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= 0030.0093.p (623 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... 1134 0.0 gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A ... 147 3e-36 >gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [Herbaspirillum seropedicae SmR1] Length = 881 Score = 1134 bits (2933), Expect = 0.0, Method: Compositional matrix adjust. Identities = 568/645 (88%), Positives = 586/645 (90%), Gaps = 33/645 (5%) Query: 1 MRAKTHFEEFGREGRTAIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSGM 60 MRAKTHFEE+GREGR AIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSGM Sbjct: 242 MRAKTHFEEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDLRDESDKSGM 301 Query: 61 RVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVDRQPKLLNLKQMLECFLSHRREV 120 RVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVD QP+LLNLKQ+LECFLSHRREV Sbjct: 302 RVVIELKRGEVPEVVLNNLYKQTQLQDTFGMNMVALVDGQPRLLNLKQLLECFLSHRREV 361 Query: 121 VTRRTIFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPXP--------------- 165 VTRRT+FELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPP Sbjct: 362 VTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAKAELMSRAWDSSMVR 421 Query: 166 -----TGAENSSGIEAFRPENLPAHYGIQTDGLYKLSDDQAQEILQMRLQRLTGLEQDKI 220 G N GIEAFRPE+LPAHYGIQ+DGLYKLSD+QAQEILQMRLQRLTGLEQDKI Sbjct: 422 EMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQMRLQRLTGLEQDKI 481 Query: 221 VNEYKEVMEQIADLLDILSKPTRVTAIITDELTAAKNDFGIGVKDERRSTIEHNATDLGT 280 VNEYK+VM QIADLLDIL+KP RVTAIITDEL AAKNDFGIG KDERRSTIEHNATDL T Sbjct: 482 VNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDERRSTIEHNATDLAT 541 Query: 281 EDLITPQDLVVTLSHSGYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDYI 340 EDLITPQD+VVTLSH+GYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDYI Sbjct: 542 EDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQAMATKDDDWIDQLFIANTHDYI 601 Query: 341 LCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVVLPLSGENRVFPEDRYV 400 LCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITV+LP+SG NR FP+DRYV Sbjct: 602 LCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVILPVSGANRSFPDDRYV 661 Query: 401 FMSTSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSDSGKAVRF 460 FM+TSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSD GKAVRF Sbjct: 662 FMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDFLIGAALTDGQHDVMLFSDGGKAVRF 721 Query: 461 DENDVRPMGRTARGVRGMNLEEGQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRHG 520 DENDVRPMGRTARGVRGMNLEE QQVIALLVAENEQQSVLTATENGFGKRTPITEYTRHG Sbjct: 722 DENDVRPMGRTARGVRGMNLEETQQVIALLVAENEQQSVLTATENGFGKRTPITEYTRHG 781 Query: 521 RGTKGMIAIQTSERNGKVVAATLVEASDEIMLITTGGVLIRTR-------GRPTQGVTLI 573 RGTKGMIAIQTSERNGKVVAATLV+++DEIMLITTGGVLIRTR GR TQGVTLI Sbjct: 782 RGTKGMIAIQTSERNGKVVAATLVDSTDEIMLITTGGVLIRTRVSEIREMGRATQGVTLI 841 Query: 574 AVEDGTKLSGLQRVVESDAEEDKAEGD-VEGAVGAEGSGDTAAGE 617 AVEDGTKLSGLQRVVESD ED EGD EGA GS AAGE Sbjct: 842 AVEDGTKLSGLQRVVESDV-EDAVEGDNAEGA----GSEAPAAGE 881 >gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A [Herbaspirillum seropedicae SmR1] Length = 771 Score = 147 bits (370), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 144/517 (27%), Positives = 232/517 (44%), Gaps = 83/517 (16%) Query: 1 MRAKTHFEEFGREGRTAIIVDELPYQVNKKALLERIAELVRDK----------------- 43 +RA+ E+ R G+ ++ ELP V+ + +LE I EL K Sbjct: 252 VRARWKIEDLAR-GQWQAVITELPPGVSSQRVLEEIEELTNPKVKLGKKSLTPEQQAQKA 310 Query: 44 KLEGISD-LRDESDKSG-MRVVIELKRGEVPEV-VLNNLYKQTQLQDTFGMNMVALV-DR 99 + G+ D +RDES + +R+V E K + +N L QT L+ + +N+V + D Sbjct: 311 AILGLLDAVRDESGRDAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSASLNLVMIGGDG 370 Query: 100 QPKLLNLKQMLECFLSHRREVVTRRTIFELRKARERGHVLEGLAVALANIDDFIAIIRAA 159 +P+ NL +L ++S R E VTRRT F ++K +R H+LEG L NID I IIR + Sbjct: 371 RPRQKNLTDILSEWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNIDKVIRIIRES 430 Query: 160 PTPPXPTGAENSSGIEAFRPENLPAHYGIQTDGLYKLSDDQAQEILQMRLQRLTGLEQDK 219 P + IEAFR LSD QA++IL++RL++L LE K Sbjct: 431 DEP-------KPALIEAFR-----------------LSDRQAEDILEIRLRQLARLEAIK 466 Query: 220 IVNEYKEVMEQIADLLDILSKPTRVTAIITDELTAAKNDFGIGVKDERRSTIEHNATDLG 279 I E E+ + + L D+L P+ + ++ E+ +G D RR+ IE A Sbjct: 467 IQQELAELRNEKSTLQDLLDNPSSMKKLVIKEIEGDAKTYG----DARRTIIEE-AERAT 521 Query: 280 TEDLITPQDLVVTLSHSGYMKSQPVSEYRAQKRGGRGKQA--MATKDDDWIDQLFIANTH 337 E + + + V +S G++++ R G G A K D + F T Sbjct: 522 FEQKVIDEPVTVIISQKGWVRA----------RTGHGHDATQFTFKAGDSLYGAFECRTV 571 Query: 338 DYILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVVLPLSGENRVF--- 394 D +L F + GR+Y + V +P N+RG DG +T +L L+ + + Sbjct: 572 DNLLAFGSNGRVYTIAVNALP----NARG----------DGVPVTTLLELASGSSILHYF 617 Query: 395 --PEDRYVFMSTSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDF-LIGAALTDGQHDVMLF 451 P D + +++ SD K G LDEG L + V Sbjct: 618 AGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGALPLAPTPVPTDASAVACV 677 Query: 452 SDSGKAVRFDENDVRPMGRTARGVRGMNLEEGQQVIA 488 S +G+ + F ++++ + RGV M LE+ ++++A Sbjct: 678 SGNGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVA 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 0.316 0.134 0.374 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: 1,789,943 Number of extensions: 74732 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 2 Length of query: 623 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 532 Effective length of database: 1,188,985 Effective search space: 632540020 Effective search space used: 632540020 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)