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= 0001.2993.p (1145 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312329|ref|YP_003776421.1| transcription-repair ATP-depend... 2307 0.0 gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG ... 226 1e-59 >gi|300312329|ref|YP_003776421.1| transcription-repair ATP-dependent coupling factor [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 2307 bits (5979), Expect = 0.0, Method: Compositional matrix adjust. Identities = 1123/1145 (98%), Positives = 1134/1145 (99%) Query: 1 MSFDLKKSLPKAGVRFQPPAVHGSADAFLLAQAALALKAEGRMLAVVVAGATDAQRLLSE 60 MSFD KKSLPKAG+RFQPPAVHGSADA+LLAQAALALKAEGRMLAVVVAGATDAQRLL+E Sbjct: 1 MSFDPKKSLPKAGIRFQPPAVHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAE 60 Query: 61 IPWFQPKQGERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTA 120 IPWFQP +GERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTA Sbjct: 61 IPWFQPSEGERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTA 120 Query: 121 LLRMAPPQFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFP 180 LLRMAPPQFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFP Sbjct: 121 LLRMAPPQFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFP 180 Query: 181 MGSVLPYRLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWRE 240 MGSVLPYRLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWRE Sbjct: 181 MGSVLPYRLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWRE 240 Query: 241 VFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKR 300 VFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKR Sbjct: 241 VFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKR 300 Query: 301 FWSDTRSRWTFLHADRERPVLEPRSIYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPN 360 FWSDTRSRW FLHADRERPVLEP++IYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPN Sbjct: 301 FWSDTRSRWNFLHADRERPVLEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPN 360 Query: 361 IAVNRRAEDPLVNLRGFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNDFLA 420 IAVNRRA+DPLVNLR FLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWN FLA Sbjct: 361 IAVNRRADDPLVNLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLA 420 Query: 421 SDEPLMLGVAPLHAGFVSAGGLALVTETELYAGSGRRVGSRKQQAATDVEYMVRDLSELK 480 SDEPLMLGVAPLHAGFV+A GLALVTETELYAGSGRRVGSRKQQAATDVEYMVRDLSELK Sbjct: 421 SDEPLMLGVAPLHAGFVTAAGLALVTETELYAGSGRRVGSRKQQAATDVEYMVRDLSELK 480 Query: 481 IGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPE 540 IGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPE Sbjct: 481 IGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPE 540 Query: 541 DAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFG 600 DAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFG Sbjct: 541 DAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFG 600 Query: 601 FEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPT 660 FEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPT Sbjct: 601 FEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPT 660 Query: 661 TLLAEQHATTFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEV 720 TLLAEQHA TFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEV Sbjct: 661 TLLAEQHAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEV 720 Query: 721 KFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIAT 780 KFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIAT Sbjct: 721 KFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIAT 780 Query: 781 APQKRLAIKTFVRAENESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARI 840 APQKRLAIKTFVRAE ESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARI Sbjct: 781 APQKRLAIKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARI 840 Query: 841 AVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQ 900 VAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQ Sbjct: 841 GVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQ 900 Query: 901 LRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEV 960 LRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEV Sbjct: 901 LRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEV 960 Query: 961 LGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCG 1020 LGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCG Sbjct: 961 LGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCG 1020 Query: 1021 DVHERLSLYKRFANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKI 1080 DVHERLSLYKR ANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKI Sbjct: 1021 DVHERLSLYKRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKI 1080 Query: 1081 DAHSEAALLQFVPHPPIDAMRIIELVQKNRQVKLNGPDKLRITANMPDLSTRVQQVKATM 1140 DAHSEAALLQFVP+PPIDAMRIIELVQKNRQVKLNGPDKLRITA+MPDL+ RVQQVKATM Sbjct: 1081 DAHSEAALLQFVPNPPIDAMRIIELVQKNRQVKLNGPDKLRITASMPDLNARVQQVKATM 1140 Query: 1141 KALTG 1145 KALTG Sbjct: 1141 KALTG 1145 >gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG protein [Herbaspirillum seropedicae SmR1] Length = 722 Score = 226 bits (575), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 153/386 (39%), Positives = 209/386 (54%), Gaps = 23/386 (5%) Query: 601 FEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPT 660 F+ T Q + + D+ PM RL+ GDVG GKT VA AA A+ G Q ++APT Sbjct: 292 FQLTGAQQRVLEEIRADLRQSFPMQRLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPT 351 Query: 661 TLLAEQHATTFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEV 720 +LAEQH A V +A LS + KE T+A+ + G +VIGTH L+ D V Sbjct: 352 EILAEQHFRKIAAWMEPLDVGVAWLSGSQKKKEKTEALAHIESGAARLVIGTHALIQDTV 411 Query: 721 KFSRLGLVIIDEEHRFGVRQKEALKSLR---AEVDV------LTLTATPIPRTLGMALEG 771 +F LGLVI+DE+HRFGV Q+ AL++ A+ D L ++ATPIPRTL M Sbjct: 412 QFENLGLVIVDEQHRFGVGQRLALRNKSFNPADHDSPAVPHQLMMSATPIPRTLAMTYYA 471 Query: 772 LRDFSVIATAPQKRLAIKTFVRAEN-ESTIREACLRELKRGGQVYFLHNEVE-------- 822 + SVI P R I T V +N + E G Q+Y++ +E Sbjct: 472 DLEVSVIDELPPGRSPIVTRVIDQNRRDEVIERVHAAALEGKQIYWVCPLIEESEALQLQ 531 Query: 823 TIANRKAALEQLLPEARIAVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTA 882 T + AAL LP+ +I + HG+M + + VM F ++L+ TT+IE G+DVP A Sbjct: 532 TATDTHAALSAALPDLQIGLVHGRMKPVEKQMVMEGFSRGAIHLLVATTVIEVGVDVPNA 591 Query: 883 NTIIMHRADKFGLAQLHQLRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELG 942 + +++ A++FGL+QLHQLRGRVGR + LL Q L A++RL M E Sbjct: 592 SLMVIEHAERFGLSQLHQLRGRVGRGSAASVCLLLYQG--PLGGTAKQRLAT---MRETT 646 Query: 943 SGFYLAMHDLEIRGAGEVLGDHQSGE 968 GF +A DL+IRG GE LG QSGE Sbjct: 647 DGFEIARRDLDIRGPGEFLGARQSGE 672 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 0.321 0.136 0.397 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: 3,571,824 Number of extensions: 157081 Number of successful extensions: 475 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 474 Number of HSP's successfully gapped: 2 Length of query: 1145 Length of database: 1,619,870 Length adjustment: 96 Effective length of query: 1049 Effective length of database: 1,165,310 Effective search space: 1222410190 Effective search space used: 1222410190 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: 136 (57.0 bits)