223456678888885333333333321 


Q ss_pred             --cchheeecccccccccCC--CCCCCCcchhhHHHhhc-c----hhHHHHHHHHHHH
Q 030343           77 --GLDRVYEIGKQFRNEGID--LTHNPEFTTCEFYMAFA-D----YNDLMELTEKMLS  125 (179)
Q Consensus        77 --~~~kvf~i~~~fR~E~~~--~~Hl~EF~~le~e~~~~-~----~~~lm~~~e~li~  125 (179)
                        ..-|.|+||+|||.|+++  ..|..||+|+++|+.+. +    -.|++.++-++++
T Consensus       154 ~~~p~k~yyig~vfR~Erp~~~~GR~ReF~Q~g~ei~G~~~~~~aDaEvi~l~~~~l~  211 (517)
T 4g85_A          154 KLTNIKRYHIAKVYRRDNPAMTRGRYREFYQCDFDIAGNFDPMIPDAECLKIMCEILS  211 (517)
T ss_dssp             TCSCEEEEEEEEEECCCC-------CCEEEEEEEEEESCCCTTHHHHHHHHHHHHHHH
T ss_pred             CCCCceeEEEeceEeccCcccccCccceeeeeceeccCCccchHHHHHHHHHHHHHHH
Confidence              246999999999999874  46999999999999874 2    2355665555554

>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A {Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1

Probab=99.04  E-value=3.4e-10  Score=97.50  Aligned_cols=120  Identities=12%  Similarity=0.115  Sum_probs=86.0

Q ss_pred             hhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccc--cCCCceeccccccceeeeeechhhhhhhhhhc-
Q 030343            5 EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGA--AARPFVTHHNDLNMKLYMRIAPELYLKELVVG-   76 (179)
Q Consensus         5 ~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~--~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~-   76 (179)
                      ..-.-.+++..|.+.+|+.|...||.||.||++.+..     .|.  ..+.|.. .+..|+.+.|+.-.....-+..+. 
T Consensus        15 ~lP~~~~~~~~i~~~i~~~~~~~G~~ei~tP~le~~el~~~~~G~~~~~em~~~-~D~~g~~l~LrPd~t~~~aR~~~~~   93 (434)
T 1wu7_A           15 FYPEDMDVEKFIFKTAEEAAEAFGFRRIDFPSLEYLDLYRIKSGEELLQQTYSF-VDKGGREVTLIPEATPSTVRMVTSR   93 (434)
T ss_dssp             BCHHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEETHHHHTTSCTTGGGGSCEE-ECTTSCEEEECSCSHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCEEeeccccccHHHhhhccCCccccceEEE-ECCCCCEEEeCCCChHHHHHHHHhc
Confidence            3456688999999999999999999999999998741     121  1233432 355678888885444443333331 


Q ss_pred             ----cchheeecccccccccCCCCCCCCcchhhHHHhhcch----hHHHHHHHHHHH
Q 030343           77 ----GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADY----NDLMELTEKMLS  125 (179)
Q Consensus        77 ----~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~----~~lm~~~e~li~  125 (179)
                          ..-|.|+||+|||.|+++..+..||+|+++|+.+.+-    .+++.++.++++
T Consensus        94 ~~~~lP~rl~~~g~vfR~erp~~gR~REF~Q~d~ei~g~~~~~ad~E~i~~~~~~l~  150 (434)
T 1wu7_A           94 KDLQRPLRWYSFPKVWRYEEPQAGRYREHYQFNADIFGSDSPEADAEVIALASSILD  150 (434)
T ss_dssp             TTCCSSEEEEECCEEECCCCSCSSCCSEEEEEEEEEESCCSHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEEcCeecCCCCCCCCccceEEeeEEEEcCCChHhhHHHHHHHHHHHH
Confidence                2479999999999998888899999999999988642    344444444444

>4g84_A Histidine--tRNA ligase, cytoplasmic; synthetase; 2.40A {Homo sapiens}

Probab=99.04  E-value=2.5e-10  Score=98.81  Aligned_cols=123  Identities=17%  Similarity=0.224  Sum_probs=82.0

Q ss_pred             ChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccccCCCceeccccccceeeeeechhhhhhhhhhc-
Q 030343            3 NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVG-   76 (179)
Q Consensus         3 ~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~-   76 (179)
                      ++....-.+++..|.+.+|+.|...||.||.||++....     .|...+......+..|+.+.|+.-.....-+.++. 
T Consensus        21 ~D~lP~~~~~~~~i~~~~~~~~~~~Gy~eI~tP~le~~el~~~~~g~~~~~~y~f~D~~g~~l~LRPd~T~~~aR~~~~~  100 (464)
T 4g84_A           21 RDYSPRQMAVREKVFDVIIRCFKRHGAEVIDTPVFELKETLMGKYGEDSKLIYDLKDQGGELLSLRYDLTVPFARYLAMN  100 (464)
T ss_dssp             CCBCHHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHTTSCC----CCCBBCCCSSCCEEECSCSHHHHHHHHHHT
T ss_pred             CccCHHHHHHHHHHHHHHHHHHHHCCCeEEECcccCcHHHhccccCcCcceeEEEECCCCCEEEeCCcCcHHHHHHHHhc
Confidence            344556678999999999999999999999999997631     22222332223456678888885333222233321 


Q ss_pred             --cchheeecccccccccCC--CCCCCCcchhhHHHhhc-c----hhHHHHHHHHHHH
Q 030343           77 --GLDRVYEIGKQFRNEGID--LTHNPEFTTCEFYMAFA-D----YNDLMELTEKMLS  125 (179)
Q Consensus        77 --~~~kvf~i~~~fR~E~~~--~~Hl~EF~~le~e~~~~-~----~~~lm~~~e~li~  125 (179)
                        ..-|.|++|++||.|+++  ..+..||+|+++|+.+. +    -.|++.++-++++
T Consensus       101 ~~~p~k~~y~g~vfR~erp~~~~gR~Ref~Q~g~ei~G~~~~~~aDaEvi~l~~~~l~  158 (464)
T 4g84_A          101 KLTNIKRYHIAKVYRRDNPAMTRGRYREFYQCDFDIAGNFDPMIPDAECLKIMCEILS  158 (464)
T ss_dssp             TCSCEEEEEEEEEECCCC------CCSEEEEEEEEEESCCSTTHHHHHHHHHHHHHHH
T ss_pred             CCCCceeEEEecceeccCCccccCccceeeecceeccCCccchhhHHHHHHHHHHHHH
Confidence              246999999999999874  46999999999999873 2    2356665555554

>3rac_A Histidine-tRNA ligase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, PSI-BIO; 2.30A {Alicyclobacillus acidocaldarius subsp}

Probab=99.02  E-value=2.4e-10  Score=97.04  Aligned_cols=121  Identities=9%  Similarity=0.050  Sum_probs=80.2

Q ss_pred             hhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----cc-cc--CCCceeccccccceeeeeechhhhhhhhhh--
Q 030343            5 EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GG-AA--ARPFVTHHNDLNMKLYMRIAPELYLKELVV--   75 (179)
Q Consensus         5 ~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~-~~--~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~--   75 (179)
                      ..-.-.+++..+.+.+++.|...||.||.||++....    ++ ..  .+.|. ..+..|+.+.|+.-.....-++++  
T Consensus        32 ~lP~~~~~~~~i~~~i~~~f~~~Gy~eI~tP~le~~el~~~~g~~~~~~~my~-~~D~~g~~l~LRpd~T~~~aR~~~~~  110 (373)
T 3rac_A           32 GYPDFAKRRRAVETRLLSFVEDAGYEPVTSGLFEYVDTLLRARSPESSRDWIR-LFDGGGDAVALRPEMTPSIARMAAPR  110 (373)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHTTSCTTSCCCCCB-CCCCSSSCEEECSSSHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHcCCeEEECCceeeHHHHhhcCCccchhceEE-EECCCCCEEEECCcCHHHHHHHHHhc
Confidence            3445678899999999999999999999999998641    22 21  23333 235567788888443333323322  


Q ss_pred             ----ccchheeecccccccccC------CCCCCCCcchhhHHHhhcc-----hhHHHHHHHHHHHh
Q 030343           76 ----GGLDRVYEIGKQFRNEGI------DLTHNPEFTTCEFYMAFAD-----YNDLMELTEKMLSG  126 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~------~~~Hl~EF~~le~e~~~~~-----~~~lm~~~e~li~~  126 (179)
                          ...-|.|++|+|||.|.+      +..|..||+|+++|+.+.+     -.|++.++.++++.
T Consensus       111 ~~~~~~P~r~~y~g~vfR~e~~g~~~~~~~gR~ReF~Q~g~ei~g~~d~~~aDaEvi~l~~~~l~~  176 (373)
T 3rac_A          111 VAAGRTPIRWCYCERVYRRTDDPASLSWASGKAAESTQVGIERIGEEASVDVDMDVLRLLHEASAA  176 (373)
T ss_dssp             HHTTCCCCEEEEEEEEEECC------------CEEEEEEEEEECSSCCCHHHHHHHHHHHHHHHHH
T ss_pred             cccCCCCeEEEEEcceEccCCCcccccccCCccceeEEeeeEEECCCCCHHHHHHHHHHHHHHHHH
Confidence                235799999999999998      6789999999999998754     13555555555543

>1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet, ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1 d.104.1.1

Probab=99.02  E-value=1.7e-10  Score=98.75  Aligned_cols=120  Identities=12%  Similarity=0.168  Sum_probs=78.1

Q ss_pred             hhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc----CCCceeccccccceeeeeechhhhhhhhhh
Q 030343            6 VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         6 ~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      .-.-.+++..|.+.+++.|...||.||.||++.+..      ||+.    .+.|.. .+..|+.++|+.-.....-++++
T Consensus        12 ~p~~~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~~~g~~~~~~~~~m~~~-~D~~g~~~~Lrp~~t~~~~r~~~   90 (420)
T 1qe0_A           12 LPEDSKKWRYIENQLDELMTFYNYKEIRTPIFESTDLFARGVGDSTDVVQKEMYTF-KDKGDRSITLRPEGTAAVVRSYI   90 (420)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHTCEECBCCSEEEHHHHCC-----------CCEEE-CHHHHCCEEECSCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCEEccCcccchHHHhhhccCCccchhhhheEEE-EcCCCCEEEeCCCChHHHHHHHH
Confidence            345678999999999999999999999999998731      2321    122332 23456788888444333322221


Q ss_pred             --------ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           76 --------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        76 --------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                              ...-|+|++|+|||+|.++..|..||+|+|+|..+.+    -.+++.++.++++.
T Consensus        91 ~~~~~~~~~lP~r~~~~g~vfR~E~~~~gR~reF~q~~~e~~~~~~~~~d~e~i~~~~~~l~~  153 (420)
T 1qe0_A           91 EHKMQGNPNQPIKLYYNGPMFRYERKQKGRYRQFNQFGVEAIGAENPSVDAEVLAMVMHIYQS  153 (420)
T ss_dssp             HTTGGGCSSCSEEEEEEEEEECC-------CCEEEEEEEEEESCCCHHHHHHHHHHHHHHHHH
T ss_pred             hccccccCCCCeEEEEecCEeecCCCcCCCcccEEEeeEEEECCCCchhHHHHHHHHHHHHHH
Confidence                    2357999999999999888889999999999998754    24666666666553

>4e51_A Histidine--tRNA ligase; seattle structural genomics center for infectious disease, S aminoacylation, tRNA activation, charged tRNA; HET: HIS; 2.65A {Burkholderia thailandensis}

Probab=99.01  E-value=2e-10  Score=100.15  Aligned_cols=121  Identities=14%  Similarity=0.214  Sum_probs=83.5

Q ss_pred             hhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----c-cc-c----CCCceeccccc-cceeeeeechhhhhhhh
Q 030343            5 EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----G-GA-A----ARPFVTHHNDL-NMKLYMRIAPELYLKEL   73 (179)
Q Consensus         5 ~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~-~~-~----~~~f~~~~~~~-~~~~~L~~S~ql~~~~~   73 (179)
                      ..-.-.+++..|.+.+++.|...||.||.||++....    + |. .    .+.|.. .+.. |+.+.|+.-.....-++
T Consensus        41 ~lP~~~~~~~~l~~~i~~~~~~~Gy~eI~tP~le~~el~~~~~G~~~d~~~~~my~~-~D~~~g~~l~LRPd~t~~~ar~  119 (467)
T 4e51_A           41 ILPQDAGLWEFFEATVKSLLRAYGYQNIRTPIVEHTPLFTRGIGEVTDIVEKEMYSF-VDALNGENLTLRPENTAAVVRA  119 (467)
T ss_dssp             BCHHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHTCTTSHHHHHTCCEE-ECTTTCCEEEECSCSHHHHHHH
T ss_pred             eCHHHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHhhhccCCcccccccceEEE-ecCCCCCEEEeCcccHHHHHHH
Confidence            3445678999999999999999999999999998642    1 32 1    233432 3445 77888884443333333


Q ss_pred             hh------ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           74 VV------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        74 ~~------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      ++      ...-|.|++|+|||+|.++..+..||+|+++|+.+.+    -.+++.++.++++.
T Consensus       120 ~~~~~~~~~lP~r~~~~g~vfR~E~~~~gR~ReF~Q~d~ei~g~~~~~adaEvi~l~~~~l~~  182 (467)
T 4e51_A          120 AIEHNMLYDGPKRLWYIGPMFRHERPQRGRYRQFHQVGVEALGFAGPDADAEIVMMCQRLWED  182 (467)
T ss_dssp             HHHTTTTTTSCEEEEEEEEEECCCCC---CCSEEEEEEEEEETCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHcccccCCCEEEEEEccEEccCCCCCCCcCceEEEEEEEEeCCChHHHHHHHHHHHHHHHH
Confidence            22      1257999999999999988889999999999998753    24555555555543

>12as_A Asparagine synthetase; ligase, nitrogen fixation; HET: AMP; 2.20A {Escherichia coli K12} SCOP: d.104.1.1 PDB: 11as_A*

Probab=99.00  E-value=7e-11  Score=97.24  Aligned_cols=159  Identities=9%  Similarity=0.180  Sum_probs=119.8

Q ss_pred             hHHHHHHHHHHHHHHhhc-----cCCceeeecccccccccc------ccCCCceeccc-cccceeeeeechhhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLD-----NLDFLEVETPMMNMIAGG------AAARPFVTHHN-DLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~-----~~gF~ev~tP~l~~~~~~------~~~~~f~~~~~-~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      .-++....++..+++||.     +.|+++|.+|++.....|      +..++...... ..+..+-+.+|...|+++++.
T Consensus         3 ~~~~~tq~aI~~iK~~f~~~l~~~L~L~rVsaPlfv~~~~GlnD~LnG~ErpV~f~i~~~~~~~~eivhSLaKWKR~aL~   82 (330)
T 12as_A            3 TAYIAKQRQISFVKSHFSRQLEERLGLIEVQAPILSRVGDGTQDNLSGAEKAVQVKVKALPDAQFEVVHSLAKWKRQTLG   82 (330)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHCEEECCCCSEEETTSSCSCCTTTTCCCCEECCSSSTTCCEEECSCCTTHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhcCcEEecCCEEecCCCCCCCCCCCceecceEecccCCCceEEEeeeHHHHHHHHHH
Confidence            345677888999999999     899999999999874322      12455543221 126778889999999998876


Q ss_pred             c-cc---hheeeccccccccc--CCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhccee---EEecCCCCCC
Q 030343           76 G-GL---DRVYEIGKQFRNEG--IDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYK---IKYHASGLDK  146 (179)
Q Consensus        76 ~-~~---~kvf~i~~~fR~E~--~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~---~~~~~~~~~~  146 (179)
                      . ++   +++|+-+++.|.|.  .|.+|+.+|.|.|||.+....+..++.++++++.+...+.....   ..| .     
T Consensus        83 ~y~f~~geGlytdMnaIR~dee~ld~~HS~yvDQwDWE~vi~~~~R~~~~Lk~tV~~Iy~~ik~tE~~~~~~y-~-----  156 (330)
T 12as_A           83 QHDFSAGEGLYTHMKALRPDEDRLSPLHSVYVDQWDWERVMGDGERQFSTLKSTVEAIWAGIKATEAAVSEEF-G-----  156 (330)
T ss_dssp             HTTCCTTCEEEEEEEEECTTCSCCCSSCCSEEEEEEEEEECCTTCCSHHHHHHHHHHHHHHHHHHHHHHHHHS-C-----
T ss_pred             hCCCCCCCeeEecCcccccCcccCCCceeEEEeeeeeEEeccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-c-----
Confidence            4 46   99999999999865  46799999999999999988888999999998888887765322   112 1     


Q ss_pred             CceEeccCCCcccchhhhccceeeeecC
Q 030343          147 DPIEIDFTPPFRSLNFIYSCKWYKIYHP  174 (179)
Q Consensus       147 ~~~~~~~~~pf~rity~eAi~~l~~d~p  174 (179)
                        +...+..++..||.+|..++|....|
T Consensus       157 --l~p~Lp~~i~fitsqeL~~~YP~lt~  182 (330)
T 12as_A          157 --LAPFLPDQIHFVHSQELLSRYPDLDA  182 (330)
T ss_dssp             --CCCCSCSSCEEEEHHHHHHHSSSSCH
T ss_pred             --cCcCCCCceEEEeHHHHHHHcCCCCh
Confidence              11124678999999999998865543

>3pco_A Phenylalanyl-tRNA synthetase, alpha subunit; aminoacylation, tRNA-binding, DNA-binding domain, four-helix aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP; 3.02A {Escherichia coli}

Probab=99.00  E-value=1.9e-10  Score=95.92  Aligned_cols=113  Identities=19%  Similarity=0.245  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHhhccCCceeeecccccccc---------ccccCCCceeccccccceeeee--echhhhhhhhhhc--cch
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIA---------GGAAARPFVTHHNDLNMKLYMR--IAPELYLKELVVG--GLD   79 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~---------~~~~~~~f~~~~~~~~~~~~L~--~S~ql~~~~~~~~--~~~   79 (179)
                      -+.+.+.||++|...||.|+.+|.+.+..         .++.++... +..+.+....||  +||.+.  +.++.  ...
T Consensus       109 ~~~~~~~Ir~if~~~Gf~ev~~~~ve~~~~nFd~Ln~p~dhpaR~~~-dt~~i~e~~vLRThtsp~~l--r~l~~~~~pi  185 (327)
T 3pco_A          109 VTRTIDRIESFFGELGFTVATGPEIEDDYHNFDALNIPGHHPARADH-DTFWFDTTRLLRTQTSGVQI--RTMKAQQPPI  185 (327)
T ss_dssp             HHHHHHHHHHHHHTTTCBCCCCCSEECTCCCCCTTTCCSSSHHHHHT-TCCBSSSSCEECSCTHHHHH--HHHTTCCSSC
T ss_pred             HHHHHHHHHHHHHHCCCeEEECCCccCCHHHHHhhCCCCCChhhccc-ccEEeCCCceecccCCHHHH--HHHHhCCCCe
Confidence            46788999999999999999999987642         122111110 012233445666  555553  24443  346


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhh--cchhHHHHHHHHHHHhhhh
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYNDLMELTEKMLSGMIK  129 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~lm~~~e~li~~~~~  129 (179)
                      |+|++|+|||.+ .+.+|+++|+|+|+.+++  .++.++..+++.+++.++.
T Consensus       186 rifeiGrVyR~d-~d~th~p~fhqlegl~v~~~v~f~dLKg~Le~~l~~lfg  236 (327)
T 3pco_A          186 RIIAPGRVYRND-YDQTHTPMFHQMEGLIVDTNISFTNLKGTLHDFLRNFFE  236 (327)
T ss_dssp             CBCCEECCBCSC-CBTTBCSBCCEEEEEEEETTCCHHHHHHHHHHHHHHHHC
T ss_pred             eEEeeccEEecC-CCcccCCcccEEEEEEECCCCCHHHHHHHHHHHHHHHhC
Confidence            999999999998 688999999999987765  4799999999999998865

>1htt_A Histidyl-tRNA synthetase; complex (tRNA synthetase/His-adenylate), aminoacyl-tRNA synthase, ligase; HET: HIS AMP; 2.60A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1kmm_A* 1kmn_A* 2el9_A*

Probab=98.99  E-value=5.1e-10  Score=95.88  Aligned_cols=121  Identities=14%  Similarity=0.157  Sum_probs=86.8

Q ss_pred             hhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----c-ccc-----CCCceeccccccceeeeeechhhhhhhhh
Q 030343            5 EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----G-GAA-----ARPFVTHHNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         5 ~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~-~~~-----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                      ..-.-.+++..|.+.+|+.|...||.||.||++.+..    + |..     .+.|.. .+..|+.+.|+.-.....-+..
T Consensus        13 ~lP~~~~~~~~i~~~i~~~~~~~G~~ei~tP~le~~el~~~~~G~~~d~~~~em~~~-~D~~g~~l~Lrpd~t~~~aR~~   91 (423)
T 1htt_A           13 YLPGETAIWQRIEGTLKNVLGSYGYSEIRLPIVEQTPLFKRAIGEVTDVVEKEMYTF-EDRNGDSLTLRPEGTAGCVRAG   91 (423)
T ss_dssp             BCHHHHHHHHHHHHHHHHHHHTTTCEECBCCSEEEHHHHHHHHCSSSHHHHHTCEEE-ECTTSCEEEECSCSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHcCCEEecccccCHHHHHhhccCCchhhhhhheEEE-EcCCCCEEEeCCCchHHHHHHH
Confidence            3456678999999999999999999999999998741    1 221     134442 3556788888854333333332


Q ss_pred             h------ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           75 V------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        75 ~------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                      +      ...-|.|+||++||.|+++..+..||+|+++|..+.+    ..+++.++.++++.
T Consensus        92 ~~~~~~~~~P~rl~~~g~vfR~e~p~~gR~Ref~Q~d~e~~g~~~~~ad~e~i~~~~~~l~~  153 (423)
T 1htt_A           92 IEHGLLYNQEQRLWYIGPMFRHERPQKGRYRQFHQLGCEVFGLQGPDIDAELIMLTARWWRA  153 (423)
T ss_dssp             HHHTCSTTCCEEEEEEEEEECCCCCCSSCCSEEEEEEEEEESCCSHHHHHHHHHHHHHHHHH
T ss_pred             HhcccccCCCeEEEEEcCEecCCCCCCCccceeEEeeEEEECCCCchhhHHHHHHHHHHHHH
Confidence            2      2257999999999999888889999999999998864    23555555555543

>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP + L-histidine tRNA(His)-> AMP + PPI + L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP: c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A

Probab=98.99  E-value=8e-10  Score=94.62  Aligned_cols=120  Identities=19%  Similarity=0.236  Sum_probs=84.5

Q ss_pred             hhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc----c-ccc-----CCCceeccccccceeeeeechhhhhhhhh
Q 030343            5 EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----G-GAA-----ARPFVTHHNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         5 ~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~-~~~-----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                      ....-.+++..|.+.+|+-|...||.||.||++.+..    + |..     .+.|.. .+..|+.+.|+.-.....-+..
T Consensus        12 ~lP~~~~~~~~i~~~i~~~~~~~G~~ei~tP~le~~el~~~~~G~~~d~~~~em~~~-~D~~g~~l~Lrpd~t~~~ar~~   90 (421)
T 1h4v_B           12 LFGKELRMHQRIVATARKVLEAAGALELVTPIFEETQVFEKGVGAATDIVRKEMFTF-QDRGGRSLTLRPEGTAAMVRAY   90 (421)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHcCCEEecccccccHHHhhhccCCcccccccceEEE-ECCCCCEEeeCCcchHHHHHHH
Confidence            3456678999999999999999999999999998741    1 221     123332 3556788888844333333332


Q ss_pred             h-------ccchheeecccccccccCCCCCCCCcchhhHHHhhcch----hHHHHHHHHHHH
Q 030343           75 V-------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADY----NDLMELTEKMLS  125 (179)
Q Consensus        75 ~-------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~----~~lm~~~e~li~  125 (179)
                      +       ...-|.|+||++||.|+++..+..||+|+++|..+.+-    .+++.++.++++
T Consensus        91 ~~~~~~~~~lP~rl~~~g~vfR~e~p~~gR~REf~Q~g~e~~g~~~~~ad~e~i~~~~~~l~  152 (421)
T 1h4v_B           91 LEHGMKVWPQPVRLWMAGPMFRAERPQKGRYRQFHQVNYEALGSENPILDAEAVVLLYECLK  152 (421)
T ss_pred             HhccccccCCCeEEEEecCeecCCCCCCCCcccEEEccEEEECCCChhhhHHHHHHHHHHHH
Confidence            2       12479999999999998888899999999999988542    244444444443

>2i4l_A Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseudomonas palustris} PDB: 2i4m_A* 2i4n_A* 2i4o_A*

Probab=98.96  E-value=5.9e-10  Score=96.82  Aligned_cols=108  Identities=16%  Similarity=0.157  Sum_probs=76.5

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeech-----hhhhhhh
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAP-----ELYLKEL   73 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~-----ql~~~~~   73 (179)
                      -.-.+++..|.+.+|+.|...||.||.||++.+..    +|.    ..+.|.. .+..++.++|+...     .++...+
T Consensus        64 P~g~~~~~~i~~~ir~~~~~~G~~ei~tP~l~~~el~~~sg~~d~~~~em~~~-~d~~~~~~~LrPt~ee~t~~i~r~~~  142 (458)
T 2i4l_A           64 PLGHRVLKKIEQIVREEQNRAGAIELLMPTLQLADLWRESGRYDAYGPEMLRI-ADRHKRELLYGPTNEEMITEIFRAYI  142 (458)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHTHHHHSCTTSEEE-ECTTCCEEEECSCCHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHHHHHcCCEEEEcCccCcHHHHHhcCCccccccceEEE-EeCCCCeEEECCCChHHHHHHHHHHH
Confidence            34578999999999999999999999999998742    232    1223332 34557888998632     2222211


Q ss_pred             h--hccchheeecccccccc-cCCCC--CCCCcchhhHHHhhcchhH
Q 030343           74 V--VGGLDRVYEIGKQFRNE-GIDLT--HNPEFTTCEFYMAFADYND  115 (179)
Q Consensus        74 ~--~~~~~kvf~i~~~fR~E-~~~~~--Hl~EF~~le~e~~~~~~~~  115 (179)
                      .  ....-|+|+||+|||+| ..+..  +..||+|.|+|..+.+..+
T Consensus       143 ~s~~~lP~rl~~ig~~fR~E~~p~~Gl~R~REF~q~d~~~f~~~~~~  189 (458)
T 2i4l_A          143 KSYKSLPLNLYHIQWKFRDEQRPRFGVMRGREFLMKDAYSFDVDEAG  189 (458)
T ss_dssp             CBGGGCSEEEEEEEEEECCCSSCBTGGGBCSEEEEEEEEEEESSHHH
T ss_pred             hhccccCeeeEEecCEeeCCCCCCCCcccccceEEeEEEEEECCHHH
Confidence            1  12347999999999999 55555  9999999999997755443

>3l4g_A Phenylalanyl-tRNA synthetase alpha chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A {Homo sapiens}

Probab=98.94  E-value=8.9e-10  Score=96.55  Aligned_cols=115  Identities=22%  Similarity=0.246  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHhhccCCceeeec-cccccc---------cccccCCC----ceecccc---------------------c-
Q 030343           13 RSKIVSYIRRFLDNLDFLEVET-PMMNMI---------AGGAAARP----FVTHHND---------------------L-   56 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~t-P~l~~~---------~~~~~~~~----f~~~~~~---------------------~-   56 (179)
                      .+.+.+.||++|...||.|+.| |.+.++         |.+++++.    |.+....                     + 
T Consensus       227 l~~v~~~Ir~if~~mGF~Ev~t~~~ves~~~NFDaLn~P~dHPaR~~~Dtfyi~~P~~~~~~~e~~~~~v~~~He~g~~~  306 (508)
T 3l4g_A          227 LLKVRSQFRQIFLEMGFTEMPTDNFIESSFWNFDALFQPQQHPARDQHDTFFLRDPAEALQLPMDYVQRVKRTHSQGGYG  306 (508)
T ss_dssp             HHHHHHHHHHHHHHTTCEECCCCCSEEEHHHHTGGGTCCSSSTTSSTTTSCBBSTTCBCSCCCHHHHHHHHHHHHTCBTT
T ss_pred             HHHHHHHHHHHHHHCcCeEeccCCccccHHHHHHhcCCCCCCcccccCceEEEcCccccccccHHHHHhhhhhhhccccC
Confidence            4678899999999999999875 887763         33344332    3221100                     0 


Q ss_pred             ------------cceeeeeechhhhhhhhhh-------ccchheeecccccccccCCCCCCCCcchhhHHHhh--cchhH
Q 030343           57 ------------NMKLYMRIAPELYLKELVV-------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF--ADYND  115 (179)
Q Consensus        57 ------------~~~~~L~~S~ql~~~~~~~-------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~--~~~~~  115 (179)
                                  +....||++.--.+-+.++       ...-|+|+||+|||+|..+.+|+++|+|+|+.+++  .++.+
T Consensus       307 s~g~~~~~~~~~~~~~vLRThtsp~~lr~l~~N~~~~~~~PiriFeiGrVFR~d~~DatHlpeFhQlegl~~~~~v~f~d  386 (508)
T 3l4g_A          307 SQGYKYNWKLDEARKNLLRTHTTSASARALYRLAQKKPFTPVKYFSIDRVFRNETLDATHLAEFHQIEGVVADHGLTLGH  386 (508)
T ss_dssp             BCCCCSCCCHHHHTBEEECCCTHHHHHHHHHHHHTSSSCCCEEEEEEEEEECCSCCCSSSCSEEEEEEEEEEEESCCHHH
T ss_pred             CccccccccccccccccccCCChHHHHHHHHHhhhhcCCCCceEEEEccEEecCCCCCCcCCeEEEEEEEEECCCCCHHH
Confidence                        0245666443222212232       13569999999999999999999999999998776  37999


Q ss_pred             HHHHHHHHHHhh
Q 030343          116 LMELTEKMLSGM  127 (179)
Q Consensus       116 lm~~~e~li~~~  127 (179)
                      ++.+++.+++.+
T Consensus       387 LKg~Le~~l~~l  398 (508)
T 3l4g_A          387 LMGVLREFFTKL  398 (508)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHc
Confidence            999999998875

>1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION, adenylate analog, deletion mutant, ligase; HET: TSB; 1.55A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1evk_A* 1fyf_A* 1kog_A*

Probab=98.91  E-value=1e-09  Score=93.67  Aligned_cols=109  Identities=17%  Similarity=0.147  Sum_probs=77.5

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh---
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV---   75 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~---   75 (179)
                      -.-.+++..|.+.+|+.|.+.||.||.||+|.+..    +|.    ....|.  .+..+..++|+.......-++++   
T Consensus        27 P~g~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~sG~~~~~~~em~~--~d~~~~~~~LrP~~~~~~~~~~~~~~  104 (401)
T 1evl_A           27 NDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFT--TSSENREYCIKPMNCPGHVQIFNQGL  104 (401)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHTHHHHSGGGCCE--EEETTEEEEECSCSHHHHHHHHTSSC
T ss_pred             chHHHHHHHHHHHHHHHHHHcCCEEEECCeeccHHHHHhcCcHhhhchhhEe--EecCCceEEEcCCCCHHHHHHHHhhh
Confidence            34578999999999999999999999999998742    232    112333  24457788998665544332222   


Q ss_pred             ----ccchheeecccccccccC--CCC--CCCCcchhhHHHhhcchhHHHH
Q 030343           76 ----GGLDRVYEIGKQFRNEGI--DLT--HNPEFTTCEFYMAFADYNDLME  118 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~--~~~--Hl~EF~~le~e~~~~~~~~lm~  118 (179)
                          ...-|+|++|+|||+|.+  ...  +..||+|.|++. +.+.++...
T Consensus       105 ~s~~~lP~r~~~~g~~fR~E~~~p~~Gl~R~reF~q~d~~~-f~~~~~~~~  154 (401)
T 1evl_A          105 KSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHI-FCTEEQIRD  154 (401)
T ss_dssp             CBGGGCSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEE-EECGGGHHH
T ss_pred             hhhhhCChhhccccceecCCCCcccccccccCcEEecceEE-eCCHHHHHH
Confidence                124799999999999996  344  999999999996 444444333

>2j3l_A Prolyl-tRNA synthetase; class II aminoacyl- T synthetase, editing, translation; HET: P5A; 2.3A {Enterococcus faecalis} PDB: 2j3m_A*

Probab=98.82  E-value=4e-09  Score=93.77  Aligned_cols=110  Identities=16%  Similarity=0.169  Sum_probs=77.5

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhh-----hhhhh
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPEL-----YLKEL   73 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql-----~~~~~   73 (179)
                      -.-.+++..|.+.+|+.|.+.||.||.||++.+..    +|+    ..+.|.. .+..++.++|+....-     +...+
T Consensus        44 P~g~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~sG~~~~~~~~m~~~-~d~~~~~~~LrP~~~~~~~~~~~~~~  122 (572)
T 2j3l_A           44 PLANRVLEKLKTIMREEFEKIDAVEMLMPALLPAELWKESGRYETYGPNLYRL-KDRNDRDYILGPTHEETFTELIRDEI  122 (572)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEECBCCSEEETHHHHHHSHHHHSCTTSCEE-ECTTCCEEEECSCCHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHHhcCCccccchheEEE-ecCCCCeEEEccccHHHHHHHHHhhc
Confidence            34578999999999999999999999999998742    232    1233332 3445788999844432     22211


Q ss_pred             h--hccchheeecccccccccCC-CC--CCCCcchhhHHHhhcchhHHH
Q 030343           74 V--VGGLDRVYEIGKQFRNEGID-LT--HNPEFTTCEFYMAFADYNDLM  117 (179)
Q Consensus        74 ~--~~~~~kvf~i~~~fR~E~~~-~~--Hl~EF~~le~e~~~~~~~~lm  117 (179)
                      .  ....-|+|++|+|||+|.++ ..  +..||+|.|++..+.+-.+..
T Consensus       123 ~s~~~lP~r~~~~g~~fR~E~~~~~Gl~R~ReF~q~d~~~f~~~~~~~~  171 (572)
T 2j3l_A          123 NSYKRLPLNLYQIQTKYRDEKRSRSGLLRGREFIMKDGYSFHADEASLD  171 (572)
T ss_dssp             CBGGGCCEEEEEEEEEECCCSSCCTGGGSCSEEEEEEEEEEESSHHHHH
T ss_pred             cChhhcCHhhheecCeeccCcCcccCccccceeEEeeeEEEcCCHHHHH
Confidence            1  12347999999999999984 33  899999999998776443333

>1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline + tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A {Thermus thermophilus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 PDB: 1h4q_A* 1h4t_A 1h4s_A

Probab=98.80  E-value=4.8e-09  Score=91.65  Aligned_cols=115  Identities=16%  Similarity=0.073  Sum_probs=79.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc----CCCceeccccc----cceeeeeechhh-----h
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA----ARPFVTHHNDL----NMKLYMRIAPEL-----Y   69 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~----~~~f~~~~~~~----~~~~~L~~S~ql-----~   69 (179)
                      .-.+++..|.+.+|+.|.+.||.||.||++.+..     +|+.    .+.|.+ .+..    +..++|+.....     +
T Consensus        42 ~g~~l~~~I~~~~r~~~~~~G~~ei~tP~l~~~el~~~~sgh~d~f~~emy~~-~d~g~~~l~~~l~LRP~~~~~i~~~~  120 (477)
T 1hc7_A           42 YGYAIWENIQQVLDRMFKETGHQNAYFPLFIPMSFLRKEAEHVEGFSPELAVV-THAGGEELEEPLAVRPTSETVIGYMW  120 (477)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEESTTC---------CCTTCEEE-EEESSSEEEEEEEECSCSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEecCccccHHHHhhcCCcccccccceEEE-ECCCCccCCCeEEEcCCCcHHHHHHH
Confidence            4578899999999999999999999999998742     3321    122322 2222    578899855442     3


Q ss_pred             hhhhhh--ccchheeecccccccccCCCC--CCCCcchhhHHHhhcchhHHHHHHHHH
Q 030343           70 LKELVV--GGLDRVYEIGKQFRNEGIDLT--HNPEFTTCEFYMAFADYNDLMELTEKM  123 (179)
Q Consensus        70 ~~~~~~--~~~~kvf~i~~~fR~E~~~~~--Hl~EF~~le~e~~~~~~~~lm~~~e~l  123 (179)
                      .+.+.+  ...-|+|+||+|||+|.....  +..||+|.|++..+.+.++....+..+
T Consensus       121 ~~~~~s~r~LP~rl~qig~vfR~E~~~rGl~R~REF~q~d~~~~~~~~~~ad~E~~~~  178 (477)
T 1hc7_A          121 SKWIRSWRDLPQLLNQWGNVVRWEMRTRPFLRTSEFLWQEGHTAHATREEAEEEVRRM  178 (477)
T ss_dssp             HHHCCBGGGCCEEEEEEEEEECCCSSCBTTTBCSEEEEEEEEEEESSHHHHHHHHHHH
T ss_pred             HhhhhccccCCeeeEeecCEEeCCCCCCCcceeEEEEEccEEEEeCCHHHHHHHHHHH
Confidence            322111  234799999999999965445  999999999999887655555444444

>1nj8_A Proline-tRNA synthetase, proline--tRNA ligase; class-II tRNA synthetase; 3.20A {Methanocaldococcus jannaschii} SCOP: c.51.1.1 d.68.5.1 d.104.1.1

Probab=98.77  E-value=9.9e-09  Score=89.23  Aligned_cols=112  Identities=20%  Similarity=0.133  Sum_probs=79.2

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc----CCCceeccccc----cceeeeeechhhhhhhh
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA----ARPFVTHHNDL----NMKLYMRIAPELYLKEL   73 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~----~~~f~~~~~~~----~~~~~L~~S~ql~~~~~   73 (179)
                      -.-.+++..|.+.+|+.|.+.||.||.||++.+..     .|..    .+.|.+ .+..    +..++|+.......-++
T Consensus        35 P~g~~l~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~~~G~~~~~~~emy~~-~d~g~~~~~~~l~LRP~~~~~i~~~  113 (459)
T 1nj8_A           35 PYGFKIRRYTFEIIRNLLDESGHDEALFPMLIPEDLLAKEAEHIKGFEDEVYWV-THGGKTQLDVKLALRPTSETPIYYM  113 (459)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHCSSSGGGGGGCEEE-EESSSSEEEEEEEECSSSHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHcCCEEeeCCcccCHHHHhhhcCcccccchhhEEE-eccCcccCCCeeEECCCCcHHHHHH
Confidence            35578899999999999999999999999998742     2321    122322 2222    67889985554433222


Q ss_pred             hh-------ccchheeecccccccccC-CCC--CCCCcc-hhhHHHhhcchhHHHHH
Q 030343           74 VV-------GGLDRVYEIGKQFRNEGI-DLT--HNPEFT-TCEFYMAFADYNDLMEL  119 (179)
Q Consensus        74 ~~-------~~~~kvf~i~~~fR~E~~-~~~--Hl~EF~-~le~e~~~~~~~~lm~~  119 (179)
                      ++       ...-|+|++|+|||+|.+ ...  +..||+ |.|++..+++..+....
T Consensus       114 ~~~~~~s~r~LP~rl~qig~~fR~E~~~~rGl~R~REF~qq~d~~~~~~~~~~a~~e  170 (459)
T 1nj8_A          114 MKLWVKVHTDLPIKIYQIVNTFRYETKHTRPLIRLREIMTFKEAHTAHSTKEEAENQ  170 (459)
T ss_dssp             HHTTCCBTTSCCCCEEEEECCBCCCCSCCBTTTBCSBCSCEEEEEEEESSHHHHHHH
T ss_pred             HHHhhhhcccCCeEEEEEccEecCccCCCCCceEeeeeeccCcEEEEECCHHHHHHH
Confidence            22       124699999999999998 555  999999 99999877765444443

>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A {Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1 PDB: 1nyq_A*

Probab=98.77  E-value=6e-09  Score=94.02  Aligned_cols=103  Identities=16%  Similarity=0.055  Sum_probs=73.9

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceecccccc-ceeeeeechhhhhhhhhh--
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDLN-MKLYMRIAPELYLKELVV--   75 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~~-~~~~L~~S~ql~~~~~~~--   75 (179)
                      ..-.+++..|.+.+|+.|.+.||.||.||+|.+..    +|+.    ...|.. .+..+ +.++|+.-.....-++.+  
T Consensus       268 P~g~~~~~~l~~~ir~~~~~~Gy~eV~tP~l~~~~l~~~sG~~d~~~~~mf~~-~d~~~~~~~~LrP~~~~~~~~~~~~~  346 (645)
T 1nyr_A          268 PNGATIRREIERYIVDKEVSMGYDHVYTPVLANVDLYKTSGHWDHYQEDMFPP-MQLDETESMVLRPMNCPHHMMIYANK  346 (645)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTEEECBCCSEEETHHHHHHTHHHHCTTSSCCC-EEETTTEEEEECSSSHHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHHHHHHHHHcCCEEEECCeeccHHHHhhCCCccccccCccee-EecCCCeEEEeCCCCCHHHHHHHHhh
Confidence            34578999999999999999999999999998742    2321    233332 23346 788898544333322222  


Q ss_pred             -----ccchheeecccccccccCCC--C--CCCCcchhhHHHhh
Q 030343           76 -----GGLDRVYEIGKQFRNEGIDL--T--HNPEFTTCEFYMAF  110 (179)
Q Consensus        76 -----~~~~kvf~i~~~fR~E~~~~--~--Hl~EF~~le~e~~~  110 (179)
                           ..+-|+|+||+|||+|.++.  .  +..||+|.|+++-+
T Consensus       347 ~~syr~LPlrl~~~g~~fR~E~~~~~~GL~R~ReF~Q~d~~~f~  390 (645)
T 1nyr_A          347 PHSYRELPIRIAELGTMHRYEASGAVSGLQRVRGMTLNDSHIFV  390 (645)
T ss_dssp             CCBGGGCCEEEEEEEEEECCCCTTTCBTTTBCSEEEEEEEEEEE
T ss_pred             hhhccCCCeEEEEeccEEecCCCccccCcceeeeEEEccEEEEc
Confidence                 12479999999999999863  3  88999999999844

>3a32_A Probable threonyl-tRNA synthetase 1; aeropyrum pernix K1, protein biosynthesis, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; 2.30A {Aeropyrum pernix} PDB: 3a31_A

Probab=98.76  E-value=7.3e-09  Score=90.24  Aligned_cols=102  Identities=16%  Similarity=0.161  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceeccccccceeeeeechhhhh-----hhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDLNMKLYMRIAPELYL-----KELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~-----~~~~   74 (179)
                      .-.+++..|.+.+++.|...||.||.||+|.+..    +|+.    .+.|..  +..+..++|+.......     +.+.
T Consensus        47 ~g~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~sg~~~~~~~emy~~--d~~~~~l~LRP~~t~~i~~~~~~~~~  124 (471)
T 3a32_A           47 GGGPIRYALAEVLAKFHARRGYYVVETPIIASTELFKVSGHIEFYRNNMYLF--DIEGHEFAVKPMNCPYHILLFLNEVA  124 (471)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCEECCCCSEEETHHHHHTCCCTTGGGGSEEE--EETTEEEEECSCSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCeeeehHHhhhccCccccccceEEE--ecCCcEEEEccccHHHHHHHHHhhhh
Confidence            4578899999999999999999999999998742    3321    122332  44577889984443322     2111


Q ss_pred             h-----ccchheeecccccccccCC--CC--CCCCcchhhHHHhhc
Q 030343           75 V-----GGLDRVYEIGKQFRNEGID--LT--HNPEFTTCEFYMAFA  111 (179)
Q Consensus        75 ~-----~~~~kvf~i~~~fR~E~~~--~~--Hl~EF~~le~e~~~~  111 (179)
                      .     ...-|+|++|+|||+|.++  ..  +..||+|.|++..+.
T Consensus       125 s~r~~~~lP~rl~~~g~vfR~E~~~~~~Gl~R~REF~Q~~~e~f~~  170 (471)
T 3a32_A          125 KHRSKLPLPFKVFEFGRVHRYEPSGSIYGLLRVRGFTQDDAHIIVP  170 (471)
T ss_dssp             HHGGGSCSSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEEEEE
T ss_pred             hccccccCCeEEeeccceeccCCCcccccceeEEEEEECCeEEEcC
Confidence            1     2357999999999999977  55  999999999998753

>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, nationa on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus}

Probab=98.72  E-value=1.5e-08  Score=87.32  Aligned_cols=112  Identities=13%  Similarity=0.142  Sum_probs=74.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceeccccccceeeeeechhhhhhhh-----h
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDLNMKLYMRIAPELYLKEL-----V   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~-----~   74 (179)
                      .-.+++..|.+.+++.+.+.||.||.||+|....    +|..    ...|.+    .+..++|+...+...-.+     +
T Consensus       170 ~ga~l~~~L~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sG~~~~f~~emy~~----~~~~l~LrPt~e~~i~~~~~~~i~  245 (425)
T 2dq3_A          170 WGARLERALINFMLDLHTKKGYKEICPPHLVKPEILIGTGQLPKFEEDLYKC----ERDNLYLIPTAEVPLTNLYREEIL  245 (425)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEECHHHHHHHSCTTTTGGGSCBC----TTTCCEECSSTHHHHHGGGTTEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHHhcCCCCcChhhheEe----cCCeEEEcCCCcHHHHHHHHhhcc
Confidence            4567899999999999999999999999998742    2221    122221    256788885544332222     2


Q ss_pred             h--ccchheeecccccccccCC----C---CCCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           75 V--GGLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        75 ~--~~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                      .  ...-|+|++|+|||+|..+    +   .+..||+|+|.+... .-++..+..++++
T Consensus       246 s~~~LPlrl~~~g~~FR~E~~~~Gr~~~Gl~R~reF~q~E~~~f~-~pe~s~~~~~e~i  303 (425)
T 2dq3_A          246 KEENLPIYLTAYTPCYRREAGAYGKDIRGIIRQHQFDKVELVKIV-HPDTSYDELEKLV  303 (425)
T ss_dssp             ETTTCCEEEEEEEEEECCCCSCCSSSCSSSSSCSEEEEEEEEEEE-CGGGHHHHHHHHH
T ss_pred             ccccCCeEEEEecCEecCCCCcccccccCcccccceEEeeEEEEC-CHHHHHHHHHHHH
Confidence            1  1257999999999999854    1   389999999996633 3333443333333

>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati translational regulation, protein/RNA, ligase-RNA complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A {Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1

Probab=98.68  E-value=1.8e-08  Score=90.91  Aligned_cols=109  Identities=17%  Similarity=0.160  Sum_probs=76.1

Q ss_pred             hhHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh---
Q 030343            7 RQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV---   75 (179)
Q Consensus         7 ~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~---   75 (179)
                      -.-.+++..|.+.+|+.+.+.||.||.||+|.+..    .|+    ....|.  .+..++.++|+.......-++.+   
T Consensus       268 P~g~~l~~~l~~~~r~~~~~~Gy~ev~tP~l~~~~l~~~sGh~~~~~~~my~--~d~~~~~~~LrP~~~~~~~~~~~~~~  345 (642)
T 1qf6_A          268 NDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFT--TSSENREYCIKPMNCPGHVQIFNQGL  345 (642)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEETHHHHHHSHHHHHGGGCEE--EEETTEEEEECSSSHHHHHHHHTTSC
T ss_pred             CcHHHHHHHHHHHHHHHHHHcCCEEEECCcCccHHHHhhcCcccccccccee--eecCCceEEecCCCCHHHHHHHHhhh
Confidence            34578999999999999999999999999998742    332    122333  23446788898544332222222   


Q ss_pred             ----ccchheeecccccccccCC--CC--CCCCcchhhHHHhhcchhHHHH
Q 030343           76 ----GGLDRVYEIGKQFRNEGID--LT--HNPEFTTCEFYMAFADYNDLME  118 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~--~~--Hl~EF~~le~e~~~~~~~~lm~  118 (179)
                          .-.-|+|++|+|||+|.++  ..  +..||+|.|+++ +.+.+++..
T Consensus       346 ~syr~LPlr~~~~g~~fR~E~~g~~~GL~R~ReF~q~d~~~-f~~~~~~~~  395 (642)
T 1qf6_A          346 KSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHI-FCTEEQIRD  395 (642)
T ss_dssp             EEGGGCSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEE-EECGGGHHH
T ss_pred             hhccccCeEEEEeccEEecCCCccccCCceeeeEEEccEEE-EcCHHHHHH
Confidence                1246999999999999983  34  999999999998 444344333

>3uh0_A Threonyl-tRNA synthetase, mitochondrial; threonine tRNA, threonyl ADE threonyl sulfamoyl adenylate; HET: TSB; 2.00A {Saccharomyces cerevisiae} PDB: 3ugt_A 3ugq_A* 4eo4_A*

Probab=98.66  E-value=3.2e-08  Score=86.06  Aligned_cols=115  Identities=14%  Similarity=0.037  Sum_probs=75.8

Q ss_pred             hHHHHHHHHHHHHHHhh-ccCCceeeecccccccc----cccc----CCCceecccc--ccceeeeeechhhhhhhhhhc
Q 030343            8 QIFKTRSKIVSYIRRFL-DNLDFLEVETPMMNMIA----GGAA----ARPFVTHHND--LNMKLYMRIAPELYLKELVVG   76 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff-~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~--~~~~~~L~~S~ql~~~~~~~~   76 (179)
                      .-.+++..|.+.+++.+ .+.||.||.||+|.+..    +|..    .+.|.+ .+.  .+..++|+.......-.+.+.
T Consensus        62 ~g~~l~~~l~~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sGh~~~~~~emy~~-~d~~~~~~~l~LrPt~~~~~~~~~~~  140 (460)
T 3uh0_A           62 NGAKIFNKLIEFMKLQQKFKFGFNEVVTPLIYKKTLWEKSGHWENYADDMFKV-ETTDEEKEEYGLKPMNCPGHCLIFGK  140 (460)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSCCEECCCCSEEEHHHHHHHTCTTTSGGGSCEE-CC------CEEECSCSHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHHHHHHhcCCEEEECCeeccHHHHHhcCCccccccceEEE-ecCCCCCceEEEcccCcHHHHHHHHh
Confidence            45788999999999999 99999999999998742    2321    122322 111  256788885443332222221


Q ss_pred             -------cchheeecccccccccCC--CC--CCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           77 -------GLDRVYEIGKQFRNEGID--LT--HNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        77 -------~~~kvf~i~~~fR~E~~~--~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                             -.-|+|++|+|||+|..+  ..  +..||+|.|.+. +++-++..+.+++++
T Consensus       141 ~~~s~r~LPlrl~~~g~~fR~E~~~~~~GL~R~ReF~q~d~~~-f~~~e~~~~e~~~~i  198 (460)
T 3uh0_A          141 KDRSYNELPLRFSDFSPLHRNEASGALSGLTRLRKFHQDDGHI-FCTPSQVKSEIFNSL  198 (460)
T ss_dssp             SCCBGGGCSEEEEECCEEECCCCTTTCBTTTBCSEEEEEEEEE-EECGGGHHHHHHHHH
T ss_pred             ccccccccCeEEEEecCeeeCCCCCCCCCceeeeeEEEeeEEE-EcCHHHHHHHHHHHH
Confidence                   146899999999999986  44  999999999986 444444444444333

>1nj1_A PROR, proline-tRNA synthetase, proline--tRNA ligase; protein-aminoacyladenylate complex class-II tRNA synthetase,; HET: 5CA; 2.55A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 PDB: 1nj2_A 1nj5_A* 1nj6_A*

Probab=98.64  E-value=2.3e-08  Score=87.87  Aligned_cols=115  Identities=23%  Similarity=0.222  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccc----cCCCceecccc----ccceeeeeechhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGA----AARPFVTHHND----LNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~----~~~~f~~~~~~----~~~~~~L~~S~ql~~~~~~   74 (179)
                      .-.+++..|.+.+++.|.+ ||.||.||+|.+..     .|.    ..+.|.+ .+.    .+..++|+...+..+-.+.
T Consensus        69 ~g~~l~~~i~~~~~~~~~~-G~~ei~tP~l~~~~l~~~~sG~~~~f~~emy~~-~d~g~~~~~~~l~LrPt~e~~i~~~~  146 (501)
T 1nj1_A           69 HGFMIRKNTLKILRRILDR-DHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWV-THGGLSKLQRKLALRPTSETVMYPMF  146 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-TCEECCCCSEEEHHHHTTSHHHHHHTTTTCCEE-EEETTEEEEEEEEECSSSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHc-CCEEEecCcEecHHHHhcccCCcccCCcceEEE-ecCCCcccCCeeEEccCCCHHHHHHH
Confidence            4568899999999999999 99999999998742     221    1233432 122    1567899855544332222


Q ss_pred             h-------ccchheeecccccccccC-CCC--CCCCcc-hhhHHHhhcchhHHHHHHHHHH
Q 030343           75 V-------GGLDRVYEIGKQFRNEGI-DLT--HNPEFT-TCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        75 ~-------~~~~kvf~i~~~fR~E~~-~~~--Hl~EF~-~le~e~~~~~~~~lm~~~e~li  124 (179)
                      +       ...-|+|++|+|||+|.. ...  +..||+ |.|++..+++.++....+++++
T Consensus       147 ~~~~~s~~~LPlr~~q~g~~fR~E~~~~rGl~R~REF~~q~e~~~~~~~~e~a~~e~~~~l  207 (501)
T 1nj1_A          147 ALWVRSHTDLPMRFYQVVNTFRYETKHTRPLIRVREITTFKEAHTIHATASEAEEQVERAV  207 (501)
T ss_dssp             HHHCCBTTTCCEEEEEEEEEECCCCSCCBTTTBCSEEEEEEEEEEEESSHHHHHHHHHHHH
T ss_pred             HhhhcccccCCEEEEeecCEeeCCCCCCCCCceeEEEeeeeeEEEEECCHHHHHHHHHHHH
Confidence            2       124799999999999998 445  999999 9999887776555555544443

>1usy_A ATP phosphoribosyltransferase regulatory subunit; aminoacyl-tRNA synthetase; HET: HIS; 2.52A {Thermotoga maritima} SCOP: d.104.1.1 PDB: 1usy_C*

Probab=98.59  E-value=2.1e-08  Score=81.69  Aligned_cols=103  Identities=12%  Similarity=0.033  Sum_probs=69.5

Q ss_pred             HHHHHH--HhhccCCceeeeccccccccccccCCCceeccccccceeeeee--chhhhhhhhhh-c-cchheeecccccc
Q 030343           16 IVSYIR--RFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI--APELYLKELVV-G-GLDRVYEIGKQFR   89 (179)
Q Consensus        16 i~~~ir--~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~--S~ql~~~~~~~-~-~~~kvf~i~~~fR   89 (179)
                      +.+.+|  +.|...||.||.||++....-=.. +.|   .+..|+.+.|+.  .|.+....+-. . ..-|.|++|+|||
T Consensus         6 le~~~r~~~~~~~~Gy~eI~tP~le~~~l~~~-d~f---~d~~g~~l~LRpd~T~~~a~~~~~~~~~~p~R~~y~g~vfR   81 (275)
T 1usy_A            6 FEKVFSFYSKATKKGFSPFFVPALEKAEEPAG-NFF---LDRKGNLFSIREDFTKTVLNHRKRYSPDSQIKVWYADFVYR   81 (275)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEEECSSCCS-SCE---EETTSCEEEECCCHHHHHHHHHTTCTTCCCEEEECCEEEEE
T ss_pred             HHHHHHHHHHHHHCCCEEecCccccchhhhcc-ccc---CCCCCCEEEeCCcChHHHHHHHhhcCCCCceEEEEeceEEe
Confidence            455566  999999999999999987421111 233   244677888882  22333221111 2 4579999999999


Q ss_pred             cccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           90 NEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        90 ~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                      .|.++.   .||+|+++|+.+.+    -.|++.++-++++
T Consensus        82 ~e~~~~---Ref~Q~g~ei~g~~~~~~DaEvi~l~~~~l~  118 (275)
T 1usy_A           82 YSGSDL---VAEYQLGLEKVPRNSLDDSLEVLEIIVESAS  118 (275)
T ss_dssp             EETTEE---EEEEEEEEEEESCCSHHHHHHHHHHHHHHHH
T ss_pred             cCCCCC---CeeeEeCEEEecCCCchhHHHHHHHHHHHHH
Confidence            999887   89999999998853    2455555555554

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=98.58  E-value=7.4e-08  Score=82.92  Aligned_cols=116  Identities=16%  Similarity=0.154  Sum_probs=74.7

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----cccccCCCceecc-ccccceeeeeechhhhhhhhhh-------
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAAARPFVTHH-NDLNMKLYMRIAPELYLKELVV-------   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~~~~f~~~~-~~~~~~~~L~~S~ql~~~~~~~-------   75 (179)
                      .-.+++..|.+.+++.+.+.||.||.||+|.+.    .+|.. ..|.... ..-+..++|+...+..+-.++.       
T Consensus       164 ~ga~l~~aL~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sG~~-~~f~~emy~~~d~~l~L~Pt~e~~~~~~~~~~~~s~~  242 (421)
T 1ses_A          164 DLALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHF-PAYRDQVWAIAETDLYLTGTAEVVLNALHSGEILPYE  242 (421)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHTCT-TTTGGGSCBBTTSSEEECSSTHHHHHHTTTTCEEEGG
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCceecHHHHHhcCCC-CcCchhcEEEcCCeEEEeecCcHHHHHHhcccccCch
Confidence            456889999999999999999999999999874    12321 1121100 0114578888655544432322       


Q ss_pred             ccchheeecccccccccC-----CCC--CCCCcchhhHHHhhcc-hhHHHHHHHHHH
Q 030343           76 GGLDRVYEIGKQFRNEGI-----DLT--HNPEFTTCEFYMAFAD-YNDLMELTEKML  124 (179)
Q Consensus        76 ~~~~kvf~i~~~fR~E~~-----~~~--Hl~EF~~le~e~~~~~-~~~lm~~~e~li  124 (179)
                      ...-|+|++|+|||+|..     ...  +..||+|+|.+....+ .++.....++++
T Consensus       243 ~LPlr~~~~g~~FR~E~g~~Gr~~~GL~R~rqF~q~E~~~f~~p~~e~s~~~~~e~~  299 (421)
T 1ses_A          243 ALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELL  299 (421)
T ss_dssp             GCSEEEEEEEEEECCCCSCCCSCCCTTSSCSEEEEEEEEEEECSCHHHHHHHHHHHH
T ss_pred             hCCEEEEecCCeecCCccccCcCCCCCeeeeeeeeeeEEEEeCCCHHHHHHHHHHHH
Confidence            124799999999999952     233  8999999998654332 244444334433

>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A

Probab=98.55  E-value=5.7e-08  Score=84.41  Aligned_cols=113  Identities=16%  Similarity=0.136  Sum_probs=77.1

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc----ccccc----CCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      .-.+++..|.+.+++.+.+.||.||.||.|.+.    .+|..    ...|.+    -+..+||+...+..+-.+..    
T Consensus       191 ~ga~l~~aL~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sG~~~~f~~emy~~----~d~~l~LrPt~e~~~~~~~~~~~~  266 (455)
T 2dq0_A          191 EIVILDLALIRFALDRLIEKGFTPVIPPYMVRRFVEEGSTSFEDFEDVIYKV----EDEDLYLIPTAEHPLAGMHANEIL  266 (455)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEECHHHHHTTSCTTHHHHTCCBB----TTSSCEECSSTHHHHHHTTTTEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCcccCHHHHHhcCCCCCChHhhCee----cCCcEEEcCcCcHHHHHHHHhCcc
Confidence            456789999999999999999999999999874    23321    122221    14578888555444332222    


Q ss_pred             ---ccchheeecccccccccCCC-------CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           76 ---GGLDRVYEIGKQFRNEGIDL-------THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~~~-------~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                         ...-|+|++|+|||+|....       .+..||+|.|.. .+++-++..+..++++.
T Consensus       267 s~~~LPlr~~~~g~~FR~E~~~~G~~~~GL~R~rqF~kvE~~-~f~~pe~s~~~~~e~l~  325 (455)
T 2dq0_A          267 DGKDLPLLYVGVSPCFRKEAGTAGKDTKGIFRVHQFHKVEQF-VYSRPEESWEWHEKIIR  325 (455)
T ss_dssp             ETTTCSEEEEEEEEEECCCTTCSSCSCCSSSSCSEEEEEEEE-EEECTTTHHHHHHHHHH
T ss_pred             CchhCCEEEEEecCcccCCCCccccccCCceeeeeeEeeeEE-EecCHHHHHHHHHHHHH
Confidence               22479999999999999632       289999999997 45444555555555443

>3ial_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, prors, cysrs, RS, translation, ATP-binding, nucleotide-binding; HET: PR8; 2.20A {Giardia lamblia atcc 50803}

Probab=98.53  E-value=4.9e-08  Score=86.00  Aligned_cols=117  Identities=14%  Similarity=0.067  Sum_probs=81.9

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccc----cCCCceecccc----ccceeeeeechhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGA----AARPFVTHHND----LNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~----~~~~f~~~~~~----~~~~~~L~~S~ql~~~~~~   74 (179)
                      .-.+++..|.+.+++.+.+.||.||.||+|.+..     .|.    ..+.|.+. +.    .+.+++|+..++...-.+.
T Consensus        53 ~G~~i~~~L~~~~~~~~~~~Gy~eV~tP~l~~~el~~k~sgh~~~f~~emy~v~-d~g~~~~~~~l~LrPt~e~~i~~~~  131 (518)
T 3ial_A           53 YGFFMENAIMRLCEEEYAKVGISQILFPTVIPESFLKKESDHIKGFEAECFWVE-KGGLQPLEERLALRPTSETAIYSMF  131 (518)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHTSSHHHHHHHGGGCEEEE-EETTEEEEEEEEECSSSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEEcccccCHHHHHhhcCCcccccccEEEEe-cCCCcccCcceeECCCCcHHHHHHH
Confidence            4578899999999999999999999999998642     121    12233321 21    2568899855433222221


Q ss_pred             h-------ccchheeeccccccccc-CCCC--CCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           75 V-------GGLDRVYEIGKQFRNEG-IDLT--HNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        75 ~-------~~~~kvf~i~~~fR~E~-~~~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                      +       .-+-|+|++|+|||+|. ....  +..||+|.|.+..+++.++....++.++.
T Consensus       132 ~~~i~SyrdLPlrl~q~~~~fR~E~~~~~GL~R~REF~q~e~h~f~~~~e~a~~e~~~~l~  192 (518)
T 3ial_A          132 SKWVRSYKDLPLKIHQTCTIFRHETKNTKPLIRVREIHWNEAHCCHATAEDAVSQLSDYWK  192 (518)
T ss_dssp             HHHCCBGGGCCEEEEEEEEEECTTCCSCBTTTBCSEEEEEEEEEEESSHHHHHHHHHHHHH
T ss_pred             HhhhcccccCCeEEEEEeceecCCCCCCCCCceeeEEEEeeEEEEECCHHHHHHHHHHHHH
Confidence            1       22479999999999994 4444  99999999999987777777766666653

>4hvc_A Bifunctional glutamate/proline--tRNA ligase; ligase-ligase inhibitor complex; HET: ANP HFG; 2.00A {Homo sapiens}

Probab=98.52  E-value=8.7e-08  Score=84.46  Aligned_cols=116  Identities=15%  Similarity=0.020  Sum_probs=78.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc----CCCceeccccc----cceeeeeechhhh-----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA----ARPFVTHHNDL----NMKLYMRIAPELY-----   69 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~----~~~f~~~~~~~----~~~~~L~~S~ql~-----   69 (179)
                      .-.+++..|.+.+++.+.+.||.||.||+|.+..     .|+.    .+.|.+ .+..    +.+++|+...+..     
T Consensus        59 ~G~~i~~~L~~~~~~~~~~~Gy~ev~tP~l~~~~l~~k~sGh~~~f~~emy~~-~d~g~~~l~e~l~LrPtse~~i~~~~  137 (519)
T 4hvc_A           59 WAYAIWEAIKDFFDAEIKKLGVENCYFPMFVSQSALEKEKTHVADFAPEVAWV-TRSGKTELAEPIAIRPTSETVMYPAY  137 (519)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHTTSCCSCGGGGGGCEEE-EEETTEEEEEEEEECSSSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEeccccccHHHHhcccCCcccccccceEE-eccCCcccccceeeCCCCcHHHHHHH
Confidence            4568899999999999999999999999998642     2321    112221 1111    2358887444332     


Q ss_pred             hhhhhh--ccchheeecccccccccCC-CC--CCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           70 LKELVV--GGLDRVYEIGKQFRNEGID-LT--HNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        70 ~~~~~~--~~~~kvf~i~~~fR~E~~~-~~--Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                      ...+.+  ..+-|+|++|+|||.|..+ ..  +..||+|.|.+..+++.++....++.++
T Consensus       138 ~~~i~SyrdLPlrl~q~g~~fR~E~~~~~Gl~R~ReF~q~e~h~~~~~~e~a~~E~~~~l  197 (519)
T 4hvc_A          138 AKWVQSHRDLPIKLNQWCNVVRWEFKHPQPFLRTREFLWQEGHSAFATMEEAAEEVLQIL  197 (519)
T ss_dssp             HHHCSSGGGCCEEEEEEEEEECCCCSCCBTTTBCSEEEEEEEEEEESSHHHHHHHHHHHH
T ss_pred             HhhccccccCCeEEEEEcCeeeCCCCCCCCCcceeEEEEeeEEEEecCHHHHHHHHHHHH
Confidence            221111  2257999999999999543 34  9999999999988877666665555544

>3cmq_A Phenylalanyl-tRNA synthetase, mitochondrial; classii aarss fold, RRM domain, RNA recogntion, aminoacyl-tRNA synthetase, ATP-binding, ligase; HET: FA5; 2.20A {Homo sapiens} PDB: 3hfv_A* 3teg_A* 3tup_A

Probab=98.52  E-value=9.3e-08  Score=82.15  Aligned_cols=113  Identities=19%  Similarity=0.243  Sum_probs=80.1

Q ss_pred             HHHHHHHHHhhccC--------Cceeeec-cccccc---------cccccCCCceeccccccceeeeee--chhhhhhhh
Q 030343           14 SKIVSYIRRFLDNL--------DFLEVET-PMMNMI---------AGGAAARPFVTHHNDLNMKLYMRI--APELYLKEL   73 (179)
Q Consensus        14 s~i~~~ir~ff~~~--------gF~ev~t-P~l~~~---------~~~~~~~~f~~~~~~~~~~~~L~~--S~ql~~~~~   73 (179)
                      +.+.+.||++|...        ||.|+.+ |.+++.         |.++.++... +..|.+...-||+  ||.+.  ++
T Consensus        51 ~~~~~~i~~~f~~~~~~~~g~~Gf~e~~~~~~v~s~~~NFd~L~~p~dHpaR~~~-Dtfyi~~~~vLRThts~~~~--~~  127 (415)
T 3cmq_A           51 WLIKERVKEHFYKQYVGRFGTPLFSVYDNLSPVVTTWQNFDSLLIPADHPSRKKG-DNYYLNRTHMLRAHTSAHQW--DL  127 (415)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSSCCCEEECCCCSEEEHHHHTGGGTCCTTCGGGCGG-GSCBSSSSEEECSSGGGGHH--HH
T ss_pred             HHHHHHHHHHHHhhhccccCCCCcEEEcCCCccccHHHHHHHhCCCCCCCccccc-ceEEecCCeEEcCCCcHHHH--HH
Confidence            66788888888887        9999999 777653         2333333332 1234566677874  45444  34


Q ss_pred             hhccchheeecccccccccCCCCCCCCcchhhHHHhh-------------------------------------cchhHH
Q 030343           74 VVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAF-------------------------------------ADYNDL  116 (179)
Q Consensus        74 ~~~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~-------------------------------------~~~~~l  116 (179)
                      +..+..|+|++|.|||.+..++.|.++|+|+|.-..|                                     ..+.|+
T Consensus       128 l~~~~~k~~~~G~VyR~D~~da~h~n~fhQ~egv~lfe~g~~f~~~~~~~~la~~~~g~~~~~~~~~~~~~~vd~~f~dl  207 (415)
T 3cmq_A          128 LHAGLDAFLVVGDVYRRDQIDSQHYPIFHQLEAVRLFSKHELFAGIKDGESLQLFEQSSRSAHKQETHTMEAVKLVEFDL  207 (415)
T ss_dssp             HHTTCSEEEEEEEEECCCCCBTTBCSEEEEEEEEEEEEHHHHTTTSTTGGGCCSBCCCCCCSSCCTTBCHHHHHHHHHHH
T ss_pred             HHHCCCCEEEeeeEEeccchhhhhhHHhcCCCcEEEEeccceeccccccceEEEEEecCcccccccccccccccccHHHH
Confidence            5566679999999999999999999999999843321                                     124788


Q ss_pred             HHHHHHHHHhhhh
Q 030343          117 MELTEKMLSGMIK  129 (179)
Q Consensus       117 m~~~e~li~~~~~  129 (179)
                      ...++.+++.++.
T Consensus       208 Kg~le~ll~~lfg  220 (415)
T 3cmq_A          208 KQTLTRLMAHLFG  220 (415)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcC
Confidence            8888888887644

>2cja_A Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE ATP; 2.2A {Methanosarcina barkeri} PDB: 2cim_A* 2cj9_A* 2cjb_A

Probab=98.42  E-value=1.5e-07  Score=82.92  Aligned_cols=115  Identities=16%  Similarity=0.123  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHHHHHH-hhccCCceeeeccccccc----ccccc----CCCceec--c--c--------------------
Q 030343            8 QIFKTRSKIVSYIRR-FLDNLDFLEVETPMMNMI----AGGAA----ARPFVTH--H--N--------------------   54 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~-ff~~~gF~ev~tP~l~~~----~~~~~----~~~f~~~--~--~--------------------   54 (179)
                      .-.+++..|.+.+++ ++.+.||.||.||+|.+.    .+|..    ...+.+.  .  +                    
T Consensus       229 ~G~~L~~~L~~~~~~e~~~~~G~~EV~tP~L~~~el~~~SGh~~~F~demy~v~~~~~Rd~~~~e~~~~~~~~~~~~~~~  308 (522)
T 2cja_A          229 QSARIFRTFEKIVLEELLEPLGYREMIFPKLVTWEVWMKSGHAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTK  308 (522)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHTCEECBCCSEEEHHHHHHHTGGGTCGGGCCEEECBSCCCHHHHHHHHHHHHHHSSCCHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCCEEEECCCcccHHHHhhcCCcCccccceeeeecCCccchhhhhhhhhhhhcccccccc
Confidence            456788999999996 688999999999999874    22321    1222221  0  0                    


Q ss_pred             -----cccceeeeeechhhhhhhhhh-------ccchheee-cccccccccCC--C--CCCCCcchhhHHHhhcchhHHH
Q 030343           55 -----DLNMKLYMRIAPELYLKELVV-------GGLDRVYE-IGKQFRNEGID--L--THNPEFTTCEFYMAFADYNDLM  117 (179)
Q Consensus        55 -----~~~~~~~L~~S~ql~~~~~~~-------~~~~kvf~-i~~~fR~E~~~--~--~Hl~EF~~le~e~~~~~~~~lm  117 (179)
                           ..+..++|+...+...-.+..       .-.-++|+ +|+|||+| ++  .  .+..||+|.|.+. +.+.++..
T Consensus       309 ~~~~~~~~~~l~LrPt~e~~i~~~f~~~i~s~~~LPlrl~q~ig~~FR~E-pgs~~GL~R~REF~q~E~~~-F~~pe~s~  386 (522)
T 2cja_A          309 LIKEKIAEPIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYE-SGGIHGIERVDEFHRIEIVW-IGTKEEVL  386 (522)
T ss_dssp             HHHHHBCCCCEEECSSSSGGGGGGTTTCEECGGGCSEEEEECSSEEECCC-SSSCCCTTSCSEEEEEEEEE-EEEHHHHH
T ss_pred             ccccccCCCcEEEccCCcHHHHHHHHhcccccccCCeeEEEEcCceEeCC-CCCCCCCeEeEEEEEeeEEE-EeChHHHH
Confidence                 024578888554333222221       12468999 99999999 44  2  5999999999988 55666666


Q ss_pred             HHHHHHH
Q 030343          118 ELTEKML  124 (179)
Q Consensus       118 ~~~e~li  124 (179)
                      +..++++
T Consensus       387 ee~ee~i  393 (522)
T 2cja_A          387 KCAEELH  393 (522)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666666

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}

Probab=98.34  E-value=9e-07  Score=77.65  Aligned_cols=118  Identities=17%  Similarity=0.080  Sum_probs=80.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cC-CCceeccccccceeeeeechhhhhhhhhh---
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AA-RPFVTHHNDLNMKLYMRIAPELYLKELVV---   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~-~~f~~~~~~~~~~~~L~~S~ql~~~~~~~---   75 (179)
                      ...+++.+|.+.+++.+.+.||.||.||.|.+..    +|.    .. +.|.+. +..+.++||.-..+..+-.+..   
T Consensus       217 ~GarL~~aL~~~~~d~~~~~Gy~eV~~P~lv~~~l~~~sG~~~~f~e~emf~v~-~~~~~~l~L~PTaE~~~~~l~~~~i  295 (501)
T 1wle_A          217 AGALLQHGLVNFTLNKLIHRGFTPMTVPDLLRGVVFEGCGMTPNAKPSQIYNID-PSRFEDLNLAGTAEVGLAGYFMDHS  295 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEECHHHHHHHTCCSSSSSCSSCBBC-TTTSSSCEECSSHHHHHHHHHTTEE
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHHhhcCCCccCccccEEEe-cCCCCeEEECCcCcHHHHHHHhhcc
Confidence            4578899999999999999999999999998742    221    11 334331 1124578998666554432222   


Q ss_pred             ----ccchheeecccccccccC---C---CCCCCCcchhhHHHhhcch-hHHHHHHHHHHHh
Q 030343           76 ----GGLDRVYEIGKQFRNEGI---D---LTHNPEFTTCEFYMAFADY-NDLMELTEKMLSG  126 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~---~---~~Hl~EF~~le~e~~~~~~-~~lm~~~e~li~~  126 (179)
                          .-.-+++++|+|||+|..   +   --+..||+|.|......+. ++..+..++++..
T Consensus       296 ~s~~~LPlrl~~~s~~FR~Ea~~G~d~~GL~RvhqF~kvE~~~f~~pe~e~s~~~~e~~l~~  357 (501)
T 1wle_A          296 VAFRDLPIRMVCSSTCYRAETDTGKEPWGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSL  357 (501)
T ss_dssp             EEGGGCSEEEEEEEEEECCCCSCC--CCSSSSCSEEEEEEEEEEECSSHHHHHHHHHHHHHH
T ss_pred             CCcccCCeeEEeccCcccCCCCCCCCCcCceeeeeeeeeeEEEEeCCcHHHHHHHHHHHHHH
Confidence                225799999999999975   2   2488999999997644443 5666666666643

>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A {Homo sapiens}

Probab=98.33  E-value=4.3e-07  Score=79.84  Aligned_cols=116  Identities=15%  Similarity=0.168  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccc-------cccceeeeeechhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHN-------DLNMKLYMRIAPELYLKE   72 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~-------~~~~~~~L~~S~ql~~~~   72 (179)
                      ...+++.++.+.+++.+.+.||.||.||.|.+..    .|.    ..+.|.+...       ..+..+||....+..+-.
T Consensus       199 ~GarL~raL~~f~~d~~~~~Gy~EV~~P~lv~~el~~~sG~l~~f~eemy~v~~~g~~~~~~~~~~~l~L~PTaE~~l~~  278 (522)
T 3vbb_A          199 VLVFLEQALIQYALRTLGSRGYIPIYTPFFMRKEVMQEVAQLSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAA  278 (522)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHSCCC-CCSCCCEEC------------CCEEECSSTHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCcccchHHHhhcCCcccCcccceEeecCCccccccccCcceeEcccCcHHHHH
Confidence            4578899999999999999999999999998742    221    1123333110       013578898655544332


Q ss_pred             hhh-------ccchheeecccccccccCC----C---CCCCCcchhhHHHhhcchhH--HHHHHHHHH
Q 030343           73 LVV-------GGLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYND--LMELTEKML  124 (179)
Q Consensus        73 ~~~-------~~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~--lm~~~e~li  124 (179)
                      +..       .-.-|++++++|||+|...    +   -+..||+|.|... ++.-++  ..+..++++
T Consensus       279 l~~~ei~s~~dLPlr~~~~s~cFR~Eags~GrdtrGL~RvhQF~kvE~~~-f~~pe~e~s~~e~e~ml  345 (522)
T 3vbb_A          279 LHRDEWLRPEDLPIKYAGLSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFV-YSSPHDNKSWEMFEEMI  345 (522)
T ss_dssp             TSTTCEECTTTCCEEEEEEEEEECSCCCC----CCCSSSCSEEEEEEEEE-EECSSTTHHHHHHHHHH
T ss_pred             HHhhhecccccCCeeEEEecccccCCCCcCCccCCCcceeeeeEEEEEEE-EeCCChHHHHHHHHHHH
Confidence            221       1247899999999999852    2   4889999999964 333222  444444444

>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A*

Probab=98.32  E-value=6.4e-07  Score=78.18  Aligned_cols=115  Identities=14%  Similarity=0.135  Sum_probs=77.9

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      ...+++.++.+.+++.+.+.||.||.||.|....    +|.    ..+.|.+. + .+..+||.-..+..+-.+..    
T Consensus       206 ~GarL~~aL~~f~~d~~~~~Gy~eV~~P~lv~~~l~~~sG~~~~f~e~mf~v~-~-~~~~~~L~PTaE~~l~~l~~~~i~  283 (484)
T 3lss_A          206 GLVQLQVALVSYSLDFLVKRGYTPFYPPFFLNRDVMGEVAQLSQFDEELYQVS-G-DGDKKYLIATSEMPIAAYHRGRWF  283 (484)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEEEECCSEEEHHHHHHHSCHHHHHHTCCEEE-S-SSSCEEECSSTHHHHHHHTTTCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEecCccccHHHHHhcCCcccccccceEee-c-CCcceEEeccCcHHHHHHHhcccc
Confidence            4578999999999999999999999999998742    221    11334431 1 14678998665554432222    


Q ss_pred             ---ccchheeecccccccccCC----C---CCCCCcchhhHHHhhcchhH--HHHHHHHHHH
Q 030343           76 ---GGLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYND--LMELTEKMLS  125 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~--lm~~~e~li~  125 (179)
                         .-.-|++++++|||+|...    +   -+..||+|.|... ++.-++  ..+..++++.
T Consensus       284 sy~dLPlr~~~~s~cFR~Eags~Grdt~GL~RvrqF~kvE~~~-f~~pe~~~s~~e~e~~~~  344 (484)
T 3lss_A          284 TELKEPLKYAGMSTCFRKEAGAHGRDTLGIFRVHQFDKIEQFV-VCSPRQEESWRHLEDMIT  344 (484)
T ss_dssp             SCCSSCEEEEEEEEEECCCTTCSSSCCSTTSSCSEEEEEEEEE-EECSSTTHHHHHHHHHHH
T ss_pred             chhhCCeeEEeecCccCCCCCcCCcccCCcceeeeEEEEEEEE-EeCcchHHHHHHHHHHHH
Confidence               1147899999999999731    1   4888999999964 443333  5555555554

>1ati_A Glycyl-tRNA synthetase; protein biosynthesis, ligase, aminoacyl-tRNA SYN; 2.75A {Thermus thermophilus} SCOP: c.51.1.1 d.104.1.1 PDB: 1b76_A* 1ggm_A*

Probab=98.31  E-value=5.4e-07  Score=79.16  Aligned_cols=33  Identities=6%  Similarity=-0.045  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHHHHHHhhc--cCCceeeeccccccc
Q 030343            8 QIFKTRSKIVSYIRRFLD--NLDFLEVETPMMNMI   40 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~--~~gF~ev~tP~l~~~   40 (179)
                      .-.++++.|.+.+|+.|.  +.||.||.||+|.+.
T Consensus        37 ~G~~l~~~l~~~~r~~~~~~~~g~~ev~tP~l~~~   71 (505)
T 1ati_A           37 LGVELKNNLKQAWWRRNVYERDDMEGLDASVLTHR   71 (505)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCSSEEEEBCCSEEET
T ss_pred             cHHHHHHHHHHHHHHHHHHhhCCcEEEEccccCCH
Confidence            457899999999999999  999999999999874

>2du7_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase, structural genomics, NPPSFA; 3.60A {Methanocaldococcus jannaschii}

Probab=98.31  E-value=4.3e-07  Score=80.08  Aligned_cols=50  Identities=18%  Similarity=0.258  Sum_probs=44.1

Q ss_pred             chheeecccccccccC-CCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           78 LDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      .-|+|++|+|||.+.. +.+|.+||+|++.-+.+.  ++.|+...++.+++.+
T Consensus       217 pvrlFEiGrVFr~D~~~d~th~~ef~qLaglv~G~~vdF~DLKG~Le~ll~~L  269 (549)
T 2du7_A          217 PLKLFSIDRCFRREQREDRSHLMSYHSASCVVVGEDVSVDDGKVVAEGLLAQF  269 (549)
T ss_dssp             SEEEEEEEEECCCCSSCSSSCCSCEEEEEEEEECTTCCHHHHHHHHHHHHGGG
T ss_pred             CeEEEEEeeEEecCCcccCcCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4699999999998775 678999999999988884  6999999999999876

>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP; 2.27A {Mus musculus} PDB: 3j1t_A 3j1u_A

Probab=98.22  E-value=1.5e-06  Score=76.84  Aligned_cols=114  Identities=17%  Similarity=0.225  Sum_probs=77.3

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----cccc----CCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAA----ARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      .-.+++..+.+.+++.+.+.||.||.||.|.+..    +|.-    .+.|.+    -+..+||.-..+..+-.+..    
T Consensus       273 ~Ga~l~~aL~~~~~~~~~~~Gy~ev~~P~lv~~~l~~~sG~~~~f~e~mf~~----~~~~~~L~PT~E~~~~~l~~~~i~  348 (536)
T 3err_A          273 DLALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAI----AETDLYLTGTAEVVLNALHSGEIL  348 (536)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHTCTTTTGGGCCEE----TTTTEEECSSTHHHHHHHTTTCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeccccccHHHHHhcCCcccChhhceEe----cCCCEEEccCCcHHHHHHHhcccc
Confidence            4578899999999999999999999999998742    2221    122332    13578887555443322221    


Q ss_pred             ---ccchheeecccccccccC----CC---CCCCCcchhhHHHhhcch--hHHHHHHHHHHHh
Q 030343           76 ---GGLDRVYEIGKQFRNEGI----DL---THNPEFTTCEFYMAFADY--NDLMELTEKMLSG  126 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~----~~---~Hl~EF~~le~e~~~~~~--~~lm~~~e~li~~  126 (179)
                         .-.-|++++|+|||+|..    ++   -+..||+|.|.+. ++.-  ++..+..++++..
T Consensus       349 s~~~LPlr~~~~~~~fR~E~gs~Gr~~~GL~RvrqF~k~e~~~-f~~pe~e~s~~~~e~~~~~  410 (536)
T 3err_A          349 PYEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYV-LTEASLEASDRAFQELLEN  410 (536)
T ss_dssp             EGGGCSEEEEEEEEEECCCTTCTTSSCSTTSSCSEEEEEEEEE-EECSCHHHHHHHHHHHHHH
T ss_pred             cHhhCCeeEEEecccccCCccccCCCCCCceeeeeeEEEEEEE-EECCchHHHHHHHHHHHHH
Confidence               224789999999999973    22   4999999999975 4333  3666666666543

>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis, CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A* 3qo8_A* 3qo5_A

Probab=98.21  E-value=2.6e-06  Score=74.30  Aligned_cols=115  Identities=14%  Similarity=0.155  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhhc---
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVVG---   76 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~---   76 (179)
                      ...+++.++.+.+++.+.+.||.||.||.|.+..    +|.    ..+.|.+. + .+.+.||.-.++..+-.++..   
T Consensus       183 ~GarL~~aL~~~~~d~~~~~Gy~eV~~P~lv~~~l~~~sG~l~~f~eemf~v~-~-~~~~~~LipTaE~pl~~l~~~ei~  260 (485)
T 3qne_A          183 YGVFLNQALINYGLSFLSSKGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVI-D-GEDEKYLIATSEQPISAYHAGEWF  260 (485)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEEEECCSEEEHHHHHHHSCHHHHTTTCCEEE-E-TTEEEEECSSTHHHHHHHTTTCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCCccccccceEEEe-C-CCCeEEEeccccHHHHHHHhcccc
Confidence            5578899999999999999999999999998742    221    12334431 1 145778875544433322211   


Q ss_pred             ------cchheeecccccccccCC----C---CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           77 ------GLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        77 ------~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                            -.-|++++++|||+|..+    +   -+..||+|.|... ++.-++..+..++++.
T Consensus       261 ~S~y~dLPlr~~~~s~cfR~Eag~~Grdt~GL~RvhqF~kvE~~~-f~~pe~s~~e~e~ml~  321 (485)
T 3qne_A          261 ESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRVHAFEKIEQFV-LTEPEKSWEEFDRMIG  321 (485)
T ss_dssp             SSHHHHCCEEEEEEEEEECSCCC-----CCSSSSCSEEEEEEEEE-EECGGGHHHHHHHHHH
T ss_pred             ccchhcCCeeEEEecccccCCCCCCCccCCCceeeeeeeeeeEEE-EeCHHHHHHHHHHHHH
Confidence                  146899999999999843    2   4889999999976 4444555555555543

>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=98.20  E-value=4.5e-07  Score=80.88  Aligned_cols=50  Identities=26%  Similarity=0.337  Sum_probs=44.4

Q ss_pred             chheeecccccccccC-CCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           78 LDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ..|+|++|+|||.+.. +.+|.+||+|++.-+.+.  ++.|+...++.+++.+
T Consensus       224 pvRLFEIGrVFR~D~~lDath~~Ef~qLeGlv~G~~vdF~DLKGvLE~LL~~L  276 (648)
T 2odr_B          224 PFKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (648)
T ss_dssp             CEEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             CeEEEEEeeEEecCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4689999999998776 778999999999988884  7999999999999876

>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=98.19  E-value=4.8e-07  Score=80.82  Aligned_cols=50  Identities=26%  Similarity=0.337  Sum_probs=44.4

Q ss_pred             chheeecccccccccC-CCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           78 LDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ..|+|++|+|||.+.. +.+|.+||+|++.-+.+.  ++.|+...++.+++.+
T Consensus       224 pvRLFEIGrVFR~D~~lDath~~Ef~qLeGlv~G~~vdF~DLKGvLE~LL~~L  276 (665)
T 2odr_A          224 PFKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (665)
T ss_dssp             CEEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             CeEEEEEeeEEecCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4689999999998776 778999999999988884  7999999999999876

>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=98.18  E-value=5e-07  Score=80.85  Aligned_cols=50  Identities=26%  Similarity=0.337  Sum_probs=44.4

Q ss_pred             chheeecccccccccC-CCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           78 LDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      ..|+|++|+|||.+.. +.+|.+||+|++.-+.+.  ++.|+...++.+++.+
T Consensus       224 pvRLFEIGrVFR~D~~lDath~~Ef~qLeGlv~G~~vDF~DLKGvLE~LL~~L  276 (685)
T 2odr_D          224 PFKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (685)
T ss_dssp             CEEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             CeEEEEeccEEecCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4689999999998776 778999999999988884  7999999999999876

>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=98.17  E-value=5.6e-07  Score=80.72  Aligned_cols=50  Identities=26%  Similarity=0.337  Sum_probs=44.4

Q ss_pred             chheeecccccccccC-CCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           78 LDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      .-|+|++|+|||.+.. +.+|.+||+|++.-+.+.  ++.|+...++.+++.+
T Consensus       224 pvRLFEIGrVFR~D~~lDath~~EfhqLeGlv~G~~vDF~DLKGvLE~LL~~L  276 (701)
T 2odr_C          224 PFKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (701)
T ss_dssp             CEEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             CeEEEEEeeEEccCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4689999999998776 778999999999988884  7999999999999876

>2du3_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase/RNA complex; HET: SEP; 2.60A {Archaeoglobus fulgidus} PDB: 2du4_A 2du5_A* 2du6_A*

Probab=98.05  E-value=4.4e-06  Score=73.63  Aligned_cols=49  Identities=18%  Similarity=0.245  Sum_probs=44.0

Q ss_pred             hheeecccccccccC-CCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           79 DRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        79 ~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      .|+|++|+|||.|.. +..|.+||+|+++.+.+.  ++.|++..++.+++.+
T Consensus       206 vrLFEIG~VFr~d~~~d~th~~Ef~qLagli~G~~vdf~dLKgilE~LL~~L  257 (534)
T 2du3_A          206 IKLFSIDRCFRREQGEDATRLYTYFSASCVLVDEELSVDDGKAVAEALLRQF  257 (534)
T ss_dssp             EEEEEEEEEECCCTTCSSSCCSEEEEEEEEEECSSCCHHHHHHHHHHHHGGG
T ss_pred             eeEEEEeeEEecCccccccccceeeEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            689999999999877 788999999999999884  6999999999999865

>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP, aminoacyl-tRNA synthetase, ATP-binding, charcot-marie-tooth disease, disease mutation; HET: B4P; 2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A* 2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A

Probab=97.87  E-value=5.1e-06  Score=75.53  Aligned_cols=33  Identities=15%  Similarity=0.197  Sum_probs=29.1

Q ss_pred             hHHHHHHHHHHHHHHhhc-cCCceeeeccccccc
Q 030343            8 QIFKTRSKIVSYIRRFLD-NLDFLEVETPMMNMI   40 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~-~~gF~ev~tP~l~~~   40 (179)
                      .-.++++.|.+.+|+.|. ..||.||.||+|++.
T Consensus        99 ~G~~l~~~Ie~~~r~~~~~~~g~~EV~tP~l~~~  132 (693)
T 2zt5_A           99 VGCALKNNIIQTWRQHFIQEEQILEIDCTMLTPE  132 (693)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHTCEECCCCSEEEH
T ss_pred             ChHHHHHHHHHHHHHHHHHhcCcEEEEeCCcccH
Confidence            446899999999999998 569999999999873

>3mf2_A BLL0957 protein; aminoacyl-tRNA synthetase, seryl-tRNA synthetase, zinc ION, amino acid:[carrier protein] ligase; HET: AMP; 2.15A {Bradyrhizobium japonicum} PDB: 3mey_A* 3mf1_A* 3pzc_A*

Probab=97.77  E-value=1.8e-05  Score=66.12  Aligned_cols=118  Identities=14%  Similarity=0.050  Sum_probs=75.7

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccc-----------------------cc
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHN-----------------------DL   56 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~-----------------------~~   56 (179)
                      ...+++..+.+.+++ -.+.||.||.||.|.+..    .|.    ....|.+...                       ..
T Consensus        62 ~~a~L~~aLe~~~~~-~~~~Gy~ev~~P~lv~~~~~e~SGhl~~F~e~mf~v~~~~~d~~e~~~ll~~~~~~~~~~~~l~  140 (346)
T 3mf2_A           62 LYESIVERLAALITS-HREAGTEALRFPPVMSRAQLEKSGYLKSFPNLLGCVCGLHGTEREINAAVSRFDAGGDWTTSLS  140 (346)
T ss_dssp             HHHHHHHHHHHHHHH-TCCTTCEEEECCSEEEHHHHHHTTHHHHCGGGCEEEEEECSCHHHHHHHHHHHHTTSCGGGGEE
T ss_pred             hHHHHHHHHHHHHHh-hHhcCCeEEECCCccCHHHHHhcCCcccChhhcceeecccccchhhhhhhhhhccccccccccC
Confidence            345788899999999 889999999999997631    221    0122222100                       01


Q ss_pred             cceeeeeechhhhhhhhhh------ccchheeecccccccccC-CCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhh
Q 030343           57 NMKLYMRIAPELYLKELVV------GGLDRVYEIGKQFRNEGI-DLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGM  127 (179)
Q Consensus        57 ~~~~~L~~S~ql~~~~~~~------~~~~kvf~i~~~fR~E~~-~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~  127 (179)
                      +.++||.......+-.+..      ...-+.-.+|+|||.|.+ +-.++.+|+|.|.-. +++-++..+..++++..+
T Consensus       141 ~~d~~LiPtacvpl~~~~~~eg~i~~~plr~~~~g~CFR~EaS~GL~RvhqF~kvE~v~-~~tpEqs~~e~e~l~~~a  217 (346)
T 3mf2_A          141 PADLVLSPAACYPVYPIAASRGPLPKGGLRFDVAADCFRREPSKHLDRLQSFRMREYVC-IGTPDDVSDFRERWMVRA  217 (346)
T ss_dssp             EEEEEECSSSSTTHHHHHHTTCSCCTTCEEEEEEEEEECCCCCSSTTSCSEEEEEEEEE-EESHHHHHHHHHHHHHHH
T ss_pred             CCCEEEcccccHHHHHHHccCCcccccCeEEEEECCccCCcCCCCCeeeeeeEEEEEEE-EeCHHHHHHHHHHHHHHH
Confidence            3467887554443332222      223566779999999996 346999999999854 346666666666666443

>3ikl_A DNA polymerase subunit gamma-2, mitochondrial; transferase; HET: DNA; 3.10A {Homo sapiens}

Probab=97.27  E-value=0.00029  Score=61.11  Aligned_cols=104  Identities=10%  Similarity=-0.083  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHHHHhhc-cCC-ceeeecccccccc-ccccCCCceeccccccceeeeee-chhhhhhhh---h---h-cc
Q 030343            9 IFKTRSKIVSYIRRFLD-NLD-FLEVETPMMNMIA-GGAAARPFVTHHNDLNMKLYMRI-APELYLKEL---V---V-GG   77 (179)
Q Consensus         9 ~~~~rs~i~~~ir~ff~-~~g-F~ev~tP~l~~~~-~~~~~~~f~~~~~~~~~~~~L~~-S~ql~~~~~---~---~-~~   77 (179)
                      -..+|+.|.+..+.-|. ++| +.||.||+...-. .|+ -       +.|.  .||+. +.|-++...   +   . .-
T Consensus       103 G~~l~~nl~~~w~~~~~~~~~~~~eV~tp~~~~~~~SGH-~-------d~~~--~~LRPeTaqg~~~nfk~~~~s~r~~L  172 (459)
T 3ikl_A          103 GVELRKNLAAEWWTSVVVFREQVFPVDALHHKPGPLLPG-D-------SAFR--GGLRENLLHGALEHYVNCLDLVNKRL  172 (459)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSCSCEECCCCSBCCSCCCSS-C-------SCCT--TB-CSCSHHHHHHHTTTTTGGGTTBS
T ss_pred             HHHHHHHHHHHHHHHHhhccCceEeeccccccccccCcc-h-------hhhc--ceECCCCChhHHHHHhhhhhhccccC
Confidence            35688889985555554 366 7779999954421 222 1       2222  67774 333332211   1   1 12


Q ss_pred             chheeeccccccccc--CCC----CCCCCcchhhHHHhhcchhHHHHHHHHH
Q 030343           78 LDRVYEIGKQFRNEG--IDL----THNPEFTTCEFYMAFADYNDLMELTEKM  123 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~--~~~----~Hl~EF~~le~e~~~~~~~~lm~~~e~l  123 (179)
                      .-++.+||+|||+|.  +++    -+..||+|.|.+. |++-++..+..+.+
T Consensus       173 P~~iaqig~~FR~E~g~~~~~~GL~RvrEFtq~E~~~-F~~Pe~~~e~~~~~  223 (459)
T 3ikl_A          173 PYGLAQIGVCFHPVFDTKQIRNGVKSIGEKTEASLVW-FTPPRTSNQWLDFW  223 (459)
T ss_dssp             SEEEEEEEEEECCC----------CCCCEEEEEEEEE-EECGGGHHHHHHHH
T ss_pred             CeEEEEEeeeeecccccccCCCCcccccceeeeeEEE-EeChhHHHHHHHHH
Confidence            468999999999995  232    4789999999974 44444433433333

>1g5h_A Mitochondrial DNA polymerase accessory subunit; intermolecular four helix bundle, DNA binding protein; 1.95A {Mus musculus} SCOP: c.51.1.1 d.104.1.1 PDB: 1g5i_A 2g4c_A* 3ikm_B*

Probab=97.13  E-value=0.00027  Score=61.20  Aligned_cols=117  Identities=15%  Similarity=-0.002  Sum_probs=68.2

Q ss_pred             hHHHHHHHHHHHHHHh-h-ccCCceeeecccccccc---ccccCC-----Cce---------------eccccccceeee
Q 030343            8 QIFKTRSKIVSYIRRF-L-DNLDFLEVETPMMNMIA---GGAAAR-----PFV---------------THHNDLNMKLYM   62 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~f-f-~~~gF~ev~tP~l~~~~---~~~~~~-----~f~---------------~~~~~~~~~~~L   62 (179)
                      .-.++++.|.+.+++- + .+.|+.||.||+|.+..   .....+     .+.               .-...++.++||
T Consensus        60 ~G~~l~~~i~~~~~~~~~~~~~g~~ev~tp~l~~~~~~~~s~~g~~~r~d~~~e~~~~~g~~~eem~~~~~~~~~~~~~L  139 (454)
T 1g5h_A           60 LGVELRKNLASQWWSSMVVFREQVFAVDSLHQEPGSSQPRDSAFRLVSPESIREILQDREPSKEQLVAFLENLLKTSGKL  139 (454)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCTTEEECCCCSEECCCCSSCCCCCEEECHHHHHHHHCC---CHHHHHHHHHHHHHHSCEE
T ss_pred             hHHHHHHHHHHHHHHHHhhhcCCeEEEEcCccCChhhccccccCcccHHHHHHHHhhccCCCHHHHHHHHHhhcCcceee
Confidence            3467899999988877 4 58999999999998642   110001     010               000123456788


Q ss_pred             ee--chhhhhh--hhh---h-ccchheeecccccc---cccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           63 RI--APELYLK--ELV---V-GGLDRVYEIGKQFR---NEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        63 ~~--S~ql~~~--~~~---~-~~~~kvf~i~~~fR---~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                      +.  ++..+..  ..+   . .-.-++++||+|||   +|.+..   .+..||+|.|.+. |++.++..+..+.++.
T Consensus       140 RPeta~g~~~~f~~~~~s~r~~LP~~~aqig~~fR~~~nE~s~~~Gl~R~REF~q~E~~~-F~~pe~~~e~~~~~~~  215 (454)
T 1g5h_A          140 RATLLHGALEHYVNCLDLVNRKLPFGLAQIGVCFHPVSNSNQTPSSVTRVGEKTEASLVW-FTPTRTSSQWLDFWLR  215 (454)
T ss_dssp             CSCSHHHHHHTHHHHHHHTTTBSCEEEEEEEEEEEEEC---------CEEEEEEEEEEEE-EECHHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHhhhHhhcccCCCEEEEEeeeeccCCcccccCCCCccccCceehhheEE-EeCHhhHHHHHHHHHH
Confidence            74  2222211  111   1 22579999999999   686432   5899999999985 5555555554444443

>3l4g_B Phenylalanyl-tRNA synthetase beta chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A {Homo sapiens}

Probab=97.12  E-value=0.00046  Score=61.59  Aligned_cols=115  Identities=10%  Similarity=0.027  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHhhccCCceeeecccccccc-----cc---ccCCCceeccccccceeeeeechhhhhhhhhh----c-cch
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GG---AAARPFVTHHNDLNMKLYMRIAPELYLKELVV----G-GLD   79 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~---~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~-~~~   79 (179)
                      .+.+.+.+|+.|...||.|+.|+.+++..     -+   ...+.+......-..-..||+|----+=..++    . ..-
T Consensus       393 ~~~~~~~ir~~l~~~Gf~Evitysf~s~~~~~~~l~~~~~~~~~v~L~NPis~e~svmRtsLlpgLL~~l~~N~~~~~~v  472 (589)
T 3l4g_B          393 LNKLTELLRHDMAAAGFTEALTFALCSQEDIADKLGVDISATKAVHISNPKTAEFQVARTTLLPGLLKTIAANRKMPLPL  472 (589)
T ss_dssp             HHHHHHHHHHHHHHTTCEECCCCSEECHHHHTGGGTSCTTSSCCCBBSSCSSGGGSEECSCSHHHHHHHHHHTTTSCSCE
T ss_pred             HHHHHHHHHHHHHHCCCEEEecCcccCHHHHHHHhCCCCCCCCeEEEcCCCchhHhHHHHHHHHHHHHHHHHHhcCCCce
Confidence            34668899999999999999999998632     11   01122322111112234667663222212232    1 136


Q ss_pred             heeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhh
Q 030343           80 RVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGM  127 (179)
Q Consensus        80 kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~  127 (179)
                      |+|++|+|||.+..+..|.+|+.|+.+-+.+.  ++.++...++.++..+
T Consensus       473 rlFEiG~Vf~~d~~~~~~~~e~~~la~~~~g~~~~f~~lkg~le~ll~~l  522 (589)
T 3l4g_B          473 KLFEISDIVIKDSNTDVGAKNYRHLCAVYYNKNPGFEIIHGLLDRIMQLL  522 (589)
T ss_dssp             EEEEEEEEEEECTTSTTSEEEEEEEEEEEESSSCCHHHHHHHHHHHHHHT
T ss_pred             EEEEeeeEEecCCccccCCccccEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            89999999998876677889999998866653  5888999888888654

>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_B*

Probab=97.04  E-value=0.00074  Score=62.28  Aligned_cols=114  Identities=14%  Similarity=0.047  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHhhccCCceeeeccccccccc-c---ccCC-Cceeccccccceeeeeechhhhhhhhhhc------cchhe
Q 030343           13 RSKIVSYIRRFLDNLDFLEVETPMMNMIAG-G---AAAR-PFVTHHNDLNMKLYMRIAPELYLKELVVG------GLDRV   81 (179)
Q Consensus        13 rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~-~---~~~~-~f~~~~~~~~~~~~L~~S~ql~~~~~~~~------~~~kv   81 (179)
                      ...+.+.+|+.|...||.|+.|..+++... .   ...+ .+......-.....||+|----+-..++.      ..-|+
T Consensus       495 ~~~~~~~ir~~L~~~Gf~Evitysfvs~~~~~~l~~~~~~~v~L~NPis~e~svLRtsLlpgLL~~l~~N~~r~~~~vrl  574 (795)
T 2rhq_B          495 RQHKTRTLKETLEGAGLNQAITYSLVSKDHAKDFALQERPTISLLMPMSEAHATLRQSLLPHLIEATAYNVARKNKDVRL  574 (795)
T ss_dssp             HHHHHHHHHHHHHHTTCEECCCCSEECTTTTTTTCSSCCCCEECSSCSCTTSSEECSCSHHHHHHHHHHHHHTTCCCEEE
T ss_pred             HHHHHHHHHHHHHHCCCEEEecCCccCHHHHHhhCCCCCceEEEcCCCchhhhhhhhccHHHHHHHHHHHhcCCCCCeEE
Confidence            456788999999999999999988876421 1   1112 23221111122345665532222222321      23699


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhh-------------cchhHHHHHHHHHHHhh
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAF-------------ADYNDLMELTEKMLSGM  127 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~-------------~~~~~lm~~~e~li~~~  127 (179)
                      |++|+|||.+..+..| .|++|+.+-+.+             .++.|+...++.++..+
T Consensus       575 FEiG~Vf~~d~~~~~~-~e~~~la~l~~G~~~~~~w~~~~~~~dF~dlKg~le~ll~~l  632 (795)
T 2rhq_B          575 YEIGRVFFGNGEGELP-DEVEYLSGILTGEYVVNAWQGKKEEIDFFIAKGVVDRVAEKL  632 (795)
T ss_dssp             EEEEEEEECCCTTSCC-EEEEEEEEEEESEEEEEGGGTEEEECCHHHHHHHHHHHHHHH
T ss_pred             EEEeeEEecCCcccCc-chhhEEEEEEEeccccccccCCCCCCCHHHHHHHHHHHHHHc
Confidence            9999999975543356 899999876655             46889999999999765

>3ig2_A Phenylalanyl-tRNA synthetase beta chain; phers, MCSG, structural genomics, midwest center for structural GE protein structure initiative; HET: MSE; 2.09A {Bacteroides fragilis}

Probab=96.91  E-value=0.00078  Score=52.43  Aligned_cols=114  Identities=11%  Similarity=0.041  Sum_probs=67.9

Q ss_pred             HHHHHHHHHhhccCCceeeeccccccccc----c--ccCCCceeccccccceeeeeechhhhhhhhhhc----cc--hhe
Q 030343           14 SKIVSYIRRFLDNLDFLEVETPMMNMIAG----G--AAARPFVTHHNDLNMKLYMRIAPELYLKELVVG----GL--DRV   81 (179)
Q Consensus        14 s~i~~~ir~ff~~~gF~ev~tP~l~~~~~----~--~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~----~~--~kv   81 (179)
                      .++.+.+|+.+...||.||-|-.+++...    +  .....+.....--..-..||+|----+=..++.    +.  -|+
T Consensus         7 ~~~~~~ir~~l~~~G~~Evitysf~~~~~~~~~~~~~~~~~v~l~NPls~e~~vmRtsLlpgLL~~~~~N~~r~~~~v~l   86 (213)
T 3ig2_A            7 NKLQNLVAEQLVGCGFNEILNNSLTRAAYYDGLESYPSKNLVMLLNPLSADLNCMRQTLLFGGLESIAHNANRKNADLKF   86 (213)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEECGGGGTTCSSSCGGGCEEBSSGGGCSCCEECSCSHHHHHHHHHHC------CCEE
T ss_pred             HHHHHHHHHHHHHCCCeEEeccccCCHHHHHhhcccCcCCeEEEeCCcchhHHHHHHHhHHHHHHHHHHHhcCCCCCeeE
Confidence            46788999999999999999999986321    0  001122221111123346777643322223332    22  489


Q ss_pred             eecccccccccCCC------CCCCCcchhhHHHhh-------------cchhHHHHHHHHHHHhh
Q 030343           82 YEIGKQFRNEGIDL------THNPEFTTCEFYMAF-------------ADYNDLMELTEKMLSGM  127 (179)
Q Consensus        82 f~i~~~fR~E~~~~------~Hl~EF~~le~e~~~-------------~~~~~lm~~~e~li~~~  127 (179)
                      |+||+||+.+..+.      .+..|..++-+-+.+             .++.|+...+|.++..+
T Consensus        87 FEiG~Vf~~~~~~~~~~~~~~~~~e~~~la~~~~G~~~~~~w~~~~~~~df~dlKg~ve~ll~~l  151 (213)
T 3ig2_A           87 FEFGNCYHFDAEKKNPEKVLAPYSEDYHLGLWVTGKMVSNSWAHADENTSVYELKAYVENIFKRL  151 (213)
T ss_dssp             EEEEEEEEECC----------CEEEEEEEEEEEEEEECCSCC----CHHHHHHHHHHHHHHHHHT
T ss_pred             EEeeeEEecCcccccccccccccchhHEEEEEEECCCccccCCCCCCCcCHHHHHHHHHHHHHHh
Confidence            99999999865321      233566666554443             36889999999888765

>3ica_A Phenylalanyl-tRNA synthetase beta chain; APC61692.1, phenylalanyl-tRNA SYNT beta subunit, structural genomics, PSI-2; HET: TAM; 2.44A {Porphyromonas gingivalis}

Probab=96.72  E-value=0.0014  Score=50.98  Aligned_cols=114  Identities=13%  Similarity=0.012  Sum_probs=69.5

Q ss_pred             HHHHHHHHHhhccCCceeeeccccccccc----c--ccCCCceeccccccceeeeeechhhhhhhhhh----ccc--hhe
Q 030343           14 SKIVSYIRRFLDNLDFLEVETPMMNMIAG----G--AAARPFVTHHNDLNMKLYMRIAPELYLKELVV----GGL--DRV   81 (179)
Q Consensus        14 s~i~~~ir~ff~~~gF~ev~tP~l~~~~~----~--~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~~~--~kv   81 (179)
                      .++.+.+|+.+...||.||-|-.+++...    +  .....+.....--..-..||+|--.-+=..++    .+.  -++
T Consensus         7 ~~~~~~ir~~L~~~G~~Evitysf~s~~~~~~~~~~~~~~~v~l~NPls~e~~vmRtsLlpgLL~~~~~N~~r~~~~~~l   86 (213)
T 3ica_A            7 YKWQTVVSEQLVGAGFNEILNNSLTAGSYYEGLKSHPREMAVELMNPLSQELNCMRQTLLFGGLETLSHNLRRKHLSLYL   86 (213)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEEEGGGGTTCSSSCGGGCCBCSSBSCSSEEEECSSSHHHHHHHHHHHHTTTCSEEEE
T ss_pred             HHHHHHHHHHHHHCCCceeeeccCCCHHHHhhhcccCcCCeEEecCCccHHHHHHHHHhHHHHHHHHHHHHcCCCCCeeE
Confidence            46788999999999999999999986321    0  00111222111122345777774332222232    232  489


Q ss_pred             eecccccccccCCC------CCCCCcchhhHHHhh-------------cchhHHHHHHHHHHHhh
Q 030343           82 YEIGKQFRNEGIDL------THNPEFTTCEFYMAF-------------ADYNDLMELTEKMLSGM  127 (179)
Q Consensus        82 f~i~~~fR~E~~~~------~Hl~EF~~le~e~~~-------------~~~~~lm~~~e~li~~~  127 (179)
                      |+||+||+.+..+.      .+..|..++-+-+.+             .++.|+...+|.++..+
T Consensus        87 FEiG~Vf~~~~~~~~~~~~~~~~~e~~~la~~~~G~~~~~~w~~~~~~~df~d~Kg~ve~ll~~l  151 (213)
T 3ica_A           87 FEWGKCYRFHAAKRTDETPLAAYAEDDRLGIWICGQRVHNSWAHPEEPTSVFELKAVVEQVLCRV  151 (213)
T ss_dssp             EEEEEEEEEECCCC--CCSSCEEEEEEEEEEEEEEBCCC-----CCCBCCHHHHHHHHHHHHHHT
T ss_pred             EEeeeEEecCCccccccccccccchhhEEEEEEeCCCCcccCCCCCCCcCHHHHHHHHHHHHHHh
Confidence            99999999765321      234555565544433             36889999999998765

>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1 d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B 2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*

Probab=95.53  E-value=0.016  Score=53.40  Aligned_cols=108  Identities=19%  Similarity=0.092  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHhhccCCceeeecccccccc----ccccCCCceeccccccceeeeeechhhhhhhhhh-----c--cchh
Q 030343           12 TRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVV-----G--GLDR   80 (179)
Q Consensus        12 ~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~-----~--~~~k   80 (179)
                      -...+.+.+|+.|...||.|+-|-.+++..    -+...+.+......-.....||+|----+-..++     +  .--|
T Consensus       490 ~~~~~~~~ir~~L~~~Gf~Evitysfvs~~~~~~l~~~~~~v~L~NPis~d~svLRtsLlpgLL~~l~~N~~r~~~~~vr  569 (785)
T 1b7y_B          490 APYRKEQRLREVLSGLGFQEVYTYSFMDPEDARRFRLDPPRLLLLNPLAPEKAALRTHLFPGLVRVLKENLDLDRPERAL  569 (785)
T ss_dssp             HHHHHHHHHHHHHHHHTCEECCCCSEECTTHHHHTTCCCCSCEESSCSSTTSSEECSCSHHHHHHHHHHHHHHSCCSCEE
T ss_pred             HHHHHHHHHHHHHHHCCCEEEecCcccCHHHHHhcCCCCCeEEEcCCCchhhhhhhhhhHHHHHHHHHHHhhcCCCCCeE
Confidence            356778999999999999999988887632    1101122332111112234666553222212222     1  3369


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhh------------cchhHHHHHHHHHHHhh
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAF------------ADYNDLMELTEKMLSGM  127 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~------------~~~~~lm~~~e~li~~~  127 (179)
                      +|++|+||| +       .|+.|+.+-+.+            .++.|+...++.++..+
T Consensus       570 lFEiG~Vf~-~-------~e~~~lagl~~G~~~~~~w~~~~~vdf~dlKg~le~ll~~l  620 (785)
T 1b7y_B          570 LFEVGRVFR-E-------REETHLAGLLFGEGVGLPWAKERLSGYFLLKGYLEALFARL  620 (785)
T ss_dssp             EEEEEEEES-S-------SEEEEEEEEEESSCBSCSSSSCCBCSHHHHHHHHHHHHHHH
T ss_pred             EEEEeeeec-c-------ChhhEEEEEEECCCcccccCccCCcCHHHHHHHHHHHHHHc
Confidence            999999999 2       677777765555            47889999999999865

>3pco_B Phenylalanyl-tRNA synthetase, beta chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP; 3.02A {Escherichia coli}

Probab=90.28  E-value=0.13  Score=47.32  Aligned_cols=112  Identities=16%  Similarity=0.036  Sum_probs=64.1

Q ss_pred             HHHHHHHhhccCCceeeecccccccc----ccccCCCceeccccccceeeeeechhhhhhhhhh----cc--chheeecc
Q 030343           16 IVSYIRRFLDNLDFLEVETPMMNMIA----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVV----GG--LDRVYEIG   85 (179)
Q Consensus        16 i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~~--~~kvf~i~   85 (179)
                      ..+.+|+.+...||.|+-|-.+++..    -+...+........-..--.||+|---.+=..++    .+  --++|++|
T Consensus       494 ~~~~~r~~l~~~G~~Evitysf~~~~~~~~~~~~~~~v~l~NPis~e~svmRtsLlpgLL~~~~~N~~r~~~~v~lFEiG  573 (795)
T 3pco_B          494 SLKRVKTLLNDKGYQEVITYSFVDPKVQQMIHPGVEALLLPSPISVEMSAMRLSLWTGLLATVVYNQNRQQNRVRIFESG  573 (795)
T ss_dssp             CHHHHHHHHHHTTCEECCCCSEECHHHHHHHSSSCCCCBCSSCSCSTTCEECSSSHHHHHHHHHHHHTSSCCCCEEEEEE
T ss_pred             HHHHHHHHHHHCCCeeeeccCcCCHHHHHhhCCCCCeEEEcCCCchhHHHHHHHHHHHHHHHHHHHHhCCCCCccEEEee
Confidence            56789999999999999999998631    1111122222111122334677774333222222    22  25899999


Q ss_pred             cccccccCCCCCCCCcchhhHHHh-------------hcchhHHHHHHHHHHHhh
Q 030343           86 KQFRNEGIDLTHNPEFTTCEFYMA-------------FADYNDLMELTEKMLSGM  127 (179)
Q Consensus        86 ~~fR~E~~~~~Hl~EF~~le~e~~-------------~~~~~~lm~~~e~li~~~  127 (179)
                      +||+.+.....+..|-.++-+-+.             ..++.|+...+|.++..+
T Consensus       574 ~Vf~~~~~~~~~~~e~~~la~~~~G~~~~~~w~~~~~~~dF~dlKg~ve~ll~~l  628 (795)
T 3pco_B          574 LRFVPDTQAPLGIRQDLMLAGVICGNRYEEHWNLAKETVDFYDLKGDLESVLDLT  628 (795)
T ss_dssp             EEEEECTTSSTTEEEEEEEEEEEESBSSCSCSSSCCCBCCHHHHHHHHHHHTTTS
T ss_pred             eEEecCCCcccCcchhheEEEEEECCCcccccccCCCCCCHHHHHHHHHHHHHHc
Confidence            999875432222223333322221             136889999999888754

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	179
d1c0aa3	346	d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synt	2e-35
d1l0wa3	356	d.104.1.1 (A:105-294,A:415-580) Aspartyl-tRNA synt	6e-34
d1e1oa2	342	d.104.1.1 (A:161-502) Lysyl-tRNA synthetase (LysRS	1e-33
d1nnha_	293	d.104.1.1 (A:) Hypothetical protein PF1951 {Archae	5e-30
d1n9wa2	304	d.104.1.1 (A:111-414) Aspartyl-tRNA synthetase (As	4e-27
d1eova2	353	d.104.1.1 (A:205-557) Aspartyl-tRNA synthetase (As	2e-25
d1b8aa2	335	d.104.1.1 (A:104-438) Aspartyl-tRNA synthetase (As	5e-23

>d1c0aa3 d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]} Length = 346

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

 Score =  124 bits (311), Expect = 2e-35
 Identities = 41/135 (30%), Positives = 68/135 (50%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI 64
           E+ Q  KTR+KI S +RRF+D+  FL++ETPM+       A    V           +  
Sbjct: 27  EMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTKATPEGARDYLVPSRVHKGKFYALPQ 86

Query: 65  APELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKML 124
           +P+L+ + L++ G DR Y+I K FR+E +     PEFT  +   +F     + E+ E ++
Sbjct: 87  SPQLFKQLLMMSGFDRYYQIVKCFRDEDLRADRQPEFTQIDVETSFMTAPQVREVMEALV 146

Query: 125 SGMIKEITGSYKIKY 139
             +  E+ G     +
Sbjct: 147 RHLWLEVKGVDLGDF 161

>d1l0wa3 d.104.1.1 (A:105-294,A:415-580) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]} Length = 356

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

 Score =  120 bits (302), Expect = 6e-34
 Identities = 35/131 (26%), Positives = 72/131 (54%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI 64
            +++  + R +++  I  FLD   F++VETP +       A    V + ++  +   +  
Sbjct: 35  RMQENLRLRHRVIKAIWDFLDREGFVQVETPFLTKSTPEGARDFLVPYRHEPGLFYALPQ 94

Query: 65  APELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKML 124
           +P+L+ + L+V GLDR ++I + FR+E +     P+FT  +  M+F +  D++EL E+++
Sbjct: 95  SPQLFKQMLMVAGLDRYFQIARCFRDEDLRADRQPDFTQLDLEMSFVEVEDVLELNERLM 154

Query: 125 SGMIKEITGSY 135
           + + +E  G  
Sbjct: 155 AHVFREALGVE 165

>d1e1oa2 d.104.1.1 (A:161-502) Lysyl-tRNA synthetase (LysRS) {Escherichia coli, gene lysU [TaxId: 562]} Length = 342

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Lysyl-tRNA synthetase (LysRS)
species: Escherichia coli, gene lysU [TaxId: 562]

 Score =  119 bits (299), Expect = 1e-33
 Identities = 87/172 (50%), Positives = 115/172 (66%), Gaps = 7/172 (4%)

Query: 3   NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYM 62
           N + RQ F  RSKI++ IR+F+    F+EVETPMM +I GGA+ARPF+THHN L++ +Y+
Sbjct: 16  NDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYL 75

Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEK 122
           RIAPELYLK LVVGG +RV+EI + FRNEGI + HNPEFT  E YMA+ADY+DL+ELTE 
Sbjct: 76  RIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTES 135

Query: 123 MLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHP 174
           +   + +E+ G+ K+ Y            DF  PF  L    + K Y+    
Sbjct: 136 LFRTLAQEVLGTTKVTY-------GEHVFDFGKPFEKLTMREAIKKYRPETD 180

>d1nnha_ d.104.1.1 (A:) Hypothetical protein PF1951 {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 293

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Hypothetical protein PF1951
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  109 bits (272), Expect = 5e-30
 Identities = 28/178 (15%), Positives = 63/178 (35%), Gaps = 8/178 (4%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNM-----K 59
           E+      ++KI+ Y+  F     F  +   +++ I       P         +     K
Sbjct: 9   EISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPAEVEIYGVK 68

Query: 60  LYMRIAPELYLKELVVGGLDRVYEIGKQFRNEGI---DLTHNPEFTTCEFYMAFADYNDL 116
           + +  +  L+ +  +  GL +++ +    R E     D  H  EFT  +F +  A   D+
Sbjct: 69  MRLTHSMILHKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAKMEDI 128

Query: 117 MELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKIYHP 174
           M L E+++ G+ ++       ++  +   +     +    F S            +  
Sbjct: 129 MRLIERLVYGLFRKAEEWTGREFPKTKRFEVFEYSEVLEEFGSDEKASQEMEEPFWII 186

>d1n9wa2 d.104.1.1 (A:111-414) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]} Length = 304

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

 Score =  101 bits (253), Expect = 4e-27
 Identities = 42/148 (28%), Positives = 71/148 (47%), Gaps = 5/148 (3%)

Query: 5   EVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRI 64
           + R   K ++ +V   RR+LD  DF E+ TP   ++  GA     +   +    + Y+  
Sbjct: 10  KARAPLKVQAALVRGFRRYLDRQDFTEIFTPK--VVRAGAEGGSGLFGVDYFEKRAYLAQ 67

Query: 65  APELYLKELVVGGLDRVYEIGKQFRN-EGIDLTHNPEFTTCEFYMAF-ADYNDLMELTEK 122
           +P+LY K+++VG  +RVYE+   +R  E     H  E+ + +  M F AD  DLM L E 
Sbjct: 68  SPQLY-KQIMVGVFERVYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMRLEEA 126

Query: 123 MLSGMIKEITGSYKIKYHASGLDKDPIE 150
           +L+ M++E   +   +    G       
Sbjct: 127 LLAEMLEEALNTAGDEIRLLGATWPSFP 154

>d1eova2 d.104.1.1 (A:205-557) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 353

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 98.0 bits (243), Expect = 2e-25
 Identities = 36/171 (21%), Positives = 69/171 (40%), Gaps = 4/171 (2%)

Query: 3   NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYM 62
            V  + IF+ ++ +    R +L    F EV TP +        +  F   +     K Y+
Sbjct: 37  TVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTY--FKGKAYL 94

Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELT 120
             +P+   ++L+V   +RVYEIG  FR E  +   H  EFT  +  MAF + Y+++++  
Sbjct: 95  AQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTL 154

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLNFIYSCKWYKI 171
            ++   +  E+   +  +           E       + +   Y      +
Sbjct: 155 SELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEML 205

>d1b8aa2 d.104.1.1 (A:104-438) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]} Length = 335

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

 Score = 91.5 bits (226), Expect = 5e-23
 Identities = 36/155 (23%), Positives = 66/155 (42%), Gaps = 4/155 (2%)

Query: 3   NVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYM 62
             EV  IFK RS +   +R F     F+E+ TP +   A       F   + + +   ++
Sbjct: 27  RPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKYFEEDA--FL 84

Query: 63  RIAPELYLKELVVGGLDRVYEIGKQFRNEGIDLTH--NPEFTTCEFYMAFADYNDLMELT 120
             +P+LY + ++  GLDRVYEI   FR E  + T   N  ++         D  ++M   
Sbjct: 85  AESPQLYKEIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFL 144

Query: 121 EKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTP 155
           E++++  I  +      +      + +  ++ F  
Sbjct: 145 ERLVAHAINYVREHNAKELDILNFELEEPKLPFPR 179

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	179
d1e1oa2	342	Lysyl-tRNA synthetase (LysRS) {Escherichia coli, g	100.0
d1l0wa3	356	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	100.0
d1c0aa3	346	Aspartyl-tRNA synthetase (AspRS) {Escherichia coli	100.0
d1nnha_	293	Hypothetical protein PF1951 {Archaeon Pyrococcus f	100.0
d1eova2	353	Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (S	100.0
d1b8aa2	335	Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococ	100.0
d1n9wa2	304	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	100.0
d1jjca_	266	Phenyl-tRNA synthetase (PheRS) alpha subunit, PheS	99.23
d1z7ma1	318	ATP phosphoribosyltransferase regulatory subunit H	99.0
d1wu7a2	327	Histidyl-tRNA synthetase (HisRS) {Archaeon Thermop	98.93
d1qe0a2	325	Histidyl-tRNA synthetase (HisRS) {Staphylococcus a	98.92
d1kmma2	322	Histidyl-tRNA synthetase (HisRS) {Escherichia coli	98.8
d1h4vb2	324	Histidyl-tRNA synthetase (HisRS) {Thermus thermoph	98.77
d1nyra4	291	Threonyl-tRNA synthetase (ThrRS) {Staphylococcus a	98.66
d1qf6a4	291	Threonyl-tRNA synthetase (ThrRS) {Escherichia coli	98.43
d1nj8a3	268	Prolyl-tRNA synthetase (ProRS) {Archaeon (Methanoc	98.3
d1hc7a2	272	Prolyl-tRNA synthetase (ProRS) {Thermus thermophil	98.17
d1usya_	275	ATP phosphoribosyltransferase regulatory subunit H	98.11
d1nj1a3	265	Prolyl-tRNA synthetase (ProRS) {Arhaeon (Methanoth	98.01
d1b76a2	331	Glycyl-tRNA synthetase (GlyRS) {Thermus thermophil	97.99
d1seta2	311	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	97.82
d1jjcb5	207	Phenyl-tRNA synthetase (PheRS) beta subunit, PheT,	95.31
d1atia2	394	Glycyl-tRNA synthetase (GlyRS) {Thermus thermophil	93.81
d1g5ha2	290	The aaRS-like accessory subunit of mitochondrial p	93.38
d12asa_	327	Asparagine synthetase {Escherichia coli [TaxId: 56	92.23

>d1e1oa2 d.104.1.1 (A:161-502) Lysyl-tRNA synthetase (LysRS) {Escherichia coli, gene lysU [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Lysyl-tRNA synthetase (LysRS)
species: Escherichia coli, gene lysU [TaxId: 562]

Probab=100.00  E-value=3.5e-42  Score=288.11  Aligned_cols=162  Identities=54%  Similarity=0.938  Sum_probs=147.9

Q ss_pred             CChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchhe
Q 030343            2 LNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRV   81 (179)
Q Consensus         2 ~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~kv   81 (179)
                      .|+.+++++++||.+++++|+||.++||+||+||+|+++++|+++++|.+..++++.++||++|||+|+|+++++|++||
T Consensus        15 r~~~~~~~~r~Rs~i~~~iR~ff~~~gFiEV~TPil~~~~~~~~~~~f~~~~~~~~~~~yL~~Spql~~k~~l~~g~~~v   94 (342)
T d1e1oa2          15 ANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERV   94 (342)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHHHHHTTTCEECCCCSEESSCCSSCCCCCEEEETTTTEEEEECSCSHHHHHHHHHHTCCEE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCccccCCCCCCcceeecccCCCcccccchhhHHHHHHHhhhcccce
Confidence            47889999999999999999999999999999999999888888899988778999999999999999999999999999


Q ss_pred             eecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccch
Q 030343           82 YEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSLN  161 (179)
Q Consensus        82 f~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~rit  161 (179)
                      |+||||||+|+.+++|++||||+|||+++++++|+|+++|+++++++..+.+.+...+..       ...++..||++++
T Consensus        95 f~i~p~FR~E~~~~rHl~EFtmlE~e~a~~~~~d~m~~~e~l~~~i~~~~~~~~~~~~~~-------~~~~~~~~~~~~~  167 (342)
T d1e1oa2          95 FEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGE-------HVFDFGKPFEKLT  167 (342)
T ss_dssp             EEEEEEECCCCCCC-CCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHHSSSEEEETT-------EEEETTSCCEEEE
T ss_pred             eeeccccccccccccchHHHHHHHHHHHhhhhhhHHHhhhHHHHHHHHHHhCcchhhccc-------hhcccCCchhhhh
Confidence            999999999999999999999999999999999999999999999999998877655532       2356788999999


Q ss_pred             hhhccceee
Q 030343          162 FIYSCKWYK  170 (179)
Q Consensus       162 y~eAi~~l~  170 (179)
                      +.+|++.+.
T Consensus       168 ~~~~~~~~~  176 (342)
T d1e1oa2         168 MREAIKKYR  176 (342)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHHh
Confidence            999998765

>d1l0wa3 d.104.1.1 (A:105-294,A:415-580) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

Probab=100.00  E-value=3.5e-41  Score=283.67  Aligned_cols=160  Identities=25%  Similarity=0.506  Sum_probs=145.8

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +-++..+++|++||.+++++|+||.++||+||+||+|+++++++....+.+..++++.++||++|||+|+|+++++|+++
T Consensus        31 LR~~~~~~ilr~Rs~i~~~iR~ff~~~gfiEV~TP~L~~~~~eg~~~~~~~~~~~~~~~~yL~~Spel~lk~ll~~g~~~  110 (356)
T d1l0wa3          31 LRRRRMQENLRLRHRVIKAIWDFLDREGFVQVETPFLTKSTPEGARDFLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDR  110 (356)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSSSCCCEEECTTSTTEEEECCSCSHHHHHHHHHTTCSE
T ss_pred             hCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCcccccchhhhhcccccccCCCcChhHHHHHhhhcccCc
Confidence            35788999999999999999999999999999999999887776666676666788999999999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||+|+++++|++||||+|||+++++++++|+.+|++++++++.+.+.                 ....||+|+
T Consensus       111 Vf~i~~~FRaE~~~t~H~~EFtmLE~e~~~~~~~~~m~~~E~li~~v~~~~~~~-----------------~~~~~f~r~  173 (356)
T d1l0wa3         111 YFQIARCFRDEDLRADRQPDFTQLDLEMSFVEVEDVLELNERLMAHVFREALGV-----------------ELPLPFPRL  173 (356)
T ss_dssp             EEEEEEEECCCCCCSSCCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHTCC-----------------CCCSSCCEE
T ss_pred             EEEEeccccccccCCcchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhCC-----------------CCCCCCCcc
Confidence            999999999999999999999999999999999999999999999999987542                 235689999


Q ss_pred             hhhhccceeeeecCCCC
Q 030343          161 NFIYSCKWYKIYHPGRS  177 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~  177 (179)
                      +|.+|+..++.++|+++
T Consensus       174 ~~~~a~~~~~~~~~~l~  190 (356)
T d1l0wa3         174 SYEEAMERYGSDKPDLR  190 (356)
T ss_dssp             EHHHHHHHHSSSSCCCS
T ss_pred             hHHhhHHHHhcCcHhHH
Confidence            99999999999988874

>d1c0aa3 d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=6.8e-41  Score=280.91  Aligned_cols=159  Identities=29%  Similarity=0.465  Sum_probs=143.2

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.++..+++|++||.+++++|+||.++||+||+||+|++++++++...+.....+++..+||++|||+|+|+++++|++|
T Consensus        23 Lr~~~~~~ilr~Rs~i~~~iR~ff~~~gFlEV~TPiL~~~~~~g~~~~~~~~~~~~~~~~~L~~Spel~lk~ll~~g~~~  102 (346)
T d1c0aa3          23 LRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTKATPEGARDYLVPSRVHKGKFYALPQSPQLFKQLLMMSGFDR  102 (346)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSSSCCCEEECSSSTTCEEECCSCSHHHHHHHHHTTCCE
T ss_pred             hCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCCCCCccccccccccccCCCccccCCcCHHHHHHHHhhcCCCc
Confidence            45789999999999999999999999999999999999887666555555545677899999999999999999999999


Q ss_pred             eeecccccccccCCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcccc
Q 030343           81 VYEIGKQFRNEGIDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFRSL  160 (179)
Q Consensus        81 vf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~ri  160 (179)
                      ||+||||||+|+++++|++||||||||+++++++++|+++|+++++++..+.+.                 + ..+|+++
T Consensus       103 Vf~i~~~FR~E~~~~~H~~EFtmLE~e~a~~~~~~~m~~~E~li~~l~~~~~~~-----------------~-~~~~~~~  164 (346)
T d1c0aa3         103 YYQIVKCFRDEDLRADRQPEFTQIDVETSFMTAPQVREVMEALVRHLWLEVKGV-----------------D-LGDFPVM  164 (346)
T ss_dssp             EEEEEEEECCCCCBTTBCSEEEEEEEEEESCCHHHHHHHHHHHHHHHHHHHHSC-----------------C-CCSCCEE
T ss_pred             eEEEeeeccccccCchhhhHhhhhccccccccHhHhHHHHHHHHHHHHHHHhCC-----------------c-CCcccee
Confidence            999999999999999999999999999999999999999999999999987642                 1 2579999


Q ss_pred             hhhhccceeeeecCCCC
Q 030343          161 NFIYSCKWYKIYHPGRS  177 (179)
Q Consensus       161 ty~eAi~~l~~d~pd~~  177 (179)
                      +|.||+..++++.|+++
T Consensus       165 ~~~e~~~~~~~~~~~l~  181 (346)
T d1c0aa3         165 TFAEAERRYGSDKPDLR  181 (346)
T ss_dssp             EHHHHHHHHSCSSCCTT
T ss_pred             eHHHHHHHhcccccchh
Confidence            99999999999998874

>d1nnha_ d.104.1.1 (A:) Hypothetical protein PF1951 {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Hypothetical protein PF1951
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=100.00  E-value=1.7e-41  Score=278.89  Aligned_cols=159  Identities=18%  Similarity=0.262  Sum_probs=136.2

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccccc-------ccCCCceeccccccceeeeeechhhhhhhh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGG-------AAARPFVTHHNDLNMKLYMRIAPELYLKEL   73 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~-------~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~   73 (179)
                      |.|++.++++++||.+++++|+||.++||+||+||+|++...+       .+..++.+  +++|+++||++|||+|+|++
T Consensus         5 l~~~~~~~il~~Rs~i~~~iR~ff~~~gf~EV~tPil~~~~~~~~~~~~~~~~~~~~~--~~~~~~~yL~~SPel~lk~l   82 (293)
T d1nnha_           5 IISREISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPAEV--EIYGVKMRLTHSMILHKQLA   82 (293)
T ss_dssp             HHTSCCHHHHHHHHHHHHHHHHHHHHTTCEEECCCCEESCCCCCCSCTTCCCCCCCEE--EETTEEEEECSCSHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEcCCcccccCCCCCCccccCccccccc--cCCCceeecccChhhhHHHH
Confidence            3578899999999999999999999999999999999874221       22445543  67899999999999999999


Q ss_pred             hhccchheeecccccccccCC---CCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceE
Q 030343           74 VVGGLDRVYEIGKQFRNEGID---LTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIE  150 (179)
Q Consensus        74 ~~~~~~kvf~i~~~fR~E~~~---~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (179)
                      +++|++|||+||||||+|+.+   .||++||||||||+++++++|+|+++|++++++++.+.+..+.            +
T Consensus        83 la~g~~~Vf~I~~~FR~E~~~s~t~RH~~EFtmLE~e~~~~d~~d~m~~~e~li~~~~~~~~~~~~~------------~  150 (293)
T d1nnha_          83 IAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAKMEDIMRLIERLVYGLFRKAEEWTGR------------E  150 (293)
T ss_dssp             HHTTCCEEEEEEEEECCCCGGGCSSSCCSEEEEEEEEEETCCHHHHHHHHHHHHHHHHHHHHHHHSS------------C
T ss_pred             HHhccccceeechhhhcCcccCCCCccchhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHhCc------------c
Confidence            999999999999999999753   4799999999999999999999999999999999987653221            1


Q ss_pred             eccCCCcccchhhhccceeeeec
Q 030343          151 IDFTPPFRSLNFIYSCKWYKIYH  173 (179)
Q Consensus       151 ~~~~~pf~rity~eAi~~l~~d~  173 (179)
                      ++...||++++|.||++.++.|.
T Consensus       151 ~~~~~~~~~~~~~eal~~~g~d~  173 (293)
T d1nnha_         151 FPKTKRFEVFEYSEVLEEFGSDE  173 (293)
T ss_dssp             CCCCSSCEEEEHHHHHHHTSSHH
T ss_pred             cccCCccccccHHhhhcccCccc
Confidence            23457899999999999998764

>d1eova2 d.104.1.1 (A:205-557) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.6e-40  Score=277.69  Aligned_cols=169  Identities=21%  Similarity=0.388  Sum_probs=141.2

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.++..+++|++||+|++++|+||.++||+||+||+|+++++|+++++|.+  .+++.++||++|||+|+|+++++|++|
T Consensus        35 lr~~~~~~ilr~Rs~i~~~iR~ff~~~gflEV~TPiL~~~~~eg~~~~f~~--~~~~~~~yL~~Spel~lk~ll~~g~~~  112 (353)
T d1eova2          35 LRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEV--TYFKGKAYLAQSPQFNKQQLIVADFER  112 (353)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCSSSSSCCCEE--EETTEEEEECSCTHHHHHHHHHTTCCE
T ss_pred             hCCHhHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCCCCCcchhccccc--eeeCCcceeccchhhhhhhhhhccccc
Confidence            357889999999999999999999999999999999999888887899986  568899999999999999999999999


Q ss_pred             eeecccccccccCCC-CCCCCcchhhHHHhhcc-hhHHHHHHHHHHHhhhhhhhcceeEEe--cCCCCCCCceEeccCCC
Q 030343           81 VYEIGKQFRNEGIDL-THNPEFTTCEFYMAFAD-YNDLMELTEKMLSGMIKEITGSYKIKY--HASGLDKDPIEIDFTPP  156 (179)
Q Consensus        81 vf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~~-~~~lm~~~e~li~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~p  156 (179)
                      ||+||||||+|+.++ +|++||||||||+++.+ ++++|+++|++++.+++.+.+.+...+  ................+
T Consensus       113 vf~I~~~FR~E~~~~~rH~pEFtmLE~y~a~~d~~~~i~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (353)
T d1eova2         113 VYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGK  192 (353)
T ss_dssp             EEEEEEEECCCCCCCTTCCSEEEEEEEEEECSSCTHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHSCCCCCCCCTTCC
T ss_pred             ceeechhhhccccccccccchhcccccccccchhhHHHHHHHHHHHhhhccccchhhhhhhhhhcccCccceeeccCCCc
Confidence            999999999999887 79999999999999986 899999999999999988765432111  00000001111233678


Q ss_pred             cccchhhhccceeee
Q 030343          157 FRSLNFIYSCKWYKI  171 (179)
Q Consensus       157 f~rity~eAi~~l~~  171 (179)
                      |++++|.+|++.+..
T Consensus       193 ~~ri~~~ea~~~l~~  207 (353)
T d1eova2         193 MVRLTYKEGIEMLRA  207 (353)
T ss_dssp             CEEEEHHHHHHHHHH
T ss_pred             eeeeehHhhHHHHHH
Confidence            999999999988754

>d1b8aa2 d.104.1.1 (A:104-438) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

Probab=100.00  E-value=1.4e-36  Score=253.04  Aligned_cols=168  Identities=24%  Similarity=0.371  Sum_probs=141.0

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.|+..+++|++||+++++||+||.++||+||+||+|+++++++.+.+|.+  +++++++||++|||+|+|+++++|++|
T Consensus        25 lr~~~~~~~l~~Rs~i~~~iR~ff~~~gflEV~TPil~~~~~~~~~~~f~~--~~~~~~~yL~~SpE~~lkrll~~g~~~  102 (335)
T d1b8aa2          25 LRRPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPM--KYFEEDAFLAESPQLYKEIMMASGLDR  102 (335)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESCCCSSSSSCCEE--EETTEEEEECSCSHHHHHHGGGTTCCE
T ss_pred             eCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCccCCchhhhhccc--cccccccccccChHHHHHHHHhhhhhh
Confidence            468899999999999999999999999999999999998877777788876  567899999999999999999999999


Q ss_pred             eeecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcc
Q 030343           81 VYEIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        81 vf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      ||+||||||+|+.++ +|++||||+|+++.+. ++.++|+++++++..+.+.+.......+...+..   . .....||+
T Consensus       103 if~i~~~FR~e~~~~~rh~~Ef~~le~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~  178 (335)
T d1b8aa2         103 VYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFE---L-EEPKLPFP  178 (335)
T ss_dssp             EEEEEEEECCCSSCCSSCCSEEEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHCHHHHHHTTCC---C-CCCCSSCC
T ss_pred             HHHhhcccccccccccccchHHHhhhHHHHHHHhhhhHHHHHHHHHHHHHHHHhhcccchhhhhccc---c-ccCCCCcc
Confidence            999999999999876 7999999998888875 7999999999999999988765432222111101   0 13467999


Q ss_pred             cchhhhccceeeeecC
Q 030343          159 SLNFIYSCKWYKIYHP  174 (179)
Q Consensus       159 rity~eAi~~l~~d~p  174 (179)
                      |++|.||++.++....
T Consensus       179 r~~~~e~~~~l~~~~~  194 (335)
T d1b8aa2         179 RVSYDKALEILGDLGK  194 (335)
T ss_dssp             EEEHHHHHHHHHHTTC
T ss_pred             cccHHHHHHHHHhhcc
Confidence            9999999998865443

>d1n9wa2 d.104.1.1 (A:111-414) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

Probab=100.00  E-value=1.2e-35  Score=244.50  Aligned_cols=164  Identities=26%  Similarity=0.387  Sum_probs=103.1

Q ss_pred             CCChhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhhccchh
Q 030343            1 MLNVEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDR   80 (179)
Q Consensus         1 ~~~~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~~~~k   80 (179)
                      +.|+..++++++||+|++++|+||.++||+||+||+|+++.+++..+.|.+  +++++++||++|||+||+ ++++|+++
T Consensus         6 lr~~~~~~~l~~Rs~i~~~iR~ff~~~gf~Ev~TP~l~~~~~e~~~~~f~~--~~~~~~~~L~~Spel~k~-ll~~g~~~   82 (304)
T d1n9wa2           6 LRGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEGGSGLFGV--DYFEKRAYLAQSPQLYKQ-IMVGVFER   82 (304)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCC------------------------------CHHHHH-HHHHHHSE
T ss_pred             ecCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCCCCCCCCCceECC--cccccchhccccHHHHHH-Hhhccccc
Confidence            458999999999999999999999999999999999988765555566754  788999999999999966 78899999


Q ss_pred             eeecccccccccCCC-CCCCCcchhhHHHhhc-chhHHHHHHHHHHHhhhhhhhcceeEEecCCCCCCCceEeccCCCcc
Q 030343           81 VYEIGKQFRNEGIDL-THNPEFTTCEFYMAFA-DYNDLMELTEKMLSGMIKEITGSYKIKYHASGLDKDPIEIDFTPPFR  158 (179)
Q Consensus        81 vf~i~~~fR~E~~~~-~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~  158 (179)
                      ||+||||||+|++++ +|++||||+|||+++. +++++|+++|++++.++..+.+.+...+...+..    ......+|+
T Consensus        83 if~i~~~FR~ee~~~~rh~~EF~~le~~~~~~~~~~~~~~l~E~l~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~  158 (304)
T d1n9wa2          83 VYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGAT----WPSFPQDIP  158 (304)
T ss_dssp             EEEEEEC-------------CCEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHSHHHHHHTTCC----CCCCSSSCC
T ss_pred             ceeehhhcccccccccccccHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccc----eecccchhh
Confidence            999999999998664 8999999999999986 5789999999999999998877543221111111    123467899


Q ss_pred             cchhhhccceeee
Q 030343          159 SLNFIYSCKWYKI  171 (179)
Q Consensus       159 rity~eAi~~l~~  171 (179)
                      ++++.||++++..
T Consensus       159 ~~~~~e~~~~l~~  171 (304)
T d1n9wa2         159 RLTHAEAKRILKE  171 (304)
T ss_dssp             EEEHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHH
Confidence            9999999987653

>d1jjca_ d.104.1.1 (A:) Phenyl-tRNA synthetase (PheRS) alpha subunit, PheS {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Phenyl-tRNA synthetase (PheRS) alpha subunit, PheS
species: Thermus thermophilus [TaxId: 274]

Probab=99.23  E-value=3.6e-12  Score=101.40  Aligned_cols=116  Identities=18%  Similarity=0.145  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhhccCCceeeeccccccc---------cccccCCCceecccccc---------------ceeeee--echh
Q 030343           14 SKIVSYIRRFLDNLDFLEVETPMMNMI---------AGGAAARPFVTHHNDLN---------------MKLYMR--IAPE   67 (179)
Q Consensus        14 s~i~~~ir~ff~~~gF~ev~tP~l~~~---------~~~~~~~~f~~~~~~~~---------------~~~~L~--~S~q   67 (179)
                      +.+++.|+++|.+.||.++..|.+++.         |..+.++..+. ..|.+               ...-||  +|+-
T Consensus        20 ~~~~~~i~~if~~~GF~~~~gp~ies~~~NFDaLn~P~dHPAR~~~D-TfYi~~~~~~~~~~~~~~~~~~~lLRTHTS~~   98 (266)
T d1jjca_          20 TLMERELVEIFRALGYQAVEGPEVESEFFNFDALNIPEHHPARDMWD-TFWLTGEGFRLEGPLGEEVEGRLLLRTHTSPM   98 (266)
T ss_dssp             HHHHHHHHHHHHTTTCEECCCCSEEEHHHHTGGGTCCTTSGGGGGSC-CCBEECSSCCEECTTSCEECSCEEECSSSTHH
T ss_pred             HHHHHHHHHHHHHcCCeEeeCCccccchhhhhcccCCcccchhcccc-eEEEecccccccCcccccchhhhhhccCCcHH
Confidence            567889999999999999999998863         44455544432 12221               234566  5554


Q ss_pred             hhhhhhhhccchheeecccccccccCCCCCCCCcchhhHHHhhc--chhHHHHHHHHHHHhhhhh
Q 030343           68 LYLKELVVGGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFA--DYNDLMELTEKMLSGMIKE  130 (179)
Q Consensus        68 l~~~~~~~~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~--~~~~lm~~~e~li~~~~~~  130 (179)
                      ....+.-.....+++++|+|||+|..|++|+++|+|+|.-+.+.  ++.+++..++.+++.++..
T Consensus        99 q~r~~~~~~~p~~~~~~g~VyRrd~iD~tH~p~FhQ~eg~~vd~~~~~~~Lk~~l~~~~~~~f~~  163 (266)
T d1jjca_          99 QVRYMVAHTPPFRIVVPGRVFRFEQTDATHEAVFHQLEGLVVGEGIAMAHLKGAIYELAQALFGP  163 (266)
T ss_dssp             HHHHHHHSCSSEEEEEEEEEECCSCCCSSCCSEEEEEEEEEEETTCCHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHhccCCCceEEecccceecCCCCCcccccceeeeeeeccccccHHHHHHHHHHHHHHhcCC
Confidence            44332212233689999999999999999999999999988774  6999999999999988763

>d1z7ma1 d.104.1.1 (A:6-323) ATP phosphoribosyltransferase regulatory subunit HisZ {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: ATP phosphoribosyltransferase regulatory subunit HisZ
species: Lactococcus lactis [TaxId: 1358]

Probab=99.00  E-value=2.7e-10  Score=92.00  Aligned_cols=120  Identities=17%  Similarity=0.172  Sum_probs=76.9

Q ss_pred             hhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------c-ccc--CC-Cceeccccccceeeeeechhhhhhhhhh
Q 030343            6 VRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------G-GAA--AR-PFVTHHNDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         6 ~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~-~~~--~~-~f~~~~~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      .-.-++.+..+.+.+++.|..+||.+|.||++....      + +..  .+ .+. ..+.-|+.+.||.-.....-+..+
T Consensus        11 ~~~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~d~~~~~~~~~~~~~~~~~~~-~~d~~g~~l~LRpD~T~~iaR~~~   89 (318)
T d1z7ma1          11 TLNQVKSLRQIEGRLRKLFSLKNYQEVMPPSFEYTQLYTALESNGKTFNQEKMFQ-FIKHEGQSITLRYDFTLPLVRLYS   89 (318)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHHHHCSSSCCCTTSCCE-EECTTCCEEEECCCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHhhccCCCcccccccceeE-eecCCccEEEeeccccchHHHHHH
Confidence            345577888899999999999999999999996521      1 111  12 233 235567888898332222222222


Q ss_pred             ----ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           76 ----GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                          ....|+|++|+|||.++.+..+..||+|+++|+.+.+    ..|++.++-++++.
T Consensus        90 ~~~~~~~~r~~Y~g~vfR~~~~~~~r~rE~~Q~g~EiiG~~~~~ad~Eii~l~~e~l~~  148 (318)
T d1z7ma1          90 QIKDSTSARYSYFGKIFRKEKRHKGRSTENYQIGIELFGESADKSELEILSLALQVIEQ  148 (318)
T ss_dssp             TCCSCCCEEEEEEEECCCCCC-------CCEEEEEEEESSCHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCCcccccccceeEEccccccccchhhhhheeccccchhhHHHHHHHHHHHHHHH
Confidence                2357899999999999998889999999999998853    34556555555543

>d1wu7a2 d.104.1.1 (A:3-329) Histidyl-tRNA synthetase (HisRS) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=98.93  E-value=7.3e-10  Score=89.90  Aligned_cols=121  Identities=12%  Similarity=0.100  Sum_probs=86.1

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeeccccccc------cccc-cCCCceeccccccceeeeeechhhhhhhhhh-
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI------AGGA-AARPFVTHHNDLNMKLYMRIAPELYLKELVV-   75 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~------~~~~-~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~-   75 (179)
                      +....-...+..+...+++.|.++||.+|.||++...      .|+. ..+.|.. .+..|+...|+.-.....-+..+ 
T Consensus        12 D~~p~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~~~~~~g~~~~~~~~~f-~D~~g~~l~LRpD~T~~iar~~~~   90 (327)
T d1wu7a2          12 DFYPEDMDVEKFIFKTAEEAAEAFGFRRIDFPSLEYLDLYRIKSGEELLQQTYSF-VDKGGREVTLIPEATPSTVRMVTS   90 (327)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHTTCEECBCCSEEETHHHHTTSCTTGGGGSCEE-ECTTSCEEEECSCSHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHcCCeEeECCccchHhhccccCchhHHHHHhhh-hcccchhhcccccccchhhhHhhh
Confidence            3445677889999999999999999999999999753      1222 1233432 35567888888433333323222 


Q ss_pred             ----ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           76 ----GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        76 ----~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                          ....|+|++|+|||.++.+..+..||+|+.+|+.+.+    -.|++.++-+.++
T Consensus        91 ~~~~~~p~k~~y~g~VfR~~~~~~g~~re~~Q~G~EiiG~~~~~~D~Eii~l~~~~l~  148 (327)
T d1wu7a2          91 RKDLQRPLRWYSFPKVWRYEEPQAGRYREHYQFNADIFGSDSPEADAEVIALASSILD  148 (327)
T ss_dssp             CTTCCSSEEEEECCEEECCCCSCSSCCSEEEEEEEEEESCCSHHHHHHHHHHHHHHHH
T ss_pred             hhhccccceeeccCcceeccccccCCcchhhhhhhhhcCCcchHHHHHHHHHHHHHHh
Confidence                2246999999999999999999999999999999864    3445555544444

>d1qe0a2 d.104.1.1 (A:1-325) Histidyl-tRNA synthetase (HisRS) {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.92  E-value=2.9e-10  Score=92.06  Aligned_cols=122  Identities=12%  Similarity=0.158  Sum_probs=76.9

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc---CCCceeccccccceeeeeechhhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA---ARPFVTHHNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~---~~~f~~~~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                      +......+.+..+.+.+++.|..+||.+|.||+++...      |+..   .+......+..+....|+........+.+
T Consensus        10 D~lp~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~l~~~~g~~~~~~~~~~~~~~d~~~~~~~lr~d~t~~~~r~~   89 (325)
T d1qe0a2          10 DILPEDSKKWRYIENQLDELMTFYNYKEIRTPIFESTDLFARGVGDSTDVVQKEMYTFKDKGDRSITLRPEGTAAVVRSY   89 (325)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHHTCEECBCCSEEEHHHHCC-----------CCEEECHHHHCCEEECSCSHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHcCCeEeeCcccccHHHhccccCCchhHHHHHHhhhhccccccccccccccccHHHHH
Confidence            33455678899999999999999999999999998632      2211   11121123445567777755444443332


Q ss_pred             hc--------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           75 VG--------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        75 ~~--------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                      +.        ..-|+|++|+|||.++.+..+..||+|+++|+.+.+    -.|++.++-+.++
T Consensus        90 ~~~~~~~~~~~p~R~~Y~g~VfR~~~~~~~~~rE~~Q~G~EiiG~~~~~ad~Eii~l~~~~l~  152 (325)
T d1qe0a2          90 IEHKMQGNPNQPIKLYYNGPMFRYERKQKGRYRQFNQFGVEAIGAENPSVDAEVLAMVMHIYQ  152 (325)
T ss_dssp             HHTTGGGCSSCSEEEEEEEEEECC-------CCEEEEEEEEEESCCCHHHHHHHHHHHHHHHH
T ss_pred             HhhccccccccchhhheecceeeeccccCCccceeeecceeecCCcCcHHHHHHHHHHHHHHH
Confidence            21        235999999999999999888999999999999864    2455555555554

>d1kmma2 d.104.1.1 (A:4-325) Histidyl-tRNA synthetase (HisRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Escherichia coli [TaxId: 562]

Probab=98.80  E-value=1.8e-09  Score=87.27  Aligned_cols=122  Identities=15%  Similarity=0.157  Sum_probs=87.0

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc---CCCceeccccccceeeeeechhhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA---ARPFVTHHNDLNMKLYMRIAPELYLKELV   74 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~---~~~f~~~~~~~~~~~~L~~S~ql~~~~~~   74 (179)
                      +....-.+.+..+.+.+++.|..+||.+|.||++....      |+..   .+.+....+..|+...|+.......-+.+
T Consensus        10 D~lp~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~~~~~~g~~~~~~~~~~~~~~d~~g~~l~Lr~D~T~~iaR~~   89 (322)
T d1kmma2          10 DYLPGETAIWQRIEGTLKNVLGSYGYSEIRLPIVEQTPLFKRAIGEVTDVVEKEMYTFEDRNGDSLTLRPEGTAGCVRAG   89 (322)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHTTTCEECBCCSEEEHHHHHHHHCTTSHHHHHTCEEEECTTSCEEEECSCSHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCCCeEeECcccccHHHhhcccCcchhhhHHHHhhhhhcccccccccccccchhhHHH
Confidence            34456678899999999999999999999999998632      2211   12333334556788888854333333332


Q ss_pred             h------ccchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           75 V------GGLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        75 ~------~~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                      +      ....|.|++|+|||.++.+..+..||+|+++|+.+.+    -.+++.++-+.++
T Consensus        90 ~~~~~~~~~p~r~~y~g~v~r~~~~~~gr~re~~Q~g~EiiG~~~~~ad~Eii~l~~~~l~  150 (322)
T d1kmma2          90 IEHGLLYNQEQRLWYIGPMFRHERPQKGRYRQFHQLGCEVFGLQGPDIDAELIMLTARWWR  150 (322)
T ss_dssp             HHTTCSTTCCEEEEEEEEEECCCCCBTTBCSEEEEEEEEEESCCSHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhhhhhhHhhcccccccCCCCCCccchhhhhhHHHhccccchhHHHHHHHHHHHHH
Confidence            2      2346899999999999999999999999999998853    3455555555554

>d1h4vb2 d.104.1.1 (B:2-325) Histidyl-tRNA synthetase (HisRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Thermus thermophilus [TaxId: 274]

Probab=98.77  E-value=4.8e-09  Score=84.85  Aligned_cols=121  Identities=17%  Similarity=0.207  Sum_probs=81.0

Q ss_pred             hhhhhHHHHHHHHHHHHHHhhccCCceeeecccccccc------cccc----CCCceeccccccceeeeeechhhhhhhh
Q 030343            4 VEVRQIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA------GGAA----ARPFVTHHNDLNMKLYMRIAPELYLKEL   73 (179)
Q Consensus         4 ~~~~~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~------~~~~----~~~f~~~~~~~~~~~~L~~S~ql~~~~~   73 (179)
                      +......+.+..+.+.+++.|..+||.+|.||++....      |+..    ...|. ..+..|+...|+.......-+.
T Consensus        10 D~~p~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~l~~~~g~~~~~~~~~~~~-~~d~~g~~l~LRpD~T~~iar~   88 (324)
T d1h4vb2          10 DLFGKELRMHQRIVATARKVLEAAGALELVTPIFEETQVFEKGVGAATDIVRKEMFT-FQDRGGRSLTLRPEGTAAMVRA   88 (324)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEGGGGCCCSCC------CCSCE-EECTTSCEEEECCCSHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHcCCeEeeCCccccHHHhhcccCCchhHHHHHHhh-hhccCCcccccccccccHHHHH
Confidence            34456778999999999999999999999999997532      1111    12222 2345678888884433322222


Q ss_pred             hh-c------cchheeecccccccccCCCCCCCCcchhhHHHhhcc----hhHHHHHHHHHHH
Q 030343           74 VV-G------GLDRVYEIGKQFRNEGIDLTHNPEFTTCEFYMAFAD----YNDLMELTEKMLS  125 (179)
Q Consensus        74 ~~-~------~~~kvf~i~~~fR~E~~~~~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~  125 (179)
                      ++ .      ..-|.|++|+|||.++.+..+..||+|+++|..+.+    ..|++.++-+.++
T Consensus        89 ~~~~~~~~~~~p~r~~Y~g~VfR~~~~~~gr~re~~Q~g~EiiG~~~~~ad~Eii~l~~~~l~  151 (324)
T d1h4vb2          89 YLEHGMKVWPQPVRLWMAGPMFRAERPQKGRYRQFHQVNYEALGSENPILDAEAVVLLYECLK  151 (324)
T ss_dssp             HHHTTGGGSSSSEEEEEEEEEECCCCC----CCEEEEEEEEEESCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhhchhhhheeeCcccccCcccCCCcceeccccccccCCCChHHHHHHHHHHHHHHH
Confidence            22 2      235999999999999999999999999999998853    4455555555544

>d1nyra4 d.104.1.1 (A:242-532) Threonyl-tRNA synthetase (ThrRS) {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Threonyl-tRNA synthetase (ThrRS)
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.66  E-value=1.4e-08  Score=81.54  Aligned_cols=117  Identities=16%  Similarity=0.137  Sum_probs=81.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhhc---
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVVG---   76 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~~---   76 (179)
                      .-.+++..|.+.+++.+.+.||.||.||.|.+..    .|.    ....+.+.....+..++|+...+...-.+...   
T Consensus        28 ~G~~l~~~L~~~~~~~~~~~G~~eV~~P~l~~~~l~~~sG~~~~~~~~~~~~~~~~~~~~~~L~pt~e~~~~~~~~~~~~  107 (291)
T d1nyra4          28 NGATIRREIERYIVDKEVSMGYDHVYTPVLANVDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPH  107 (291)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTEEECBCCSEEETHHHHHHTHHHHCTTSSCCCEEETTTEEEEECSSSHHHHHHHHHTSCC
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECccccchhHhhhhccccccccceEEEeeccccccccccccchhHHHHhhhcEec
Confidence            3468899999999999999999999999998742    221    12334332223356789987776665433322   


Q ss_pred             ----cchheeecccccccccCCC----CCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           77 ----GLDRVYEIGKQFRNEGIDL----THNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        77 ----~~~kvf~i~~~fR~E~~~~----~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                          -+-|+|++++|||+|..+.    .+..||+|.|... +++.++..+.+++++.
T Consensus       108 sy~dLPlr~~~~~~~fR~E~~~~~~Gl~Rvr~F~~~d~~~-f~~~eq~~~e~~~~~~  163 (291)
T d1nyra4         108 SYRELPIRIAELGTMHRYEASGAVSGLQRVRGMTLNDSHI-FVRPDQIKEEFKRVVN  163 (291)
T ss_dssp             BGGGCCEEEEEEEEEECCCCTTTCBTTTBCSEEEEEEEEE-EECGGGHHHHHHHHHH
T ss_pred             cccccceEEeeccceeecCCCcccccccceeeeeeeehee-ecCCcccHHHHHHHHH
Confidence                2479999999999999653    4899999999866 3444454444444443

>d1qf6a4 d.104.1.1 (A:242-532) Threonyl-tRNA synthetase (ThrRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Threonyl-tRNA synthetase (ThrRS)
species: Escherichia coli [TaxId: 562]

Probab=98.43  E-value=1.1e-07  Score=76.17  Aligned_cols=115  Identities=17%  Similarity=0.174  Sum_probs=80.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccc----cCCCceeccccccceeeeeechhhhhhhhhh----
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGA----AARPFVTHHNDLNMKLYMRIAPELYLKELVV----   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~----~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----   75 (179)
                      .-.+++.+|.+.+++-+.+.||.||.||.|.+..    .|.    ..+.+.+  ..-+..++|+...+-..-.+++    
T Consensus        28 ~G~~l~~~L~~~i~e~~~~~G~~eV~~P~L~~~~l~~~sG~~~~~~~~~~~~--~~~~~~~~L~Pt~e~~~~~~~~~~~~  105 (291)
T d1qf6a4          28 DGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTT--SSENREYCIKPMNCPGHVQIFNQGLK  105 (291)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECCCCSEEETHHHHHHSHHHHHGGGCEEE--EETTEEEEECSSSHHHHHHHHTTSCE
T ss_pred             CHHHHHHHHHHHHHHHHHHcCCEEEEcccccchhHHhhhchhhhccchhccc--cccchhhcccccCcHHHHHHHHcccc
Confidence            3468889999999999999999999999998742    121    1122322  2235678888766544433332    


Q ss_pred             ---ccchheeecccccccccCC----CCCCCCcchhhHHHhhcchhHHHHHHHHHHH
Q 030343           76 ---GGLDRVYEIGKQFRNEGID----LTHNPEFTTCEFYMAFADYNDLMELTEKMLS  125 (179)
Q Consensus        76 ---~~~~kvf~i~~~fR~E~~~----~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~  125 (179)
                         .-+-++|++++|||+|...    -.+..||+|-|.+. |..-++.++.++++++
T Consensus       106 sy~~LPl~~~q~~~~fR~E~~~~~~Gl~R~reF~~~d~h~-f~~~e~~~~e~~~~~~  161 (291)
T d1qf6a4         106 SYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHI-FCTEEQIRDEVNGCIR  161 (291)
T ss_dssp             EGGGCSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEE-EECGGGHHHHHHHHHH
T ss_pred             chhhcCeeEeecceeeecccccccccccccccceecccee-EecchhhHHHHHHHHH
Confidence               2257999999999999643    24999999999987 5444555555555554

>d1nj8a3 d.104.1.1 (A:0-267) Prolyl-tRNA synthetase (ProRS) {Archaeon (Methanocaldococcus jannaschii) [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Prolyl-tRNA synthetase (ProRS)
species: Archaeon (Methanocaldococcus jannaschii) [TaxId: 2190]

Probab=98.30  E-value=3.5e-07  Score=72.16  Aligned_cols=116  Identities=21%  Similarity=0.177  Sum_probs=74.2

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeeccccccc-----cccc----cCCCceecc---ccccceeeeeechhhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMI-----AGGA----AARPFVTHH---NDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~-----~~~~----~~~~f~~~~---~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      .-.+++..|.+.+++-+.+.||.||.||.|.+.     .++.    ....+.+..   +..+.+++|+....-..-.+++
T Consensus        33 ~G~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~~ks~~~~~~~~~~~~~~~~~~~~~~~~~~~L~P~~~~~~~~i~~  112 (268)
T d1nj8a3          33 YGFKIRRYTFEIIRNLLDESGHDEALFPMLIPEDLLAKEAEHIKGFEDEVYWVTHGGKTQLDVKLALRPTSETPIYYMMK  112 (268)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHCSSSGGGGGGCEEEEESSSSEEEEEEEECSSSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCeEEeehhhhhhHhhhccCCCccccccceeEEeccccccchhhhhcccCCCchhHHhhh
Confidence            456899999999999999999999999998752     1221    111222110   1224568898666544433332


Q ss_pred             c-------cchheeecccccccccCCC---CCCCCcchhhH-HHhhcchhHHHHHHHHH
Q 030343           76 G-------GLDRVYEIGKQFRNEGIDL---THNPEFTTCEF-YMAFADYNDLMELTEKM  123 (179)
Q Consensus        76 ~-------~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~-e~~~~~~~~lm~~~e~l  123 (179)
                      .       -+-|+|++|+|||+|....   -+..||+|.|- +....+.++.....+.+
T Consensus       113 ~~~~Syr~LP~r~~e~~~~fR~E~~~~~GllR~reF~~~dd~~~~~~~~~~~~~~~~~~  171 (268)
T d1nj8a3         113 LWVKVHTDLPIKIYQIVNTFRYETKHTRPLIRLREIMTFKEAHTAHSTKEEAENQVKEA  171 (268)
T ss_dssp             TTCCBTTSCCCCEEEEECCBCCCCSCCBTTTBCSBCSCEEEEEEEESSHHHHHHHHHHH
T ss_pred             hhccchhhhheEEeeccccccccccccccceeEEEEeeechhceeccccchhhHHHHHH
Confidence            1       2579999999999996544   38999986654 44333444444444433

>d1hc7a2 d.104.1.1 (A:5-276) Prolyl-tRNA synthetase (ProRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Prolyl-tRNA synthetase (ProRS)
species: Thermus thermophilus [TaxId: 274]

Probab=98.17  E-value=1.2e-06  Score=68.38  Aligned_cols=117  Identities=16%  Similarity=0.099  Sum_probs=76.5

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----cccc---C-CCceec---cccccceeeeeechhhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGAA---A-RPFVTH---HNDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~~---~-~~f~~~---~~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      .-.+++.+|.+.+++.+.+.||.||.||.|....     |+..   . ..+...   .+..+.+++|+.+.+...-.++.
T Consensus        38 ~G~~l~~~l~~~~~~~~~~~G~~eV~~P~l~~~~l~~~sg~~~~~~~~~m~~~~~~~~~~~~~~~~L~pt~e~~~~~~~~  117 (272)
T d1hc7a2          38 YGYAIWENIQQVLDRMFKETGHQNAYFPLFIPMSFLRKEAEHVEGFSPELAVVTHAGGEELEEPLAVRPTSETVIGYMWS  117 (272)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEESTTC---------CCTTCEEEEEESSSEEEEEEEECSCSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCeEEeeccccchHHhhhcccchhhcccceeeeeccccccccchhhcccccccceeehhh
Confidence            4578999999999999999999999999887531     2111   1 112211   11224568888666544332221


Q ss_pred             -------ccchheeecccccccccCCC--CCCCCcchhhHHHhhcchhHHHHHHHHHH
Q 030343           76 -------GGLDRVYEIGKQFRNEGIDL--THNPEFTTCEFYMAFADYNDLMELTEKML  124 (179)
Q Consensus        76 -------~~~~kvf~i~~~fR~E~~~~--~Hl~EF~~le~e~~~~~~~~lm~~~e~li  124 (179)
                             .-.-++|++++|||+|....  ....+|.|.+.+....+..+.....++.+
T Consensus       118 ~~~~s~~~LPlr~~~~~~~fR~E~~~~g~~r~r~~~~~~~~~~~~~~~~~~~~~~~~~  175 (272)
T d1hc7a2         118 KWIRSWRDLPQLLNQWGNVVRWEMRTRPFLRTSEFLWQEGHTAHATREEAEEEVRRML  175 (272)
T ss_dssp             HHCCBGGGCCEEEEEEEEEECCCSSCBTTTBCSEEEEEEEEEEESSHHHHHHHHHHHH
T ss_pred             ceeccccccceeeeecccccccccccccccceEEEEEEhhhhhhcccccchhHHHHHH
Confidence                   22479999999999999764  47788888888876655555444444443

>d1usya_ d.104.1.1 (A:) ATP phosphoribosyltransferase regulatory subunit HisZ {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: ATP phosphoribosyltransferase regulatory subunit HisZ
species: Thermotoga maritima [TaxId: 2336]

Probab=98.11  E-value=8.9e-07  Score=69.86  Aligned_cols=100  Identities=11%  Similarity=-0.010  Sum_probs=65.9

Q ss_pred             HHHhhccCCceeeeccccccccccccCCCceeccccccceeeeeechhhhhhhhhh----ccchheeecccccccccCCC
Q 030343           20 IRRFLDNLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVV----GGLDRVYEIGKQFRNEGIDL   95 (179)
Q Consensus        20 ir~ff~~~gF~ev~tP~l~~~~~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~~~~kvf~i~~~fR~E~~~~   95 (179)
                      +++-..++||.+|.||+++....-. ...|   .+.-|+.+.||.-.....-+..+    ....|+|++|+|||.++.+ 
T Consensus        12 f~~~~~~~Gy~~i~tP~~E~~e~~~-~~~F---~D~~g~~l~LRpD~T~~iaR~~~~~~~~~p~k~~Y~g~VfR~~~~~-   86 (275)
T d1usya_          12 FYSKATKKGFSPFFVPALEKAEEPA-GNFF---LDRKGNLFSIREDFTKTVLNHRKRYSPDSQIKVWYADFVYRYSGSD-   86 (275)
T ss_dssp             HHHHHHHTTCEECCCCSEEECSSCC-SSCE---EETTSCEEEECCCHHHHHHHHHTTCTTCCCEEEECCEEEEEEETTE-
T ss_pred             HHHHHHHcCCceeecCccccccccc-ccee---EcCCCCEEEECCCCcHHHHHHHHHcCCCCCeeeeEEeeEEEeCCCc-
Confidence            3444567999999999998753222 1223   24567888888443333333332    2235999999999987654 


Q ss_pred             CCCCCcchhhHHHhhcc----hhHHHHHHHHHHHh
Q 030343           96 THNPEFTTCEFYMAFAD----YNDLMELTEKMLSG  126 (179)
Q Consensus        96 ~Hl~EF~~le~e~~~~~----~~~lm~~~e~li~~  126 (179)
                        ..||+|+.+|..+.+    -.|++.++-++++.
T Consensus        87 --~re~~Q~G~EiiG~~~~~aD~Evi~l~~~~l~~  119 (275)
T d1usya_          87 --LVAEYQLGLEKVPRNSLDDSLEVLEIIVESASE  119 (275)
T ss_dssp             --EEEEEEEEEEEESCCSHHHHHHHHHHHHHHHHH
T ss_pred             --ccceeecCceeechhhHHHHHHHHHHHHHHHHh
Confidence              579999999998742    35566666666554

>d1nj1a3 d.104.1.1 (A:19-283) Prolyl-tRNA synthetase (ProRS) {Arhaeon (Methanothermobacter thermautotrophicus) [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Prolyl-tRNA synthetase (ProRS)
species: Arhaeon (Methanothermobacter thermautotrophicus) [TaxId: 145262]

Probab=98.01  E-value=1.8e-06  Score=67.49  Aligned_cols=98  Identities=22%  Similarity=0.211  Sum_probs=65.0

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc-----ccc----cCCCceec---cccccceeeeeechhhhhhhhhh
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA-----GGA----AARPFVTH---HNDLNMKLYMRIAPELYLKELVV   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~-----~~~----~~~~f~~~---~~~~~~~~~L~~S~ql~~~~~~~   75 (179)
                      .-.+++..|.+.+++.+ ++||.||.||.|.+..     +|.    ..+.|.+.   .+..+..++|+...+...-.+++
T Consensus        31 ~G~~i~~~i~~~~~~~~-~~G~~ev~~P~l~~~~~l~~~sgh~~~~~~e~f~~~~~~~~~~~~~~~L~pt~~~~~~~~~~  109 (265)
T d1nj1a3          31 HGFMIRKNTLKILRRIL-DRDHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWVTHGGLSKLQRKLALRPTSETVMYPMFA  109 (265)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTTCEECCCCSEEEHHHHTTSHHHHHHTTTTCCEEEEETTEEEEEEEEECSSSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHH-HhcCceehhhhhhhhhhhhhcccccccccccceeeeccCccccceeEEeecccccceEEeee
Confidence            34578999999999876 5699999999876421     221    12334331   12235678898766555443332


Q ss_pred             c-------cchheeecccccccccCCC---CCCCCcchhhH
Q 030343           76 G-------GLDRVYEIGKQFRNEGIDL---THNPEFTTCEF  106 (179)
Q Consensus        76 ~-------~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~  106 (179)
                      .       -+-|+|++|+|||+|...+   -+..||+|++-
T Consensus       110 ~~~~SyrdLPlr~~q~~~~fR~E~~~~~Gl~R~reF~~~~d  150 (265)
T d1nj1a3         110 LWVRSHTDLPMRFYQVVNTFRYETKHTRPLIRVREITTFKE  150 (265)
T ss_dssp             HHCCBTTTCCEEEEEEEEEECCCCSCCBTTTBCSEEEEEEE
T ss_pred             eeeccccccceEEEeeccceeeecccCcCCEEEEEEEEecc
Confidence            1       1479999999999996543   49999987654

>d1b76a2 d.104.1.1 (A:1-394) Glycyl-tRNA synthetase (GlyRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Glycyl-tRNA synthetase (GlyRS)
species: Thermus thermophilus [TaxId: 274]

Probab=97.99  E-value=3.3e-06  Score=68.40  Aligned_cols=120  Identities=18%  Similarity=0.171  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHHHHHhh--ccCCceeeeccccccc----ccccc---C-------------CC------ceec---ccccc
Q 030343            9 IFKTRSKIVSYIRRFL--DNLDFLEVETPMMNMI----AGGAA---A-------------RP------FVTH---HNDLN   57 (179)
Q Consensus         9 ~~~~rs~i~~~ir~ff--~~~gF~ev~tP~l~~~----~~~~~---~-------------~~------f~~~---~~~~~   57 (179)
                      -.++|+.|.+.+|+.|  .+.|+.||.||+|.+.    ..|+-   .             ++      +.+.   ...-+
T Consensus        38 G~~l~~~i~~~wr~~~v~~~~~~~ev~tp~i~~~~lw~~SGH~~~f~d~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (331)
T d1b76a2          38 GVELKNNLKQAWWRRNVYERDDMEGLDASVLTHRLVLHYSGHEATFADPMVDNAKARYWTPPRYFNMMFQDLRGPRGGRG  117 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCSSEEEEBCCSEEEHHHHHHTSHHHHCEEEECBSSSCBCCCCCEEEECCEEEECSSSCCGG
T ss_pred             HHHHHHHHHHHHHHHHHhccCCeEEEeccccCChHHhccCccccccCCceeeecccccccCccchhhccccccccccccC
Confidence            4678999999999987  4779999999999874    12210   0             00      1110   01123


Q ss_pred             ceeeee--echhhhhhh--h--hh--ccchheeecccccccccCCC---CCCCCcchhhHHHhhcchhHHHHHHHHHHHh
Q 030343           58 MKLYMR--IAPELYLKE--L--VV--GGLDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYNDLMELTEKMLSG  126 (179)
Q Consensus        58 ~~~~L~--~S~ql~~~~--~--~~--~~~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~  126 (179)
                      ...||+  +....+...  .  .+  .-.-++++||.|||+|.+..   .+..||||.|++. |++-++..+.....+..
T Consensus       118 ~~~~lr~~t~~~~~~~~~~~~~~syk~LP~~~aqig~~fR~E~s~~~gl~RvReFtq~D~~~-F~~~~q~~~~~~~~~~~  196 (331)
T d1b76a2         118 LLAYLRPETAQGIFVNFKNVLDATSRKLGFGIAQIGKAFRNEITPRNFIFRVREFEQMEIEY-FVRPGEDEYWHRYWVEE  196 (331)
T ss_dssp             GEEEECSCTHHHHHTTHHHHHHHHTCCSSEEEEEEEEEECCCSSCCTTTTSCSEEEEEEEEE-EECGGGHHHHHHHHHHH
T ss_pred             CcccccCcchhhHHHHHHhHHhccccccchhhhhccceecccccccccccccchhhhhhhhh-hcCCcchhHHHHHHHHH
Confidence            556776  333332221  1  11  23579999999999998653   5899999999987 55555555555444444


Q ss_pred             hhh
Q 030343          127 MIK  129 (179)
Q Consensus       127 ~~~  129 (179)
                      +.+
T Consensus       197 ~~~  199 (331)
T d1b76a2         197 RLK  199 (331)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>d1seta2 d.104.1.1 (A:111-421) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=97.82  E-value=2.8e-05  Score=62.37  Aligned_cols=117  Identities=15%  Similarity=0.175  Sum_probs=73.9

Q ss_pred             hHHHHHHHHHHHHHHhhccCCceeeecccccccc----ccccCCCceecc-ccccceeeeeechhhhhhhhhh-------
Q 030343            8 QIFKTRSKIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAARPFVTHH-NDLNMKLYMRIAPELYLKELVV-------   75 (179)
Q Consensus         8 ~~~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~~~f~~~~-~~~~~~~~L~~S~ql~~~~~~~-------   75 (179)
                      ...++..++++.+.+++.++||++|.+|.|....    +|. ...|.... ...+.+.||.-.++..+-.+..       
T Consensus        54 ~~a~Le~AL~~~~ld~~~~~gy~~v~~P~lv~~~~~~~~G~-~p~f~~~~y~~~~~~~~LipTsE~~l~~~~~~~i~~~~  132 (311)
T d1seta2          54 DLALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGH-FPAYRDQVWAIAETDLYLTGTAEVVLNALHSGEILPYE  132 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHTC-TTTTGGGSCBBTTSSEEECSSTHHHHHHTTTTCEEEGG
T ss_pred             HHHHHHHHHHHHHHHhhhcccceEEeechhhccchhhhccc-ccccccccccccccceeecccccchhhhhhhhhhhhhh
Confidence            3457788889999999999999999999998631    222 11122111 1124577888555444332211       


Q ss_pred             ccchheeecccccccccCC----C---CCCCCcchhhHHHhhc-chhHHHHHHHHHHH
Q 030343           76 GGLDRVYEIGKQFRNEGID----L---THNPEFTTCEFYMAFA-DYNDLMELTEKMLS  125 (179)
Q Consensus        76 ~~~~kvf~i~~~fR~E~~~----~---~Hl~EF~~le~e~~~~-~~~~lm~~~e~li~  125 (179)
                      .-.-|+++++||||.|...    +   -+..||+.+|....-. +.++.....++++.
T Consensus       133 ~LPlr~~~~s~cfR~Eag~~g~~trGL~RvhQF~kvE~~~~~~~~~e~s~~~~~~~~~  190 (311)
T d1seta2         133 ALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLE  190 (311)
T ss_dssp             GCSEEEEEEEEEECCCCSCTTSSCSTTSSCSEEEEEEEEEEECSCHHHHHHHHHHHHH
T ss_pred             hccceEEeecccchhhhccccccchhhhhhcccchhhhheeeccccccchhHHHHHHH
Confidence            1246899999999999732    2   3899999999744321 34445555455543

>d1jjcb5 d.104.1.1 (B:475-681) Phenyl-tRNA synthetase (PheRS) beta subunit, PheT, central domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Phenyl-tRNA synthetase (PheRS) beta subunit, PheT, central domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.31  E-value=0.01  Score=43.88  Aligned_cols=109  Identities=17%  Similarity=0.041  Sum_probs=64.1

Q ss_pred             HHHHHHHHhhccCCceeeecccccccc----ccccCCCceeccccccceeeeeechhhhhhhhhh----cc---chheee
Q 030343           15 KIVSYIRRFLDNLDFLEVETPMMNMIA----GGAAARPFVTHHNDLNMKLYMRIAPELYLKELVV----GG---LDRVYE   83 (179)
Q Consensus        15 ~i~~~ir~ff~~~gF~ev~tP~l~~~~----~~~~~~~f~~~~~~~~~~~~L~~S~ql~~~~~~~----~~---~~kvf~   83 (179)
                      ...+.+|+++...||.||-|-.+++..    -+.......+...--...-+||+|.---+=..++    .+   ..++|+
T Consensus        19 ~~~~~ir~~L~~~Gf~Ev~tysf~s~~~~~~~~~~~~~i~l~NPis~e~~~lR~sLlpgLL~~~~~N~~r~~~~~~~lFE   98 (207)
T d1jjcb5          19 RKEQRLREVLSGLGFQEVYTYSFMDPEDARRFRLDPPRLLLLNPLAPEKAALRTHLFPGLVRVLKENLDLDRPERALLFE   98 (207)
T ss_dssp             HHHHHHHHHHHHHTCEECCCCSEECTTHHHHTTCCCCSCEESSCSSGGGSEECSCSHHHHHHHHHHHHHHSCCSEEEEEE
T ss_pred             HHHHHHHHHHHHCCcchhcCCCcCCHHHHHhhcCCCCcEEEeCCcchhhhhhhhhcchHHHHHHHhCcccccccceeeEe
Confidence            456789999999999999999998631    1111122333211123345788775333322222    22   247899


Q ss_pred             cccccccccCC-------CCCCCCcchhhHHHhhcchhHHHHHHHHHHHh
Q 030343           84 IGKQFRNEGID-------LTHNPEFTTCEFYMAFADYNDLMELTEKMLSG  126 (179)
Q Consensus        84 i~~~fR~E~~~-------~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~  126 (179)
                      ||++|+.....       ..+..+.++-.   ...|+.++...++.++..
T Consensus        99 iG~vf~~~~~~~~~~~~~g~~~~~~~~~~---~~~df~~~Kg~v~~ll~~  145 (207)
T d1jjcb5          99 VGRVFREREETHLAGLLFGEGVGLPWAKE---RLSGYFLLKGYLEALFAR  145 (207)
T ss_dssp             EEEEESSSEEEEEEEEEEESCBSCTTSSC---CBCHHHHHHHHHHHHHHH
T ss_pred             eeeeeeccccccchhhhhhcccccccccc---cchhHHHHHHHHHHHHHh
Confidence            99999875432       13444433321   123577888888888765

>d1atia2 d.104.1.1 (A:1-394) Glycyl-tRNA synthetase (GlyRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Glycyl-tRNA synthetase (GlyRS)
species: Thermus thermophilus [TaxId: 274]

Probab=93.81  E-value=0.012  Score=48.01  Aligned_cols=37  Identities=30%  Similarity=0.279  Sum_probs=29.3

Q ss_pred             chheeecccccccccCCC---CCCCCcchhhHHHhhcchhH
Q 030343           78 LDRVYEIGKQFRNEGIDL---THNPEFTTCEFYMAFADYND  115 (179)
Q Consensus        78 ~~kvf~i~~~fR~E~~~~---~Hl~EF~~le~e~~~~~~~~  115 (179)
                      .-.+.|||++||||-+..   -++.||+|.|+|. |.+-.+
T Consensus       209 PFGiAQIGk~FRNEIsPr~~l~R~REF~q~EiE~-Fv~P~~  248 (394)
T d1atia2         209 GFGIAQIGKAFRNEITPRNFIFRVREFEQMEIEY-FVRPGE  248 (394)
T ss_dssp             SEEEEEEEEEEBCCSSCCTGGGSCSEEEEEEEEE-EECGGG
T ss_pred             CceeeeeccccccccCcccCCcccccceeeeeEE-EEeCCc
Confidence            468999999999997543   4999999999987 544333

>d1g5ha2 d.104.1.1 (A:41-330) The aaRS-like accessory subunit of mitochondrial polymerase gamma, N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: The aaRS-like accessory subunit of mitochondrial polymerase gamma, N-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.38  E-value=0.0064  Score=47.59  Aligned_cols=115  Identities=13%  Similarity=-0.045  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHHHhhccCCceeeeccccccc----cccccCCCceec-----------------------cccccceeee
Q 030343           10 FKTRSKIVSYIRRFLDNLDFLEVETPMMNMI----AGGAAARPFVTH-----------------------HNDLNMKLYM   62 (179)
Q Consensus        10 ~~~rs~i~~~ir~ff~~~gF~ev~tP~l~~~----~~~~~~~~f~~~-----------------------~~~~~~~~~L   62 (179)
                      ..+++.|.+..++.|..... +|.+|-....    +.|+. ..+...                       ....+...||
T Consensus        38 ~~Lk~ni~~~w~~~~v~~~~-~v~~~d~~~~~~~~~sgh~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yL  115 (290)
T d1g5ha2          38 VELRKNLASQWWSSMVVFRE-QVFAVDSLHQEPGSSQPRD-SAFRLVSPESIREILQDREPSKEQLVAFLENLLKTSGKL  115 (290)
T ss_dssp             HHHHHHHHHHHHHHHTTTCT-TEEECCCCSEECCCCSSCC-CCCEEECHHHHHHHHCC---CHHHHHHHHHHHHHHSCEE
T ss_pred             HHHHHHHHHHHHHHHHhccC-ceeeccccccccCCCcccc-chhhhccccccccccccccchhhhhhcceecccccccee
Confidence            46788999999998865432 6665543321    12211 111110                       0123456788


Q ss_pred             ee--chhhhhh--hhh---h-ccchheeecccccccccCC--C----CCCCCcchhhHHHhhcchhHHHHHHHHHHHhh
Q 030343           63 RI--APELYLK--ELV---V-GGLDRVYEIGKQFRNEGID--L----THNPEFTTCEFYMAFADYNDLMELTEKMLSGM  127 (179)
Q Consensus        63 ~~--S~ql~~~--~~~---~-~~~~kvf~i~~~fR~E~~~--~----~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~  127 (179)
                      +.  ++..+..  .++   . .-.-++-+||+|||+|.+.  +    -+..||+|.|.+. |++-++..+..+.++...
T Consensus       116 RPetaqg~~~~fkn~~~~~~~~LPf~iaq~g~~fR~E~~~~~~~~gl~RvReF~q~E~~~-F~~pe~~~~~~~~~~~~~  193 (290)
T d1g5ha2         116 RATLLHGALEHYVNCLDLVNRKLPFGLAQIGVCFHPVSNSNQTPSSVTRVGEKTEASLVW-FTPTRTSSQWLDFWLRHR  193 (290)
T ss_dssp             CSCSHHHHHHTHHHHHHHTTTBSCEEEEEEEEEEEEEC---------CEEEEEEEEEEEE-EECHHHHHHHHHHHHHHH
T ss_pred             ccccchhHHHHHHHHHhhccCCCCcEEEEeccccccccccCCcccccceeeEeEeeeeEE-EeCCcchHHHHHHHHHHH
Confidence            83  3332222  111   1 2247999999999977543  1    3789999999977 566555555555555433

>d12asa_ d.104.1.1 (A:) Asparagine synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Asparagine synthetase
species: Escherichia coli [TaxId: 562]

Probab=92.23  E-value=0.12  Score=40.42  Aligned_cols=121  Identities=11%  Similarity=0.257  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHhhcc-----CCceeeecccccccccc------ccCCCceecccc-ccceeeeeechhhhhhhhhh-ccc-
Q 030343           13 RSKIVSYIRRFLDN-----LDFLEVETPMMNMIAGG------AAARPFVTHHND-LNMKLYMRIAPELYLKELVV-GGL-   78 (179)
Q Consensus        13 rs~i~~~ir~ff~~-----~gF~ev~tP~l~~~~~~------~~~~~f~~~~~~-~~~~~~L~~S~ql~~~~~~~-~~~-   78 (179)
                      ....+..+.++|..     .+.+.|..|.+.....|      +..+|....... -+..+-..+|-.-++.+++. .++ 
T Consensus         5 tq~aI~~iK~~F~~~L~~~LnL~rVsAPLfv~~~sGlNDnLnG~ErpV~F~ik~~~~~~~EiVhSLAKWKR~aL~~y~f~   84 (327)
T d12asa_           5 KQRQISFVKSHFSRQLEERLGLIEVQAPILSRVGDGTQDNLSGAEKAVQVKVKALPDAQFEVVHSLAKWKRQTLGQHDFS   84 (327)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCEEECCCCSEEETTSSCSCCTTTTCCCCEECCSSSTTCCEEECSCCTTHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHHHHHHhCcEEecCCeEEcCCCCcccCCCCeeeeeEEecCCCCCCeeEEEeehHHHHHHHHHhcCCC
Confidence            34455556666644     49999999999864322      123444332211 24555566888888776654 233 


Q ss_pred             --hheeeccccccccc--CCCCCCCCcchhhHHHhhcchhHHHHHHHHHHHhhhhhhhc
Q 030343           79 --DRVYEIGKQFRNEG--IDLTHNPEFTTCEFYMAFADYNDLMELTEKMLSGMIKEITG  133 (179)
Q Consensus        79 --~kvf~i~~~fR~E~--~~~~Hl~EF~~le~e~~~~~~~~lm~~~e~li~~~~~~~~~  133 (179)
                        +.+|+=..+.|.+.  .|..|..=.-|.|||..-..-+..+..+.+.++.+++.+..
T Consensus        85 ~geGlytdMnAiR~DEd~ldn~HSiyVDQWDWEkvI~~~dR~l~~Lk~tV~~Iy~~ik~  143 (327)
T d12asa_          85 AGEGLYTHMKALRPDEDRLSPLHSVYVDQWDWERVMGDGERQFSTLKSTVEAIWAGIKA  143 (327)
T ss_dssp             TTCEEEEEEEEECTTCSCCCSSCCSEEEEEEEEEECCTTCCSHHHHHHHHHHHHHHHHH
T ss_pred             CCceeccCCccccCCcccCCCceeEEEcccchhhhcCccccCHHHHHHHHHHHHHHHHH
Confidence              57899999999854  58999999999999998764444555555556655555544