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= 0005.0284.p (513 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit ... 957 0.0 gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase... 136 5e-33 gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit ... 110 3e-25 gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase... 109 6e-25 >gi|300313648|ref|YP_003777740.1| F0F1-type ATP synthase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 513 Score = 957 bits (2473), Expect = 0.0, Method: Compositional matrix adjust. Identities = 469/510 (91%), Positives = 496/510 (97%) Query: 1 MQLNASEISELIKSRIQGLGDTAEIRNQGTVISVSDGICRIHGLSDVMQGEMLEFPGNTF 60 MQLNASEISELIKSRIQGLGDTAEIRNQGTVISVSDGICRIHGLSDVMQGEMLEFPGNTF Sbjct: 1 MQLNASEISELIKSRIQGLGDTAEIRNQGTVISVSDGICRIHGLSDVMQGEMLEFPGNTF 60 Query: 61 GLALNLERDSVGAVILGDFEHISEGDTVKCTGRILEVPIGPELRGRVVNALGQPIDGKGP 120 GLALNLERDSVGAVILG++EHISEGD VKCTGRILEVPIGPEL+GRVVNALGQPIDGKGP Sbjct: 61 GLALNLERDSVGAVILGEYEHISEGDVVKCTGRILEVPIGPELKGRVVNALGQPIDGKGP 120 Query: 121 VNTKLTAPIEKIAPGVIARQSVSQPMQTGIKSIDAMVPIGRGQRELIIGDRQTGKTAVAI 180 +N KLTAPIEKIAPGVIARQSVSQPMQTG+KSID+MVP+GRGQRELIIGDRQTGKTAVAI Sbjct: 121 INAKLTAPIEKIAPGVIARQSVSQPMQTGLKSIDSMVPVGRGQRELIIGDRQTGKTAVAI 180 Query: 181 DAIINQKGQDVTCIYVAIGQKASSIKNIVRSLEAHGAMEYTIVVTASASESAAMQYLSAY 240 DAIINQKGQ++TCIYVAIGQKASS+KN+VR+LEAHGAMEYTIVV A+ASESAAMQY+SAY Sbjct: 181 DAIINQKGQNMTCIYVAIGQKASSVKNVVRALEAHGAMEYTIVVAATASESAAMQYVSAY 240 Query: 241 SGCAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLER 300 SGCAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLER Sbjct: 241 SGCAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLER 300 Query: 301 AARVNEKYVEDFTKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLF 360 AARVN YVE FT GEVKG+TGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLF Sbjct: 301 AARVNADYVEKFTNGEVKGQTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLF 360 Query: 361 NAGIRPAINAGISVSRVGGAAQTKVIKSLSGGIRTDLAQYRELAAFAQFASDLDEATRKQ 420 NAGIRPAINAGISVSRVGGAAQTKVIK LSGGIRTDLAQYRELAAFAQFASDLDEATRKQ Sbjct: 361 NAGIRPAINAGISVSRVGGAAQTKVIKGLSGGIRTDLAQYRELAAFAQFASDLDEATRKQ 420 Query: 421 LDRGARVTELLKQAQYSPLSISLMAVTLFAVNKGFLDSIEVKQVLPFESGLHNFMKTSHA 480 LDRGARVTELLKQAQY+P SIS+MAVTLFAVNKG++D +EVK++L FES LHNFMKTSHA Sbjct: 421 LDRGARVTELLKQAQYTPQSISIMAVTLFAVNKGYMDDVEVKKILAFESALHNFMKTSHA 480 Query: 481 PLLQKIEETKQIDKDGEAALSAAVADFKKS 510 LL+KIE+TKQ+DKD EAAL+AA+ADFKKS Sbjct: 481 ELLKKIEDTKQLDKDAEAALAAAIADFKKS 510 >gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 136 bits (342), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 86/280 (30%), Positives = 144/280 (51%), Gaps = 15/280 (5%) Query: 97 VPIGPELRGRVVNALGQPIDGKGPVNTKLTAPIEKIAPGVIARQSVSQPMQTGIKSIDAM 156 +P+G EL GRV++ G+P+D GP++T+ +AP+ A + R + + TGI++I++M Sbjct: 124 LPVGEELLGRVLDGAGRPLDNLGPLHTERSAPLAVRAANPLGRAPIRDILDTGIRAINSM 183 Query: 157 VPIGRGQRELIIGDRQTGKTAVAIDAIINQKGQDVTCIYVAIGQKASSIKNIVRSLEAHG 216 + +GRGQR + GK+ V + + DV + + IG++ +K + + Sbjct: 184 LTVGRGQRMGLFAGSGVGKS-VLLGMMARYTSADVIVVGL-IGERGREVKEFIEQILGAE 241 Query: 217 AMEYTIVVTASASESAAMQYLSAYSGCAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLL 276 + ++VV A A M+ A ++ EYFRD+G+D L++ D L++ A+A R+++L Sbjct: 242 GLARSVVVAAPADTPPLMRLQGAAYCTSIAEYFRDQGKDVLLIMDSLTRYAMAQREIALA 301 Query: 277 LRRPPGREAYPGDVFYLHSRLLERAARVNEKYVEDFTKGEVKGKTGSLTALPIIETQAGD 336 + PP + YP VF L+ERA +E GS+TA + T+ D Sbjct: 302 IGEPPATKGYPPSVFAKLPALVERAGNGDE-------------GGGSITAFYTVLTEGDD 348 Query: 337 VSAFVPTNVISITDGQIFLETSLFNAGIRPAINAGISVSR 376 + +I DG I L L AG PAI+ S+SR Sbjct: 349 QQDPIADAARAILDGHIVLNRQLAEAGHYPAIDIEQSISR 388 >gi|300313646|ref|YP_003777738.1| F0F1-type ATP synthase subunit beta [Herbaspirillum seropedicae SmR1] Length = 466 Score = 110 bits (275), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 89/346 (25%), Positives = 151/346 (43%), Gaps = 32/346 (9%) Query: 71 VGAVILGDFEHISEGDTVKCTGRILEVPIGPELRGRVVNALGQPIDGKGPVNTKLTAPIE 130 V + LG + + G T+ TG+ + VP+G GR+++ LG PID GPV+ + TA I Sbjct: 50 VRTIALGSSDGLRRGLTISNTGKPITVPVGTATLGRIMDVLGNPIDECGPVSHEQTASIH 109 Query: 131 KIAPGVIARQSVSQPMQTGIKSIDAMVPIGRGQRELIIGDRQTGKTAVAIDAIIN-QKGQ 189 + AP + ++TGIK ID + P +G + + G GKT ++ I N K Sbjct: 110 RKAPAYDELSPSQELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAH 169 Query: 190 DVTCIYVAIGQKASSIKNIVRSLEAHGAMEY-------TIVVTASASESAAMQYLSAYSG 242 ++ +G++ + + ++ +V +E + A +G Sbjct: 170 SGLSVFAGVGERTREGNDFYHEMAEAKVVDLENPTNSKVAMVYGQMNEPPGNRLRVALTG 229 Query: 243 CAMGEYFRDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLERAA 302 + E FRD G+D L D++ + +A +VS LL R P Y L E Sbjct: 230 LTIAEGFRDEGKDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGY-------QPTLAEEMG 282 Query: 303 RVNEKYVEDFTKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLFNA 362 R+ E+ KTGS+T++ + A D++ P + D + L + + Sbjct: 283 RLQERITST--------KTGSITSIQAVYVPADDLTDPSPATTFAHLDSTVVLSRDIASL 334 Query: 363 GIRPAINAGISVSR-----VGGAAQTKVIKSLSGGIRTDLAQYREL 403 GI PA++ S SR V G + +++ G L +Y+EL Sbjct: 335 GIYPAVDPLDSTSRQLDPQVVGQEHYETARAVQG----TLQRYKEL 376 >gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase [Herbaspirillum seropedicae SmR1] Length = 460 Score = 109 bits (272), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 85/334 (25%), Positives = 154/334 (46%), Gaps = 24/334 (7%) Query: 76 LGDFEHISEGDTVKCTGRILEVPIGPELRGRVVNALGQ-----PIDGKGPVNTKLTAPIE 130 L E +S ++ R + +G L G V++ G+ P + + +P+ Sbjct: 92 LSPLEGVSTRTVIEPLRRSHSIEVGDHLFGCVLDGFGRWMFRAPAAQENVATWRAMSPVI 151 Query: 131 KIAPGVIARQSVSQPMQTGIKSIDAMVPIGRGQRELIIGDRQTGKTAVAIDAIINQKGQD 190 + AP +R ++ P+ TG+++ID ++ +G GQR + GKT + A I + Q Sbjct: 152 RDAPPATSRPRIATPLPTGVRAIDGLLTMGMGQRIGVFAGPGCGKTTLM--AAIARGCQA 209 Query: 191 VTCIYVAIGQKASSIKNIV-RSLEAHGAMEYTIVVTASASESAAMQYLSAYSGCAMGEYF 249 ++ IG++ + + L+A + T+VV A++ ++ + +A++ A+ E F Sbjct: 210 EAIVFGLIGERGRELNEFLDHELDAE-LIRKTVVVCATSDRTSMERSRAAFTATAIAEGF 268 Query: 250 RDRGQDALIVYDDLSKQAVAYRQVSLLLRRPPGREAYPGDVFYLHSRLLERAARVNEKYV 309 RDRG L++ D L++ A A R++ L PP R + V+ + RL+ERA + Sbjct: 269 RDRGMKVLLLVDSLTRFARAQREIGLAAGEPPARGGFTPSVYTMLPRLIERAGGTPQ--- 325 Query: 310 EDFTKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETSLFNAGIRPAIN 369 GS+TA+ + S + S+ DG I L L G PAI+ Sbjct: 326 ------------GSITAMYTVLVDGESSSDPIGDEAKSLLDGHILLTRKLAEQGHYPAID 373 Query: 370 AGISVSRVGGAAQTKVIKSLSGGIRTDLAQYREL 403 S+SRV ++ + + R LA+Y+E+ Sbjct: 374 VLASISRVMSNVTSREHRRAASRFRELLARYQEM 407 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 0.134 0.367 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: 1,472,748 Number of extensions: 61531 Number of successful extensions: 203 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 197 Number of HSP's successfully gapped: 4 Length of query: 513 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 424 Effective length of database: 1,198,455 Effective search space: 508144920 Effective search space used: 508144920 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 (21.7 bits) S2: 133 (55.8 bits)