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= 0026.0058.p (770 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 ... 1367 0.0 gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [H... 417 e-117 >gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A [Herbaspirillum seropedicae SmR1] Length = 771 Score = 1367 bits (3537), Expect = 0.0, Method: Compositional matrix adjust. Identities = 658/769 (85%), Positives = 716/769 (93%), Gaps = 1/769 (0%) Query: 1 MTEQANLFEQ-PAPPDGESLTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYA 59 MT+Q LF+Q P+ PDGESLTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYA Sbjct: 1 MTDQPTLFDQVPSAPDGESLTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYA 60 Query: 60 MNELGLNATAKPRKSAAVVGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGQGNFGS 119 MNEL LN+ AKPRKSAAVVGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDG GNFGS Sbjct: 61 MNELSLNSAAKPRKSAAVVGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGS 120 Query: 120 RDGDGAAAMRYTEARLTPISKLLLDEIDMGTVDFQPNYDGSTEEPKLLPARLPFLLLNGA 179 RDGDGAAAMRYTEARLTPISKLLLDEIDMGTV+FQPNYDGSTEEP+LLPARLPFLLLNGA Sbjct: 121 RDGDGAAAMRYTEARLTPISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGA 180 Query: 180 SGIAVGMATEIPSHNLREVARAAVAMIRNPKITHAELMTHITGPDFPGGGQIITPPSTIA 239 SGIAVGMATEIPSHNL EVA+AAVAMIRNPKI+HAELM I GPDFPGGGQIITP +TIA Sbjct: 181 SGIAVGMATEIPSHNLTEVAKAAVAMIRNPKISHAELMELIPGPDFPGGGQIITPQATIA 240 Query: 240 EIYQSGRGSLKVRARWKIEDMARGQWQAVITELPPGVSSQKVLEEIEELTNPKIKLGKKT 299 E+YQSGRGSLKVRARWKIED+ARGQWQAVITELPPGVSSQ+VLEEIEELTNPK+KLGKK+ Sbjct: 241 EMYQSGRGSLKVRARWKIEDLARGQWQAVITELPPGVSSQRVLEEIEELTNPKVKLGKKS 300 Query: 300 LTPEQQAQKQSILAMLDAVRDESGREAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSSS 359 LTPEQQAQK +IL +LDAVRDESGR+APVRLVFEPKSKNQDQTEFMNTLLAQTSLETS+S Sbjct: 301 LTPEQQAQKAAILGLLDAVRDESGRDAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSAS 360 Query: 360 INLVMIGGDGRPRQKGLADILGEWIAFRFVTITRRSQFKLQKVEDRIHILEGREAILLNI 419 +NLVMIGGDGRPRQK L DIL EWI+FRF T+TRR+QF++QKV DRIHILEGREA+LLNI Sbjct: 361 LNLVMIGGDGRPRQKNLTDILSEWISFRFETVTRRTQFRMQKVNDRIHILEGREAVLLNI 420 Query: 420 DKVIRIIRESDEPKPALIEAFKLSDRQAEDILEIRLRQLARLETIKIQQELAELRNEKAT 479 DKVIRIIRESDEPKPALIEAF+LSDRQAEDILEIRLRQLARLE IKIQQELAELRNEK+T Sbjct: 421 DKVIRIIRESDEPKPALIEAFRLSDRQAEDILEIRLRQLARLEAIKIQQELAELRNEKST 480 Query: 480 LQDLLDNPASMKRLVIKEIEADDKQFGDARRTVIEEAEKAVLEQKVIDEPVTVIISQKGW 539 LQDLLDNP+SMK+LVIKEIE D K +GDARRT+IEEAE+A EQKVIDEPVTVIISQKGW Sbjct: 481 LQDLLDNPSSMKKLVIKEIEGDAKTYGDARRTIIEEAERATFEQKVIDEPVTVIISQKGW 540 Query: 540 VRARGGHGHDATQFTFKAGDGLYGAFECRTVDNLLGFGSNGRIYTVGVNSLPNARGDGVP 599 VRAR GHGHDATQFTFKAGD LYGAFECRTVDNLL FGSNGR+YT+ VN+LPNARGDGVP Sbjct: 541 VRARTGHGHDATQFTFKAGDSLYGAFECRTVDNLLAFGSNGRVYTIAVNALPNARGDGVP 600 Query: 600 ITTLVDLGNGNNLLHYFAGPVDTQMLLASDAGYGFTAKVGDMLSRVKGGKAFITLDEGDL 659 +TTL++L +G+++LHYFAGP DT +LLASDA GF AK DM RVKGGK+F TLDEG L Sbjct: 601 VTTLLELASGSSILHYFAGPADTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGAL 660 Query: 660 PLAPRPMPAGASAIACLSGQGRLLVFGLDEIKTLASGGRGVILMELEKNEKLLAAQAITQ 719 PLAP P+P ASA+AC+SG GRLLVFGLDE+KTL+SGGRGV LMELEKNEKL+AAQAI+Q Sbjct: 661 PLAPTPVPTDASAVACVSGNGRLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVAAQAISQ 720 Query: 720 KGVLVSGTGRGGKAQDVTLSAVALALHIGKRARKGKALESKLKATALAA 768 KGV+V GTG GKA+++ LSAV+LALHIGKRARKGKALES++K T L A Sbjct: 721 KGVVVYGTGNVGKAKEIALSAVSLALHIGKRARKGKALESRIKVTGLRA 769 >gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [Herbaspirillum seropedicae SmR1] Length = 881 Score = 417 bits (1073), Expect = e-117, Method: Compositional matrix adjust. Identities = 285/770 (37%), Positives = 404/770 (52%), Gaps = 106/770 (13%) Query: 19 LTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYAMNELGLNATAKPR-KSAAV 77 ++L ++YLDYA+SV+ GRALPDV DG KPV RR+LYAM+E+ N +P K A V Sbjct: 11 ISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMN-NVWNRPFVKCARV 69 Query: 78 VGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGQGNFGSRDGDGAAAMRYTEARLTP 137 VG+V+GK HPHGD S+YD LVRMAQDFSLRY L+DGQGNFGS DGDGAAAMRYTE RL Sbjct: 70 VGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAMRYTECRLDK 129 Query: 138 ISKLLLDEIDMGTVDFQPNYDGSTEEPKLLPARLPFLLLNGASGIAVGMATEIPSHNLRE 197 IS LL +I+ TVDF PNYDG +EP +LP R+P LL+NG+SGIAVGMAT IP HN+ E Sbjct: 130 ISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMATNIPPHNITE 189 Query: 198 VARAAVAMIRNPKITHAELMTHITGPDFPGGGQIITPPSTIAEIYQSGRGSLKVRARWKI 257 V A+ ++ N + T EL+ + PDFP GG II S + + Y++GRG + +RA+ Sbjct: 190 VINGALHLLANEQCTIDELIELVPAPDFPTGG-IIYGVSGVRDGYRTGRGRVVMRAKTHF 248 Query: 258 EDMAR-GQWQAVITELPPGVSSQKVLEEIEELTNPKIKLGKKTLTPEQQAQKQSILAMLD 316 E+ R G+ ++ ELP V+ + +LE I EL K L + Sbjct: 249 EEYGREGRIAIIVDELPYQVNKKALLERIAELVRDK------------------KLEGIS 290 Query: 317 AVRDESGREAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSSSINLVMIGGDGRPRQKGL 376 +RDES + +R+V E K + +N L QT L+ + +N+V + DG+PR L Sbjct: 291 DLRDESDKSG-MRVVIELKRGEVPEV-VLNNLYKQTQLQDTFGMNMVAL-VDGQPRLLNL 347 Query: 377 ADILGEWIAFRFVTITRRSQFKLQKVEDRIHILEGREAILLNIDKVIRIIRESDEPKPAL 436 +L +++ R +TRR+ F+L+K +R H+LEG L NID I IIR + P A Sbjct: 348 KQLLECFLSHRREVVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIRAAPTPPIAK 407 Query: 437 ---------------------------IEAF-----------------KLSDRQAEDILE 452 IEAF KLSD QA++IL+ Sbjct: 408 AELMSRAWDSSMVREMLARAGEANEGGIEAFRPESLPAHYGIQSDGLYKLSDEQAQEILQ 467 Query: 453 IRLRQLARLETIKIQQELAELRNEKATLQDLLDNPASMKRLVIKEIEADDKQFG----DA 508 +RL++L LE KI E ++ + A L D+L PA + ++ E+ A FG D Sbjct: 468 MRLQRLTGLEQDKIVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDE 527 Query: 509 RRTVIEE-AEKAVLEQKVIDEPVTVIISQKGWVRA----------RGGHGHDATQFTFKA 557 RR+ IE A E + + + V +S G++++ RGG G A K Sbjct: 528 RRSTIEHNATDLATEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQA--MATKD 585 Query: 558 GDGLYGAFECRTVDNLLGFGSNGRIYTVGVNSLP----NARG----------DGVPITTL 603 D + F T D +L F + GR+Y + V +P N+RG DG IT + Sbjct: 586 DDWIDQLFIANTHDYILCFSNRGRLYWLKVWEVPQGSRNSRGKPIVNMFPLQDGEKITVI 645 Query: 604 VDLGNGNNLLHYFAGPVDTQMLLASDAGYGFTAKVGDMLSRVKGGKAFITLDEGDLPLAP 663 + + N P D + +A+ G + D + K G + LDEGD L Sbjct: 646 LPVSGANRSF-----PDDRYVFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDF-LIG 699 Query: 664 RPMPAGASAIACLSGQGRLLVFGLDEIKTLASGGRGVILMELEKNEKLLA 713 + G + S G+ + F ++++ + RGV M LE+ ++++A Sbjct: 700 AALTDGQHDVMLFSDGGKAVRFDENDVRPMGRTARGVRGMNLEETQQVIA 749 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 0.379 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: 2,440,134 Number of extensions: 109407 Number of successful extensions: 336 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 332 Number of HSP's successfully gapped: 3 Length of query: 770 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 677 Effective length of database: 1,179,515 Effective search space: 798531655 Effective search space used: 798531655 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)