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= 0036.0111.p (881 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [H... 1807 0.0 gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A ... 418 e-118 >gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [Herbaspirillum seropedicae SmR1] Length = 881 Score = 1807 bits (4680), Expect = 0.0, Method: Compositional matrix adjust. Identities = 881/881 (100%), Positives = 881/881 (100%) Query: 1 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMNNVWN 60 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMNNVWN Sbjct: 1 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMNNVWN 60 Query: 61 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAM 120 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAM Sbjct: 61 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAM 120 Query: 121 RYTECRLDKISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMAT 180 RYTECRLDKISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMAT Sbjct: 121 RYTECRLDKISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMAT 180 Query: 181 NIPPHNITEVINGALHLLANEQCTIDELIELVPAPDFPTGGIIYGVSGVRDGYRTGRGRV 240 NIPPHNITEVINGALHLLANEQCTIDELIELVPAPDFPTGGIIYGVSGVRDGYRTGRGRV Sbjct: 181 NIPPHNITEVINGALHLLANEQCTIDELIELVPAPDFPTGGIIYGVSGVRDGYRTGRGRV 240 Query: 241 VMRAKTHFEEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSG 300 VMRAKTHFEEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSG Sbjct: 241 VMRAKTHFEEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSG 300 Query: 301 MRVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVDGQPRLLNLKQLLECFLSHRRE 360 MRVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVDGQPRLLNLKQLLECFLSHRRE Sbjct: 301 MRVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVDGQPRLLNLKQLLECFLSHRRE 360 Query: 361 VVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAKAELMSRAWDSSMV 420 VVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAKAELMSRAWDSSMV Sbjct: 361 VVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAKAELMSRAWDSSMV 420 Query: 421 REMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQMRLQRLTGLEQDK 480 REMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQMRLQRLTGLEQDK Sbjct: 421 REMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQMRLQRLTGLEQDK 480 Query: 481 IVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDERRSTIEHNATDLA 540 IVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDERRSTIEHNATDLA Sbjct: 481 IVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDERRSTIEHNATDLA 540 Query: 541 TEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDY 600 TEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDY Sbjct: 541 TEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDY 600 Query: 601 ILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSGANRSFPDDRY 660 ILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSGANRSFPDDRY Sbjct: 601 ILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSGANRSFPDDRY 660 Query: 661 VFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSDGGKAVR 720 VFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSDGGKAVR Sbjct: 661 VFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSDGGKAVR 720 Query: 721 FDENDVRPMGRTARGVRGMNLEETQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRH 780 FDENDVRPMGRTARGVRGMNLEETQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRH Sbjct: 721 FDENDVRPMGRTARGVRGMNLEETQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRH 780 Query: 781 GRGTKGMIAIQTSERNGKVVAATLVDSTDEIMLITTGGVLIRTRVSEIREMGRATQGVTL 840 GRGTKGMIAIQTSERNGKVVAATLVDSTDEIMLITTGGVLIRTRVSEIREMGRATQGVTL Sbjct: 781 GRGTKGMIAIQTSERNGKVVAATLVDSTDEIMLITTGGVLIRTRVSEIREMGRATQGVTL 840 Query: 841 IAVEDGTKLSGLQRVVESDVEDAVEGDNAEGAGSEAPAAGE 881 IAVEDGTKLSGLQRVVESDVEDAVEGDNAEGAGSEAPAAGE Sbjct: 841 IAVEDGTKLSGLQRVVESDVEDAVEGDNAEGAGSEAPAAGE 881 >gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A [Herbaspirillum seropedicae SmR1] Length = 771 Score = 418 bits (1075), Expect = e-118, Method: Compositional matrix adjust. Identities = 283/767 (36%), Positives = 400/767 (52%), Gaps = 100/767 (13%) Query: 11 ISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMN-NVWNRPFVKCARV 69 ++L ++YLDYA+SV+ GRALPDV DG KPV RR+LYAM+E++ N +P K A V Sbjct: 20 LTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYAMNELSLNSAAKPR-KSAAV 78 Query: 70 VGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAMRYTECRLDK 129 VG+V+GK HPHGD S+YD LVRMAQDFSLRY L+DG GNFGS DGDGAAAMRYTE RL Sbjct: 79 VGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGSRDGDGAAAMRYTEARLTP 138 Query: 130 ISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMATNIPPHNITE 189 IS LL +I+ TV+F PNYDG +EP +LP R+P LL+NG+SGIAVGMAT IP HN+TE Sbjct: 139 ISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGASGIAVGMATEIPSHNLTE 198 Query: 190 VINGALHLLANEQCTIDELIELVPAPDFPTGG-IIYGVSGVRDGYRTGRGRVVMRAKTHF 248 V A+ ++ N + + EL+EL+P PDFP GG II + + + Y++GRG + +RA+ Sbjct: 199 VAKAAVAMIRNPKISHAELMELIPGPDFPGGGQIITPQATIAEMYQSGRGSLKVRARWKI 258 Query: 249 EEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDL---------------- 292 E+ R G+ ++ ELP V+ + +LE I EL K G L Sbjct: 259 EDLAR-GQWQAVITELPPGVSSQRVLEEIEELTNPKVKLGKKSLTPEQQAQKAAILGLLD 317 Query: 293 --RDESDKSG-MRVVIELKRGEVPEV-VLNNLYKQTQLQDTFGMNMVAL-VDGQPRLLNL 347 RDES + +R+V E K + +N L QT L+ + +N+V + DG+PR NL Sbjct: 318 AVRDESGRDAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSASLNLVMIGGDGRPRQKNL 377 Query: 348 KQLLECFLSHRREVVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAK 407 +L ++S R E VTRRT F ++K +R H+LEG L NID I IIR + P A Sbjct: 378 TDILSEWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNIDKVIRIIRESDEPKPAL 437 Query: 408 AELMSRAWDSSMVREMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQ 467 IEAFR LSD QA++IL+ Sbjct: 438 ---------------------------IEAFR-----------------LSDRQAEDILE 453 Query: 468 MRLQRLTGLEQDKIVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDE 527 +RL++L LE KI E ++ + + L D+L P+ + ++ E+ +G D Sbjct: 454 IRLRQLARLEAIKIQQELAELRNEKSTLQDLLDNPSSMKKLVIKEIEGDAKTYG----DA 509 Query: 528 RRSTIEHNATDLATEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQA--MATKD 585 RR+ IE A E + + + V +S G++++ R G G A K Sbjct: 510 RRTIIEE-AERATFEQKVIDEPVTVIISQKGWVRA----------RTGHGHDATQFTFKA 558 Query: 586 DDWIDQLFIANTHDYILCFSNRGRLYWLKVWEVPQGSRNSRGK--PIVNMFPLQDGEKIT 643 D + F T D +L F + GR+Y + V +P N+RG P+ + L G I Sbjct: 559 GDSLYGAFECRTVDNLLAFGSNGRVYTIAVNALP----NARGDGVPVTTLLELASGSSIL 614 Query: 644 VILPVSGANRSFPDDRYVFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDF-LIGAAL 702 + P D + +A+ SD K G LDEG L + Sbjct: 615 HYF-------AGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGALPLAPTPV 667 Query: 703 TDGQHDVMLFSDGGKAVRFDENDVRPMGRTARGVRGMNLEETQQVIA 749 V S G+ + F ++++ + RGV M LE+ ++++A Sbjct: 668 PTDASAVACVSGNGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVA 714 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.317 0.135 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 2,637,531 Number of extensions: 114213 Number of successful extensions: 300 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 291 Number of HSP's successfully gapped: 3 Length of query: 881 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 787 Effective length of database: 1,174,780 Effective search space: 924551860 Effective search space used: 924551860 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: 135 (56.6 bits)