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= 0001.4559.p (892 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134093404|ref|YP_001098479.1| DNA topoisomerase III [Herminii... 1507 0.0 gi|134095173|ref|YP_001100248.1| DNA topoisomerase III [Herminii... 289 5e-79 >gi|134093404|ref|YP_001098479.1| DNA topoisomerase III [Herminiimonas arsenicoxydans] Length = 878 Score = 1507 bits (3901), Expect = 0.0, Method: Compositional matrix adjust. Identities = 717/835 (85%), Positives = 769/835 (92%), Gaps = 4/835 (0%) Query: 1 MSKTLIIAEKPSVANDIAKTLGGFTKHDEYFESDEYILSSAVGHLLEIAVPEEYDVKRGK 60 M+KTLIIAEKPSVANDIAKTLGGFTKHD+YFESDEY+LSSAVGHL+EI+VPEEYDVKRGK Sbjct: 1 MTKTLIIAEKPSVANDIAKTLGGFTKHDDYFESDEYVLSSAVGHLVEISVPEEYDVKRGK 60 Query: 61 WSFTHLPMIPPHFALNPIAKTESRLKVLSKLIKRKDVTTLINACDAGREGELIFRLIAQY 120 WSF HLPMIPP+FALNPIAKTESRLKVL+KLIKRKDVT LINACDAGREGELIFRLIAQY Sbjct: 61 WSFAHLPMIPPYFALNPIAKTESRLKVLNKLIKRKDVTGLINACDAGREGELIFRLIAQY 120 Query: 121 TKAKQPVKRLWLQSMTPGAIREGFAHLRDDEEMLPLANAARCRSEADWLIGINGTRAMTA 180 KAKQP+KRLWLQSMTPGAIRE F +LR DEEML LA+AAR RSEADWLIGINGTRAMTA Sbjct: 121 AKAKQPIKRLWLQSMTPGAIREAFKNLRSDEEMLSLADAARSRSEADWLIGINGTRAMTA 180 Query: 181 FNSKEGGFYLTTVGRVQTPTLSIVVEREEKIKKFVPRDYWEVHAEFVCAAGIYKGRWLDK 240 FNSKEGGFYLTTVGRVQTPTLSIVVEREEKIKKFVPRDYWEV AEF+CAAGIY+GRWLD Sbjct: 181 FNSKEGGFYLTTVGRVQTPTLSIVVEREEKIKKFVPRDYWEVRAEFICAAGIYQGRWLDT 240 Query: 241 GHKKDEADPEKRPERLWSKAAADSIVAACR-DKPGSVTEESKPTTQMSPGLFDLTSLQRE 299 KKDE DPE+RPERLWSKAAA+SIVAACR KPG+VTEESKPTT M+P LFDLTSLQRE Sbjct: 241 AFKKDETDPERRPERLWSKAAAESIVAACRGGKPGNVTEESKPTTSMAPALFDLTSLQRE 300 Query: 300 ANSRFGFSAKNTLGLAQALYEKHKVLTYPRTDSRHLPEDYINTVKDTMEALAENNNYHQF 359 AN+RFGFSAKNTLGLAQALYE+HKVLTYPRTDSRHLPEDY+ TV +T+E +AENNNYHQF Sbjct: 301 ANARFGFSAKNTLGLAQALYERHKVLTYPRTDSRHLPEDYLPTVLETLEVVAENNNYHQF 360 Query: 360 SKQILKQGWVKPNKRIFDNTKISDHFAIIPTTQVPKNLSEPEQKLYDLVTRRFMAVFFPP 419 +KQIL WVKPNKRIFDNTKISDHFAIIPTT PKNLSEPEQKLYDLVTRRFMA+FFP Sbjct: 361 AKQILNSKWVKPNKRIFDNTKISDHFAIIPTTLAPKNLSEPEQKLYDLVTRRFMAIFFPA 420 Query: 420 AEFQVTTRFTEVSGHQFKSEGKVMINPGWLAIYGKQVEEDDKDKEGGGNLVAVAPGEKVK 479 AEFQVTTRFTEVSGHQFK+EGKVM NPGWLA+YGK+V D+KD E G LV VA GEKV+ Sbjct: 421 AEFQVTTRFTEVSGHQFKTEGKVMTNPGWLAVYGKEV-IDEKDPENSGTLVPVAKGEKVQ 479 Query: 480 TDKVTANGLVTKPPARYTEATLLSAMEGAGKLVDSDELREAMAGKGLGTPATRAAIIEGL 539 T+ V ANGLVTKPPARYTEATLLSAMEGAGKL+D +LR AM GKGLGTPATRAAIIEGL Sbjct: 480 TESVVANGLVTKPPARYTEATLLSAMEGAGKLIDDSDLRVAMTGKGLGTPATRAAIIEGL 539 Query: 540 LNEKYLLREGREMMPTAKAFQLMTLLHGLGVDELTEPELTGEWEHKLAQMERGKISRDEF 599 L EKYLLREGREMMPTAKAFQLMTLL GLGV+ELT PELTGEWE+KL++MERGKISR+EF Sbjct: 540 LTEKYLLREGREMMPTAKAFQLMTLLRGLGVNELTAPELTGEWEYKLSEMERGKISREEF 599 Query: 600 MREIAQMTQIIVKRAKEYDNDTIPGDYATLQTPCPNCGGVVKENYRRFACTKCEFSMSKV 659 MREIAQMTQ+IVKRAKEYDNDTIPGDYATL+TPCPNCG VVKENYRRFACTKCEFSMSK Sbjct: 600 MREIAQMTQVIVKRAKEYDNDTIPGDYATLKTPCPNCGSVVKENYRRFACTKCEFSMSKT 659 Query: 660 PGGRQFEIAEVEELLQNRTIGPLQGFRSKMGRPFAAILKISRDEEIKNFKLEFDFGQDQA 719 PG RQFE+AEVEELL N+TIGPLQGFRSKMGRPFAA+LKISRDEEIKN+KLEFDFGQ+ Sbjct: 660 PGSRQFEVAEVEELLTNKTIGPLQGFRSKMGRPFAAVLKISRDEEIKNYKLEFDFGQN-- 717 Query: 720 EGEGGEPVDFSEQTPLGACPKCGSGVYEMGLAYVCEKTVAKPKACDFRSSRIILQQEILP 779 + E EPVDFS+QTPLG CPKC GVYEM L+YVCE +VAKPK CDFRS RIILQQEILP Sbjct: 718 DDENAEPVDFSDQTPLGPCPKCAGGVYEMPLSYVCENSVAKPKTCDFRSGRIILQQEILP 777 Query: 780 EQMAKLLNDGKTDLLPGFISQRTRRPFKAFLVRGKDGKISFEFEERKAKAPAKGK 834 EQM+KLLN+GKTDLLPGF+SQRTRR FKA+LVRGKDGK SFEFE RK K P KGK Sbjct: 778 EQMSKLLNEGKTDLLPGFVSQRTRRAFKAYLVRGKDGKTSFEFEPRKEKVPGKGK 832 >gi|134095173|ref|YP_001100248.1| DNA topoisomerase III [Herminiimonas arsenicoxydans] Length = 610 Score = 289 bits (739), Expect = 5e-79, Method: Compositional matrix adjust. Identities = 187/603 (31%), Positives = 305/603 (50%), Gaps = 40/603 (6%) Query: 66 LPMIPPHFALNPIAKTESRLKVLSKLIKRKDVTTLINACDAGREGELIFRLIAQYTKAKQ 125 +P+IP H+ + KT ++ KV+ L+ + T L+ A DA REGELI R I + + Sbjct: 1 MPIIPQHWRVEVKPKTATQFKVVKALLAK--ATQLVIATDADREGELIAREIIELCGYRG 58 Query: 126 PVKRLWLQSMTPGAIREGFAHLRDDEEMLPLANAARCRSEADWLIGINGTRAMTAFNSKE 185 P++RLWL ++ +IR LR E LP+ ++A RS ADWL+G+N +R T + Sbjct: 59 PIERLWLSALNDASIRAALGKLRPSAETLPMYHSALARSRADWLVGMNLSRLFTVLGRQA 118 Query: 186 GGFYLTTVGRVQTPTLSIVVEREEKIKKFVPRDYWEVHAEFVCAAGIYKGRWLDKGHKKD 245 G + +VGRVQTPTL +VV+R+ +I FV YW + + W+ D Sbjct: 119 GYDGVLSVGRVQTPTLKLVVDRDREIAAFVSVPYWAIVVSLSAGVQAFTAHWVPPNACTD 178 Query: 246 EADPEKRPERLWSKAAADSIVAACRDKPGSVTEESKPTTQMSPGLFDLTSLQREANSRFG 305 +A + ++ ++ A I AA V+ E++ + P FDL +LQ + + G Sbjct: 179 DAG--RCLQQPVAQQAMQQIRAA--GSAHVVSVETERVREGPPLPFDLGTLQEVCSKQLG 234 Query: 306 FSAKNTLGLAQALYEKHKVLTYPRTDSRHLPEDYINTVKDTMEALAENNNYHQFSKQILK 365 + TL +AQALYE HK TYPR+DS +LPE V +++L + + + I+ Sbjct: 235 LDVQETLEIAQALYETHKATTYPRSDSGYLPESMFAEVTTVLDSLLKTDPSL---RSIIG 291 Query: 366 QGWVKPNKRIFDNTKISDHFAIIPTTQVPKNL---SEPEQKLYDLVTRRFMAVFFPPAEF 422 Q R +++ K++ H IIPT + P NL SE E +Y L+ ++A F P EF Sbjct: 292 QLDRLQRSRAWNDGKVTAHHGIIPTLE-PANLSAMSEKELAVYRLIRAHYLAQFLPHHEF 350 Query: 423 QVTTRFTEVSGHQFKSEGKVMINPGWLAIYGK-QVEEDDKDKEGGGN---LVAVAPGEKV 478 T G + GK ++ PGW + + Q E+ D D + L A+ G Sbjct: 351 DHTVAKLSCGGQNLAATGKQVVTPGWRQVLAEPQSEDGDGDGDTAARAQVLPALHEGLAC 410 Query: 479 KTDKVTANGLVTKPPARYTEATLLSAMEGAGKLVDSDELREAMAGK-GLGTPATRAAIIE 537 + + L T PP YT+ L+ +M+G KLV L++ + G+GT ATRA II Sbjct: 411 QVADIDLKALKTLPPKPYTQGELVKSMKGVAKLVSDPRLKQKLKDTVGIGTEATRANIIG 470 Query: 538 GLLNEKYLLREGREMMPTAKAFQLMTLLHGLGVDELTEPELTGEWEHKLAQMERGKISRD 597 GL+ YL+++GR + + AF L+ + + +P T WE L +E G+++ D Sbjct: 471 GLIARGYLVKKGRAIRASDAAFTLIDAVPA----AIADPGTTAVWEQALDMIEAGQLTLD 526 Query: 598 EFM-REIAQMTQIIVKRAKEYDNDTIPGDYATLQTP----CPNCGGVVKENYRR----FA 648 F+ ++ A ++Q+I +Y N ++ +++ P CP CG ++ + ++ Sbjct: 527 VFIGKQAAWISQLIA----QYGNASL-----SIKAPQGPTCPQCGAPTRQRSSKSGPFWS 577 Query: 649 CTK 651 C++ Sbjct: 578 CSR 580 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 0.316 0.132 0.385 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: 1,581,289 Number of extensions: 65095 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 2 Length of query: 892 Length of database: 1,000,347 Length adjustment: 90 Effective length of query: 802 Effective length of database: 703,797 Effective search space: 564445194 Effective search space used: 564445194 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 133 (55.8 bits)