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= 0001.3604.p (881 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095749|ref|YP_001100824.1| DNA gyrase subunit A [Herminiim... 1641 0.0 gi|134094033|ref|YP_001099108.1| DNA topoisomerase IV subunit A ... 420 e-118 >gi|134095749|ref|YP_001100824.1| DNA gyrase subunit A [Herminiimonas arsenicoxydans] Length = 871 Score = 1641 bits (4249), Expect = 0.0, Method: Compositional matrix adjust. Identities = 783/862 (90%), Positives = 831/862 (96%) Query: 1 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMNNVWN 60 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVL+AMHEMNNVWN Sbjct: 1 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNVWN 60 Query: 61 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAM 120 RPFVKCARVVGE MGKYHPHGDASIYDTLVRMAQ FSLRY LVDGQGNFGSIDGD AAAM Sbjct: 61 RPFVKCARVVGETMGKYHPHGDASIYDTLVRMAQPFSLRYMLVDGQGNFGSIDGDNAAAM 120 Query: 121 RYTECRLDKISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMAT 180 RYTECRLDKI+ ELLAD++KETVDFVPNYDGKE+EPSVLPTRIPNLL+NGSSGIAVGMAT Sbjct: 121 RYTECRLDKIAGELLADLDKETVDFVPNYDGKEREPSVLPTRIPNLLINGSSGIAVGMAT 180 Query: 181 NIPPHNITEVINGALHLLANEHCTIDELIELVPAPDFPTGGIIYGVSGVRDGYRTGRGRV 240 NIPPHNITEVI+GALH+L N TIDELIE++PAPDFPTGGIIYGVSGVRDGYRTGRGRV Sbjct: 181 NIPPHNITEVIDGALHVLRNAEATIDELIEIIPAPDFPTGGIIYGVSGVRDGYRTGRGRV 240 Query: 241 VMRAKTHFEEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSG 300 VMRAKTHFEEYG+E R AIIVDELPYQVNKK+LLERIAELVRDKKLEGISD+RDESDKSG Sbjct: 241 VMRAKTHFEEYGKENRSAIIVDELPYQVNKKSLLERIAELVRDKKLEGISDIRDESDKSG 300 Query: 301 MRVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVDGQPRLLNLKQLLECFLSHRRE 360 MRVVIELKR EVPEVVLNNLYKQTQLQDTFGMNMVALVDGQP+LLNLKQ+LECFLSHRRE Sbjct: 301 MRVVIELKRNEVPEVVLNNLYKQTQLQDTFGMNMVALVDGQPKLLNLKQMLECFLSHRRE 360 Query: 361 VVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAKAELMSKSWDSSMV 420 VVTRRT+FELRKARERGHVLEGLAVALANIDDFIAII+AAPTPP+AK +LMS++WDSS+V Sbjct: 361 VVTRRTIFELRKARERGHVLEGLAVALANIDDFIAIIKAAPTPPVAKVDLMSRAWDSSVV 420 Query: 421 REMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQMRLQRLTGLEQDK 480 REMLAR GE GG+ AFRPE+LP HYGIQ DGLYKLSD+QAQEILQMRLQRLTGLEQDK Sbjct: 421 REMLARTGEEGVGGVNAFRPENLPKHYGIQPDGLYKLSDDQAQEILQMRLQRLTGLEQDK 480 Query: 481 IVNEYKDVMAQIADLLDILSKPARVTAIITDELNAAKNDFGIGAKDERRSTIEHNATDLA 540 IVNEYK+VM+QIADLLDIL+KP RVT IITDEL AKN++GIG KDERRS+IE NATDL Sbjct: 481 IVNEYKEVMSQIADLLDILAKPERVTVIITDELTVAKNEYGIGNKDERRSSIELNATDLG 540 Query: 541 TEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDY 600 TEDLITPQDMVVTLSHTGYMKSQP++EYRAQKRGGRGKQAMATK+DDWIDQLFIANTHDY Sbjct: 541 TEDLITPQDMVVTLSHTGYMKSQPITEYRAQKRGGRGKQAMATKEDDWIDQLFIANTHDY 600 Query: 601 ILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSGANRSFPDDRY 660 ILCFSNRGR+YWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSG NR+FP+DRY Sbjct: 601 ILCFSNRGRMYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSGENRTFPEDRY 660 Query: 661 VFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSDGGKAVR 720 +FM+TSLGTVKKT LSDFSNPRKAGIIAVDLD+GDFLIGAALTDG+HDVMLFSD GKAVR Sbjct: 661 IFMSTSLGTVKKTSLSDFSNPRKAGIIAVDLDDGDFLIGAALTDGKHDVMLFSDSGKAVR 720 Query: 721 FDENDVRPMGRTARGVRGMNLEETQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRH 780 FDENDVRPMGRTARGVRGMNLEE QQVIALLVAENEQQSVLTATENGFGKRTPITEYTRH Sbjct: 721 FDENDVRPMGRTARGVRGMNLEEGQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRH 780 Query: 781 GRGTKGMIAIQTSERNGKVVAATLVDSSDEIMLITTGGVLIRTRVSEIREMGRATQGVTL 840 GRGTKGMIAIQTSERNGKVVAATLVD++DEIMLITTGGVLIRTRV+EIREMGRATQGVTL Sbjct: 781 GRGTKGMIAIQTSERNGKVVAATLVDAADEIMLITTGGVLIRTRVAEIREMGRATQGVTL 840 Query: 841 IAVEDGTKLSGLQRVVESDVED 862 IAVEDGTKLSGLQR++ESD+E+ Sbjct: 841 IAVEDGTKLSGLQRILESDIEE 862 >gi|134094033|ref|YP_001099108.1| DNA topoisomerase IV subunit A [Herminiimonas arsenicoxydans] Length = 776 Score = 420 bits (1079), Expect = e-118, Method: Compositional matrix adjust. Identities = 279/765 (36%), Positives = 408/765 (53%), Gaps = 96/765 (12%) Query: 11 ISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMN-NVWNRPFVKCARV 69 ++L ++YLDYA+SV+ GRALPDV DG KPV RR+L+AM+E+ N +P K A V Sbjct: 20 LTLATFAERAYLDYAISVVKGRALPDVCDGQKPVQRRILFAMNELGLNSAAKPR-KSAAV 78 Query: 70 VGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAMRYTECRLDK 129 VG+V+GK HPHGD S+YD LVRMAQDFSLRY L+DGQGNFGS DGDGAAAMRYTE RL Sbjct: 79 VGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGQGNFGSRDGDGAAAMRYTEARLTP 138 Query: 130 ISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMATNIPPHNITE 189 I+ L+ +I+ TVDF PNYDG +EP +LP+R+P +L+NG+SGIAVGMAT IP HN+ E Sbjct: 139 IAKLLMEEIDMGTVDFQPNYDGSTEEPKLLPSRLPFVLLNGASGIAVGMATEIPSHNLRE 198 Query: 190 VINGALHLLANEHCTIDELIELVPAPDFPTGG-IIYGVSGVRDGYRTGRGRVVMRAKTHF 248 V A+ L+ N T +EL+ +VP PDFP GG II + + D YR+GRG V +RA Sbjct: 199 VAQAAVALIRNPKLTHEELVAIVPGPDFPGGGQIITSPTAISDIYRSGRGSVKVRATWKI 258 Query: 249 EEYGREGRIAIIVDELPYQVNKKALLERIAELVRDK------------------KLEGIS 290 E+ R G+ +V ELP+ + + +LE I EL K L + Sbjct: 259 EDMAR-GQWQAVVTELPHGTSSQRVLEEIEELTNPKIRLGKKSLSPEQLALKQTVLAMLD 317 Query: 291 DLRDESDKSG-MRVVIELKRGEVPEVVLNN-LYKQTQLQDTFGMNMVAL-VDGQPRLLNL 347 +RDES + +R+V E K + N L T L+ + +N+V + DG+PR L Sbjct: 318 TVRDESGRDAPVRLVFEPKSKNQDQTEFTNMLLAHTSLETSVSINLVMIGGDGKPRQKAL 377 Query: 348 KQLLECFLSHRREVVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAK 407 +L ++ R +TRR+ F+L+K +R H+LEG L NID I IIR + P K Sbjct: 378 GDILREWVDFRFTTITRRSQFKLQKVNDRIHILEGREAILLNIDKVIKIIRESDEP---K 434 Query: 408 AELMSKSWDSSMVREMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQ 467 LM +AFR LS+ QA +IL+ Sbjct: 435 PALM------------------------DAFR-----------------LSERQADDILE 453 Query: 468 MRLQRLTGLEQDKIVNEYKDVMAQIADLLDILSKPARVTAIITDELNAAKNDFGIGAKDE 527 +RL++L LE KI E ++ ++ + L D+L P+ + ++ E+ A + FG D+ Sbjct: 454 IRLRQLARLETIKIQQELAELRSEKSTLQDLLDNPSSMKRLVIKEIEADEKQFG----DK 509 Query: 528 RRSTIEHNATDLATEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQA--MATKD 585 RR+ IE A E + + + V +S G++++ R G G A K Sbjct: 510 RRTLIE-VAEKAVVETRVIDEPVTVVISQKGWVRA----------RTGHGHDAAQFTFKA 558 Query: 586 DDWIDQLFIANTHDYILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVI 645 D + F T D +L F + GR+Y + V +P G+R G PI + L G ++ Sbjct: 559 SDALYDTFECRTVDTLLVFGSNGRIYSVAVAALP-GARGD-GVPITTLVELASGTRVLHY 616 Query: 646 LPVSGANRSFPDDRYVFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGD-FLIGAALTD 704 + P D + +A++ G D + ++G + LDEGD L + Sbjct: 617 F-------AGPADVTLLLASTAGYGFTAKSGDMVSRTRSGKAFITLDEGDEPLTPRPIFA 669 Query: 705 GQHDVMLFSDGGKAVRFDENDVRPMGRTARGVRGMNLEETQQVIA 749 G + S+ G+ + F ++++ + RGV M+LE+ ++++A Sbjct: 670 GASAIACLSEKGRVLVFGIDEIKSLTAGGRGVILMDLEKNEKLLA 714 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 0.317 0.135 0.384 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: 1,596,313 Number of extensions: 68388 Number of successful extensions: 211 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 201 Number of HSP's successfully gapped: 3 Length of query: 881 Length of database: 1,000,347 Length adjustment: 90 Effective length of query: 791 Effective length of database: 703,797 Effective search space: 556703427 Effective search space used: 556703427 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 (21.7 bits) S2: 133 (55.8 bits)