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= 0020.0052.p (442 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase... 750 0.0 gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase... 293 1e-80 gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit ... 139 6e-34 gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit ... 115 6e-27 >gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 750 bits (1937), Expect = 0.0, Method: Compositional matrix adjust. Identities = 392/467 (83%), Positives = 413/467 (88%), Gaps = 26/467 (5%) Query: 1 MNSPMPSHFSRWQAYLHNCSGLVAMTEPTQLSGRITRVAGLVMEAVGLKLPVGSPCTVPL 60 MNSPMPSH S WQAYLHNC LVAM EPT +GRITRVAGLVMEAVGLKLPVGSPC VPL Sbjct: 1 MNSPMPSHSSLWQAYLHNCRSLVAMAEPTMTAGRITRVAGLVMEAVGLKLPVGSPCNVPL 60 Query: 61 PNGTLIEAEVVGFQDERLFLMPQSDVEGIVPGTRVYPVEPVKPPPRTGPIAYI-RRTDEH 119 PNGT+IEAEVVGFQD+RLFLMPQSDVEGIVPGTRVYPVEPV+PPPRTGPI++ RR DEH Sbjct: 61 PNGTMIEAEVVGFQDDRLFLMPQSDVEGIVPGTRVYPVEPVRPPPRTGPISFTPRRADEH 120 Query: 120 TRRLPVGDELLGRVLDGAGRPLDNLGPLHTENSAPLSVRAANPLGRAPIEDILDVGVRAI 179 +RRLPVG+ELLGRVLDGAGRPLDNLGPLHTE SAPL+VRAANPLGRAPI DILD G+RAI Sbjct: 121 SRRLPVGEELLGRVLDGAGRPLDNLGPLHTERSAPLAVRAANPLGRAPIRDILDTGIRAI 180 Query: 180 NSMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADVIVVGLIGERGREVKEFIEHILGD 239 NSMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADVIVVGLIGERGREVKEFIE ILG Sbjct: 181 NSMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADVIVVGLIGERGREVKEFIEQILGA 240 Query: 240 EGMVRSVVVAAPADTPPLMRLQGAAYATAIAEYFRDQGKNVLLIMDSLTRYAMAQREIAL 299 EG+ RSVVVAAPADTPPLMRLQGAAY T+IAEYFRDQGK+VLLIMDSLTRYAMAQREIAL Sbjct: 241 EGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQGKDVLLIMDSLTRYAMAQREIAL 300 Query: 300 AIGEPPATKGYPPSVFAKLPALVERALP-------------------------XDAARAI 334 AIGEPPATKGYPPSVFAKLPALVERA DAARAI Sbjct: 301 AIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSITAFYTVLTEGDDQQDPIADAARAI 360 Query: 335 LDGHIVLNRVLAEAGHYPAIDIEQSISRAMHSITSAEHQRDTRRLKQLYSRYQRNRDLIS 394 LDGHIVLNR LAEAGHYPAIDIEQSISRAMHSIT AEHQR +R LKQLYSR+QRNRDLIS Sbjct: 361 LDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDAEHQRSSRHLKQLYSRFQRNRDLIS 420 Query: 395 VGAYSAGSDPVLDQAIQLMPRIEAFLQQGIPERAGVSESLGQLTALF 441 VGAY+AGSDP+LD+AI L+PR+EAFLQQGI E+A VSESL QLTALF Sbjct: 421 VGAYAAGSDPILDEAIALLPRMEAFLQQGIHEQADVSESLRQLTALF 467 >gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase [Herbaspirillum seropedicae SmR1] Length = 460 Score = 293 bits (751), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 195/464 (42%), Positives = 262/464 (56%), Gaps = 62/464 (13%) Query: 12 WQAYLHNCSGLVAMTEPTQLSGRITRVAGLVMEAVGLKLPVGSPCTVPLPN--GTLIEAE 69 WQA L G + GR+ +V G ++EA + +G C + P G + AE Sbjct: 26 WQAALPLRPGFSS-------QGRVAQVLGTLIEAHMPPVQIGELCNLFNPEQPGKTMLAE 78 Query: 70 VVGFQDERLFLMPQSDVEGIVPGTRVYPVEPVKPPPRTGPIAYIRRTDEHTRRLPVGDEL 129 VVGF D+ L S +EG+ T + P +RR+ H+ + VGD L Sbjct: 79 VVGFTDKASILSALSPLEGVSTRTVIEP---------------LRRS--HS--IEVGDHL 119 Query: 130 LGRVLDGAGRPLDNLGPLHTENSAPLSVRAANPLGR-AP-------IEDILDVGVRAINS 181 G VLDG GR + P EN A + RA +P+ R AP I L GVRAI+ Sbjct: 120 FGCVLDGFGRWMFR-APAAQENVA--TWRAMSPVIRDAPPATSRPRIATPLPTGVRAIDG 176 Query: 182 MLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADVIVVGLIGERGREVKEFIEHILGDEG 241 +LT+G GQR+G+FAG G GK+ L+ +AR A+ IV GLIGERGRE+ EF++H L E Sbjct: 177 LLTMGMGQRIGVFAGPGCGKTTLMAAIARGCQAEAIVFGLIGERGRELNEFLDHELDAEL 236 Query: 242 MVRSVVVAAPADTPPLMRLQGAAYATAIAEYFRDQGKNVLLIMDSLTRYAMAQREIALAI 301 + ++VVV A +D + R + A ATAIAE FRD+G VLL++DSLTR+A AQREI LA Sbjct: 237 IRKTVVVCATSDRTSMERSRAAFTATAIAEGFRDRGMKVLLLVDSLTRFARAQREIGLAA 296 Query: 302 GEPPATKGYPPSVFAKLPALVERA--LPX---------------------DAARAILDGH 338 GEPPA G+ PSV+ LP L+ERA P D A+++LDGH Sbjct: 297 GEPPARGGFTPSVYTMLPRLIERAGGTPQGSITAMYTVLVDGESSSDPIGDEAKSLLDGH 356 Query: 339 IVLNRVLAEAGHYPAIDIEQSISRAMHSITSAEHQRDTRRLKQLYSRYQRNRDLISVGAY 398 I+L R LAE GHYPAID+ SISR M ++TS EH+R R ++L +RYQ LI +G Y Sbjct: 357 ILLTRKLAEQGHYPAIDVLASISRVMSNVTSREHRRAASRFRELLARYQEMELLIRLGEY 416 Query: 399 SAGSDPVLDQAIQLMPRIEAFLQQGIPERAGVSESLGQLTALFQ 442 +G+DPV D+A++L P +FL+Q A E+L L + Q Sbjct: 417 KSGADPVADRAMELRPEQLSFLRQDTSGSADFQETLDTLMEMAQ 460 >gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit beta [Herbaspirillum seropedicae SmR1] Length = 466 Score = 139 bits (349), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 95/309 (30%), Positives = 157/309 (50%), Gaps = 38/309 (12%) Query: 123 LPVGDELLGRVLDGAGRPLDNLGPLHTENSAPLSVRAANPLGRAPIEDILDVGVRAINSM 182 +PVG LGR++D G P+D GP+ E +A + +A +P +++L+ G++ I+ + Sbjct: 76 VPVGTATLGRIMDVLGNPIDECGPVSHEQTASIHRKAPAYDELSPSQELLETGIKVIDLV 135 Query: 183 LTVGRGQRMGLFAGSGVGKSV----LLGMMARYTSADVIVVGLIGERGREVKEFIEHILG 238 +G ++GLF G+GVGK+V L+ +A+ S + G +GER RE +F H + Sbjct: 136 CPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAG-VGERTREGNDFY-HEMA 193 Query: 239 DEGMV--------RSVVVAAPADTPPLMRLQGAAYATAIAEYFRDQGKNVLLIMDSLTRY 290 + +V + +V + PP RL+ A IAE FRD+GK+VL +D++ RY Sbjct: 194 EAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFRDEGKDVLFFVDNIYRY 253 Query: 291 AMAQREIALAIGEPPATKGYPPSVFAKLPALVERA---------------LPXD------ 329 +A E++ +G P+ GY P++ ++ L ER +P D Sbjct: 254 TLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKTGSITSIQAVYVPADDLTDPS 313 Query: 330 --AARAILDGHIVLNRVLAEAGHYPAIDIEQSISRAMH-SITSAEHQRDTRRLKQLYSRY 386 A LD +VL+R +A G YPA+D S SR + + EH R ++ RY Sbjct: 314 PATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQGTLQRY 373 Query: 387 QRNRDLISV 395 + RD+I++ Sbjct: 374 KELRDIIAI 382 >gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 513 Score = 115 bits (288), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 134/280 (47%), Gaps = 40/280 (14%) Query: 123 LPVGDELLGRVLDGAGRPLDNLGPLHTENSAPLSVRAANPLGRAPIEDILDVGVRAINSM 182 +P+G EL GRV++ G+P+D GP++ + +AP+ A + R + + G+++I+SM Sbjct: 97 VPIGPELKGRVVNALGQPIDGKGPINAKLTAPIEKIAPGVIARQSVSQPMQTGLKSIDSM 156 Query: 183 LTVGRGQRMGLFAGSGVGKS-VLLGMMARYTSADVIVVGL-IGERGREVKEFIEHILGDE 240 + VGRGQR + GK+ V + + ++ + + IG++ VK + + Sbjct: 157 VPVGRGQRELIIGDRQTGKTAVAIDAIINQKGQNMTCIYVAIGQKASSVKNVVRALEAHG 216 Query: 241 GMVRSVVVAAPADTPPLMRLQGAAYATAIAEYFRDQGKNVLLIMDSLTRYAMAQREIALA 300 M ++VVAA A M+ A A+ EYFRD+G++ L++ D L++ A+A R+++L Sbjct: 217 AMEYTIVVAATASESAAMQYVSAYSGCAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLL 276 Query: 301 IGEPPATKGYPPSVFAKLPALVER-------------------------ALPXDAARA-- 333 + PP + YP VF L+ER ALP +A Sbjct: 277 LRRPPGREAYPGDVFYLHSRLLERAARVNADYVEKFTNGEVKGQTGSLTALPIIETQAGD 336 Query: 334 -----------ILDGHIVLNRVLAEAGHYPAIDIEQSISR 362 I DG I L L AG PAI+ S+SR Sbjct: 337 VSAFVPTNVISITDGQIFLETSLFNAGIRPAINAGISVSR 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 0.319 0.137 0.396 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: 1,495,470 Number of extensions: 71070 Number of successful extensions: 294 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 285 Number of HSP's successfully gapped: 5 Length of query: 442 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 354 Effective length of database: 1,203,190 Effective search space: 425929260 Effective search space used: 425929260 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: 132 (55.5 bits)