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= 0031.0025.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 ... 949 0.0 gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase... 167 1e-42 gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase... 143 4e-35 gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit ... 103 4e-23 >gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit beta [Herbaspirillum seropedicae SmR1] Length = 466 Score = 949 bits (2452), Expect = 0.0, Method: Compositional matrix adjust. Identities = 464/466 (99%), Positives = 466/466 (100%) Query: 1 MADGKIVQCIGAVVDVEFPRNAMPKVYDALKLEGSDLTLEVQQQLGDGVVRTIALGSSDG 60 MADGKIVQCIGAVVDVEFPR+AMPKVYDALKLEGSDLTLEVQQQLGDGVVRTIALGSSDG Sbjct: 1 MADGKIVQCIGAVVDVEFPRDAMPKVYDALKLEGSDLTLEVQQQLGDGVVRTIALGSSDG 60 Query: 61 LRRGLTISNTGKPISVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSP 120 LRRGLTISNTGKPI+VPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSP Sbjct: 61 LRRGLTISNTGKPITVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSP 120 Query: 121 SQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGE 180 SQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGE Sbjct: 121 SQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGE 180 Query: 181 RTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEG 240 RTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEG Sbjct: 181 RTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEG 240 Query: 241 KDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQ 300 KDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQ Sbjct: 241 KDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQ 300 Query: 301 AVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHY 360 AVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHY Sbjct: 301 AVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHY 360 Query: 361 ETARAVQGTLQRYKELRDIIAILGMDELAPEDKLIVARARKMQRFLSQPFHVAEVFTGSP 420 ETARAVQGTLQRYKELRDIIAILGMDELAPEDKLIVARARKMQRFLSQPFHVAEVFTGSP Sbjct: 361 ETARAVQGTLQRYKELRDIIAILGMDELAPEDKLIVARARKMQRFLSQPFHVAEVFTGSP 420 Query: 421 GKYVSLKDTIKGFKMIASGELDHLPEQAFYMVGTIDEAIEKAKKIN 466 GKYVSLKDTIKGFKMIASGELDHLPEQAFYMVGTIDEAIEKAKKIN Sbjct: 421 GKYVSLKDTIKGFKMIASGELDHLPEQAFYMVGTIDEAIEKAKKIN 466 >gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 167 bits (424), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 112/343 (32%), Positives = 184/343 (53%), Gaps = 22/343 (6%) Query: 76 VPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSPSQELLETGIKVIDLV 135 +PVG LGR++D G P+D GP+ E++A + +A +P +++L+TGI+ I+ + Sbjct: 124 LPVGEELLGRVLDGAGRPLDNLGPLHTERSAPLAVRAANPLGRAPIRDILDTGIRAINSM 183 Query: 136 CPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAG-VGERTREGNDFYHEMAE 194 +G ++GLF G+GVGK+V L+ +A+ S + G +GER RE +F ++ Sbjct: 184 LTVGRGQRMGLFAGSGVGKSV----LLGMMARYTSADVIVVGLIGERGREVKEFIEQILG 239 Query: 195 AKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRYT 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 SPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGTLQR 372 A LD +VL+R +A G YPA+D S SR + + EH ++R ++ R Sbjct: 353 IADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMH-SITDAEHQRSSRHLKQLYSR 411 Query: 373 YKELRDIIAI----LGMDELAPEDKLIVARARKMQRFLSQPFH 411 ++ RD+I++ G D + E ++ 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 = 143 bits (360), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 111/389 (28%), Positives = 178/389 (45%), Gaps = 21/389 (5%) Query: 2 ADGKIVQCIGAVVDVEFPRNAMPKVYDALKLE--GSDLTLEVQQQLGDGVVRTIALGSSD 59 + G++ Q +G +++ P + ++ + E G + EV D AL + Sbjct: 38 SQGRVAQVLGTLIEAHMPPVQIGELCNLFNPEQPGKTMLAEVVG-FTDKASILSALSPLE 96 Query: 60 GLRRGLTISNTGKPISVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELS 119 G+ I + S+ VG G ++D G + P + E A+ +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 VFAGVGERTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIA 233 VF +GER RE N+F +A+++ 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 VVGQEHYETARAVQGTLQRYKELRDIIAI 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 = 103 bits (256), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 85/346 (24%), Positives = 149/346 (43%), Gaps = 32/346 (9%) Query: 50 VRTIALGSSDGLRRGLTISNTGKPISVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIH 109 V + LG + + G + 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 SGLSVFAGVGERTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTG 229 + ++ +G++ + + ++ +V +E + A +G Sbjct: 190 NMTCIYVAIGQKASSVKNVVRALEAHGAMEY-------TIVVAATASESAAMQYVSAYSG 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 GIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQG----TLQRYKEL 376 GI PA++ S SR V G + + + G L +Y+EL Sbjct: 363 GIRPAINAGISVSR-----VGGAAQTKVIKGLSGGIRTDLAQYREL 403 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 0.135 0.381 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: 1,347,356 Number of extensions: 54815 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 182 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)