BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0060.0004.p (484 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K8Z7.1 B3K8Z7_9BACI tRNA(Ile)-lysidine synthetase 479 e-133 B1DIF3.1 B1DIF3_9BACL tRNA(Ile)-lysidine synthetase 357 2e-96 C5D388.1 C5D388_9BACI tRNA(Ile)-lysidine synthetase 223 2e-56 C1TFV0.1 C1TFV0_9FIRM tRNA(Ile)-lysidine synthetase 218 1e-54 B7GFJ4.1 B7GFJ4_ANOFW tRNA(Ile)-lysidine synthase MesJ 217 2e-54 >B3K8Z7.1 B3K8Z7_9BACI tRNA(Ile)-lysidine synthetase Length = 476 Score = 479 bits (1232), Expect = e-133, Method: Compositional matrix adjust. Identities = 249/472 (52%), Positives = 313/472 (66%), Gaps = 2/472 (0%) Query: 4 MKELVESVLESAAEHGLWSPHDTIVVAVSGGPDSVALLHILHEISLNRMPLTLICAHVNH 63 ++ V+ + +AAE LWS D IVVAVSGGPDSVALLH+LHEIS +R PL LICAHV+H Sbjct: 6 LRTFVQHIERTAAEFDLWSEGDGIVVAVSGGPDSVALLHVLHEISQHRTPLRLICAHVHH 65 Query: 64 GFRPESVEEAEAVRAMAGRLGLPFELAEFDIPSLVKESGLGPEGAAREKRYQFLIDTAHR 123 GFR ES +EAE VR +A LGLP E A DIP+ ++ESG G + AAREKRY+FL+ TA + Sbjct: 66 GFRKESDQEAEMVRELAESLGLPLETAFIDIPAYMEESGKGGQEAAREKRYEFLLQTARK 125 Query: 124 YAARSVALAHHADDQAETVXXXXXXXXXXXXXXXXXWKRTEKKVELIRPFLRINKTALVS 183 + ARSVALAHHADDQAETV +KRTEKKVELIRPFLR+ K +V Sbjct: 126 HNARSVALAHHADDQAETVFMRLLRGSGLSGLGGIKFKRTEKKVELIRPFLRMYKADIVE 185 Query: 184 LCRQEGLPYAEDASNLMTEYRRNAVRLNLIPALEAYNPKVRQSLLQLSEIVQAEDEYMEA 243 LCR G YA D SNL T+YRRNA+RL + P LE YN + SL QL+EIVQ ED+++E Sbjct: 186 LCRVCGFQYAVDHSNLQTKYRRNAIRLEVFPFLERYNGQFSSSLNQLAEIVQQEDDFVEL 245 Query: 244 AAQKYFNELVLADAGKCTMQRALFTAIPSALQRRLIKLILNYLSADSSSLDFPKIEAVRR 303 A K F LV + G+ F + ALQRRLIKLILNYL +D + DF KIE VR Sbjct: 246 EAAKQFRSLVQENDGRLAFDAPSFLGLHVALQRRLIKLILNYLPSDQENTDFVKIETVRH 305 Query: 304 GTLQDYPTVWSLNMGGGLICMRQYDTIVFSSKPPQQESSYTYRLSLPH-PRVEIKEIGKV 362 G L D + W L++G G+ C+R+Y I F KPP+++ Y Y L P + +KEIGK+ Sbjct: 306 GILNDQRSNWRLDLGDGITCVREYGVIQFWPKPPEEQGQYIYILDSPDASELYVKEIGKM 365 Query: 363 LTMSVLERENFTVLGEDSGKMLAWFDSGELVLPLTIRSRLPGDTIRVMGLNGSXXXXXXX 422 LT+S L+ + + G +A FD+ EL PLT+R+R PGD +++MGLNGS Sbjct: 366 LTLS-LKTGSESRSGSRPSAFVADFDADELQFPLTVRNRQPGDKMKIMGLNGSKKVKDIL 424 Query: 423 XXXXXPSSERAAIPLVCDDLGNIVWIPGVRRSMHAAVGRHTASVLLLSLEDM 474 P S RA IP++CD G+IVWIPGVRRS+HAA GRHT+ VL + L D+ Sbjct: 425 IDEKIPPSVRARIPILCDGSGSIVWIPGVRRSVHAACGRHTSRVLRMELSDV 476 >B1DIF3.1 B1DIF3_9BACL tRNA(Ile)-lysidine synthetase Length = 475 Score = 357 bits (916), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 194/472 (41%), Positives = 273/472 (57%), Gaps = 8/472 (1%) Query: 6 ELVESVLESAAEHGLWSPHDTIVVAVSGGPDSVALLHILHEISLNRMPLTLICAHVNHGF 65 +L+ +++ A LWS D IV AVSGGPDS+ALLH+L + + + LT+I AHVNHGF Sbjct: 7 KLLTDMMKYRATEQLWSKGDRIVAAVSGGPDSMALLHLLWQAA-RQEQLTVIAAHVNHGF 65 Query: 66 RPE-SVEEAEAVRAMAGRLGLPFELAEFDIPSLVKESGLGPEGAAREKRYQFLIDTAHRY 124 R + S +EAE VR A +LG+PFE+ E D+P+ ++E+G+ + AAREKRY FL +TA +Y Sbjct: 66 RKDASRQEAEVVRQYAEKLGVPFEMIELDMPAYIEETGINAQSAAREKRYAFLHETAVKY 125 Query: 125 AARSVALAHHADDQAETVXXXXXXXXXXXXXXXXXWKRTEKKVELIRPFLRINKTALVSL 184 A ++ALAHHADDQAETV KR EK VELIRP LR+NK+ +V Sbjct: 126 GASAIALAHHADDQAETVLMRVIRGAGLTGLAGMAPKRKEKNVELIRPLLRMNKSDIVRY 185 Query: 185 CRQEGLPYAEDASNLMTEYRRNAVRLNLIPALEAYNPKVRQSLLQLSEIVQAEDEYMEAA 244 C + +PY D+SN Y RN VRL++IP L +NP++ SL +++++ AED++ME Sbjct: 186 CSERDVPYCLDSSNNERYYFRNVVRLDVIPYLSQFNPQLNHSLRRIADVAGAEDDWMELE 245 Query: 245 AQKYFNELVLADAGKCTMQRALFTAIPSALQRRLIKLILNYLSADSSSLDFPKIEAVRRG 304 Q+ F LV +C + + ALQRRLIKLILNYLS D+ F IE +R Sbjct: 246 GQRLFTSLVTLSPDECKLNAGELIGLHVALQRRLIKLILNYLSKDAEIASFDAIETMRLA 305 Query: 305 TLQDYPTVWSLNMGGGLICMRQYDTIVFS---SKPPQQESSYTYRLSLPHPRVEIKEIGK 361 P+ W + G G+ C+R+Y +I + + E SY + +S I G+ Sbjct: 306 AAPAAPSTWRYDAGSGVRCIREYSSIRWVRVLNASGTSEDSYAFSISGDSKSAFITAGGR 365 Query: 362 VLTMSVLERENFTVLGEDSGKMLAWFDSGELVLPLTIRSRLPGDTIRVMGLNGSXXXXXX 421 L + L+R + +G+ FD+ LV PL +R+R PGD I+V+GLNGS Sbjct: 366 ALHIERLKRGEAV---KPAGRSEVCFDADRLVFPLMVRNRQPGDRIQVLGLNGSKKVQDM 422 Query: 422 XXXXXXPSSERAAIPLVCDDLGNIVWIPGVRRSMHAAVGRHTASVLLLSLED 473 SER PL+ D ++WIPG+RRS HA G T L + +E+ Sbjct: 423 FVDEKIAPSERERYPLLVDANNRLLWIPGIRRSSHAQTGHETTDFLFIRMEN 474 >C5D388.1 C5D388_9BACI tRNA(Ile)-lysidine synthetase Length = 462 Score = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 150/478 (31%), Positives = 234/478 (48%), Gaps = 28/478 (5%) Query: 7 LVESVLESAAEHGLWSPHDTIVVAVSGGPDSVALLHILHEISLNRMPLTLICAHVNHGFR 66 ++ V E +H L +P+ T++V VSGGPDS+ALLH I +TLI AHV+H FR Sbjct: 1 MIAEVYEFIKKHELLTPNSTVIVGVSGGPDSLALLHFFWSIR-QEWNITLIAAHVDHMFR 59 Query: 67 -PESVEEAEAVRAMAGRLGLPFELAEFDIPSLVKESGLGPEGAAREKRYQFLIDTAHRYA 125 +S E+ V+ G+ E + D+P+ +ES LG + AAR+ RY+F + +Y Sbjct: 60 GKQSEEDMNFVKHFCAARGIICEAVQMDVPAFQRESKLGVQEAARQCRYRFFGELMKKYK 119 Query: 126 ARSVALAHHADDQAETVXXXXXXXXXXXXXXXXXWKRTEKKVELIRPFLRINKTALVSLC 185 A +AL HH DDQ ET+ KR +IRPFL I++ + + C Sbjct: 120 AHYLALGHHGDDQVETILMRLVRGSTSKGYAGIPAKRPFYGGYIIRPFLAISRADIDAYC 179 Query: 186 RQEGLPYAEDASNLMTEYRRNAVRLNLIPALEAYNPKVRQSLLQLSEIVQAEDEYMEAAA 245 RQ + DASN +Y RN R ++IP L+ NP++ + SE+V ++ ++E A Sbjct: 180 RQHQITPRHDASNDKDDYTRNRFRHHVIPFLKKENPRLHERFQSYSEMVMEDELFLEELA 239 Query: 246 QKYFNELVLADAGKCTMQRALFTAIPSALQRRLIKLILNYLSAD-SSSLDFPKIEAVRRG 304 + N+++ ++ F A+P LQRR I+LILNYL D SSL I + Sbjct: 240 KDAMNKVMEKQHDTVALKIEPFQAMPKPLQRRGIQLILNYLYKDIPSSLSSVHIHNIFTF 299 Query: 305 TLQDYPTVWSLNMGGGLICMRQYDTIVFSSKPPQQESSYTYRLSLPHPRVEIKEIGKVLT 364 +D+P+ L+ GL +R YD +F+ + +++ SY + L +P Sbjct: 300 LNRDHPS-GRLDFPHGLKVIRSYDRCLFTFREEKEDISYAFELDIP-------------- 344 Query: 365 MSVLERENFTVL---------GEDSGKMLAWFDSGELVLPLTIRSRLPGDTIRVMGLNGS 415 +VL N V+ E G + D + LPL +R+R GD + + G G+ Sbjct: 345 -AVLPLPNNHVIISEFWEHYPKEQKGNDVFIIDPEAVRLPLRVRTRRAGDRMTLKGTKGT 403 Query: 416 XXXXXXXXXXXXPSSERAAIPLVCDDLGNIVWIPGVRRSMHAAVGRHTASVLLLSLED 473 P ER P+V D GNI+W+P +++S A AS ++L ++ Sbjct: 404 KKIKEIFIEAKIPLYERDRWPIVEDAQGNILWVPKLKKSNFEATNVTKASYIVLHYKE 461 >C1TFV0.1 C1TFV0_9FIRM tRNA(Ile)-lysidine synthetase Length = 457 Score = 218 bits (555), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 153/462 (33%), Positives = 236/462 (51%), Gaps = 26/462 (5%) Query: 25 DTIVVAVSGGPDSVALLHILHEISLNRMPLTLICAHVNHGFR-PESVEEAEAVRAMAGRL 83 D I++AVSGGPDSVA+L +L + + + ++L AH+NH FR ES+ +AE VR +A R Sbjct: 6 DKILLAVSGGPDSVAMLDVLFCLR-HDLGISLHIAHLNHMFRGEESLGDAEFVRELAVRY 64 Query: 84 GLPFELAEFDIPSLVKESGLGPEGAAREKRYQFLIDTAHRYAARSVALAHHADDQAETVX 143 LP + ++PS ++++GL + AAR RY FL +TA + +A +ALAHHADDQAETV Sbjct: 65 NLPVTVRHINVPSFMEKTGLSSQPAARTVRYSFLDETAAQESASRIALAHHADDQAETVM 124 Query: 144 XXXXXXXXXXXXXXXXWKRTEKKVELIRPFLRINKTALVSLCRQEGLPYAEDASNLMTEY 203 R IRP L + + + C+++ L + D+SNL T+Y Sbjct: 125 LHFLRGSGAAGLRGMLPVRDNF---YIRPMLCLKRQDIEDYCKKKNLRWRVDSSNLKTDY 181 Query: 204 RRNAVRLNLIPALEA-YNPKVRQSLLQLSEIVQAEDEYMEAAAQKYFNEL-VLADAGKCT 261 RRN +R+ L+P LE YN + +L +L++I + E++Y+E + +N L VL AG+ Sbjct: 182 RRNKIRMYLLPLLEKEYNNNLTATLNRLADIFREEEDYLELMTRNEYNNLTVLKSAGEIC 241 Query: 262 MQRALFTAIPSALQRRLIKLILNYLSADSSSLDFPKI-EAVRRGTLQDYPTVWSLNMGGG 320 + F +P ALQRR+++L ++ L F ++ +AV L ++ SL Sbjct: 242 LNLKGFQQVPLALQRRILRLAWREITGGFRDLAFEQLGKAVI--LLTNHVGSGSLEFPRD 299 Query: 321 LICMRQYDTIVF-SSKPPQQESSYTYRLSLPHPRVEIKEIGKVLTMSVLERENFTVLGED 379 + +++YD+ F K Q SY Y L +P +V + EI + L V + + + E Sbjct: 300 VKVVKRYDSFSFIIGKDKQDGLSYYYDLPVP-GKVYLAEINRTLFCEVADTQ---AMDEK 355 Query: 380 SGKML----------AWFDSGELVLPLTIRSRLPGDTIRVMGLNGSXXXXXXXXXXXXPS 429 K AW D + PL +R R PGD +GL GS P Sbjct: 356 YDKSFLNRRRFSQDEAWLDYERVAFPLCVRGRQPGDIFEPLGLTGSMKLKKYFINQKVPC 415 Query: 430 SERAAIPLVCDDLGNIVWIPGVRRSMHAAVGRHTASVLLLSL 471 R +PLV + G I+W+ G++ S + T L L L Sbjct: 416 EVRDKVPLVIGE-GKIIWVGGMQISESVKINEVTTKFLHLFL 456 >B7GFJ4.1 B7GFJ4_ANOFW tRNA(Ile)-lysidine synthase MesJ Length = 460 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 142/456 (31%), Positives = 225/456 (49%), Gaps = 12/456 (2%) Query: 7 LVESVLESAAEHGLWSPHDTIVVAVSGGPDSVALLHILHEISLNRMPLTLICAHVNHGFR 66 ++E V E +H L T+VV VSGGPDS+ALLH L R + L+ AHV+H R Sbjct: 1 MLEVVHEFIEKHQLLERGTTVVVGVSGGPDSLALLHFLWS-ERERYDIQLVAAHVDHMLR 59 Query: 67 -PESVEEAEAVRAMAGRLGLPFELAEFDIPSLVKESGLGPEGAAREKRYQFLIDTAHRYA 125 +S E+ V+ + + E + D+P+ ++ +G G + AAR+ RY F +++ Sbjct: 60 GKQSEEDMHFVKHFCEQHSIICEATQLDVPAYMERTGKGVQEAARDCRYTFFEQVMYKHH 119 Query: 126 ARSVALAHHADDQAETVXXXXXXXXXXXXXXXXXWKRTEKKVELIRPFLRINKTALVSLC 185 AR VALAHH DDQ ETV KR ++RPFL I++ + C Sbjct: 120 ARCVALAHHGDDQIETVLMRLVRGSTTRGYAGIPVKRPFGSGYIVRPFLCIDRRQIEQYC 179 Query: 186 RQEGLPYAEDASNLMTEYRRNAVRLNLIPALEAYNPKVRQSLLQLSEIVQAEDEYMEAAA 245 +Q GL D SN +Y RN R ++P + N + + Q SE++ ++ ++E Sbjct: 180 QQNGLHARHDPSNEKDDYTRNRFRHAVLPFFKQENIRAHEHFQQFSEMISEDEAFLEQLT 239 Query: 246 QKYFNELVLADAGKCTMQRALFTAIPSALQRRLIKLILNYLSAD-SSSLDFPKIEAVRRG 304 ++ +V G + F +P LQRR I+LILNYL + SSL I + Sbjct: 240 KEELKHVVDQQEGCVRIDIPSFIRMPKPLQRRGIQLILNYLYGNVPSSLSSIHINQALQF 299 Query: 305 TLQDYPTVWSLNMGGGLICMRQYDTIVFSSKPPQQESSYTYRLSLPHPRVEIKEIGKVLT 364 + +P+ L+ GL +RQY+ +F+ QQ + Y P + G L Sbjct: 300 LKRQHPS-GMLHFPNGLKVIRQYEVCIFTF---QQRQTREYEFLFHVPDTLVLPNGCQLI 355 Query: 365 MSVLERENFTVLGEDSGKMLAWFDSGELVLPLTIRSRLPGDTIRVMGLNGSXXXXXXXXX 424 ++R F ED ++ ++ +L+LPL +R+R GD ++V G+ + Sbjct: 356 SQFVDRYPFI---EDDDHIV--IEADQLMLPLRVRTRKRGDRMKVKGMEHAKKISRIFID 410 Query: 425 XXXPSSERAAIPLVCDDLGNIVWIPGVRRSMHAAVG 460 P++ERA P+V D G+I+WIPGV++S++ A Sbjct: 411 EKIPANERAQWPVVEDAGGDIIWIPGVKKSVYTATN 446 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.319 0.134 0.388 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 2,553,199,042 Number of extensions: 96378336 Number of successful extensions: 266680 Number of sequences better than 1.0e-05: 1455 Number of HSP's gapped: 263851 Number of HSP's successfully gapped: 1471 Length of query: 484 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 344 Effective length of database: 1,741,754,103 Effective search space: 599163411432 Effective search space used: 599163411432 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 (21.7 bits) S2: 133 (55.8 bits)