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= 0001.1689.p (771 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A ... 1509 0.0 gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [H... 420 e-118 >gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A [Herbaspirillum seropedicae SmR1] Length = 771 Score = 1509 bits (3906), Expect = 0.0, Method: Compositional matrix adjust. Identities = 736/770 (95%), Positives = 754/770 (97%) Query: 1 MTDQPTLFDQVPTAPDGESLTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYA 60 MTDQPTLFDQVP+APDGESLTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYA Sbjct: 1 MTDQPTLFDQVPSAPDGESLTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYA 60 Query: 61 MNELSLNSAAKPRKSAAVVGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGS 120 MNELSLNSAAKPRKSAAVVGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGS Sbjct: 61 MNELSLNSAAKPRKSAAVVGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGS 120 Query: 121 RDGDGAAAMRYTEARLTPISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGA 180 RDGDGAAAMRYTEARLTPISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGA Sbjct: 121 RDGDGAAAMRYTEARLTPISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGA 180 Query: 181 SGIAVGMATEIPSHNLTEVAKAAVAMIRNPKITHAELMELIPGPDFPGGGQIITPKSTIA 240 SGIAVGMATEIPSHNLTEVAKAAVAMIRNPKI+HAELMELIPGPDFPGGGQIITP++TIA Sbjct: 181 SGIAVGMATEIPSHNLTEVAKAAVAMIRNPKISHAELMELIPGPDFPGGGQIITPQATIA 240 Query: 241 EMYQSGRGSLKVRARWKIEDLARGQWQAVITELPPGVSSQRVLEEIEELTNPKLKLGKKS 300 EMYQSGRGSLKVRARWKIEDLARGQWQAVITELPPGVSSQRVLEEIEELTNPK+KLGKKS Sbjct: 241 EMYQSGRGSLKVRARWKIEDLARGQWQAVITELPPGVSSQRVLEEIEELTNPKVKLGKKS 300 Query: 301 LTPEQQTQKTTILGLLDAVRDESGREAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSAS 360 LTPEQQ QK ILGLLDAVRDESGR+APVRLVFEPKSKNQDQTEFMNTLLAQTSLETSAS Sbjct: 301 LTPEQQAQKAAILGLLDAVRDESGRDAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSAS 360 Query: 361 LNLVMIGGDGRPRQKNLSDILTEWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNI 420 LNLVMIGGDGRPRQKNL+DIL+EWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNI Sbjct: 361 LNLVMIGGDGRPRQKNLTDILSEWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNI 420 Query: 421 DKVIKIIRESDEPKPALIDAFKLSERQAEDILEIRLRQLARLEAIKIQQELAELRNEKTT 480 DKVI+IIRESDEPKPALI+AF+LS+RQAEDILEIRLRQLARLEAIKIQQELAELRNEK+T Sbjct: 421 DKVIRIIRESDEPKPALIEAFRLSDRQAEDILEIRLRQLARLEAIKIQQELAELRNEKST 480 Query: 481 LQDLLDNPASMKKLVIKEIEGDAKTYGDARRTIIEEAERATFEQKVIDEPVTVIISQKGW 540 LQDLLDNP+SMKKLVIKEIEGDAKTYGDARRTIIEEAERATFEQKVIDEPVTVIISQKGW Sbjct: 481 LQDLLDNPSSMKKLVIKEIEGDAKTYGDARRTIIEEAERATFEQKVIDEPVTVIISQKGW 540 Query: 541 VRARTGHGHDATQFTFKAGDSLYGAFECRTVDNLLAFGSNGRVYTIAVNALPNARGDGVP 600 VRARTGHGHDATQFTFKAGDSLYGAFECRTVDNLLAFGSNGRVYTIAVNALPNARGDGVP Sbjct: 541 VRARTGHGHDATQFTFKAGDSLYGAFECRTVDNLLAFGSNGRVYTIAVNALPNARGDGVP 600 Query: 601 VTTLIELASGSSIQHYFAGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGAL 660 VTTL+ELASGSSI HYFAGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGAL Sbjct: 601 VTTLLELASGSSILHYFAGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGAL 660 Query: 661 PLAPTPVAADASAVACVSANGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVAAQAISQ 720 PLAPTPV DASAVACVS NGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVAAQAISQ Sbjct: 661 PLAPTPVPTDASAVACVSGNGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVAAQAISQ 720 Query: 721 KGVVVYGTGNVGKAKEIPLSGEKLLAHVGKRARKGRVLESRIKAAGLRSQ 770 KGVVVYGTGNVGKAKEI LS L H+GKRARKG+ LESRIK GLR+Q Sbjct: 721 KGVVVYGTGNVGKAKEIALSAVSLALHIGKRARKGKALESRIKVTGLRAQ 770 >gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [Herbaspirillum seropedicae SmR1] Length = 881 Score = 420 bits (1079), Expect = e-118, Method: Compositional matrix adjust. Identities = 296/819 (36%), Positives = 421/819 (51%), Gaps = 109/819 (13%) Query: 20 LTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYAMNELSLNSAAKPR-KSAAV 78 ++L ++YLDYA+SV+ GRALPDV DG KPV RR+LYAM+E++ N +P K A V Sbjct: 11 ISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMN-NVWNRPFVKCARV 69 Query: 79 VGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGSRDGDGAAAMRYTEARLTP 138 VG+V+GK HPHGD S+YD LVRMAQDFSLRY L+DG GNFGS DGDGAAAMRYTE RL Sbjct: 70 VGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAMRYTECRLDK 129 Query: 139 ISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGASGIAVGMATEIPSHNLTE 198 IS LL +I+ TV+F PNYDG +EP +LP R+P LL+NG+SGIAVGMAT IP HN+TE Sbjct: 130 ISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMATNIPPHNITE 189 Query: 199 VAKAAVAMIRNPKITHAELMELIPGPDFPGGGQIITPKSTIAEMYQSGRGSLKVRARWKI 258 V A+ ++ N + T EL+EL+P PDFP GG II S + + Y++GRG + +RA+ Sbjct: 190 VINGALHLLANEQCTIDELIELVPAPDFPTGG-IIYGVSGVRDGYRTGRGRVVMRAKTHF 248 Query: 259 EDLAR-GQWQAVITELPPGVSSQRVLEEIEELTNPKLKLGKKSLTPEQQTQKTTILGLLD 317 E+ R G+ ++ ELP V+ + +LE I EL K G L Sbjct: 249 EEYGREGRIAIIVDELPYQVNKKALLERIAELVRDKKLEGISDL---------------- 292 Query: 318 AVRDESGREAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSASLNLVMIGGDGRPRQKNL 377 RDES + +R+V E K + +N L QT L+ + +N+V + DG+PR NL Sbjct: 293 --RDESDKSG-MRVVIELKRGEVPEV-VLNNLYKQTQLQDTFGMNMVAL-VDGQPRLLNL 347 Query: 378 SDILTEWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNIDKVIKIIRESDEPKPAL 437 +L ++S R E VTRRT F ++K +R H+LEG L NID I IIR + P A Sbjct: 348 KQLLECFLSHRREVVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAK 407 Query: 438 ---------------------------IDAF-----------------KLSERQAEDILE 453 I+AF KLS+ QA++IL+ Sbjct: 408 AELMSRAWDSSMVREMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQ 467 Query: 454 IRLRQLARLEAIKIQQELAELRNEKTTLQDLLDNPASMKKLVIKEIEGDAKTYG----DA 509 +RL++L LE KI E ++ + L D+L PA + ++ E+ +G D Sbjct: 468 MRLQRLTGLEQDKIVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDE 527 Query: 510 RRTIIEE-AERATFEQKVIDEPVTVIISQKGWVRA----------RTGHGHDATQFTFKA 558 RR+ IE A E + + + V +S G++++ R G G A K Sbjct: 528 RRSTIEHNATDLATEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQA--MATKD 585 Query: 559 GDSLYGAFECRTVDNLLAFGSNGRVYTIAVNALP----NARGDGVPVTTLIELASGSSIQ 614 D + F T D +L F + GR+Y + V +P N+RG P+ + L G I Sbjct: 586 DDWIDQLFIANTHDYILCFSNRGRLYWLKVWEVPQGSRNSRGK--PIVNMFPLQDGEKIT 643 Query: 615 HYF-------AGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGALPLAPTPV 667 + P D + +A+ SD K G LDEG L + Sbjct: 644 VILPVSGANRSFPDDRYVFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDF-LIGAAL 702 Query: 668 AADASAVACVSANGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVA-AQAISQKGVVVY 726 V S G+ + F ++++ + RGV M LE+ ++++A A +++ V+ Sbjct: 703 TDGQHDVMLFSDGGKAVRFDENDVRPMGRTARGVRGMNLEETQQVIALLVAENEQQSVLT 762 Query: 727 GTGNVGKAKEIPLS-------GEKLLAHVGKRARKGRVL 758 T N G K P++ G K + + R G+V+ Sbjct: 763 ATEN-GFGKRTPITEYTRHGRGTKGMIAIQTSERNGKVV 800 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 0.133 0.372 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: 2,272,687 Number of extensions: 92513 Number of successful extensions: 334 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 331 Number of HSP's successfully gapped: 3 Length of query: 771 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 678 Effective length of database: 1,179,515 Effective search space: 799711170 Effective search space used: 799711170 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: 134 (56.2 bits)