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= 0001.0003.p (832 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134093298|ref|YP_001098373.1| DNA gyrase subunit B [Herminiim... 1373 0.0 gi|134094035|ref|YP_001099110.1| DNA topoisomerase IV subunit B ... 348 4e-97 >gi|134093298|ref|YP_001098373.1| DNA gyrase subunit B [Herminiimonas arsenicoxydans] Length = 835 Score = 1373 bits (3553), Expect = 0.0, Method: Compositional matrix adjust. Identities = 686/836 (82%), Positives = 747/836 (89%), Gaps = 5/836 (0%) Query: 1 MSSSPADNT----NSAQQSYGASSIQILEGLEAVRKRPGMYIGDTSDGTGLHHLVFEVLD 56 MS+ P DNT ++ +YGASSIQILEGLEAVRKRPGMYIGDTSDGTGLHH VFEVLD Sbjct: 1 MSAIPNDNTPQSPSTLSAAYGASSIQILEGLEAVRKRPGMYIGDTSDGTGLHHCVFEVLD 60 Query: 57 NSIDEALAGYCSEIHVTIHADNSISITDNGRGIPTGLKMDDKHEPKRSAAEIVMTELHAG 116 NSIDE+LAG+C+EIHVTIH+DNSISITDNGRGIPTG+K DDKHEPKRSAAEIVMTELHAG Sbjct: 61 NSIDESLAGHCTEIHVTIHSDNSISITDNGRGIPTGIKWDDKHEPKRSAAEIVMTELHAG 120 Query: 117 GKFDQNSYKVSGGLHGVGVSCVNALSKKLKLTIRRDGKVHAMEFAKGIVQNRELEMVDGV 176 GKFDQNSYKVSGGLHGVGVSCVN LS+ LKLTIRRDGK H MEF +G+ QNRE+E +DG Sbjct: 121 GKFDQNSYKVSGGLHGVGVSCVNGLSRLLKLTIRRDGKTHYMEFVRGVPQNREIETIDGH 180 Query: 177 QVSPIKVVGESDKRGTEVHFWADEEIFTHVEFHYEILAKRIRELSFLNNGVHIKLSDQRT 236 VSPIKV+GE+DKRGTEVHFWADEEIF +VEFHY+ILAKRIRELSFLNNGV I+LSDQRT Sbjct: 181 IVSPIKVIGETDKRGTEVHFWADEEIFNNVEFHYDILAKRIRELSFLNNGVRIRLSDQRT 240 Query: 237 GKEEDFAFEGGTRGFVEYINKNKSILNPTIFQATGEKQSDQGTLVSVDVSMQWNDAFNEQ 296 GKEE FAFEGGTRGFVEYINK KS+L+PTIFQATGE+ SDQGT ++VDVSMQWNDA+NEQ Sbjct: 241 GKEELFAFEGGTRGFVEYINKAKSVLHPTIFQATGERLSDQGTNIAVDVSMQWNDAYNEQ 300 Query: 297 VLCFTNNIPQRDGGTHLTGLRAAMTRVINKYIEENDLAKKAKVEISGDDMREGLTCVLSV 356 V+CFTNNIPQRDGGTHLTGLRAAMTRVINKYI+E++ AKKAKVE++GDDMREGLTCVLSV Sbjct: 301 VICFTNNIPQRDGGTHLTGLRAAMTRVINKYIDEHEFAKKAKVEVTGDDMREGLTCVLSV 360 Query: 357 KVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLTDFLAEKPNDAKIICGKIVEAARAREAA 416 KVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTL D+L EKPNDAKIICGKIVEAARAREAA Sbjct: 361 KVPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLADYLQEKPNDAKIICGKIVEAARAREAA 420 Query: 417 RKARELTRRKGVMDGLGLSSKLADCQERDPALCELYIVEGDSAGGSAKQGRDRKFQAILP 476 RKAR+LTRRKGVMDGLGLSSKLADCQE+DPALCELY+VEGDSAGGSAKQGRDRKFQAILP Sbjct: 421 RKARDLTRRKGVMDGLGLSSKLADCQEKDPALCELYVVEGDSAGGSAKQGRDRKFQAILP 480 Query: 477 LRGKVLNVEKARFEKMLSSEQITTLIATLGTSIGADEFNPDKLRYHRIIIMTDADVDGAH 536 LRGKVLNVEKARFEKML+SEQITTLIATLGTSIGADEFN +KLRYHRIIIMTDADVDGAH Sbjct: 481 LRGKVLNVEKARFEKMLASEQITTLIATLGTSIGADEFNIEKLRYHRIIIMTDADVDGAH 540 Query: 537 IRTLLLTLFYRQMPALVERGHIYIAQPPLYKVKAGKDERYLKDDFEEAQYMMQIALNDAE 596 IRTLLLTL YRQMP LVERGH+YIAQPPLYKVK GKDERYLKDD EEA YMMQIALNDA Sbjct: 541 IRTLLLTLLYRQMPQLVERGHVYIAQPPLYKVKHGKDERYLKDDVEEAVYMMQIALNDAA 600 Query: 597 IKPAEDAAPISGEALVELARQYNTANAIIMRLSRAIDESALNAIMTGGVALKLENLEQAT 656 + PAE A PISG+AL EL RQYNT+NAII RL+R +D +AL AIMT GV L L + E A Sbjct: 601 LVPAEGAEPISGDALAELVRQYNTSNAIINRLTRMVDGAALTAIMT-GVTLDLSSQEAAN 659 Query: 657 ATAEELKKAINDINIDVQARVDEHSEKVALHIHRRQHGNIKATVIDADFVSGPDYLQLSN 716 A+A+ L+ I + +++V R DE +EK +L IHR HGNIK + IDA+FV+G DY L+ Sbjct: 660 ASAQRLQDGIGEPSVEVIVRHDELAEKFSLRIHRMYHGNIKVSAIDAEFVNGADYRVLAA 719 Query: 717 AAETFKGLIGKGAVVARGQGEKRKESVITEFRQAMAWLRDEAERGVNKQRYKGLGEMNPE 776 AA TFKGLIG GA+V RG GEK K I +F QAM WLR EAER V KQRYKGLGEMNP Sbjct: 720 AAATFKGLIGTGAMVQRGVGEKVKSIGINDFHQAMNWLRSEAERNVGKQRYKGLGEMNPS 779 Query: 777 QLWETTMDPTVRRLLKVQIEDAIAADQIFMTLMGDDVEPRRAFIESNALQAGNIDV 832 QLWETTMDPTVRRLLKVQIEDAIAADQIF TLMGDDVEPRRAFIE NAL AGNID+ Sbjct: 780 QLWETTMDPTVRRLLKVQIEDAIAADQIFTTLMGDDVEPRRAFIELNALSAGNIDI 835 >gi|134094035|ref|YP_001099110.1| DNA topoisomerase IV subunit B [Herminiimonas arsenicoxydans] Length = 661 Score = 348 bits (894), Expect = 4e-97, Method: Compositional matrix adjust. Identities = 216/575 (37%), Positives = 320/575 (55%), Gaps = 37/575 (6%) Query: 9 TNSAQQSYGASSIQILEGLEAVRKRPGMYIGDTSDGTGLHHLVFEVLDNSIDEALAGYCS 68 T + Y SSI++L+GLE V++RPGMY T LH ++ EV+DN+ DEAL GYC Sbjct: 3 TKKSSADYSESSIRVLKGLEPVKQRPGMY---TRTENPLH-IIQEVIDNASDEALGGYCK 58 Query: 69 EIHVTIHADNSISITDNGRGIPTGLKMDDKHEPKRSAAEIVMTELHAGGKFDQNS---YK 125 I VT++ D S+S+ D+GRGIP GL E K EIV T LHAGGKFD++S Y Sbjct: 59 HIVVTLNTDGSVSVEDDGRGIPVGLH----PEEKIPTVEIVFTRLHAGGKFDKSSGGAYA 114 Query: 126 VSGGLHGVGVSCVNALSKKLKLTIRRDGKVHAMEFAKGIVQNRELEMVDGVQVSPIK--V 183 SGGLHGVGVS NALS +L++T+ R+ VH + F+ G V + P+K Sbjct: 115 FSGGLHGVGVSVTNALSTRLEITVWRESGVHTLTFSGGDV------------IEPLKSRA 162 Query: 184 VGESDKR-GTEVHFWADEEIFTHVEFHYEILAKRIRELSFLNNGVHIKLSDQRTGKEEDF 242 + +KR GT V W D + F L + +R + L GV + L ++G+ + + Sbjct: 163 IARDEKRSGTRVTAWPDPKYFDSSVIPQAELQRLLRSKAVLLPGVKVTLVHAKSGETQTW 222 Query: 243 AFEGGTRGFVEYINKNKSILNPTIFQATGEKQSDQGTL-VSVDVSMQWNDAFNEQVLC-- 299 ++ G RG++ S I GE+ ++ T + W A+ E Sbjct: 223 QYDQGLRGYLTESLAQASNAETVIPLFEGEQYANADTEGFAEGEGAAWVVAWTEDGAVVR 282 Query: 300 --FTNNIPQRDGGTHLTGLRAAMTRVINKYIEENDLAKKAKVEISGDDMREGLTCVLSVK 357 + N IP +GGTH +GLR + + ++E + L K V++ +D+ ++ VLS K Sbjct: 283 ESYVNLIPTSNGGTHESGLREGLFGAVKSFVEMHSLLPKG-VKLLPEDVFARVSFVLSAK 341 Query: 358 VPEPKFSSQTKDKLVSSEVRGPVEEIVAKTLTDFLAEKPNDAKIICGKIVEAARAREAAR 417 V +P+F Q K++L S + V L +L + + K + +++ A++R + Sbjct: 342 VLDPQFQGQIKERLNSRDAVRLVATYTRPALELWLNQHVDYGKKLAELVIKQAQSRLRSA 401 Query: 418 KARELTRRKGVMDGLGLSSKLADCQERDPALCELYIVEGDSAGGSAKQGRDRKFQAILPL 477 + E + GV L KL DC+ D + E+++VEGDSAGGSAK GRD++FQAILPL Sbjct: 402 QKVEKKKSSGVAV---LPGKLTDCESSDTSRNEIFLVEGDSAGGSAKMGRDKEFQAILPL 458 Query: 478 RGKVLNVEKARFEKMLSSEQITTLIATLGTSIGA--DEFNPDKLRYHRIIIMTDADVDGA 535 RGKVLN + +++ ++ +I + +G D + LRY RI I++DADVDG+ Sbjct: 459 RGKVLNSWETERDRLFANNEIHDIAVAIGIDPHGKNDTVDFSSLRYGRICILSDADVDGS 518 Query: 536 HIRTLLLTLFYRQMPALVERGHIYIAQPPLYKVKA 570 HI+ LLLTLF++ P L+ERGHI IA+PPLY+V A Sbjct: 519 HIQVLLLTLFFKHFPQLIERGHICIARPPLYRVDA 553 Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 32/65 (49%), Positives = 41/65 (63%), Gaps = 3/65 (4%) Query: 766 RYKGLGEMNPEQLWETTMDPTVRRLLKVQIE--DAIAADQIFMTLMGD-DVEPRRAFIES 822 R+KGLGEMN EQLWETTM+P RRLL V + D ++ F LMG + RR +IE Sbjct: 593 RFKGLGEMNAEQLWETTMNPDTRRLLPVALGEFDLDFSEARFNMLMGKGEAAARRTWIEE 652 Query: 823 NALQA 827 + +A Sbjct: 653 HGNEA 657 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 0.133 0.372 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: 1,492,506 Number of extensions: 60977 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 3 Length of query: 832 Length of database: 1,000,347 Length adjustment: 90 Effective length of query: 742 Effective length of database: 703,797 Effective search space: 522217374 Effective search space used: 522217374 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)