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= 0027.0002.p (856 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311586|ref|YP_003775678.1| ATP-dependent DNA ligase [Herba... 1706 0.0 gi|300311593|ref|YP_003775685.1| ATP-dependent DNA ligase [Herba... 65 3e-11 >gi|300311586|ref|YP_003775678.1| ATP-dependent DNA ligase [Herbaspirillum seropedicae SmR1] Length = 856 Score = 1706 bits (4418), Expect = 0.0, Method: Compositional matrix adjust. Identities = 843/856 (98%), Positives = 846/856 (98%) Query: 1 MSTGKLDRYRAKRDFTITPEPSGHASRSRAEAQSQSLQFFIQRHHARRLHYDFRLELDGV 60 MSTGKLDRYRAKRDFTITPEPSGHASRSRA AQSQSLQFFIQRHHARRLHYDFRLELDGV Sbjct: 1 MSTGKLDRYRAKRDFTITPEPSGHASRSRAGAQSQSLQFFIQRHHARRLHYDFRLELDGV 60 Query: 61 LKSWAVPKGPSLDPHDKRLAVRVEDHPFDYGSFEGDIPAHQYGAGHVVLWDRGQWRPHGD 120 LKSWAVPKGPSLDPHDKRLAVRVEDHPFDYGSFEGDIPAHQYGAGHVVLWDRGQWRPHGD Sbjct: 61 LKSWAVPKGPSLDPHDKRLAVRVEDHPFDYGSFEGDIPAHQYGAGHVVLWDRGQWRPHGD 120 Query: 121 ARAGLAKGHLSFELEGEKLQGRWALVRMGKPAADGKENWLLIKDDDAAAASGEQAAITEL 180 ARAGLAKGHLSFELEGEKL GRWALVRMGKPAADGKENWLLIKDDDAAAASGEQAAITEL Sbjct: 121 ARAGLAKGHLSFELEGEKLHGRWALVRMGKPAADGKENWLLIKDDDAAAASGEQAAITEL 180 Query: 181 RPESVKDLGDQAPPVKARASAKAAPDSTGPMPAQMQAQLATLVDRAPAGEQWLCELKFDG 240 RPESVKDLGDQAP KARASAKAAPDSTGPMPAQMQAQLATLVDRAPAGEQWLCELKFDG Sbjct: 181 RPESVKDLGDQAPLAKARASAKAAPDSTGPMPAQMQAQLATLVDRAPAGEQWLCELKFDG 240 Query: 241 YRGLCRIDHGQAAIYTREGLDWSHRWPILAQALARLPVDEAWIDGEVVALDAQGQISFEA 300 YRGLCRIDHGQAAIYTREGLDWSHRWPIL QALARLPVDEAWIDGEVVALDAQGQISFEA Sbjct: 241 YRGLCRIDHGQAAIYTREGLDWSHRWPILVQALARLPVDEAWIDGEVVALDAQGQISFEA 300 Query: 301 LQNLARGDRQQADGIRLALYAFDLLYLNGHDLREIPLRQRKELLRELIPGSDPEGLLLYS 360 LQNLARGDRQQADGIRLALYAFDLLYLNGHDLR+IPLRQRK LLRELIPGSDPEGLLLYS Sbjct: 301 LQNLARGDRQQADGIRLALYAFDLLYLNGHDLRDIPLRQRKALLRELIPGSDPEGLLLYS 360 Query: 361 EHIEGHAAEVFRHACQHGMEGIVLKRADAPYTGRRDRYWLKLKCEHRQEFVIAGYTEPAG 420 EHIEGHAAEVFRHACQHGMEGIVLKRADAPYTGRRDRYWLKLKCEHRQEFVIAGYTEPAG Sbjct: 361 EHIEGHAAEVFRHACQHGMEGIVLKRADAPYTGRRDRYWLKLKCEHRQEFVIAGYTEPAG 420 Query: 421 QRSGFGAILVGVYDEHEQLRYAGRVGTGFDDKLLETLLKQFGPLEQDQPAFANPPTGQQR 480 QRSGFGAILVGVYDEHEQLRYAGRVGTGFDDKLLETLLKQFGPLEQDQPAFANPPTGQQR Sbjct: 421 QRSGFGAILVGVYDEHEQLRYAGRVGTGFDDKLLETLLKQFGPLEQDQPAFANPPTGQQR 480 Query: 481 RGVHWLRPALVAEVRFAQWTSTGILRHGSFVALREDKDPHQIRREGPQPLAEAKADAKAP 540 RGVHWLRPALVAEVRFAQWTS GILRHGSFVALREDKDPHQIRREGPQPLAEAKADAKAP Sbjct: 481 RGVHWLRPALVAEVRFAQWTSAGILRHGSFVALREDKDPHQIRREGPQPLAEAKADAKAP 540 Query: 541 AAAPARSPGKASDLSAPVTVAGVKLTHPGKILFPDTGLTKLELARYYQSVAPWILPELRQ 600 AAAPARS GKASDLSAPVTVAGVKLTHPGKILFPDTGLTKLELARYYQSVAPWILPELRQ Sbjct: 541 AAAPARSRGKASDLSAPVTVAGVKLTHPGKILFPDTGLTKLELARYYQSVAPWILPELRQ 600 Query: 601 RPLSLVRCPDGHAGKCFFQKHTGQGMPEAIDTIEVPEGEGHAQYMMVNDVAGLVATVQMG 660 RPLSLVRCPDGHAGK FFQKHTGQGMPEAIDTIEVPEGEGHAQYMMVNDVAGLVATVQMG Sbjct: 601 RPLSLVRCPDGHAGKRFFQKHTGQGMPEAIDTIEVPEGEGHAQYMMVNDVAGLVATVQMG 660 Query: 661 VLELHAWGATGAALDHPDRVVFDLDPADDVPWATVVEGAQLVRGLLKEIGLDCFLKTSGG 720 VLELHAWGATGAAL+HPDRVVFDLDPADDVPWATVVEGAQLVRGLLKEIGLDCFLKTSGG Sbjct: 661 VLELHAWGATGAALNHPDRVVFDLDPADDVPWATVVEGAQLVRGLLKEIGLDCFLKTSGG 720 Query: 721 KGLHVMVPIRPEHDWAVVKDWAHRFAAHLARHLPDRFIAKMSKAARNGKIFIDYLRNAPG 780 KGLHVMVPIRPEHDWAVVKDWAHRFAAHLARHLPDRFIAKMSKAARNGKIFIDYLRNAPG Sbjct: 721 KGLHVMVPIRPEHDWAVVKDWAHRFAAHLARHLPDRFIAKMSKAARNGKIFIDYLRNAPG 780 Query: 781 ATTVVAYSVRARDGAPVSVPITWEELEQGKGIKADHFRVSTMPARIRSLEQHDPWAGFGQ 840 ATTVVAYSVRARDGAPVSVPITWEELEQGKGIKADHFRVSTMPARIRSLEQHDPWA FGQ Sbjct: 781 ATTVVAYSVRARDGAPVSVPITWEELEQGKGIKADHFRVSTMPARIRSLEQHDPWAHFGQ 840 Query: 841 APQRLTKAMLAAFDSI 856 APQRLTKAMLAAFDS+ Sbjct: 841 APQRLTKAMLAAFDSV 856 >gi|300311593|ref|YP_003775685.1| ATP-dependent DNA ligase [Herbaspirillum seropedicae SmR1] Length = 555 Score = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 76/277 (27%), Positives = 121/277 (43%), Gaps = 42/277 (15%) Query: 230 EQWLCELKFDGYRGLCRIDHGQAAIYTREGLDWSHRWPILAQALARLPV-DEAWIDGEVV 288 +QW E K+DG R HGQ +++R + R+P LA LP+ D IDGE+V Sbjct: 229 QQWQVEWKYDGIRAQLVRRHGQNWLWSRGEELITERFP----ELAALPLPDGTVIDGEIV 284 Query: 289 ------ALDAQGQISFEALQNLARGDRQQADGIRLA-----LYAFDLLYLNGHDLREIPL 337 L A+ F LQ R R+ LA L A+DLL +G DLR +P Sbjct: 285 IRHPDAGLAAERVAPFSELQK--RIGRKNLSARLLAELPAGLIAYDLLEQDGCDLRGLPQ 342 Query: 338 RQRKELLRELIPGSDPEGLLLYSEHIEGH----AAEVFRHACQHGMEGIVLKRADAPY-- 391 +R+ L L+ GS P L+ + + A++ A + G+EG++LK DA Y Sbjct: 343 SERRRRLEALV-GSHPAAALMLAPTLTAKDWDALAQLRASARERGVEGMMLKDIDARYGI 401 Query: 392 -TGRRDRYWLKLKCEHRQEFVIAGYTEPA-GQRSG-FGAILVGVYD------EHEQLRYA 442 R D W K K + + Y + G+R+ + ++D +L Sbjct: 402 GRTRNDGTWWKWKIDPYSIDAVLIYAQAGHGRRASLYTDYTFALWDGPPEAGSQRKLVPF 461 Query: 443 GRVGTGFDDK--------LLETLLKQFGPLEQDQPAF 471 + +G D + ++ +++FGP+ QP+ Sbjct: 462 AKAYSGLTDAEIAVVDQVIRKSTIEKFGPVRSVQPSM 498 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 0.320 0.137 0.426 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: 2,978,374 Number of extensions: 137835 Number of successful extensions: 384 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 384 Number of HSP's successfully gapped: 2 Length of query: 856 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 763 Effective length of database: 1,179,515 Effective search space: 899969945 Effective search space used: 899969945 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 (21.8 bits) S2: 135 (56.6 bits)