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= 0005.0282.p (453 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 ... 886 0.0 gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase... 167 2e-42 gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase... 136 3e-33 gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit ... 100 4e-22 >gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit beta [Herbaspirillum seropedicae SmR1] Length = 466 Score = 886 bits (2290), Expect = 0.0, Method: Compositional matrix adjust. Identities = 431/453 (95%), Positives = 442/453 (97%) Query: 1 VDVEFPRDAMPKIYDALKMDGSELTLEVQQQLGDGVVRTIALGTSDGLRRGMAIKNTGQP 60 VDVEFPRDAMPK+YDALK++GS+LTLEVQQQLGDGVVRTIALG+SDGLRRG+ I NTG+P Sbjct: 14 VDVEFPRDAMPKVYDALKLEGSDLTLEVQQQLGDGVVRTIALGSSDGLRRGLTISNTGKP 73 Query: 61 IMVPTGKATLGRIMDVLGNPIDECGPVSHATTASIHRKAPAYDELSPSQELLETGIKVID 120 I VP G ATLGRIMDVLGNPIDECGPVSH TASIHRKAPAYDELSPSQELLETGIKVID Sbjct: 74 ITVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSPSQELLETGIKVID 133 Query: 121 LVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGERTREGNDFYHEMA 180 LVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGERTREGNDFYHEMA Sbjct: 134 LVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGERTREGNDFYHEMA 193 Query: 181 DAKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRY 240 +AKVVDLE P NSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRY Sbjct: 194 EAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRY 253 Query: 241 TLAGTEVSALLGRMPSAVGYQPTLASEMGQLQERITSTKTGSITSIQAVYVPADDLTDPS 300 TLAGTEVSALLGRMPSAVGYQPTLA EMG+LQERITSTKTGSITSIQAVYVPADDLTDPS Sbjct: 254 TLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQAVYVPADDLTDPS 313 Query: 301 PATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGILQRY 360 PATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQG LQRY Sbjct: 314 PATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGTLQRY 373 Query: 361 KELRDIIAILGMDELAPEDKLLVARARKMQRFLSQPFHVAEVFTGSPGKYVSLKDTIKGF 420 KELRDIIAILGMDELAPEDKL+VARARKMQRFLSQPFHVAEVFTGSPGKYVSLKDTIKGF Sbjct: 374 KELRDIIAILGMDELAPEDKLIVARARKMQRFLSQPFHVAEVFTGSPGKYVSLKDTIKGF 433 Query: 421 KMIASGELDHLPEQAFYMVGTIEEAIEKAKKIN 453 KMIASGELDHLPEQAFYMVGTI+EAIEKAKKIN Sbjct: 434 KMIASGELDHLPEQAFYMVGTIDEAIEKAKKIN 466 >gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 167 bits (423), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 111/343 (32%), Positives = 184/343 (53%), Gaps = 22/343 (6%) Query: 63 VPTGKATLGRIMDVLGNPIDECGPVSHATTASIHRKAPAYDELSPSQELLETGIKVIDLV 122 +P G+ LGR++D G P+D GP+ +A + +A +P +++L+TGI+ I+ + Sbjct: 124 LPVGEELLGRVLDGAGRPLDNLGPLHTERSAPLAVRAANPLGRAPIRDILDTGIRAINSM 183 Query: 123 CPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAG-VGERTREGNDFYHEMAD 181 +G ++GLF G+GVGK+V L+ +A+ S + G +GER RE +F ++ Sbjct: 184 LTVGRGQRMGLFAGSGVGKSV----LLGMMARYTSADVIVVGLIGERGREVKEFIEQILG 239 Query: 182 AKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRYT 241 A+ + ++ +V + PP RL+ A +IAE FRD+GKDVL +D++ RY Sbjct: 240 AEGL-------ARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQGKDVLLIMDSLTRYA 292 Query: 242 LAGTEVSALLGRMPSAVGYQPTLASEMGQLQERITSTKT--GSITSIQAVYVPADDLTDP 299 +A E++ +G P+ GY P++ +++ L ER + GSIT+ V DD DP Sbjct: 293 MAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSITAFYTVLTEGDDQQDP 352 Query: 300 SPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGILQR 359 A LD +VL+R +A G YPA+D S SR + + EH ++R ++ + R Sbjct: 353 IADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMH-SITDAEHQRSSRHLKQLYSR 411 Query: 360 YKELRDIIAI----LGMDELAPEDKLLVARARKMQRFLSQPFH 398 ++ 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 = 136 bits (343), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 95/313 (30%), Positives = 149/313 (47%), Gaps = 18/313 (5%) Query: 63 VPTGKATLGRIMDVLGNPIDECGPVSHATTASIHRKAPAYDELSPSQEL------LETGI 116 + G G ++D G + P + A+ +P + P+ L TG+ Sbjct: 113 IEVGDHLFGCVLDGFGRWMFR-APAAQENVATWRAMSPVIRDAPPATSRPRIATPLPTGV 171 Query: 117 KVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAGVGERTREGNDFY 176 + ID + G ++G+F G G GKT +M I +A + VF +GER RE N+F Sbjct: 172 RAIDGLLTMGMGQRIGVFAGPGCGKT-TLMAAIARGCQAEA--IVFGLIGERGRELNEFL 228 Query: 177 HEMADAKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDN 236 DA+++ K +V + R R A T IAEGFRD G VL VD+ Sbjct: 229 DHELDAELI-------RKTVVVCATSDRTSMERSRAAFTATAIAEGFRDRGMKVLLLVDS 281 Query: 237 IYRYTLAGTEVSALLGRMPSAVGYQPTLASEMGQLQERITSTKTGSITSIQAVYVPADDL 296 + R+ A E+ G P+ G+ P++ + + +L ER T GSIT++ V V + Sbjct: 282 LTRFARAQREIGLAAGEPPARGGFTPSVYTMLPRLIERAGGTPQGSITAMYTVLVDGESS 341 Query: 297 TDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGI 356 +DP + LD ++L+R +A G YPA+D L S SR + V +EH A + + Sbjct: 342 SDPIGDEAKSLLDGHILLTRKLAEQGHYPAIDVLASISRVMS-NVTSREHRRAASRFREL 400 Query: 357 LQRYKELRDIIAI 369 L RY+E+ +I + Sbjct: 401 LARYQEMELLIRL 413 >gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 513 Score = 99.8 bits (247), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 78/314 (24%), Positives = 136/314 (43%), Gaps = 23/314 (7%) Query: 37 VRTIALGTSDGLRRGMAIKNTGQPIMVPTGKATLGRIMDVLGNPIDECGPVSHATTASIH 96 V + LG + + G +K TG+ + VP G GR+++ LG PID GP++ TA I Sbjct: 71 VGAVILGEYEHISEGDVVKCTGRILEVPIGPELKGRVVNALGQPIDGKGPINAKLTAPIE 130 Query: 97 RKAPAYDELSPSQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAH 156 + AP + ++TG+K ID + P +G + + G GKT ++ I N K Sbjct: 131 KIAPGVIARQSVSQPMQTGLKSIDSMVPVGRGQRELIIGDRQTGKTAVAIDAIIN-QKGQ 189 Query: 157 SGLSVFAGVGERTREGNDFYHEMADAKVVDLETPENSKVAMVYGQMNEPPGNRLRVALTG 216 + ++ +G++ + + ++ +V +E + A +G Sbjct: 190 NMTCIYVAIGQKASSVKNVVRALEAHGAMEYTI-------VVAATASESAAMQYVSAYSG 242 Query: 217 LTIAEGFRDEGKDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLASEMGQLQERIT 276 + E FRD G+D L D++ + +A +VS LL R P Y + +L ER Sbjct: 243 CAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLERAA 302 Query: 277 ST---------------KTGSITSIQAVYVPADDLTDPSPATTFAHLDSTVVLSRDIASL 321 +TGS+T++ + A D++ P + D + L + + Sbjct: 303 RVNADYVEKFTNGEVKGQTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLFNA 362 Query: 322 GIYPAVDPLDSTSR 335 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 0.135 0.380 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: 1,314,208 Number of extensions: 53912 Number of successful extensions: 175 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 169 Number of HSP's successfully gapped: 4 Length of query: 453 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 365 Effective length of database: 1,203,190 Effective search space: 439164350 Effective search space used: 439164350 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)