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= 0036.0427.p (311 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... 615 e-177 gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase... 292 2e-80 gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit ... 140 1e-34 gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit ... 104 1e-23 gi|300310193|ref|YP_003774285.1| transcription termination facto... 80 2e-16 >gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 615 bits (1587), Expect = e-177, Method: Compositional matrix adjust. Identities = 306/311 (98%), Positives = 310/311 (99%) Query: 1 VRAANPLGRAPIRDILDTGIRAINTMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADV 60 VRAANPLGRAPIRDILDTGIRAIN+MLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADV Sbjct: 158 VRAANPLGRAPIRDILDTGIRAINSMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSADV 217 Query: 61 IVVGLIGERGREVKEFIEQILGAEGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQ 120 IVVGLIGERGREVKEFIEQILGAEGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQ Sbjct: 218 IVVGLIGERGREVKEFIEQILGAEGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQ 277 Query: 121 GKDVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSIT 180 GKDVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSIT Sbjct: 278 GKDVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSIT 337 Query: 181 AFYTVLTEGDDQQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDAD 240 AFYTVLTEGDDQQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDA+ Sbjct: 338 AFYTVLTEGDDQQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDAE 397 Query: 241 HQRRSRHLKQLYSRFQRNRDLISVGAYAAGSDPVLDEAIALLPRMESFLQQGIHEQADVS 300 HQR SRHLKQLYSRFQRNRDLISVGAYAAGSDP+LDEAIALLPRME+FLQQGIHEQADVS Sbjct: 398 HQRSSRHLKQLYSRFQRNRDLISVGAYAAGSDPILDEAIALLPRMEAFLQQGIHEQADVS 457 Query: 301 ESLRQLTALFG 311 ESLRQLTALFG Sbjct: 458 ESLRQLTALFG 468 >gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase [Herbaspirillum seropedicae SmR1] Length = 460 Score = 292 bits (748), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 155/307 (50%), Positives = 207/307 (67%), Gaps = 3/307 (0%) Query: 1 VRAANPLGRAP-IRDILDTGIRAINTMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSAD 59 +R A P P I L TG+RAI+ +LT+G GQR+G+FAG G GK+ L+ +AR A+ Sbjct: 151 IRDAPPATSRPRIATPLPTGVRAIDGLLTMGMGQRIGVFAGPGCGKTTLMAAIARGCQAE 210 Query: 60 VIVVGLIGERGREVKEFIEQILGAEGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRD 119 IV GLIGERGRE+ EF++ L AE + ++VVV A +D + R + A T+IAE FRD Sbjct: 211 AIVFGLIGERGRELNEFLDHELDAELIRKTVVVCATSDRTSMERSRAAFTATAIAEGFRD 270 Query: 120 QGKDVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSI 179 +G VLL++DSLTR+A AQREI LA GEPPA G+ PSV+ LP L+ERAG + GSI Sbjct: 271 RGMKVLLLVDSLTRFARAQREIGLAAGEPPARGGFTPSVYTMLPRLIERAGGTPQ--GSI 328 Query: 180 TAFYTVLTEGDDQQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDA 239 TA YTVL +G+ DPI D A+++LDGHI+L R+LAE GHYPAID+ SISR M ++T Sbjct: 329 TAMYTVLVDGESSSDPIGDEAKSLLDGHILLTRKLAEQGHYPAIDVLASISRVMSNVTSR 388 Query: 240 DHQRRSRHLKQLYSRFQRNRDLISVGAYAAGSDPVLDEAIALLPRMESFLQQGIHEQADV 299 +H+R + ++L +R+Q LI +G Y +G+DPV D A+ L P SFL+Q AD Sbjct: 389 EHRRAASRFRELLARYQEMELLIRLGEYKSGADPVADRAMELRPEQLSFLRQDTSGSADF 448 Query: 300 SESLRQL 306 E+L L Sbjct: 449 QETLDTL 455 >gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit beta [Herbaspirillum seropedicae SmR1] Length = 466 Score = 140 bits (353), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 96/300 (32%), Positives = 159/300 (53%), Gaps = 22/300 (7%) Query: 10 APIRDILDTGIRAINTMLTVGRGQRMGLFAGSGVGKSV----LLGMMARYTSADVIVVGL 65 +P +++L+TGI+ I+ + +G ++GLF G+GVGK+V L+ +A+ S + G Sbjct: 119 SPSQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVFAG- 177 Query: 66 IGERGREVKEFIEQILGAEGL-------ARSVVVAAPADTPPLMRLQGAAYCTSIAEYFR 118 +GER RE +F ++ A+ + ++ +V + PP RL+ A +IAE FR Sbjct: 178 VGERTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTGLTIAEGFR 237 Query: 119 DQGKDVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGS 178 D+GKDVL +D++ RY +A E++ +G P+ GY P++ ++ L ER + GS Sbjct: 238 DEGKDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGRLQERITSTKT--GS 295 Query: 179 ITAFYTVLTEGDDQQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMH-SIT 237 IT+ V DD DP A LD +VL+R +A G YPA+D S SR + + Sbjct: 296 ITSIQAVYVPADDLTDPSPATTFAHLDSTVVLSRDIASLGIYPAVDPLDSTSRQLDPQVV 355 Query: 238 DADHQRRSRHLKQLYSRFQRNRDLISVGAYAAGSDPVLDEAIALLPR---MESFLQQGIH 294 +H +R ++ R++ RD+I++ G D + E ++ R M+ FL Q H Sbjct: 356 GQEHYETARAVQGTLQRYKELRDIIAI----LGMDELAPEDKLIVARARKMQRFLSQPFH 411 >gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 513 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 120/240 (50%), Gaps = 15/240 (6%) Query: 7 LGRAPIRDILDTGIRAINTMLTVGRGQRMGLFAGSGVGKS-VLLGMMARYTSADVIVVGL 65 + R + + TG+++I++M+ VGRGQR + GK+ V + + ++ + + Sbjct: 137 IARQSVSQPMQTGLKSIDSMVPVGRGQRELIIGDRQTGKTAVAIDAIINQKGQNMTCIYV 196 Query: 66 -IGERGREVKEFIEQILGAEGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQGKDV 124 IG++ VK + + + ++VVAA A M+ A ++ EYFRD+G+D Sbjct: 197 AIGQKASSVKNVVRALEAHGAMEYTIVVAATASESAAMQYVSAYSGCAMGEYFRDRGQDA 256 Query: 125 LLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAG-----------NGD 173 L++ D L++ A+A R+++L + PP + YP VF L+ERA NG+ Sbjct: 257 LIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLERAARVNADYVEKFTNGE 316 Query: 174 EGG--GSITAFYTVLTEGDDQQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISR 231 G GS+TA + T+ D + +I DG I L L AG PAI+ S+SR Sbjct: 317 VKGQTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLFNAGIRPAINAGISVSR 376 >gi|300310193|ref|YP_003774285.1| transcription termination factor Rho protein [Herbaspirillum seropedicae SmR1] Length = 420 Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 111/236 (47%), Gaps = 14/236 (5%) Query: 21 RAINTMLTVGRGQRMGLFAGSGVGKSVLLGMMARYTSAD----VIVVGLIGERGREVKEF 76 R I+ + VGRGQR L A GKSV+L +A + + V++V LI ER EV E Sbjct: 160 RIIDLIAPVGRGQRGLLVASPKSGKSVMLQHIAHAITTNHPDTVMIVLLIDERPEEVTEM 219 Query: 77 IEQILGAEGLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQGKDVLLIMDSLTRYAM 136 + G VVA+ D P +Q A A+ + KDV++++DS+TR A Sbjct: 220 QRSVRGE-------VVASTFDEPATRHVQVAEMVLEKAKRLVEMKKDVVILLDSITRLAR 272 Query: 137 AQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGDEGGGSITAFYTVLTE-GDDQQDP 195 A + A G+ T G + + P A E GGS+T T L E G D Sbjct: 273 AYNTVIPASGK-VLTGGVDANALQR-PKRFFGAARNVEEGGSLTIIATALIETGSRMDDV 330 Query: 196 IADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDADHQRRSRHLKQL 251 I + + + + L R+LAE YPAI++ +S +R + D ++ L++L Sbjct: 331 IYEEFKGTGNMEVHLERRLAEKRVYPAINLSKSGTRREELLIKPDQLQKIWVLRKL 386 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 0.320 0.136 0.384 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: 1,013,179 Number of extensions: 46443 Number of successful extensions: 236 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 229 Number of HSP's successfully gapped: 5 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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: 130 (54.7 bits)