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= 0001.3845.p (952 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134096253|ref|YP_001101328.1| DNA excision repair enzyme subu... 1737 0.0 gi|134095224|ref|YP_001100299.1| putative excinuclease ABC subun... 516 e-147 >gi|134096253|ref|YP_001101328.1| DNA excision repair enzyme subunit, with UvrBC [Herminiimonas arsenicoxydans] Length = 954 Score = 1737 bits (4499), Expect = 0.0, Method: Compositional matrix adjust. Identities = 841/950 (88%), Positives = 900/950 (94%) Query: 1 MEEIRIRGARTHNLKNINLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSAY 60 M+EIRIRGARTHNLKNINLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSAY Sbjct: 1 MDEIRIRGARTHNLKNINLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSAY 60 Query: 61 ARQFLQLMEKPDVDMIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYC 120 ARQFLQLMEKPDVD+IEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYC Sbjct: 61 ARQFLQLMEKPDVDLIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYC 120 Query: 121 PDHPEHPLEAQSVSQMVDAVLALPEDTKLMIMAPVVANRKGEHADLFEEMQAQGFVRFRI 180 PDHPE+PL AQSVSQMVDAVLA+PEDTKLMIMAPVVANRKGEH DLFE+MQAQGFVRFR+ Sbjct: 121 PDHPENPLAAQSVSQMVDAVLAMPEDTKLMIMAPVVANRKGEHLDLFEQMQAQGFVRFRV 180 Query: 181 QSGTGTAKVYEVDELPKLKKTEKHTIDVVIDRVKVKAEIKQRLAESFETALRLADGRAIA 240 QSGTG A +Y+VD LPKLKK EKHTI VVIDR+KVK +IKQRLAESFETALRLA+GRA+ Sbjct: 181 QSGTGNAHIYDVDALPKLKKAEKHTIAVVIDRIKVKPDIKQRLAESFETALRLAEGRALV 240 Query: 241 LEMDSGKEHLYSNKFACPICGYSLQELEPRLFSFNNPMGACPECDGLGHIEFFDPKRIVA 300 LEMD+G E LYSNKFACP+CGYSLQELEPRLFSFNNPMGACPECDGLGHIEFFDPKRIVA Sbjct: 241 LEMDTGVEQLYSNKFACPVCGYSLQELEPRLFSFNNPMGACPECDGLGHIEFFDPKRIVA 300 Query: 301 FPNLSLASGAIKGWDRRNQFYFQMLTSIAAFYDFDLDVPFEQLDDKAQQVVLYGSGRQAI 360 FPNLSLASGA+KGWDRRNQFYFQML+++A FYDFD+DVPFE+L + AQQ VL+GSG+Q I Sbjct: 301 FPNLSLASGAVKGWDRRNQFYFQMLSNLAEFYDFDIDVPFEKLPEVAQQAVLFGSGKQKI 360 Query: 361 PFAYVNERGRTVVKEHTFEGVVNNLQRRYRETDSMAVKEELAKFINEKQCPSCHGARLRV 420 PF YVNE+GRTV++EH FEGVVNNLQRRYRETDSMAVKEELAKFINEK+CPSCHGARLRV Sbjct: 361 PFTYVNEKGRTVIREHEFEGVVNNLQRRYRETDSMAVKEELAKFINEKECPSCHGARLRV 420 Query: 421 EARYVKVGTGKQQRAIYEVAATPLRETLSFFETLKLTGAKKEIADRIIKEIVSRLTFLNN 480 EAR V VG G+Q+RAIYEVAATPLR+TL FFETL LTGAKKEIADRI+KEI+SRL FLNN Sbjct: 421 EARNVLVGNGEQKRAIYEVAATPLRQTLEFFETLTLTGAKKEIADRIVKEIISRLKFLNN 480 Query: 481 VGLDYLSLERSADTLSGGEAQRIRLASQIGSGLTGVMYVLDEPSIGLHQRDNDRLIETLK 540 VGLDYLSLERSADTLSGGEAQRIRLASQIGSGLTGVMYVLDEPSIGLHQRDNDRLIETLK Sbjct: 481 VGLDYLSLERSADTLSGGEAQRIRLASQIGSGLTGVMYVLDEPSIGLHQRDNDRLIETLK 540 Query: 541 HLRDIGNTVLVVEHDEDAIRTADYVVDMGIGAGVHGGDVIAHGPLPDILKNKKSLTAKYL 600 HLRDIGN+VLVVEHDEDAIR ADYVVDMGIGAGVHGG+VIA G L DILK+K SLTA+YL Sbjct: 541 HLRDIGNSVLVVEHDEDAIRCADYVVDMGIGAGVHGGEVIAEGTLKDILKSKTSLTAQYL 600 Query: 601 NGSLEIAVPKKRTPCDESRMLTITGATGNNLKNVDLELPVGLLTCVTGVSGSGKSTLVND 660 NG+L IAVPKKRT + + ITGATGNNLK+V LELPVGLLTCVTGVSGSGKSTLVND Sbjct: 601 NGTLGIAVPKKRTLPNPKKQFVITGATGNNLKDVTLELPVGLLTCVTGVSGSGKSTLVND 660 Query: 661 TLYLSAARHLYGSQTEPAAHEAIGGLEHFDKVIAVDQAPIGRTPRSNPATYTGLFTPIRD 720 TLY +A+RHLYGSQ EPAAHE+I G EHFDKVI+VDQAPIGRTPRSNPATYTGLFTPIRD Sbjct: 661 TLYHAASRHLYGSQAEPAAHESISGFEHFDKVISVDQAPIGRTPRSNPATYTGLFTPIRD 720 Query: 721 LFATVPMAKERGYSAGRFSFNVKGGRCEACQGDGVIKVEMHFLPDVYVPCDVCHGKRYNR 780 LFATVP +KERGYSAGRFSFNVKGGRCEACQGDGVIKVEMHFLPDVYVPCDVCHG RYNR Sbjct: 721 LFATVPTSKERGYSAGRFSFNVKGGRCEACQGDGVIKVEMHFLPDVYVPCDVCHGNRYNR 780 Query: 781 ETLEVQYKGKNITEILDMTVEDAHEFFKPVPLIARKLQTLLDVGLGYIKLGQSATTLSGG 840 ET+E+ YKGKNITE+L+MTVE+AH FFKPVPLIARKLQTLLDVGLGYI+LGQSATTLSGG Sbjct: 781 ETMEIHYKGKNITEVLNMTVEEAHVFFKPVPLIARKLQTLLDVGLGYIRLGQSATTLSGG 840 Query: 841 EAQRVKLSLELSKRDTGRTLYILDEPTTGLHFHDIDLLLKVIHRLRDQGNTVTIIEHNLD 900 EAQRVKLSLELSKRDTGRTLYILDEPTTGLHFHDIDLLLKVIHRLRDQGNTV IIEHNLD Sbjct: 841 EAQRVKLSLELSKRDTGRTLYILDEPTTGLHFHDIDLLLKVIHRLRDQGNTVVIIEHNLD 900 Query: 901 VIKTADWIIDLGPEGGAGGGRIVAAGTPEEVARNPASVTGKYLAPLLKKK 950 VIKTADW+ID+GPEGGAGGG+I+ +GTPE++A+NPAS TGKYLAPLLK K Sbjct: 901 VIKTADWLIDMGPEGGAGGGQIIGSGTPEDLAKNPASFTGKYLAPLLKLK 950 >gi|134095224|ref|YP_001100299.1| putative excinuclease ABC subunit A2 UvrA [Herminiimonas arsenicoxydans] Length = 883 Score = 516 bits (1329), Expect = e-147, Method: Compositional matrix adjust. Identities = 311/738 (42%), Positives = 412/738 (55%), Gaps = 71/738 (9%) Query: 272 FSFNNPMGACPECDGLGHIEFFDPKRIVAFPNLSLASGAIKGWDRRNQFYFQMLTSIAAF 331 FS N P GACP C GLGH+ +V P+LS+ AI W + Q L I Sbjct: 145 FSPNTPQGACPTCYGLGHVYEVTEAIMVPDPSLSIRERAIASWP--PAWQGQNLRDILVS 202 Query: 332 YDFDLDVPFEQLDDKAQQVVLYGSGRQAIPF--AYVNERGRTVVKEH-------TFEGVV 382 +D+D P++ L K + +L+ +P + R +K TF G Sbjct: 203 MGYDVDRPWKDLPKKDRDWILFTEETPTVPVYAGFTPAETRAALKRKMEPSYMGTFTGAR 262 Query: 383 NNLQRRYRETDSMAVKEELAKFINEKQCPSCHGARLRVEARYVK-----VGTGKQQ---- 433 + + T S +++ +++F+ K CP+CHG RL+ EA V +G Q Sbjct: 263 RYVLHTFANTQSALMRKRVSRFMEGKPCPTCHGKRLKPEALSVTFAGVDIGAFMQMPLDQ 322 Query: 434 -------------RAIYEVAATPLRETL------------------SFFETLKLTGAKKE 462 RA AAT T T L+ K+ Sbjct: 323 LAALLEPIAQGDFRAHAAGAATDKEATRRDRAERAASGRAVHAVSPDVRRTSALSEEKRL 382 Query: 463 IADRIIKEIVSRLTFLNNVGLDYLSLERSADTLSGGEAQRIRLASQIGSGLTGVMYVLDE 522 A R+ +++RL L +GL YL+L+R+ TLS GE QR+RLA+Q+ S L GV+YVLDE Sbjct: 383 AAQRLAGGVMARLRQLRGLGLGYLTLDRATPTLSAGELQRLRLATQLSSLLFGVVYVLDE 442 Query: 523 PSIGLHQRDNDRLIETLKHLRDIGNTVLVVEHDEDAIRTADYVVDMGIGAGVHGGDVIAH 582 PS GLH D+ L + L LRD GN+V VVEHD D +R A ++VD+G AG GG V+ Sbjct: 443 PSAGLHPSDSQALYDALDRLRDAGNSVFVVEHDLDLMRRAQWLVDVGPDAGERGGRVLYS 502 Query: 583 GPLPDILKNKKSLTAKYLNGSLEIAVPKKRTPCDESRMLTITGATGNNLKNVDLELPVGL 642 G + K +S TA+YL EI P R + + L + +NL V+ +P+G+ Sbjct: 503 GEPDGLRKIAESRTARYLFD--EIPAPGSRA-REATGWLELQDIHRHNLHGVNARIPLGV 559 Query: 643 LTCVTGVSGSGKSTLVNDTLYLSAARHLYGSQTE-----------PAAHEAIGG-----L 686 LT VTG+SGSGKS+LV L HL G + E PA EA GG + Sbjct: 560 LTAVTGISGSGKSSLVAQALPELVLLHL-GHEPEDDVAESATSEGPAVIEATGGHLAGDV 618 Query: 687 EHFDKVIAVDQAPIGRTPRSNPATYTGLFTPIRDLFATVPMAKERGYSAGRFSFNVKGGR 746 + +++ VDQ PIGRTPRSN ATYTGLF +R LFA P A+ R Y AGRFSFNV GR Sbjct: 619 DAVQRLVQVDQKPIGRTPRSNLATYTGLFDHVRKLFAATPDARRRRYDAGRFSFNVAKGR 678 Query: 747 CEACQGDGVIKVEMHFLPDVYVPCDVCHGKRYNRETLEVQYKGKNITEILDMTVEDAHEF 806 CE C+G+G + VE+ F+P VY PC CHG RYN TL+VQ+ G+NI E+L MTV++A EF Sbjct: 679 CETCEGEGFVSVELLFMPSVYAPCPTCHGARYNEATLKVQWNGRNIAEVLQMTVDEASEF 738 Query: 807 FKPVPLIARKLQTLLDVGLGYIKLGQSATTLSGGEAQRVKLSLELSKRDTGRTLYILDEP 866 F +AR LQ L D+GLGY++LGQ AT LSGGEAQR+KL+ EL + GR+LY+LDEP Sbjct: 739 FAGEDAVARPLQLLRDIGLGYLRLGQPATELSGGEAQRIKLATELQRSQRGRSLYVLDEP 798 Query: 867 TTGLHFHDIDLLLKVIHRLRDQGNTVTIIEHNLDVIKTADWIIDLGPEGGAGGGRIVAAG 926 TTGLH D D LL + RL D GNTV +IEH++ + ADW+ID+GP GA GG IV AG Sbjct: 799 TTGLHASDADRLLVQLQRLVDAGNTVVMIEHDMRAVAQADWVIDVGPGAGAAGGSIVVAG 858 Query: 927 TPEEVARNPASVTGKYLA 944 +P++VAR S T +LA Sbjct: 859 SPQQVARKSGSRTAPFLA 876 Score = 114 bits (286), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 60/121 (49%), Positives = 90/121 (74%), Gaps = 1/121 (0%) Query: 4 IRIRGARTHNLKNINLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSAYARQ 63 + +RGAR +NLK +++ +PRN L+V +G+SGSGKSSLAF T+YAE QRRY ES++ YAR+ Sbjct: 19 VEVRGARENNLKEVDVSIPRNALVVFSGVSGSGKSSLAFGTIYAEAQRRYFESVAPYARR 78 Query: 64 FLQLMEKPDVDMIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYCPDH 123 ++ PDVD I+GL PA++++Q+ S N RS+VG+VT + +R++Y+R G Y + Sbjct: 79 LIEQAGVPDVDAIDGLPPAVALQQQRGSSNARSSVGSVTTLSSLVRMMYSRAGA-YPANQ 137 Query: 124 P 124 P Sbjct: 138 P 138 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.319 0.137 0.394 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 1,776,246 Number of extensions: 76600 Number of successful extensions: 458 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 454 Number of HSP's successfully gapped: 6 Length of query: 952 Length of database: 1,000,347 Length adjustment: 91 Effective length of query: 861 Effective length of database: 700,502 Effective search space: 603132222 Effective search space used: 603132222 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)