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= 0066.0008.p (466 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit ... 921 0.0 gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase... 168 8e-43 gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase... 144 2e-35 gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit ... 102 5e-23 >gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit beta [Herbaspirillum seropedicae SmR1] Length = 466 Score = 921 bits (2381), Expect = 0.0, Method: Compositional matrix adjust. Identities = 449/466 (96%), Positives = 459/466 (98%) Query: 1 MADGKIVQCIGAVVDVEFPRDAMPKIYDALKMDGSELTLEVQQQLGDGVVRTIALGTSDG 60 MADGKIVQCIGAVVDVEFPRDAMPK+YDALK++GS+LTLEVQQQLGDGVVRTIALG+SDG Sbjct: 1 MADGKIVQCIGAVVDVEFPRDAMPKVYDALKLEGSDLTLEVQQQLGDGVVRTIALGSSDG 60 Query: 61 LRRGMTIKNTGKGITVPVGKATLGRIMDVLGNPIDECGPVSHAQTATIHRKAPAYDELSP 120 LRRG+TI NTGK ITVPVG ATLGRIMDVLGNPIDECGPVSH QTA+IHRKAPAYDELSP Sbjct: 61 LRRGLTISNTGKPITVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSP 120 Query: 121 SQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGE 180 SQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGE Sbjct: 121 SQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGE 180 Query: 181 RTREGNDFYHEMADAKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEG 240 RTREGNDFYHEMA+AKVVDLE P NSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEG Sbjct: 181 RTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEG 240 Query: 241 KDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQ 300 KDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQ Sbjct: 241 KDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQ 300 Query: 301 AVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHY 360 AVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHY Sbjct: 301 AVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHY 360 Query: 361 ETARAVQGILQRYKELRDIIAILGMDELAPEDKLLVARARKMQRFLSQPFHVAEVFTGSP 420 ETARAVQG LQRYKELRDIIAILGMDELAPEDKL+VARARKMQRFLSQPFHVAEVFTGSP Sbjct: 361 ETARAVQGTLQRYKELRDIIAILGMDELAPEDKLIVARARKMQRFLSQPFHVAEVFTGSP 420 Query: 421 GKYVSLKDTIKGFKMIASGELDHLPEQAFYMVGTIEEAIEKAKKIN 466 GKYVSLKDTIKGFKMIASGELDHLPEQAFYMVGTI+EAIEKAKKIN Sbjct: 421 GKYVSLKDTIKGFKMIASGELDHLPEQAFYMVGTIDEAIEKAKKIN 466 >gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 168 bits (426), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 112/343 (32%), Positives = 185/343 (53%), Gaps = 22/343 (6%) Query: 76 VPVGKATLGRIMDVLGNPIDECGPVSHAQTATIHRKAPAYDELSPSQELLETGIKVIDLV 135 +PVG+ LGR++D G P+D GP+ ++A + +A +P +++L+TGI+ I+ + Sbjct: 124 LPVGEELLGRVLDGAGRPLDNLGPLHTERSAPLAVRAANPLGRAPIRDILDTGIRAINSM 183 Query: 136 CPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAG-VGERTREGNDFYHEMAD 194 +G ++GLF G+GVGK+V L+ +A+ S + G +GER RE +F ++ Sbjct: 184 LTVGRGQRMGLFAGSGVGKSV----LLGMMARYTSADVIVVGLIGERGREVKEFIEQILG 239 Query: 195 AKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRYT 254 A+ + ++ +V + PP RL+ A +IAE FRD+GKDVL +D++ RY Sbjct: 240 AEGL-------ARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQGKDVLLIMDSLTRYA 292 Query: 255 LAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKT--GSITSIQAVYVPADDLTDP 312 +A E++ +G P+ GY P++ ++ L ER + GSIT+ V DD DP Sbjct: 293 MAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSITAFYTVLTEGDDQQDP 352 Query: 313 SPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGILQR 372 A LD +VL+R +A G YPA+D S SR + + EH ++R ++ + R Sbjct: 353 IADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMH-SITDAEHQRSSRHLKQLYSR 411 Query: 373 YKELRDIIAI----LGMDELAPEDKLLVARARKMQRFLSQPFH 411 ++ RD+I++ G D + E L+ R M+ FL Q H Sbjct: 412 FQRNRDLISVGAYAAGSDPILDEAIALLPR---MEAFLQQGIH 451 >gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase [Herbaspirillum seropedicae SmR1] Length = 460 Score = 144 bits (363), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 110/389 (28%), Positives = 179/389 (46%), Gaps = 21/389 (5%) Query: 2 ADGKIVQCIGAVVDVEFPRDAMPKIYDALKMD--GSELTLEVQQQLGDGVVRTIALGTSD 59 + G++ Q +G +++ P + ++ + + G + EV D AL + Sbjct: 38 SQGRVAQVLGTLIEAHMPPVQIGELCNLFNPEQPGKTMLAEVVG-FTDKASILSALSPLE 96 Query: 60 GLRRGMTIKNTGKGITVPVGKATLGRIMDVLGNPIDECGPVSHAQTATIHRKAPAYDELS 119 G+ I+ + ++ VG G ++D G + P + AT +P + Sbjct: 97 GVSTRTVIEPLRRSHSIEVGDHLFGCVLDGFGRWMFR-APAAQENVATWRAMSPVIRDAP 155 Query: 120 PSQEL------LETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLS 173 P+ L TG++ ID + G ++G+F G G GKT +M I +A + Sbjct: 156 PATSRPRIATPLPTGVRAIDGLLTMGMGQRIGVFAGPGCGKT-TLMAAIARGCQAEA--I 212 Query: 174 VFAGVGERTREGNDFYHEMADAKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTGLTIA 233 VF +GER RE N+F DA+++ K +V + R R A T IA Sbjct: 213 VFGLIGERGRELNEFLDHELDAELI-------RKTVVVCATSDRTSMERSRAAFTATAIA 265 Query: 234 EGFRDEGKDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKT 293 EGFRD G VL VD++ R+ A E+ G P+ G+ P++ + RL ER T Sbjct: 266 EGFRDRGMKVLLLVDSLTRFARAQREIGLAAGEPPARGGFTPSVYTMLPRLIERAGGTPQ 325 Query: 294 GSITSIQAVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQ 353 GSIT++ V V + +DP + LD ++L+R +A G YPA+D L S SR + Sbjct: 326 GSITAMYTVLVDGESSSDPIGDEAKSLLDGHILLTRKLAEQGHYPAIDVLASISRVMS-N 384 Query: 354 VVGQEHYETARAVQGILQRYKELRDIIAI 382 V +EH A + +L RY+E+ +I + Sbjct: 385 VTSREHRRAASRFRELLARYQEMELLIRL 413 >gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 513 Score = 102 bits (255), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 79/314 (25%), Positives = 137/314 (43%), Gaps = 23/314 (7%) Query: 50 VRTIALGTSDGLRRGMTIKNTGKGITVPVGKATLGRIMDVLGNPIDECGPVSHAQTATIH 109 V + LG + + G +K TG+ + VP+G GR+++ LG PID GP++ TA I Sbjct: 71 VGAVILGEYEHISEGDVVKCTGRILEVPIGPELKGRVVNALGQPIDGKGPINAKLTAPIE 130 Query: 110 RKAPAYDELSPSQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAH 169 + AP + ++TG+K ID + P +G + + G GKT ++ I N K Sbjct: 131 KIAPGVIARQSVSQPMQTGLKSIDSMVPVGRGQRELIIGDRQTGKTAVAIDAIIN-QKGQ 189 Query: 170 SGLSVFAGVGERTREGNDFYHEMADAKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTG 229 + ++ +G++ + + ++ +V +E + A +G Sbjct: 190 NMTCIYVAIGQKASSVKNVVRALEAHGAMEYTI-------VVAATASESAAMQYVSAYSG 242 Query: 230 LTIAEGFRDEGKDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERIT 289 + E FRD G+D L D++ + +A +VS LL R P Y + RL ER Sbjct: 243 CAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLERAA 302 Query: 290 ST---------------KTGSITSIQAVYVPADDLTDPSPATTFAHLDSTVVLSRDIASL 334 +TGS+T++ + A D++ P + D + L + + Sbjct: 303 RVNADYVEKFTNGEVKGQTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLFNA 362 Query: 335 GIYPAVDPLDSTSR 348 GI PA++ S SR Sbjct: 363 GIRPAINAGISVSR 376 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 0.136 0.383 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: 1,361,623 Number of extensions: 56274 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 4 Length of query: 466 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 377 Effective length of database: 1,198,455 Effective search space: 451817535 Effective search space used: 451817535 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: 132 (55.5 bits)