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= 0030.0095.p (416 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... 485 e-138 gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A ... 271 6e-74 >gi|300312989|ref|YP_003777081.1| DNA gyrase subunit A protein [Herbaspirillum seropedicae SmR1] Length = 881 Score = 485 bits (1248), Expect = e-138, Method: Compositional matrix adjust. Identities = 226/236 (95%), Positives = 232/236 (98%) Query: 1 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNVWN 60 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVL+AMHEMNNVWN Sbjct: 1 MDQFAKETIPISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMHEMNNVWN 60 Query: 61 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRYMLVDGQGNFGSIDGDGAAAM 120 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRY LVDGQGNFGSIDGDGAAAM Sbjct: 61 RPFVKCARVVGEVMGKYHPHGDASIYDTLVRMAQDFSLRYTLVDGQGNFGSIDGDGAAAM 120 Query: 121 RYTECRLDKIANELLADIEKETVDFDPNYDGKEKEPSVLPTRIPNLLINGSSGIAVGMAT 180 RYTECRLDKI+NELLADIEKETVDF PNYDGKEKEPSVLPTRIPNLL+NGSSGIAVGMAT Sbjct: 121 RYTECRLDKISNELLADIEKETVDFVPNYDGKEKEPSVLPTRIPNLLVNGSSGIAVGMAT 180 Query: 181 NIPPHNITEVINGALHVLSNADCTIDELIELIPAPDFPTGGIIYGVSGVRDGYRTG 236 NIPPHNITEVINGALH+L+N CTIDELIEL+PAPDFPTGGIIYGVSGVRDGYRTG Sbjct: 181 NIPPHNITEVINGALHLLANEQCTIDELIELVPAPDFPTGGIIYGVSGVRDGYRTG 236 >gi|300311159|ref|YP_003775251.1| DNA topoisomerase IV subunit A [Herbaspirillum seropedicae SmR1] Length = 771 Score = 271 bits (693), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 134/228 (58%), Positives = 170/228 (74%), Gaps = 3/228 (1%) Query: 11 ISLEEEMRKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMN-NVWNRPFVKCARV 69 ++L ++YLDYA+SV+ GRALPDV DG KPV RR+L+AM+E++ N +P K A V Sbjct: 20 LTLSTFAERAYLDYAISVVKGRALPDVADGQKPVQRRILYAMNELSLNSAAKPR-KSAAV 78 Query: 70 VGEVMGKYHPHGDASIYDTLVRMAQDFSLRYMLVDGQGNFGSIDGDGAAAMRYTECRLDK 129 VG+V+GK HPHGD S+YD LVRMAQDFSLRY L+DG GNFGS DGDGAAAMRYTE RL Sbjct: 79 VGDVLGKLHPHGDQSVYDALVRMAQDFSLRYPLIDGHGNFGSRDGDGAAAMRYTEARLTP 138 Query: 130 IANELLADIEKETVDFDPNYDGKEKEPSVLPTRIPNLLINGSSGIAVGMATNIPPHNITE 189 I+ LL +I+ TV+F PNYDG +EP +LP R+P LL+NG+SGIAVGMAT IP HN+TE Sbjct: 139 ISKLLLDEIDMGTVEFQPNYDGSTEEPRLLPARLPFLLLNGASGIAVGMATEIPSHNLTE 198 Query: 190 VINGALHVLSNADCTIDELIELIPAPDFPTGG-IIYGVSGVRDGYRTG 236 V A+ ++ N + EL+ELIP PDFP GG II + + + Y++G Sbjct: 199 VAKAAVAMIRNPKISHAELMELIPGPDFPGGGQIITPQATIAEMYQSG 246 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 0.322 0.140 0.423 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: 1,313,573 Number of extensions: 55640 Number of successful extensions: 110 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 109 Number of HSP's successfully gapped: 2 Length of query: 416 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 328 Effective length of database: 1,203,190 Effective search space: 394646320 Effective search space used: 394646320 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 132 (55.5 bits)