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= 0103.0026.p (525 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 ... 765 0.0 gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [H... 77 5e-15 >gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A [Herbaspirillum seropedicae SmR1] Length = 771 Score = 765 bits (1975), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/508 (74%), Positives = 427/508 (84%), Gaps = 34/508 (6%) Query: 35 VSSQKVLEEIEELTNPKIKLGKKTLTPEQQAQKQSILAMLDAVRDESGREAPVRLVFEPK 94 VSSQ+VLEEIEELTNPK+KLGKK+LTPEQQAQK +IL +LDAVRDESGR+APVRLVFEPK Sbjct: 277 VSSQRVLEEIEELTNPKVKLGKKSLTPEQQAQKAAILGLLDAVRDESGRDAPVRLVFEPK 336 Query: 95 SKNQDQTEFMNTLLAQTSLETSSSINLVMIGGDGRPRQKGLGDILSEWITFRFATITRRT 154 SKNQDQTEFMNTLLAQTSLETS+S+NLVMIGGDGRPRQK L DILSEWI+FRF T+TRRT Sbjct: 337 SKNQDQTEFMNTLLAQTSLETSASLNLVMIGGDGRPRQKNLTDILSEWISFRFETVTRRT 396 Query: 155 QFKLQKVEDRIHILEGREAILLNIDKVIRIIRESXLNIDKVI------------------ 196 QF++QKV DRIHILEGREA+LLNIDKVIRIIRES +I Sbjct: 397 QFRMQKVNDRIHILEGREAVLLNIDKVIRIIRESDEPKPALIEAFRLSDRQAEDILEIRL 456 Query: 197 -RIIRLETIKIQQELAELRNEKSTLQDLLDNPASMKRLVIKEIEADDKQFGDARRTVIEE 255 ++ RLE IKIQQELAELRNEKSTLQDLLDNP+SMK+LVIKEIE D K +GDARRT+IEE Sbjct: 457 RQLARLEAIKIQQELAELRNEKSTLQDLLDNPSSMKKLVIKEIEGDAKTYGDARRTIIEE 516 Query: 256 AEKAVLEQKVIDEPVTVIISQKGWVRARGGHGHDATQFTFKAGDGLYGAFECRTIDNLLA 315 AE+A EQKVIDEPVTVIISQKGWVRAR GHGHDATQFTFKAGD LYGAFECRT+DNLLA Sbjct: 517 AERATFEQKVIDEPVTVIISQKGWVRARTGHGHDATQFTFKAGDSLYGAFECRTVDNLLA 576 Query: 316 FGSNGRIYTVGVNSLPNARXIYTVGVNSLPPRARGDGVPITTLVDLGSGNSLLHYFAGPV 375 FGSNGR+YT+ VN+LPN ARGDGVP+TTL++L SG+S+LHYFAGP Sbjct: 577 FGSNGRVYTIAVNALPN---------------ARGDGVPVTTLLELASGSSILHYFAGPA 621 Query: 376 DTSMLLASDAGYGFTARLGDMLSRNKSGKAFITLDDGDMPLAPRPMPAGASAIACLSGQG 435 DT++LLASDA GF A+ DM R K GK+F TLD+G +PLAP P+P ASA+AC+SG G Sbjct: 622 DTTLLLASDAAAGFIAKASDMFGRVKGGKSFFTLDEGALPLAPTPVPTDASAVACVSGNG 681 Query: 436 RLLVFGLDEIKTLASGGRGVILMELEKNEKLLAAQAITQKGVLVSGTGRGGKAQEVALSA 495 RLLVFGLDE+KTL+SGGRGV LMELEKNEKL+AAQAI+QKGV+V GTG GKA+E+ALSA Sbjct: 682 RLLVFGLDEMKTLSSGGRGVNLMELEKNEKLVAAQAISQKGVVVYGTGNVGKAKEIALSA 741 Query: 496 VALGLHIGKRARKGKALESKLKATALAA 523 V+L LHIGKRARKGKALES++K T L A Sbjct: 742 VSLALHIGKRARKGKALESRIKVTGLRA 769 >gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [Herbaspirillum seropedicae SmR1] Length = 881 Score = 76.6 bits (187), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 76/291 (26%), Positives = 127/291 (43%), Gaps = 32/291 (10%) Query: 197 RIIRLETIKIQQELAELRNEKSTLQDLLDNPASMKRLVIKEIEADDKQFG----DARRTV 252 R+ LE KI E ++ + + L D+L PA + ++ E+ A FG D RR+ Sbjct: 472 RLTGLEQDKIVNEYKDVMAQIADLLDILAKPARVTAIITDELNAAKNDFGIGAKDERRST 531 Query: 253 IEE-AEKAVLEQKVIDEPVTVIISQKGWVRA----------RGGHGHDATQFTFKAGDGL 301 IE A E + + + V +S G++++ RGG G A K D + Sbjct: 532 IEHNATDLATEDLITPQDMVVTLSHTGYMKSQPVSEYRAQKRGGRGKQA--MATKDDDWI 589 Query: 302 YGAFECRTIDNLLAFGSNGRIYTVGVNSLP----NARXIYTVGVNSLPPRARGDGVPITT 357 F T D +L F + GR+Y + V +P N+R VN P + DG IT Sbjct: 590 DQLFIANTHDYILCFSNRGRLYWLKVWEVPQGSRNSRGKPI--VNMFPLQ---DGEKITV 644 Query: 358 LVDLGSGNSLLHYFAGPVDTSMLLASDAGYGFTARLGDMLSRNKSGKAFITLDDGDMPLA 417 ++ + N P D + +A+ G L D + K+G + LD+GD L Sbjct: 645 ILPVSGANRSF-----PDDRYVFMATSLGTVKKTPLSDFSNPRKAGIIAVDLDEGDF-LI 698 Query: 418 PRPMPAGASAIACLSGQGRLLVFGLDEIKTLASGGRGVILMELEKNEKLLA 468 + G + S G+ + F ++++ + RGV M LE+ ++++A Sbjct: 699 GAALTDGQHDVMLFSDGGKAVRFDENDVRPMGRTARGVRGMNLEETQQVIA 749 Score = 65.9 bits (159), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 42/110 (38%), Positives = 63/110 (57%), Gaps = 3/110 (2%) Query: 77 VRDESGREAPVRLVFEPKSKNQDQTEFMNTLLAQTSLETSSSINLVMIGGDGRPRQKGLG 136 +RDES + +R+V E K + +N L QT L+ + +N+V + DG+PR L Sbjct: 292 LRDESDKSG-MRVVIELKRGEVPEV-VLNNLYKQTQLQDTFGMNMVALV-DGQPRLLNLK 348 Query: 137 DILSEWITFRFATITRRTQFKLQKVEDRIHILEGREAILLNIDKVIRIIR 186 +L +++ R +TRRT F+L+K +R H+LEG L NID I IIR Sbjct: 349 QLLECFLSHRREVVTRRTVFELRKARERGHVLEGLAVALANIDDFIAIIR 398 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 0.368 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: 1,535,708 Number of extensions: 65363 Number of successful extensions: 207 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 3 Length of query: 525 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 435 Effective length of database: 1,193,720 Effective search space: 519268200 Effective search space used: 519268200 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)