RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781118|ref|YP_003065531.1| lysyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(502 letters)
>gnl|CDD|179044 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.
Length = 491
Score = 724 bits (1871), Expect = 0.0
Identities = 238/485 (49%), Positives = 328/485 (67%), Gaps = 9/485 (1%)
Query: 15 IEVRSQKLNMLRKSLAEVYPAHFHRDITNAEVREKYSHLQNDE--KSQDMITVAGRVYSS 72
I VR +KL LR+ + YP F R T AE+R KY + +E + + ++VAGRV
Sbjct: 7 IAVRREKLAELREQGIDPYPNKFERTHTAAELRAKYDDKEKEELEELEIEVSVAGRVMLK 66
Query: 73 RNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQVRRTKRGELTV 130
R G F + D SG+IQ++ KD +++ +D+GDIIG+ G + +TK GEL+V
Sbjct: 67 RVMGKASFATLQDGSGRIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKTKTGELSV 126
Query: 131 NAQKIIMLSKALNSIPETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFM 190
A ++ +L+K+L +P+ ++GL+DVE RYR+RY+D+I N +S+ F++RS +IS IR F+
Sbjct: 127 KATELTLLTKSLRPLPDKFHGLTDVETRYRQRYVDLIVNPESRETFRKRSKIISAIRRFL 186
Query: 191 EKKGFMEVETPILQPIYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFE 250
+ +GF+EVETP+LQPI GGA A PF THHN L D+YLRIAPELYLKR+++ G ++V+E
Sbjct: 187 DNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDLYLRIAPELYLKRLIVGGF-ERVYE 245
Query: 251 LNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIPFGEKV 310
+ RNFRNEG+ +RHNPEFTM+E Y AY DY DMM L E+L +LA+ + GTT + +
Sbjct: 246 IGRNFRNEGIDTRHNPEFTMLEFYQAYADYNDMMDLTEELIRHLAQAVLGTTKVTYQGTE 305
Query: 311 ISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGITVENDALWGEVMMTIFEE 370
I F PF +M+ +KE TG+DF + + EAR A+ +GI VE G+++ +FEE
Sbjct: 306 IDFGPPFKRLTMVDAIKEYTGVDFDDMTDE-EARALAKELGIEVEKSWGLGKLINELFEE 364
Query: 371 KIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDPVEQRI 430
+E ++ PT ITD+P +ISP AK + L ERFE + G EI NAFSELNDP++QR
Sbjct: 365 FVEPKLIQPTFITDYPVEISPLAKRHREDPGLTERFELFIGGREIANAFSELNDPIDQRE 424
Query: 431 RMEQQVEQSHQRG--EHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVIL 488
R E QVE G E +DEDFL A+ YGMPP GLG+GIDRL+MLLT++PSIRDVIL
Sbjct: 425 RFEAQVEAKE-AGDDEAMFMDEDFLRALEYGMPPTGGLGIGIDRLVMLLTDSPSIRDVIL 483
Query: 489 FPAQR 493
FP R
Sbjct: 484 FPLMR 488
>gnl|CDD|178118 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 544 bits (1405), Expect = e-155
Identities = 224/488 (45%), Positives = 308/488 (63%), Gaps = 14/488 (2%)
Query: 16 EVRSQKLNMLRKSLAEVYPAHFHRDITNAEVREKYSHLQNDEKSQD-MITVAGRVYSSRN 74
R +K+ LR E YP F T E++EKY L+N E+ +D ++VAGR+ + R
Sbjct: 63 ANRLKKVEALRAKGVEPYPYKFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKRA 122
Query: 75 SG--MFMDIHDASGKIQIFTHKDTADQDS---QNLLSMIDIGDIIGITGQVRRTKRGELT 129
G F D+ D GKIQ++ K D D + L S++D GDI+G+TG +TK+GEL+
Sbjct: 123 FGKLAFYDLRDDGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTKKGELS 182
Query: 130 VNAQKIIMLSKALNSIPETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHF 189
+ +L+K L +P+ Y+GL+D E RYR+RYLD+I+N + + F+ R+ +IS IR F
Sbjct: 183 IFPTSFEVLTKCLLMLPDKYHGLTDQETRYRQRYLDLIANPEVRDIFRTRAKIISYIRRF 242
Query: 190 MEKKGFMEVETPILQPIYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVF 249
++ +GF+EVETP+L I GGA A PF THHN L D+YLRIA EL+LKR+++ G ++V+
Sbjct: 243 LDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGGF-ERVY 301
Query: 250 ELNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIPFGEK 309
E+ R FRNEG+S+RHNPEFT E Y AY DY DMM+L E++ + K L G+ I +
Sbjct: 302 EIGRQFRNEGISTRHNPEFTTCEFYQAYADYNDMMELTEEMVSGMVKELTGSYKIKYHGI 361
Query: 310 VISFKAPFACKSMLQLVKEATGLDFMLLKSDQEAR----VAAQSIGITVENDALWGEVMM 365
I F PF SM+ LV+EATG+DF EA A + + G ++
Sbjct: 362 EIDFTPPFRRISMISLVEEATGIDFPADLKSDEANAYLIAACEKFDVKCPPPQTTGRLLN 421
Query: 366 TIFEEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDP 425
+FEE +E+ +V PT + D P ++SP AK + L ERFE + NG E+ NAFSEL DP
Sbjct: 422 ELFEEFLEETLVQPTFVLDHPVEMSPLAKPHRSKPGLTERFELFINGRELANAFSELTDP 481
Query: 426 VEQRIRMEQQVEQSHQRG--EHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSI 483
V+QR R E+QV+Q H G E LDEDF A+ YG+PP G GLGIDRL+MLLT++ SI
Sbjct: 482 VDQRERFEEQVKQ-HNAGDDEAMALDEDFCTALEYGLPPTGGWGLGIDRLVMLLTDSASI 540
Query: 484 RDVILFPA 491
RDVI FPA
Sbjct: 541 RDVIAFPA 548
>gnl|CDD|129590 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and
non-spirochete bacterial. 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.
Length = 496
Score = 542 bits (1399), Expect = e-155
Identities = 232/493 (47%), Positives = 327/493 (66%), Gaps = 11/493 (2%)
Query: 11 SSNSIEVRSQKLNMLRKSLAEVYPAHFHRDITNAEVREKYSHLQNDE--KSQDMITVAGR 68
++ ++ R +KL LR++ Y F R ++ E +E+Y+ L N+E +++AGR
Sbjct: 2 LNDQLQTRREKLARLRQTGNNPYLNKFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGR 61
Query: 69 VYSSRNSGM--FMDIHDASGKIQIFTHKDTADQDSQNL-LSMIDIGDIIGITGQVRRTKR 125
+ + R+ G F+ + D SG+IQ++ +KD +D ++D+GDIIG+TG +TK
Sbjct: 62 IMARRSMGKATFITLQDESGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTKT 121
Query: 126 GELTVNAQKIIMLSKALNSIPETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQ 185
GEL+V+ ++ +L+KAL +P+ ++GL+D E RYR+RYLD+I N DS+ F RS +I
Sbjct: 122 GELSVHVTELQILTKALRPLPDKFHGLTDQETRYRQRYLDLIVNPDSRQTFLVRSKIIKA 181
Query: 186 IRHFMEKKGFMEVETPILQPIYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLT 245
IR F++ +GF+EVETP+LQ I GGA A PF THHN L D+YLRIAPELYLKR+++ G
Sbjct: 182 IRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLYLRIAPELYLKRLIVGGF- 240
Query: 246 DQVFELNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIP 305
++V+E+ RNFRNEGV + HNPEFTMIE Y AY DY D+M L E+L LA+ L GTT I
Sbjct: 241 EKVYEIGRNFRNEGVDTTHNPEFTMIEFYQAYADYEDLMDLTENLFKFLAQELLGTTKIT 300
Query: 306 FGEKVISFKAPFACKSMLQLVK---EATGLDFMLLKSDQEARVAAQSIGITVENDAL-WG 361
+GE I FK PF +M++ +K TG+DF LK + A+ A+ IGI V +L G
Sbjct: 301 YGELEIDFKKPFKRITMVEAIKKYDMETGIDFDDLKDFETAKALAKKIGIEVAEKSLTLG 360
Query: 362 EVMMTIFEEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSE 421
++ +FE+ +E ++ PT IT +P +ISP AK +RFE + G EI NAFSE
Sbjct: 361 HILNELFEQFLEHTLIQPTFITHYPAEISPLAKRNPSNPEFTDRFELFIAGKEIANAFSE 420
Query: 422 LNDPVEQRIRMEQQVEQSHQ-RGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNA 480
LNDP++QR R EQQV + E +DEDF++A+ YGMPP GLG+GIDRL+MLLT++
Sbjct: 421 LNDPLDQRERFEQQVAEKEAGDDEAQFVDEDFVEALEYGMPPTGGLGIGIDRLVMLLTDS 480
Query: 481 PSIRDVILFPAQR 493
SIRDVILFPA R
Sbjct: 481 KSIRDVILFPAMR 493
>gnl|CDD|179519 PRK02983, lysS, lysyl-tRNA synthetase; Provisional.
Length = 1094
Score = 425 bits (1096), Expect = e-119
Identities = 182/496 (36%), Positives = 267/496 (53%), Gaps = 39/496 (7%)
Query: 17 VRSQKLNMLRKSLAEVYPAHFHRDITNAEVREKYSHLQNDEKSQDMITVAGRVYSSRNSG 76
VR KL LR + + YP T AE D + + ++V+GRV R+ G
Sbjct: 616 VRLAKLEALRAAGVDPYPVGVPPTHTVAEAL--------DAPTGEEVSVSGRVLRIRDYG 667
Query: 77 --MFMDIHDASGKIQIFTHKDTADQDSQNL-LSMIDIGDIIGITGQVRRTKRGELTVNAQ 133
+F D+ D SG++Q+ +Q S + +D+GD++ +TG + ++ G L++
Sbjct: 668 GVLFADLRDWSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSRNGTLSLLVT 727
Query: 134 KIIMLSKALNSIPETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKK 193
+ K L +P+ + GL+D E R R+RYLD+ N +++ + RS ++ +R + +
Sbjct: 728 SWRLAGKCLRPLPDKWKGLTDPEARVRQRYLDLAVNPEARDLLRARSAVVRAVRETLVAR 787
Query: 194 GFMEVETPILQPIYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFELNR 253
GF+EVETPILQ ++GGA A PF TH N D+YLRIAPELYLKR+ + G+ ++VFEL R
Sbjct: 788 GFLEVETPILQQVHGGANARPFVTHINAYDMDLYLRIAPELYLKRLCVGGV-ERVFELGR 846
Query: 254 NFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTT-----DIPFGE 308
NFRNEGV + HNPEFT++EAY A+ DY M L +L N A+ HG D
Sbjct: 847 NFRNEGVDATHNPEFTLLEAYQAHADYDTMRDLTRELIQNAAQAAHGAPVVMRPDGDGVL 906
Query: 309 KVISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGITVENDALWGEVMMTIF 368
+ + P+ ++ V EA G + E R + GI D G V++ ++
Sbjct: 907 EPVDISGPWPVVTVHDAVSEALGEEIDPDTPLAELRKLCDAAGIPYRTDWDAGAVVLELY 966
Query: 369 EEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDPVEQ 428
E +E PT TDFP +SP + + L ER++ G E+ A+SEL DPVEQ
Sbjct: 967 EHLVEDRTTFPTFYTDFPTSVSPLTRPHRSDPGLAERWDLVAWGVELGTAYSELTDPVEQ 1026
Query: 429 RIRMEQQ-----------VEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLL 477
R R+ +Q +E LDEDFL A+ Y MPP GLG+G+DRL+MLL
Sbjct: 1027 RRRLTEQSLLAAGGDPEAME----------LDEDFLQALEYAMPPTGGLGMGVDRLVMLL 1076
Query: 478 TNAPSIRDVILFPAQR 493
T SIR+ + FP +
Sbjct: 1077 TGR-SIRETLPFPLVK 1091
>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed.
Length = 505
Score = 412 bits (1059), Expect = e-115
Identities = 215/489 (43%), Positives = 318/489 (65%), Gaps = 9/489 (1%)
Query: 12 SNSIEVRSQKLNMLRKSLAEVYPAHFHRDITNAEVREKYSHLQNDE-KSQDM-ITVAGRV 69
++ + R +KL LR+ +P F RD T+ ++ E++ N E +S ++ ++VAGR+
Sbjct: 16 NDELRNRREKLAALRQQ-GVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRM 74
Query: 70 YSSRNSGM--FMDIHDASGKIQIFTHKDTADQDSQN-LLSMIDIGDIIGITGQVRRTKRG 126
+ R G F+ + D G+IQ++ +D+ + N D+GDIIG G + +T+ G
Sbjct: 75 MTRRIMGKASFVTLQDVGGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQTG 134
Query: 127 ELTVNAQKIIMLSKALNSIPETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQI 186
EL+++ ++ +L+KAL +P+ ++GL D E+RYR+RYLD+I+N S+ F RS +++ I
Sbjct: 135 ELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAI 194
Query: 187 RHFMEKKGFMEVETPILQPIYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLTD 246
R FM +GFMEVETP++Q I GGA+A PF THHN L DMYLRIAPELYLKR+++ G +
Sbjct: 195 RQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGF-E 253
Query: 247 QVFELNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIPF 306
+VFE+NRNFRNEG+S RHNPEFTM+E Y AY DY D+++L E L LA+ + GTT + +
Sbjct: 254 RVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTY 313
Query: 307 GEKVISFKAPFACKSMLQLVKE-ATGLDFMLLKSDQEARVAAQSIGITVENDALWGEVMM 365
GE V F PF +M + +K+ D L + A+ A+SIGITVE G ++
Sbjct: 314 GEHVFDFGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLGRIVT 373
Query: 366 TIFEEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDP 425
IF+E E +++ PT IT++P ++SP A+ + +RFE + G EI N FSELND
Sbjct: 374 EIFDEVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIGGREIGNGFSELNDA 433
Query: 426 VEQRIRMEQQVE-QSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIR 484
+Q R ++QV ++ E DED++ A+ YG+PP +GLG+GIDR+IML TN+ +IR
Sbjct: 434 EDQAERFQEQVNAKAAGDDEAMFYDEDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIR 493
Query: 485 DVILFPAQR 493
DVILFPA R
Sbjct: 494 DVILFPAMR 502
>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional.
Length = 585
Score = 303 bits (777), Expect = 7e-83
Identities = 182/486 (37%), Positives = 262/486 (53%), Gaps = 26/486 (5%)
Query: 33 YPAHFHRDITNAEVREKYSHLQNDEKSQDMI-TVAGRVYSSRNSGM---FMDIHDASGKI 88
YP F R IT E EKY L + E +D I V GR+ SG F D+ KI
Sbjct: 104 YPHKFERTITVPEFVEKYQDLASGEHLEDTILNVTGRIMRVSASGQKLRFFDLVGDGAKI 163
Query: 89 QIFTHKDTADQDSQNLLSMIDI---GDIIGITGQVRRTKRGELTVNAQKIIMLSKALNSI 145
Q+ + D N D GDI+GI G ++K+GEL++ ++ I+LS L+ +
Sbjct: 164 QVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSKKGELSIFPKETIILSPCLHML 223
Query: 146 PETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETPILQP 205
P YGL D EIRYR+RYLD++ N ++ F R+ +I+ +R+F+ +GF+EVETP +
Sbjct: 224 P-MKYGLKDTEIRYRQRYLDLMINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNL 282
Query: 206 IYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSSRHN 265
+ GGA A PF THHN L D+YLRIA EL LK +++ G+ D+V+E+ + FRNEG+ + HN
Sbjct: 283 VAGGANARPFITHHNDLDLDLYLRIATELPLKMLIVGGI-DKVYEIGKVFRNEGIDNTHN 341
Query: 266 PEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIPFGEK-------VISFKAPFA 318
PEFT E YWAY D+ D++K ED L L GT I + + I F P+
Sbjct: 342 PEFTSCEFYWAYADFYDLIKWSEDFFSQLVMHLFGTYKILYNKDGPEKDPIEIDFTPPYP 401
Query: 319 CKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGITVE------NDALWGEVMMTIFEEKI 372
S+++ +++ T + L + + I + E N +++ + I
Sbjct: 402 KVSIVEELEKLT--NTKLEQPFDSPETINKMINLIKENKIEMPNPPTAAKLLDQLASHFI 459
Query: 373 EKNIVN-PTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDPVEQRIR 431
E N P I + P+ +SP AK + L ER E + G E+ NA++ELNDP +Q+
Sbjct: 460 ENKYPNKPFFIIEHPQIMSPLAKYHRSKPGLTERLEMFICGKEVLNAYTELNDPFKQKEC 519
Query: 432 ME-QQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
QQ ++ E D F ++ YG+PP GLGLGIDR+ M LTN I+DVILFP
Sbjct: 520 FSAQQKDREKGDAEAFQFDAAFCTSLEYGLPPTGGLGLGIDRITMFLTNKNCIKDVILFP 579
Query: 491 AQRVKN 496
R N
Sbjct: 580 TMRPAN 585
>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional.
Length = 659
Score = 288 bits (737), Expect = 3e-78
Identities = 167/482 (34%), Positives = 262/482 (54%), Gaps = 26/482 (5%)
Query: 37 FHRDITNAEVREKYSHL-QNDEKSQDMITVAGRVYSSRNSG--MFMDIHDASGKIQIFTH 93
F +EVRE+Y +L D +Q + VAGRV S R+ G +F+ I ++Q+
Sbjct: 83 FRGITPISEVRERYGYLASGDRAAQATVRVAGRVTSVRDIGKIIFVTIRSNGNELQVVGQ 142
Query: 94 --KDTADQDSQNLLSMIDIGDIIGITGQVRRTKRGELTVNAQKIIMLSKALNS----IPE 147
+ +D + L + +GDIIG G R +RGEL+V A ++++LS + + P
Sbjct: 143 VGEHFTREDLKKLKVSLRVGDIIGADGVPCRMQRGELSVAASRMLILSPYVCTDQVVCPN 202
Query: 148 T--YYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETPILQP 205
+ L D +++YR R+ D+++N ++R +++ +R + ++ F+EVETP+L
Sbjct: 203 LRGFTVLQDNDVKYRYRFTDMMTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLHT 262
Query: 206 IYGGATADPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSSRHN 265
+ GA A F THHN D++LR+APEL+LK+ ++ G+ ++++E+ + FRNE HN
Sbjct: 263 VASGANAKSFVTHHNANAMDLFLRVAPELHLKQCIVGGM-ERIYEIGKVFRNEDADRSHN 321
Query: 266 PEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIPF-------GEKVISFKAPFA 318
PEFT E Y AY Y D+M + ED+ LA ++GTT + + PF
Sbjct: 322 PEFTSCEFYAAYHTYEDLMPMTEDIFRQLAMRVNGTTVVQIYPENAHGNPVTVDLGKPFR 381
Query: 319 CKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGITVENDALWGEVMMT--IFEEKIE--- 373
S+ ++ +G++F + A + + + V +FE+ I+
Sbjct: 382 RVSVYDEIQRMSGVEFPPPNELNTPKGIAYMSVVMLRYNIPLPPVRTAAKMFEKLIDFFI 441
Query: 374 -KNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDPVEQRIRM 432
+V PT + D P +SP AKE L ERFE + NG E CNA+SELNDP EQ R
Sbjct: 442 TDRVVEPTFVMDHPLFMSPLAKEQVSRPGLAERFELFVNGIEYCNAYSELNDPHEQYHRF 501
Query: 433 EQQ-VEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFPA 491
+QQ V++ E LDE FL ++ G+PP +G G+GIDR +MLLTN+ +IRD I+FP
Sbjct: 502 QQQLVDRQGGDEEAMPLDETFLKSLQVGLPPTAGWGMGIDRALMLLTNSSNIRDGIIFPL 561
Query: 492 QR 493
R
Sbjct: 562 LR 563
>gnl|CDD|161889 TIGR00462, genX, lysyl-tRNA synthetase-like protein GenX. 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.
Length = 304
Score = 253 bits (649), Expect = 6e-68
Identities = 109/322 (33%), Positives = 157/322 (48%), Gaps = 28/322 (8%)
Query: 177 QQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATA---DPFKTH---HNILKADMYLRI 230
+ R+ L++ IR F ++G +EVETP+L P T D F T + +YL+
Sbjct: 2 RARARLLAAIRAFFAERGVLEVETPLLSP--APVTDPHLDAFATEFLGPDGEGRPLYLQT 59
Query: 231 APELYLKRVLISGLTDQVFELNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDL 290
+PE +KR+L +G +F++ + FRN RHNPEFTM+E Y DY D+M VE L
Sbjct: 60 SPEYAMKRLLAAGSGP-IFQICKVFRNGERGRRHNPEFTMLEWYRPGFDYHDLMDEVEAL 118
Query: 291 CHNLAKTLHGTTDIPFGEKVISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAAQSI 350
L AP+ S + G+D L S E AA +
Sbjct: 119 LQELLGDP---------------FAPWERLSYQEAFLRYAGID-PLTASLDELAAAAAAH 162
Query: 351 GITVENDALWGEVMMTIFEEKIEKNIVN--PTHITDFPKDISPFAKEVAGEKRLVERFET 408
G+ + +++ +F EK+E ++ PT + D+P + A+ + R+ ERFE
Sbjct: 163 GVRASEEDDRDDLLDLLFSEKVEPHLGFGRPTFLYDYPASQAALARISPDDPRVAERFEL 222
Query: 409 YCNGWEICNAFSELNDPVEQRIRMEQQVEQSHQRGEHTI-LDEDFLDAMTYGMPPASGLG 467
Y G E+ N F EL D EQR R E + G LDE FL A+ G+P SG+
Sbjct: 223 YIKGLELANGFHELTDAAEQRRRFEADNAERKALGLPRYPLDERFLAALEAGLPECSGVA 282
Query: 468 LGIDRLIMLLTNAPSIRDVILF 489
LG+DRL+ML A SI DV+ F
Sbjct: 283 LGVDRLLMLALGADSIDDVLAF 304
>gnl|CDD|181791 PRK09350, PRK09350, poxB regulator PoxA; Provisional.
Length = 306
Score = 200 bits (510), Expect = 9e-52
Identities = 106/336 (31%), Positives = 156/336 (46%), Gaps = 51/336 (15%)
Query: 172 SKIRFQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATA-----DPFKTH----HNIL 222
S +R+ +I++IR F +G +EVETPIL AT PF+T
Sbjct: 1 SIPNLLKRAKIIAEIRRFFADRGVLEVETPILSQ----ATVTDIHLVPFETRFVGPGASQ 56
Query: 223 KADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRD 282
++L +PE ++KR+L +G +F++ ++FRNE HNPEFTM+E Y + D
Sbjct: 57 GKTLWLMTSPEYHMKRLLAAGSGP-IFQICKSFRNEEAGRYHNPEFTMLEWYRPHYDMYR 115
Query: 283 MMKLVEDLCHNLAKTLHGTTDIPFGEKVISFKAPF--------ACKSMLQLVKEATGLDF 334
+M V+DL + + +S++ F QL + A L
Sbjct: 116 LMNEVDDLLQQVLDCEPA--------ESLSYQQAFLRYLGIDPLSADKTQLREVAAKLGL 167
Query: 335 MLLKSDQEARVAAQSIGITVENDALWGEVMMTIFEEKIEKNIVN--PTHITDFPKDISPF 392
+ ++E R D L + +F +E NI PT + FP +
Sbjct: 168 SNIADEEEDR------------DTL----LQLLFTFGVEPNIGKEKPTFVYHFPASQAAL 211
Query: 393 AKEVAGEKRLVERFETYCNGWEICNAFSELNDPVEQRIRMEQQVEQSHQRG--EHTILDE 450
AK + R+ ERFE Y G E+ N F EL D EQR R EQ + RG + I DE
Sbjct: 212 AKISTEDHRVAERFEVYFKGIELANGFHELTDAREQRQRFEQDNRKRAARGLPQQPI-DE 270
Query: 451 DFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDV 486
+ + A+ G+P SG+ LG+DRLIML A SI +V
Sbjct: 271 NLIAALEAGLPDCSGVALGVDRLIMLALGAESISEV 306
>gnl|CDD|129550 TIGR00458, aspS_arch, aspartyl-tRNA synthetase, archaeal type. 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).
Length = 428
Score = 130 bits (328), Expect = 8e-31
Identities = 114/452 (25%), Positives = 204/452 (45%), Gaps = 52/452 (11%)
Query: 57 EKSQDMITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDII 114
E +T G V+ R+ G +F+ + D G IQI ++ +++ ++
Sbjct: 9 EMDGQEVTFMGWVHEIRDLGGLIFVLLRDREGLIQITAPAKKVSKNLFKWAKKLNLESVV 68
Query: 115 GITGQVRRTKR--GELTVNAQKIIMLSKALNSIPETYYGLSDVEI--RYRKRYLDIISNS 170
+ G V+ ++ G + KI ++++A +P E+ R R+LD+ +
Sbjct: 69 AVRGIVKIKEKAPGGFEIIPTKIEVINEAKEPLPLDPTEKVPAELDTRLDYRFLDLRRPT 128
Query: 171 DSKIRFQQRSLLISQIRHFMEKKGFMEVETPIL--QPIYGGATADPFKTHHNILKADMYL 228
I F+ RS ++ +R F+ ++GF+EV TP L GG P + + +L
Sbjct: 129 VQAI-FRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPI----TYFEREAFL 183
Query: 229 RIAPELYLKRVLISGLTDQVFELNRNFRNEGVSS-RHNPEFTMIEAYWAYTDYRDMMKLV 287
+P+LY K+ L++ ++V+E+ FR E ++ RH E T I+ A+ D+ D+M ++
Sbjct: 184 GQSPQLY-KQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDHHDVMDIL 242
Query: 288 EDLCHNLAKTLHGTTDIPFGEKVISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAA 347
E+L + + + + P F+ L D EA A
Sbjct: 243 EELVVRVFEDVPERCAHQLETLEFKLEKP--------------EGKFVRLTYD-EAIEMA 287
Query: 348 QSIGITVENDALWGEVMMTIFEEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFE 407
+ G+ + WGE + T E+ + + + ITD+P +I PF + E
Sbjct: 288 NAKGVEIG----WGEDLSTEAEKALGEEMDGLYFITDWPTEIRPFYT-MPDEDNP----- 337
Query: 408 TYCNGWEICNAFSELNDPVE-----QRIRM-EQQVEQSHQRGEHTILDEDFLDAMTYGMP 461
EI +F + +E QRI + + VE+ +G + +D+L+A +YGMP
Sbjct: 338 ------EISKSFDLMYRDLEISSGAQRIHLHDLLVERIKAKGLNPEGFKDYLEAFSYGMP 391
Query: 462 PASGLGLGIDRLIMLLTNAPSIRDVILFPAQR 493
P +G GLG +R +M L +IR+ +LFP R
Sbjct: 392 PHAGWGLGAERFVMFLLGLKNIREAVLFPRDR 423
>gnl|CDD|179948 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional.
Length = 437
Score = 127 bits (321), Expect = 7e-30
Identities = 120/459 (26%), Positives = 205/459 (44%), Gaps = 79/459 (17%)
Query: 63 ITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQV 120
+T+AG V+ R+ G F+ + D SG IQ+ K D++ + + ++ +TG V
Sbjct: 19 VTLAGWVHEIRDLGGIAFLILRDRSGIIQV-VVKKKVDEELFETIKKLKRESVVSVTGTV 77
Query: 121 R---RTKRG-ELTVNAQKIIMLSKALNSIPETYYGLSDVEI--RYRKRYLDIISNSDSKI 174
+ + G E+ ++I +L+KA +P G E+ R R+LD+ +
Sbjct: 78 KANPKAPGGVEVIP--EEIEVLNKAEEPLPLDISGKVLAELDTRLDNRFLDL-RRPRVRA 134
Query: 175 RFQQRSLLISQIRHFMEKKGFMEVETP--ILQPIYGGATADPFKTHHNILKADMYLRIAP 232
F+ RS ++ R F+ + GF E+ TP + GGA P + YL +P
Sbjct: 135 IFKIRSEVLRAFREFLYENGFTEIFTPKIVASGTEGGAELFPIDYFEK----EAYLAQSP 190
Query: 233 ELYLKRVLISGLTDQVFELNRNFRNE-GVSSRHNPEFTMIEAYWAYTD-YRDMMKLVEDL 290
+LY K++++ ++VFE+ FR E +SRH E+T I+ + D + D+M L+E+L
Sbjct: 191 QLY-KQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYTSIDVEMGFIDDHEDVMDLLENL 249
Query: 291 CHNLAKTLHGTTDIPFGEKVISFKAPFACKSMLQLVKEATGLDFMLLKSD------QEAR 344
+ + + C+ L+L+ G++ + ++ EA
Sbjct: 250 LRYMYEDVAEN-----------------CEKELELL----GIELPVPETPIPRITYDEAI 288
Query: 345 VAAQSIGITVENDALWGEVMMTIFEEKIEKNIVNPTH------ITDFPKDISPF-AKEVA 397
+S G + WG+ + T E++ V + ITD+P + PF
Sbjct: 289 EILKSKGNEIS----WGDDLDT-EGERLLGEYVKEEYGSDFYFITDYPSEKRPFYTMP-- 341
Query: 398 GEKRLVERFETYCNGWEICNAFSELNDPVE-----QRI-RMEQQVEQSHQRGEHTILDED 451
+ EI +F L +E QRI R + VE ++G + E
Sbjct: 342 -----------DEDDPEISKSFDLLFRGLEITSGGQRIHRYDMLVESIKEKGLNPESFEF 390
Query: 452 FLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
+L+A YGMPP G GLG++RL M L +IR+ +LFP
Sbjct: 391 YLEAFKYGMPPHGGFGLGLERLTMKLLGLENIREAVLFP 429
>gnl|CDD|161887 TIGR00457, asnS, asparaginyl-tRNA synthetase. 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.
Length = 453
Score = 114 bits (288), Expect = 4e-26
Identities = 107/464 (23%), Positives = 190/464 (40%), Gaps = 63/464 (13%)
Query: 58 KSQDMITVAGRVYSSRNSG--MFMDIHDAS--GKIQIFTHKDTADQDSQNLLSMIDIGDI 113
D +TV+G V + R+S +F++++D S G IQ + + Q L S + G
Sbjct: 14 FVGDEVTVSGWVRTKRSSKKIIFLELNDGSSLGPIQAVINGEDNPYLFQLLKS-LTTGSS 72
Query: 114 IGITGQVRRT--KRGELTVNAQKIIMLSKALNSIPETY----------YGLSDVEIRYRK 161
+ +TG+V + K + + +KI ++ +A P+ Y + +R R
Sbjct: 73 VSVTGKVVESPGKGQPVELQVKKIEVVGEA---EPDDYPLQKKEHSLEFLRDIAHLRLRT 129
Query: 162 RYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATADPFKT-HHN 220
L + ++R + L I + ++ GF V PIL + F+
Sbjct: 130 NTLGAVM----RVR----NALSQAIHRYFQENGFTWVSPPILTSNDCEGAGELFRVSTDG 181
Query: 221 ILKA------DMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGV-SSRHNPEFTMIEA 273
I + + YL ++ +LYL+ ++ +V+ FR E +SRH EF MIE
Sbjct: 182 IDFSQDFFGKEAYLTVSGQLYLETYALA--LSKVYTFGPTFRAEKSNTSRHLSEFWMIEP 239
Query: 274 YWAYTDYRDMMKLVEDLCHNLAKTLHGTTDIPFGEKVISFKAPFACKSMLQLVKEATGLD 333
A+ + D+++L E L + K + +F + ++
Sbjct: 240 EMAFANLNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKR-----LENIINNK 294
Query: 334 FMLLKSDQEARVAAQSIGITVENDALWGEVMMTIFEEKI-EKNIVNPTHITDFPKDISPF 392
F + + +S E + WG+ + T E + E+ P +T++PKDI F
Sbjct: 295 FARITYTDAIEILKES-DKNFEYEDFWGDDLQTEHERFLAEEYFKPPVFVTNYPKDIKAF 353
Query: 393 AKEVAGEKRLVERFETYCNGW-EICNAFSELNDPVEQRI-RMEQQVEQSHQRGEHTILDE 450
++ + + V + G EI +R +++ + + G LD
Sbjct: 354 YMKLNDDGKTVAAMDLLAPGIGEIIGG--------SEREDDLDKLENRMKEMG----LDT 401
Query: 451 D----FLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
D +LD YG P SG GLG +RL+ +T +IRD I FP
Sbjct: 402 DALNWYLDLRKYGSVPHSGFGLGFERLLAYITGLENIRDAIPFP 445
>gnl|CDD|179678 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
Length = 450
Score = 95.9 bits (240), Expect = 2e-20
Identities = 118/478 (24%), Positives = 184/478 (38%), Gaps = 104/478 (21%)
Query: 63 ITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQV 120
+TV G V + R+SG F+ + D S Q+ KD ++ + + G + +TG V
Sbjct: 19 VTVRGWVRTKRDSGKIAFLQLRDGSCFKQLQVVKD-NGEEYFEEIKKLTTGSSVIVTGTV 77
Query: 121 RRTKR--GELTVNAQKIIMLSKALNSIPETY----------YGLSDVEIRYRKRYLDIIS 168
+ R + A KI ++ + PE Y + L ++ +L +
Sbjct: 78 VESPRAGQGYELQATKIEVIGED----PEDYPIQKKRHSIEF-LREI------AHLRPRT 126
Query: 169 NSDSKIRFQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATADPFKTHHNILKADM-- 226
N + + R+ L I F + GF+ V+TPI+ + F+ L
Sbjct: 127 NKFGAV-MRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRVTTLDLDFSKDF 185
Query: 227 -----YLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVS--SRHNPEFTMIEAYWAYTD 279
YL ++ +LY + L V+ FR E S RH EF MIE A+ D
Sbjct: 186 FGKEAYLTVSGQLYAE-AYAMALGK-VYTFGPTFRAEN-SNTRRHLAEFWMIEPEMAFAD 242
Query: 280 YRDMMKLVED-LCHNLAKTL-HGTTDIPFGEKVISFKAPFACKSMLQLVKEATGLDFMLL 337
D M L E+ L + + L + D+ F + + K ++ ++ F +
Sbjct: 243 LEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVD-------KGDIERLENFIESPFPRI 295
Query: 338 KSDQEARVAAQSIGITVENDALWGEVMMT-----IFEEKIEKNIVNPTHITDFPKDISPF 392
EA Q G E WG+ + + + EE +K P +T++PKDI F
Sbjct: 296 TYT-EAIEILQKSGKKFEFPVEWGDDLGSEHERYLAEEHFKK----PVFVTNYPKDIKAF 350
Query: 393 -------AKEVAGEKRLV----------ERFETYCNGWEICNAFSELNDPVEQRIRMEQQ 435
K VA L +R E D +E RI+
Sbjct: 351 YMRLNPDGKTVAAMDLLAPGIGEIIGGSQREERL--------------DVLEARIK---- 392
Query: 436 VEQSHQRGEHTILDEDF---LDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
E + ED+ LD YG P SG GLG +RL+ +T +IRDVI FP
Sbjct: 393 --------ELGLNKEDYWWYLDLRRYGSVPHSGFGLGFERLVAYITGLDNIRDVIPFP 442
>gnl|CDD|129551 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type. 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.
Length = 583
Score = 96.0 bits (239), Expect = 2e-20
Identities = 70/264 (26%), Positives = 134/264 (50%), Gaps = 33/264 (12%)
Query: 63 ITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQV 120
+T+AG V R+ G +F+D+ D SG +Q+ D D+ L + D++ + G+V
Sbjct: 18 VTLAGWVNRRRDLGGLIFIDLRDRSGIVQVV---CDPDADALKLAKGLRNEDVVQVKGKV 74
Query: 121 ---------RRTKRGELTVNAQKIIMLSKALNSIPETYYGLSDVEIRYRKRYLDIISNSD 171
R GE+ + A+ I +L+K+ ++ E+R + RYLD+ +
Sbjct: 75 SARPEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKTDAEEEVRLKYRYLDL-RRPE 133
Query: 172 SKIRFQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATAD-------PFKTHHNILKA 224
+ R + R + +R+F++++GF+E+ETP+L +T + P + H K
Sbjct: 134 MQQRLKLRHKVTKAVRNFLDQQGFLEIETPMLT----KSTPEGARDYLVPSRVH----KG 185
Query: 225 DMY-LRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDM 283
+ Y L +P+L+ K++L+ D+ +++ R FR+E + + PEFT I+ ++ D+
Sbjct: 186 EFYALPQSPQLF-KQLLMVSGVDRYYQIARCFRDEDLRADRQPEFTQIDMEMSFMTQEDV 244
Query: 284 MKLVEDLCHNLAKTLHGTT-DIPF 306
M+L+E L ++ + G PF
Sbjct: 245 MELIEKLVSHVFLEVKGIDLKKPF 268
Score = 74.0 bits (182), Expect = 8e-14
Identities = 43/124 (34%), Positives = 63/124 (50%), Gaps = 5/124 (4%)
Query: 368 FEEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYCNGWEICNAFSELNDP-V 426
FE+ E + H PKD E A E+ L E ++ NG E+ ++DP V
Sbjct: 432 FEKDKEGRLCAAHHPFTMPKDEDLENLEAAPEEALAEAYDLVLNGVELGGGSIRIHDPEV 491
Query: 427 EQRIRMEQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDV 486
++++ ++ R + L L+A YG PP +G LG+DRL+MLLT +IRDV
Sbjct: 492 QKKVFEILGIDPEEAREKFGFL----LEAFKYGTPPHAGFALGLDRLMMLLTGTDNIRDV 547
Query: 487 ILFP 490
I FP
Sbjct: 548 IAFP 551
>gnl|CDD|178491 PLN02903, PLN02903, aminoacyl-tRNA ligase.
Length = 652
Score = 81.8 bits (202), Expect = 4e-16
Identities = 67/251 (26%), Positives = 123/251 (49%), Gaps = 27/251 (10%)
Query: 61 DMITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITG 118
+T+ G V R+ G F+D+ D +G +Q+ T D ++ + + ++ + G
Sbjct: 73 SRVTLCGWVDLHRDMGGLTFLDVRDHTGIVQVVTLPDEF-PEAHRTANRLRNEYVVAVEG 131
Query: 119 QVR---------RTKRGELTVNAQKIIMLSKALNSIPETYYGLSDV------EIRYRKRY 163
VR + K G + V A+ + +L+ S+P + E+R R R
Sbjct: 132 TVRSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADEQKDSIKEEVRLRYRV 191
Query: 164 LDI-ISNSDSKIRFQQRSLLISQIRHFME-KKGFMEVETPIL-QPIYGGATADPFKTHHN 220
LD+ ++ +R + R ++ IR ++E GF+E+ETPIL + GA +
Sbjct: 192 LDLRRPQMNANLRLRHR--VVKLIRRYLEDVHGFVEIETPILSRSTPEGARDYLVPSR-- 247
Query: 221 ILKADMY-LRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSSRHNPEFTMIEAYWAYTD 279
+ Y L +P+L+ + +++SG D+ +++ R FR+E + + PEFT ++ A+T
Sbjct: 248 VQPGTFYALPQSPQLFKQMLMVSGF-DRYYQIARCFRDEDLRADRQPEFTQLDMELAFTP 306
Query: 280 YRDMMKLVEDL 290
DM+KL EDL
Sbjct: 307 LEDMLKLNEDL 317
Score = 61.7 bits (150), Expect = 4e-10
Identities = 22/38 (57%), Positives = 27/38 (71%)
Query: 453 LDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
L+A+ G PP G+ G+DRL+MLL A SIRDVI FP
Sbjct: 582 LEALDMGAPPHGGIAYGLDRLVMLLAGAKSIRDVIAFP 619
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 77.3 bits (190), Expect = 7e-15
Identities = 113/497 (22%), Positives = 209/497 (42%), Gaps = 74/497 (14%)
Query: 53 LQNDEKSQDMITVAGRVYSSRNSG--MFMDIHDASGKIQIFTH------KDTADQDSQ-N 103
L E + + RV ++R G FM + D S +Q K+ D Q
Sbjct: 71 LSKPELVDKTVLIRARVSTTRKKGKMAFMVLRDGSDSVQAMAAVEGDVPKEMIDFIGQIP 130
Query: 104 LLSMIDIGDIIGITGQ-VRRTKRGELTVNAQKIIMLSKALNSIPETYYGLS--------- 153
S++D+ + Q + T ++ + +KI ++++L ++P T S
Sbjct: 131 TESIVDVEATVCKVEQPITSTSHSDIELKVKKIHTVTESLRTLPFTLEDASRKESDEGAK 190
Query: 154 -DVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETP--ILQPIYGGA 210
+ + R R++D+ + + I F+ +S + R F+ F E+ +P I P GGA
Sbjct: 191 VNFDTRLNSRWMDLRTPASGAI-FRLQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGA 249
Query: 211 TADPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSS-RHNPEFT 269
FK + YL +P+LY K++++ G +VFE+ FR+E ++ RH EF
Sbjct: 250 NV--FKLEY--FNRFAYLAQSPQLY-KQMVLQGDVPRVFEVGPVFRSENSNTHRHLTEFV 304
Query: 270 MIEAYWAYTD-YRDMMKLVEDL-CHNLAKTLHGTTDIPFGEKVISFKAPFACKSMLQLVK 327
++ + Y +++ L E L + + T ++ + F+ P K + +K
Sbjct: 305 GLDVEMRINEHYYEVLDLAESLFNYIFERLATHTKELKAVCQQYPFE-PLVWKLTPERMK 363
Query: 328 EATGLDFMLLKSDQE------ARVAAQSIGITVENDALWGEVMMTIFEEKIE-KNIVNPT 380
E L ++ E ARV + N E++ T+ EEK+ + +N T
Sbjct: 364 E---LGVGVISEGVEPTDKYQARVHNMDSRMLRINYMHCIELLNTVLEEKMAPTDDINTT 420
Query: 381 H-----------------ITD-FPKDISPF-AKEVAGEKRLVERFETYCNGWEICNAFSE 421
+ I+D FP PF E ++R ++ + G EI +
Sbjct: 421 NEKLLGKLVKERYGTDFFISDRFPSSARPFYTMECKDDERFTNSYDMFIRGEEISSGAQR 480
Query: 422 LNDP--VEQRIRMEQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTN 479
++DP + R +M V+ + + +++D+ G P G G+G++R++ML
Sbjct: 481 IHDPDLLLARAKM-LNVDLTPIK--------EYVDSFRLGAWPHGGFGVGLERVVMLYLG 531
Query: 480 APSIRDVILFP--AQRV 494
++R LFP QR
Sbjct: 532 LSNVRLASLFPRDPQRT 548
>gnl|CDD|179042 PRK00476, aspS, aspartyl-tRNA synthetase; Validated.
Length = 588
Score = 76.6 bits (190), Expect = 1e-14
Identities = 56/185 (30%), Positives = 90/185 (48%), Gaps = 34/185 (18%)
Query: 36 HFHRDITNAEVREKYSHLQNDEKSQDMITVAGRVYSSRNSG--MFMDIHDASGKIQIFTH 93
H R E+RE SH+ + +T+ G V+ R+ G +F+D+ D G +Q+
Sbjct: 1 HMMRTHYCGELRE--SHV--GQT----VTLCGWVHRRRDHGGLIFIDLRDREGIVQV--- 49
Query: 94 KDTADQDSQNLLSMIDIG--DIIGITGQVRRTKRGELTVN-----------AQKIIMLSK 140
D D++ + +I +TG VR R E TVN A ++ +L+K
Sbjct: 50 --VFDPDAEAFEVAESLRSEYVIQVTGTVR--ARPEGTVNPNLPTGEIEVLASELEVLNK 105
Query: 141 ALNSIPETYYGLSDV--EIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEV 198
+ ++P DV E+R + RYLD+ K + RS + S IR+F++ GF+E+
Sbjct: 106 S-KTLPFPIDDEEDVSEELRLKYRYLDLRRPEMQK-NLKLRSKVTSAIRNFLDDNGFLEI 163
Query: 199 ETPIL 203
ETPIL
Sbjct: 164 ETPIL 168
Score = 74.7 bits (185), Expect = 4e-14
Identities = 26/47 (55%), Positives = 30/47 (63%), Gaps = 4/47 (8%)
Query: 452 FLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFPAQRVKNGS 498
LDA+ YG PP G+ G+DRL+MLL A SIRDVI FP K S
Sbjct: 518 LLDALKYGAPPHGGIAFGLDRLVMLLAGADSIRDVIAFP----KTQS 560
>gnl|CDD|180575 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 74.3 bits (183), Expect = 6e-14
Identities = 90/369 (24%), Positives = 141/369 (38%), Gaps = 78/369 (21%)
Query: 156 EIRYRKRYLDIISNSDSKIR-------FQQRSLLISQIRHFMEKKGFMEVETPILQPI-- 206
RY K Y + + S I + +S ++ R F++ +GF+EV PI+ P
Sbjct: 3 LERYPKEYEEFLRMSWKHISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTD 62
Query: 207 --YGGATADPFKTHH-NILKADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSS- 262
G + P K + + YL + L+ K++ + L ++F L+ NFR E V
Sbjct: 63 PLMGLGSDLPVKQISIDFYGVEYYLADSMILH-KQLALRML-GKIFYLSPNFRLEPVDKD 120
Query: 263 --RHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTL---HGTTDIPFGEKVISFKAPF 317
RH EFT ++ D ++M L+EDL L K L H FG + K PF
Sbjct: 121 TGRHLYEFTQLDIEIEGADLDEVMDLIEDLIKYLVKELLEEHEDELEFFGRDLPHLKRPF 180
Query: 318 -------ACKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGITVENDALWGEVMMTIFEE 370
A + + + G+D L S+ E + FEE
Sbjct: 181 KRITHKEAVEILNEEGCR--GIDLEELGSEGEK-------------------SLSEHFEE 219
Query: 371 KIEKNIVNPTHITDFPKDISPF----AKEVAGEKR-----LVERFETYCNGWEICNAFSE 421
P I D PK F E G R L E + +G E + E
Sbjct: 220 --------PFWIIDIPKGSREFYDREDPERPGVLRNYDLLLPEGYGEAVSGGEREYEYEE 271
Query: 422 LNDPVEQRIRMEQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAP 481
+ +RIR + ++ +L+ G P++G G+G++RL +
Sbjct: 272 ----IVERIREHGVDPEKYK---------WYLEMAKEGPLPSAGFGIGVERLTRYICGLR 318
Query: 482 SIRDVILFP 490
IR+V FP
Sbjct: 319 HIREVQPFP 327
>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA
synthetase/aspartyl/glutamyl-tRNA amidotransferase
subunit C; Provisional.
Length = 706
Score = 68.5 bits (167), Expect = 4e-12
Identities = 64/256 (25%), Positives = 119/256 (46%), Gaps = 35/256 (13%)
Query: 63 ITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQV 120
+ +AG V + R+ G +F+ + D +G IQ + A D L + + + + G+V
Sbjct: 21 VCLAGWVDAFRDHGELLFIHLRDRNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGEV 80
Query: 121 RRTKRGELTVNAQ----KIIMLSKALNSIPETY---YGLSDV----------------EI 157
++ R E T N I + + L+ + + + +SD ++
Sbjct: 81 QK--RLEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAGAGSAGADAVNEDL 138
Query: 158 RYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATAD---P 214
R + RYLDI + +R +I R F++ +GF+E+ETPIL D P
Sbjct: 139 RLQYRYLDIRRPAMQD-HLAKRHRIIKCARDFLDSRGFLEIETPILTKSTPEGARDYLVP 197
Query: 215 FKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNEGVSSRHNPEFTMIEAY 274
+ H A L +P+L+ + ++I+G ++ F+L R FR+E + PEFT ++
Sbjct: 198 SRIHPKEFYA---LPQSPQLFKQLLMIAGF-ERYFQLARCFRDEDLRPNRQPEFTQLDIE 253
Query: 275 WAYTDYRDMMKLVEDL 290
++ D + +L+E+L
Sbjct: 254 ASFIDEEFIFELIEEL 269
Score = 51.1 bits (122), Expect = 6e-07
Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 452 FLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFPAQR 493
FL A + PP G+ LG+DR++ ++ PSIR+VI FP R
Sbjct: 534 FLRAFDFAAPPHGGIALGLDRVVSMILQTPSIREVIAFPKNR 575
>gnl|CDD|178442 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 63.6 bits (155), Expect = 1e-10
Identities = 90/363 (24%), Positives = 156/363 (42%), Gaps = 74/363 (20%)
Query: 156 EIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGAT---A 212
+ R R LD+ + ++ I F+ +S + + R F+ KGF+E+ TP L GA+ +
Sbjct: 206 DTRLNNRVLDLRTPANQAI-FRIQSQVCNLFREFLLSKGFVEIHTPKL---IAGASEGGS 261
Query: 213 DPFKTHHNILKADMYLRIAPELYLKRVLISGLTDQVFELNRNFRNE-GVSSRHNPEFTMI 271
F+ + A L +P+L+ K++ I G +VFE+ FR E + RH EFT +
Sbjct: 262 AVFRLDYKGQPA--CLAQSPQLH-KQMAICGDFRRVFEIGPVFRAEDSFTHRHLCEFTGL 318
Query: 272 EAYWAYTD-YRDMMKLVEDLC--------HNLAKTLHGTTDIPFGEKVISFKAPFACKSM 322
+ + Y +++ +V++L K L + I + PF
Sbjct: 319 DLEMEIKEHYSEVLDVVDELFVAIFDGLNERCKKEL----------EAIREQYPF---EP 365
Query: 323 LQLVKEATGLDF-----MLLKSDQEARVAAQSIG-ITVENDALWGEVMMTIFEEKIEKNI 376
L+ + + L F ML +EA V +G + E+ E+ +
Sbjct: 366 LKYLPKTLRLTFAEGIQML----KEAGVEVDPLGDLNTES-------------ERKLGQL 408
Query: 377 VNPTHITDF------PKDISPF-AKEVAGEKRLVERFETYCNGWEICNAFSELNDP--VE 427
V + TDF P + PF + + F+ + G EI + ++DP +E
Sbjct: 409 VKEKYGTDFYILHRYPLAVRPFYTMPCPDDPKYSNSFDVFIRGEEIISGAQRVHDPELLE 468
Query: 428 QRIRMEQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVI 487
+R E ++ TI ++D+ YG PP G G+G++R++ML +IR
Sbjct: 469 KRAE-ECGIDVK------TI--STYIDSFRYGAPPHGGFGVGLERVVMLFCGLNNIRKTS 519
Query: 488 LFP 490
LFP
Sbjct: 520 LFP 522
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 59.2 bits (143), Expect = 2e-09
Identities = 74/270 (27%), Positives = 108/270 (40%), Gaps = 52/270 (19%)
Query: 242 SGLTDQVFELNRNFRNEGV-SSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTL-- 298
+ L+D V+ FR E +SRH EF MIE A+ D D M + K +
Sbjct: 319 TALSD-VYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYILE 377
Query: 299 HGTTDIPFG----EK-VISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGIT 353
+ D+ F EK +I + K+ +QL T +LLK+ ++
Sbjct: 378 NCKEDMEFFNTWIEKGIIDRLSDVVEKNFVQL--SYTDAIELLLKAKKK----------- 424
Query: 354 VENDALWGEVMMTIFEEKIEKNIVN--PTHITDFPKDISPF-------AKEVAGEKRLVE 404
E WG + + E I + P I D+PK+I F K VA LV
Sbjct: 425 FEFPVKWGLDLQSEHERYITEEAFGGRPVIIRDYPKEIKAFYMRENDDGKTVAAMDMLVP 484
Query: 405 RFETYCNGWEICNAFSELNDPVEQRIRMEQQVEQSHQRGEHTILDED----FLDAMTYGM 460
R G QR E+++E R + L+++ +LD YG
Sbjct: 485 RVGELIGG--------------SQR---EERLEYLEARLDELKLNKESYWWYLDLRRYGS 527
Query: 461 PPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
P +G GLG +RL+ T +IRD I FP
Sbjct: 528 VPHAGFGLGFERLVQFATGIDNIRDAIPFP 557
>gnl|CDD|178147 PLN02532, PLN02532, asparagine-tRNA synthetase.
Length = 633
Score = 58.3 bits (141), Expect = 4e-09
Identities = 57/258 (22%), Positives = 103/258 (39%), Gaps = 29/258 (11%)
Query: 248 VFELNRNFRNEG-VSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTL--HGTTDI 304
V+ FR + S+RH E M+E A+++ D M ED L K + + + D+
Sbjct: 392 VYTFGPRFRADRIDSARHLAEMWMVEVEMAFSELEDAMNCAEDYFKFLCKWVLENCSEDM 451
Query: 305 PFGEKVISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAAQSIGITVENDALWG--- 361
F K I K++ ++ + + + Q+ E WG
Sbjct: 452 KFVSKRID-------KTISTRLEAIISSSLQRISYTEAVDLLKQATDKKFETKPEWGIAL 504
Query: 362 -EVMMTIFEEKIEKNIVNPTHITDFPKDISPFAKEVAGEKRLVERFETYC--NGWEICNA 418
++ ++I K P I ++PK++ PF + + + V F+ G I +
Sbjct: 505 TTEHLSYLADEIYKK---PVIIYNYPKELKPFYVRLNDDGKTVAAFDLVVPKVGTVITGS 561
Query: 419 FSELNDPVEQRIRM-EQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLL 477
+E +R+ + ++E+ E E +LD +G SG LG + +++
Sbjct: 562 QNE------ERMDILNARIEELGLPREQY---EWYLDLRRHGTVKHSGFSLGFELMVLFA 612
Query: 478 TNAPSIRDVILFPAQRVK 495
T P +RD I FP K
Sbjct: 613 TGLPDVRDAIPFPRSWGK 630
>gnl|CDD|185610 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional.
Length = 586
Score = 55.8 bits (134), Expect = 3e-08
Identities = 72/285 (25%), Positives = 114/285 (40%), Gaps = 54/285 (18%)
Query: 227 YLRIAPELYLKRVLISGLTDQVFELNRNFRNEGV-SSRHNPEFTMIEAYWAYTDYRDMMK 285
+L ++ +L L+ L S + D V+ FR E +SRH EF MIE A+ D D M+
Sbjct: 327 FLTVSGQLSLEN-LCSSMGD-VYTFGPTFRAENSHTSRHLAEFWMIEPEIAFADLYDNME 384
Query: 286 LVED-----LCHNLAKTLHGTTDIPFGEKVISFKAPFACKSMLQ----LVKEATGLDFML 336
L E + + L DI + E+ + K++L + +D +
Sbjct: 385 LAESYIKYCIGYVLNNNFD---DIYYFEENVETGLISRLKNILDEDFAKITYTNVIDLLQ 441
Query: 337 LKSDQEARVAAQSIGITVENDALWGEVMMTIFEEKIEKNIVN-PTHITDFPKDISPF--- 392
SD E WG + + E + + I P + ++PKD+ F
Sbjct: 442 PYSDS------------FEVPVKWGMDLQSEHERFVAEQIFKKPVIVYNYPKDLKAFYMK 489
Query: 393 ----AKEVAGEKRLVERFETYCNGWEICNAFSELNDPV-EQRIRMEQQ--VEQSHQRGEH 445
K VA LV + G + + L+ + E+++ ME Q + G H
Sbjct: 490 LNEDQKTVAAMDVLVPKIGEVIGGSQREDNLERLDKMIKEKKLNMESYWWYRQLRKFGSH 549
Query: 446 TILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFP 490
P +G GLG +RLIML+T +I+D I FP
Sbjct: 550 ----------------PHAGFGLGFERLIMLVTGVDNIKDTIPFP 578
>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase.
Length = 572
Score = 52.7 bits (126), Expect = 2e-07
Identities = 66/257 (25%), Positives = 100/257 (38%), Gaps = 35/257 (13%)
Query: 248 VFELNRNFRNEGV-SSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGT--TDI 304
V+ FR E +SRH EF M+E A+ D D M E + K L D+
Sbjct: 329 VYTFGPTFRAENSHTSRHLAEFWMVEPEIAFADLEDDMNCAEAYVKYMCKWLLDKCFDDM 388
Query: 305 PFGEKVISFKAPFACKSMLQLVKEATGLDFMLLKSDQEARVAAQSI--GITVENDALWGE 362
K C L++V F + + + +++ G +N+ WG
Sbjct: 389 ELMAKNFDS----GCIDRLRMVASTP---FGRITYTEAIELLEEAVAKGKEFDNNVEWGI 441
Query: 363 VMMTIFEEKIEKNIVN-PTHITDFPKDISPF-------AKEVAGEKRLVERFETYCNGWE 414
+ + E + + + P + ++PK I F K VA LV + G
Sbjct: 442 DLASEHERYLTEVLFQKPLIVYNYPKGIKAFYMRLNDDEKTVAAMDVLVPKVGELIGG-- 499
Query: 415 ICNAFSELNDPVEQRI-RMEQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRL 473
+ E D ++QRI M +E E +LD YG G GLG +R+
Sbjct: 500 --SQREERYDVIKQRIEEMGLPIEPY----------EWYLDLRRYGTVKHCGFGLGFERM 547
Query: 474 IMLLTNAPSIRDVILFP 490
I+ T +IRDVI FP
Sbjct: 548 ILFATGIDNIRDVIPFP 564
>gnl|CDD|181936 PRK09537, pylS, pyrolysyl-tRNA synthetase; Reviewed.
Length = 417
Score = 39.8 bits (93), Expect = 0.001
Identities = 38/142 (26%), Positives = 56/142 (39%), Gaps = 17/142 (11%)
Query: 142 LNSIPETYYGLSDVEIRYRKRYLDIISNSDSKIRFQQRSLLISQIRHFMEKKGFMEVETP 201
LNS + L + RK L + D R L I F +GF+E+++P
Sbjct: 172 LNSEKPKFKELESELVSRRKNDLKQMYEED---REDYLGKLERDITKFFVDRGFLEIKSP 228
Query: 202 ILQPI-----YGGATADPFKTHHNILKADMYLR--IAPELY-----LKRVLISGLTDQVF 249
IL P G + + LR +AP LY L R+L + ++F
Sbjct: 229 ILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPGLYNYLRKLDRILPDPI--KIF 286
Query: 250 ELNRNFRNEGVSSRHNPEFTMI 271
E+ +R E H EFTM+
Sbjct: 287 EIGPCYRKESDGKEHLEEFTMV 308
>gnl|CDD|131420 TIGR02367, PylS, pyrrolysyl-tRNA synthetase. 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.
Length = 453
Score = 35.5 bits (81), Expect = 0.037
Identities = 30/99 (30%), Positives = 45/99 (45%), Gaps = 14/99 (14%)
Query: 185 QIRHFMEKKGFMEVETPILQP---IYGGATADPFKTHHNILKAD--MYLR--IAPELY-- 235
I F +GF+E+++PIL P I + + I + D LR +AP LY
Sbjct: 248 DITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPNLYNY 307
Query: 236 ---LKRVLISGLTDQVFELNRNFRNEGVSSRHNPEFTMI 271
L R L + ++FE+ +R E H EFTM+
Sbjct: 308 LRKLDRALPDPI--KIFEIGPCYRKESDGKEHLEEFTML 344
>gnl|CDD|180491 PRK06253, PRK06253, O-phosphoseryl-tRNA synthetase; Reviewed.
Length = 529
Score = 32.6 bits (75), Expect = 0.24
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 458 YGMP-PASGLGLGIDRLIMLLTNAPSIRD 485
YG+ P LGLG++RL M+L A +R+
Sbjct: 312 YGIDVPVMNLGLGVERLAMILYGAEDVRE 340
>gnl|CDD|179722 PRK04036, PRK04036, DNA polymerase II small subunit; Validated.
Length = 504
Score = 32.6 bits (75), Expect = 0.25
Identities = 15/88 (17%), Positives = 39/88 (44%), Gaps = 10/88 (11%)
Query: 46 VREKYSH-----LQNDEKSQDMITVAGRVYSSRNSG---MFMDIHDASGKIQIFTHKDTA 97
+R + +H L+ ++ + +++ G V R++ +++ D +G + KD
Sbjct: 134 IRGRVNHRPIESLKKLKRGGEEVSIIGMVSDIRSTKNGHKIVELEDTTGTFPVLIMKD-- 191
Query: 98 DQDSQNLLSMIDIGDIIGITGQVRRTKR 125
+D L + + ++IG+ G +
Sbjct: 192 REDLAELADELLLDEVIGVEGTLSGDGG 219
>gnl|CDD|161893 TIGR00468, pheS, phenylalanyl-tRNA synthetase, alpha subunit. 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.
Length = 294
Score = 31.9 bits (73), Expect = 0.35
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 248 VFELNRNFRNEGVSSRHNPEFTMIEAYWAYTD--YRDMMKLVEDLCHNLAKTLHGTTDIP 305
+F R FRN+ V + H PEF +E + + ++ +E+ + G T+I
Sbjct: 153 IFSPGRVFRNDTVDATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFLKKMF----GETEIR 208
Query: 306 F 306
F
Sbjct: 209 F 209
>gnl|CDD|179031 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 31.0 bits (71), Expect = 0.70
Identities = 24/121 (19%), Positives = 40/121 (33%), Gaps = 24/121 (19%)
Query: 34 PAHFHRDITNAEVREKYSHLQNDEKSQDMITVAGRVYSSRNSGMFMDIHDASGKIQIFTH 93
P + I E+ + +E+ + V G V+ ++I + I T
Sbjct: 214 PVQIGKKIDKEEIT-PMKEINEEERR---VVVEGYVFK-------VEIKELKSGRHILTF 262
Query: 94 KDTADQDS------------QNLLSMIDIGDIIGITGQVRR-TKRGELTVNAQKIIMLSK 140
K T S I GD + + G V+ T +L +NAQ I +
Sbjct: 263 KITDYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTFTRDLVMNAQDINEIKH 322
Query: 141 A 141
Sbjct: 323 P 323
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728).
Length = 262
Score = 30.1 bits (68), Expect = 1.3
Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 11/78 (14%)
Query: 73 RNSGMFMDIHDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQVRRTKRGELTVNA 132
R +FMD D + I K +DS I+ + + R + E+T
Sbjct: 176 RLITIFMDYPDIDTETAILRAKTDVAEDSAA--------TIVRLVREFRAS-GDEITSGL 226
Query: 133 QKIIMLSK--ALNSIPET 148
+ +M+++ IP
Sbjct: 227 RASLMIAEVATQQDIPVD 244
>gnl|CDD|161882 TIGR00443, hisZ_biosyn_reg, ATP phosphoribosyltransferase,
regulatory subunit. 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.
Length = 314
Score = 29.9 bits (68), Expect = 1.7
Identities = 10/52 (19%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 176 FQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATADPFKTHHNILKADMY 227
++ + Q++ G+ E+ TP L+ + D IL D++
Sbjct: 8 AARKEEIERQLQDVFRSWGYQEIITPTLEYL------DTLSAGGGILNEDLF 53
>gnl|CDD|183413 PRK12295, hisZ, ATP phosphoribosyltransferase regulatory subunit;
Provisional.
Length = 373
Score = 29.5 bits (67), Expect = 2.2
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 6/30 (20%)
Query: 186 IRHFMEKKGFMEVETPILQPIYGGATADPF 215
+ E G + V+ PILQP A+PF
Sbjct: 14 LLASFEAAGAVRVDPPILQP------AEPF 37
>gnl|CDD|179764 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 29.0 bits (66), Expect = 2.6
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 467 GLGIDRLIMLLTNAPSIRDV 486
GLGI+RL ML IRD+
Sbjct: 458 GLGIERLAMLRLGLDDIRDL 477
>gnl|CDD|183410 PRK12292, hisZ, ATP phosphoribosyltransferase regulatory subunit;
Provisional.
Length = 391
Score = 29.1 bits (66), Expect = 2.8
Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 458 YGMP-PASGLGLGIDRLIMLL--TNAPSIRDVILFPAQ 492
+G PA+G L +DRL+ L + +D+++ P
Sbjct: 300 FGRARPATGFSLDLDRLLELQLELPVEARKDLVIAPDS 337
>gnl|CDD|169396 PRK08349, PRK08349, hypothetical protein; Validated.
Length = 198
Score = 28.9 bits (65), Expect = 3.0
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 24 MLRKSLAEVYPAHFHRDITNAE-VREKYSHLQ--NDEKSQDMITV 65
MLR+ EVYP HF +D E VRE LQ + K +D + V
Sbjct: 20 MLRRG-VEVYPVHFRQDEKKEEKVRELVERLQELHGGKLKDPVVV 63
>gnl|CDD|179758 PRK04163, PRK04163, exosome complex RNA-binding protein Rrp4;
Provisional.
Length = 235
Score = 28.7 bits (65), Expect = 3.8
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 9/73 (12%)
Query: 64 TVAGRVYSSRNSGMFMDI---HDASGKIQIFTHKDTADQDSQNLLSMIDIGDIIGITGQV 120
V G+V SG +DI + A + + + + +L +DIGD I +V
Sbjct: 66 LVIGKVTDVTFSGWEVDINSPYKAYLPVSEVLGRP-VNVEGTDLRKYLDIGDY--IIAKV 122
Query: 121 R---RTKRGELTV 130
+ RT+ LT+
Sbjct: 123 KDVDRTRDVVLTL 135
>gnl|CDD|177935 PLN02299, PLN02299, 1-aminocyclopropane-1-carboxylate oxidase.
Length = 321
Score = 28.6 bits (64), Expect = 3.8
Identities = 20/70 (28%), Positives = 29/70 (41%), Gaps = 19/70 (27%)
Query: 263 RHNPEFTMIEAYWAYTDYRDMMK------------LVEDLCHNL-------AKTLHGTTD 303
RH PE + + +YR +MK L++ LC NL K HG+
Sbjct: 96 RHLPESNLADIPDLDDEYRKVMKDFALELEKLAEELLDLLCENLGLEKGYLKKAFHGSKG 155
Query: 304 IPFGEKVISF 313
FG KV ++
Sbjct: 156 PTFGTKVSNY 165
>gnl|CDD|161881 TIGR00442, hisS, histidyl-tRNA synthetase. 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.
Length = 397
Score = 28.6 bits (65), Expect = 3.9
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 462 PASGLGLGIDRLIMLL 477
PA G +GI+RL++LL
Sbjct: 295 PAVGFAIGIERLLLLL 310
>gnl|CDD|178812 PRK00037, hisS, histidyl-tRNA synthetase; Reviewed.
Length = 412
Score = 28.6 bits (65), Expect = 4.5
Identities = 10/22 (45%), Positives = 16/22 (72%), Gaps = 2/22 (9%)
Query: 458 YGMP--PASGLGLGIDRLIMLL 477
+G P PA G +G++RL++LL
Sbjct: 290 FGGPPTPAVGFAIGVERLLLLL 311
Score = 27.8 bits (63), Expect = 6.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 182 LISQIRHFMEKKGFMEVETPIL 203
+ IR E+ GF E+ TPI
Sbjct: 24 VEDTIREVFERYGFSEIRTPIF 45
>gnl|CDD|183476 PRK12366, PRK12366, replication factor A; Reviewed.
Length = 637
Score = 28.1 bits (63), Expect = 5.1
Identities = 27/112 (24%), Positives = 42/112 (37%), Gaps = 24/112 (21%)
Query: 57 EKSQDMITVAGRVYSSRNSGMF------------MDIHDASGKIQIFTHKDTADQDSQNL 104
E+ Q + + GR+ N F + I D +G I++ D A L
Sbjct: 70 EEGQINVEITGRIIEISNIKTFTRKDGSTGKLANITIADNTGTIRLTLWNDNAK-----L 124
Query: 105 LSMIDIGDIIGITGQVRRTKRGELTVNAQ---KIIMLSKALNS----IPETY 149
L + GD+I I R ++ +N+ +I L K S I E Y
Sbjct: 125 LKGLKEGDVIKIENARSRKWNNDVELNSGSETRIDKLEKYDESRYPIIKENY 176
>gnl|CDD|178445 PLN02853, PLN02853, Probable phenylalanyl-tRNA synthetase alpha
chain.
Length = 492
Score = 28.1 bits (63), Expect = 5.7
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 249 FELNRNFRNEGVSSRHNPEFTMIE 272
F ++R FRNE V H EF +E
Sbjct: 346 FSIDRVFRNEAVDRTHLAEFHQVE 369
>gnl|CDD|129562 TIGR00470, sepS, O-phosphoseryl-tRNA(Cys) synthetase. 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.
Length = 533
Score = 27.9 bits (62), Expect = 6.1
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 458 YGMP-PASGLGLGIDRLIMLLTNAPSIRDVI 487
Y + P LGLG++RL M+L +R ++
Sbjct: 311 YNIDVPVMNLGLGVERLAMILYGYEDVRAMV 341
>gnl|CDD|180051 PRK05388, argJ, bifunctional ornithine
acetyltransferase/N-acetylglutamate synthase protein;
Validated.
Length = 395
Score = 27.8 bits (63), Expect = 6.5
Identities = 21/103 (20%), Positives = 36/103 (34%), Gaps = 42/103 (40%)
Query: 279 DYRDMMKLVEDLCHNLAKTLHGTTDIPFGE---KVISFKAPFACKSMLQLVKEATGLDFM 335
D + + ++C +LAK + D GE K+I V A
Sbjct: 242 DLAAFEEALTEVCQDLAKQIVR--D---GEGATKLIEVT-----------VTGA------ 279
Query: 336 LLKSDQEARVAAQSI-----------GITVENDALWGEVMMTI 367
S+++AR A++I G D WG ++ +
Sbjct: 280 --ASEEDARKIAKAIANSPLVKTAIFG----EDPNWGRILAAV 316
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.319 0.134 0.383
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 8,168,131
Number of extensions: 536069
Number of successful extensions: 1169
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1097
Number of HSP's successfully gapped: 74
Length of query: 502
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 405
Effective length of database: 3,898,497
Effective search space: 1578891285
Effective search space used: 1578891285
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.5 bits)