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= 0001.0898.p (492 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [H... 343 1e-95 gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H... 337 2e-93 gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 333 3e-92 gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [H... 312 3e-86 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 310 1e-85 >gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 546 Score = 343 bits (881), Expect = 1e-95, Method: Compositional matrix adjust. Identities = 194/477 (40%), Positives = 282/477 (59%), Gaps = 5/477 (1%) Query: 5 LLEAHGVSKAFNEVAALTDGRLQLKRGSVHALCGGNGAGKSTFLGILMGLLRRDSGEVRL 64 +L G+ K F V AL D ++ G V AL G NGAGKST + IL G+ + D G + L Sbjct: 35 VLSLSGIGKRFQGVVALQDVGFTVRPGEVMALLGENGAGKSTLVKILTGIHQPDEGSIHL 94 Query: 65 KGKSVDFHSPAEALDHHIAIITQELSPIAGMSVAENLFLGREPRIGGIC-VNTRAMQRQA 123 G+ V F S +A+ I + QE +SVAEN+++GR+P G ++ R M+ +A Sbjct: 95 GGREVRFASAQDAMRGGITAVHQETVMFEELSVAENIWIGRQPLCGTPRRIDWRRMEDEA 154 Query: 124 QALLDRLQFQVDARALMQDLSLAQVQLVEIAKAFSHDCDVMIMDEPTSAIGEKETEVLFR 183 +AL RL+ + RA ++DLS+AQ VEIA+A S V+IMDEPT+A+ E L+R Sbjct: 155 RALFARLEVDLPVRARVKDLSVAQRHFVEIARALSQQAQVVIMDEPTAALSHHEIGELYR 214 Query: 184 AIRSVAAQGTGIIYVSHRLSEIFQIADSYTVFRDGRYVQSGLMRDIDRSELVKAIVGR-- 241 I + GT +I++SH+ EI+ +AD YTV RDGR++ SG + DI +LV +VGR Sbjct: 215 IIGQLRRAGTAVIFISHKFDEIYAVADRYTVLRDGRFIASGELADITEQQLVALMVGREV 274 Query: 242 --TLQGRERNRRQGGAPVLATDTLSRHGEFEDISLRVHAGEVVGIYGLMGSGRSEYLNCI 299 N APVL LS EF+D+S V GE++G YGL+G+GRSE ++ + Sbjct: 275 GQVFSRAASNTEDQTAPVLEVKHLSHPSEFDDVSFAVRPGEILGFYGLVGAGRSEVMHAL 334 Query: 300 YGLTRAHRGSVALAERPLPAGKPAASIAAGLSLVTEDRKESGLVLCASIQDNIALAAYRR 359 +GL+ +G+V + R + PA +IA GL+ V EDR+ G +L I NI L Sbjct: 335 FGLSPEAQGAVWIDGREVKLCSPAQAIAHGLAYVPEDRQRQGALLSLPIFQNITLPVLPG 394 Query: 360 LSRLPLIRRSRVETLVGQMIQRLQIKVSSPHLPVSSMSGGNQQKVVLARCLSTQPRCLLC 419 + R R + ++ ++L++K S H V+ +SGGNQQKVVLA+ L+TQPR L+ Sbjct: 395 IGFFLRRHRRREIDIARRLCEQLELKASHFHQHVAQLSGGNQQKVVLAKWLATQPRVLIL 454 Query: 420 DEPTRGIDEGAKREVYQLIDRFVHEGGAALVVSSEAQEILDLCDRIAIFKSGRMVQV 476 DEPT+GID G+K V++ I V +G A ++VSSE E++ + DRI + GR+ QV Sbjct: 455 DEPTKGIDIGSKAAVHRFIGELVAQGLAVILVSSELPEVMGMSDRIVVMHQGRVQQV 511 >gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 521 Score = 337 bits (863), Expect = 2e-93, Method: Compositional matrix adjust. Identities = 190/493 (38%), Positives = 287/493 (58%), Gaps = 5/493 (1%) Query: 5 LLEAHGVSKAFNEVAALTDGRLQLKRGSVHALCGGNGAGKSTFLGILMGLLRRDSGEVRL 64 LL+ G+ K+F AL+D L ++ G +HAL G NGAGKST + +L G+ D GE+ L Sbjct: 6 LLQMRGIRKSFGATLALSDMHLTIRPGEIHALMGENGAGKSTLMKVLSGVHAPDQGEILL 65 Query: 65 KGKSVDFHSPAEALDHHIAIITQELSPIAGMSVAENLFLGREPRIGGICVNTRAMQRQAQ 124 G+ V P + I +I QEL+ +SVA N+F+G E R ++ AM+ + Sbjct: 66 DGRPVALRDPGASRAAGINLIYQELAVAPNISVAANVFMGSELRTRLGLIDHAAMRSRTD 125 Query: 125 ALLDRLQFQVDARALMQDLSLAQVQLVEIAKAFSHDCDVMIMDEPTSAIGEKETEVLFRA 184 A+L +L A L LS+A+ Q VEIA+A H ++IMDEPT+A+ E+ETE LF Sbjct: 126 AVLRQLGAGFGASDLAGRLSIAEQQQVEIARALVHRSRIVIMDEPTAALSERETEQLFNV 185 Query: 185 IRSVAAQGTGIIYVSHRLSEIFQIADSYTVFRDGRYVQSGLMRDIDRSELVKAIVGRTLQ 244 +R + +G IIY+SHR++E++ +AD TV RDG +V + +ID +V+ +VGR+L Sbjct: 186 VRRLRDEGLAIIYISHRMAEVYALADRVTVLRDGSFVGELVRDEIDSERIVQMMVGRSLS 245 Query: 245 GRERNRRQGGAPVLATDTLSR-----HGEFEDISLRVHAGEVVGIYGLMGSGRSEYLNCI 299 +++R A T+ + G+ S V AGEV+G GL+G+GR+E + Sbjct: 246 EFYQHQRIAPADAAQLPTVMQVRALAGGKIRPASFDVRAGEVLGFAGLVGAGRTELARLL 305 Query: 300 YGLTRAHRGSVALAERPLPAGKPAASIAAGLSLVTEDRKESGLVLCASIQDNIALAAYRR 359 +G G + L RP+ +P A++ AG++ V EDRK GL L ++ N + R Sbjct: 306 FGADPRSGGDILLEGRPVHIDQPRAAMRAGIAYVPEDRKGQGLFLQMAVAANATMNVASR 365 Query: 360 LSRLPLIRRSRVETLVGQMIQRLQIKVSSPHLPVSSMSGGNQQKVVLARCLSTQPRCLLC 419 +RL L+R + + IQRL +KV+ P PV +SGGNQQKV+LAR L P+ L+ Sbjct: 366 HTRLGLVRSRSLGGVARAAIQRLNVKVAHPETPVGKLSGGNQQKVLLARWLEIAPKVLIL 425 Query: 420 DEPTRGIDEGAKREVYQLIDRFVHEGGAALVVSSEAQEILDLCDRIAIFKSGRMVQVVDA 479 DEPTRG+D AK E+YQL+ R +G A +V+SSE E++ +CDR+ + + G + + Sbjct: 426 DEPTRGVDIYAKSEIYQLVHRLASQGVAVVVISSELPEVIGICDRVLVMREGMITGELAG 485 Query: 480 HRTTQEELLHLAS 492 TQE ++ LA+ Sbjct: 486 AAITQENIMRLAT 498 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 333 bits (853), Expect = 3e-92, Method: Compositional matrix adjust. Identities = 186/485 (38%), Positives = 283/485 (58%), Gaps = 3/485 (0%) Query: 11 VSKAFNEVAALTDGRLQLKRGSVHALCGGNGAGKSTFLGILMGLLRRDSGEVRLKGKSVD 70 V K F V AL + + +L G VHAL G NGAGKST + IL G+ +RDSG++ L GK V+ Sbjct: 28 VCKRFPGVLALDNCQFELAAGEVHALMGENGAGKSTLMKILSGVYQRDSGDILLDGKPVE 87 Query: 71 FHSPAEALDHHIAIITQELSPIAGMSVAENLFLGREPRIG-GICVNTRAMQRQAQALLDR 129 P +A I II QEL+ + +S A+N+F+GREPR G+ ++ + RQA A+ R Sbjct: 88 ITEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKAMGLFIDEDELNRQAAAIFAR 147 Query: 130 LQFQVDARALMQDLSLAQVQLVEIAKAFSHDCDVMIMDEPTSAIGEKETEVLFRAIRSVA 189 ++ +D + +L++A+ Q+VEIAKA S D V+IMDEPT+A+ E LFR IR + Sbjct: 148 MRLDMDPSTPVGELTVARQQMVEIAKALSFDSRVLIMDEPTAALNNAEIAELFRIIRDLQ 207 Query: 190 AQGTGIIYVSHRLSEIFQIADSYTVFRDGRYVQSGLMRDIDRSELVKAIVGRTLQGRER- 248 AQG GI+Y+SH++ E+ QIAD +V RDG+Y+ + M++ ++ +VGR L G +R Sbjct: 208 AQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPMQETSMDTIISMMVGRALDGEQRI 267 Query: 249 -NRRQGGAPVLATDTLSRHGEFEDISLRVHAGEVVGIYGLMGSGRSEYLNCIYGLTRAHR 307 VL L+R D+S + GE++G GLMG+GR+E I+G Sbjct: 268 PPDTSRNDVVLEVRGLNRGRAIRDVSFTLRKGEILGFAGLMGAGRTEVARAIFGADPLEA 327 Query: 308 GSVALAERPLPAGKPAASIAAGLSLVTEDRKESGLVLCASIQDNIALAAYRRLSRLPLIR 367 G + + PA ++A G+ ++EDRK GL + +Q NIAL++ R +R+ + Sbjct: 328 GEIIIHGGKAVIKSPADAVAHGIGYLSEDRKHFGLAVGMDVQANIALSSMGRFTRVGFMD 387 Query: 368 RSRVETLVGQMIQRLQIKVSSPHLPVSSMSGGNQQKVVLARCLSTQPRCLLCDEPTRGID 427 + + +++L IK S +SGGNQQK+V+A+ L L DEPTRGID Sbjct: 388 QRAIREAAQMYVRQLAIKTPSVEQQARLLSGGNQQKIVIAKWLLRDCDILFFDEPTRGID 447 Query: 428 EGAKREVYQLIDRFVHEGGAALVVSSEAQEILDLCDRIAIFKSGRMVQVVDAHRTTQEEL 487 GAK E+Y+L+D +G A +++SSE E+L + R+ + GR+ + TQE++ Sbjct: 448 VGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLVMCEGRITGELARADATQEKI 507 Query: 488 LHLAS 492 + LA+ Sbjct: 508 MQLAT 512 Score = 79.3 bits (194), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 112/226 (49%), Gaps = 17/226 (7%) Query: 3 ELLLEAHGVSKAFNEVAALTDGRLQLKRGSVHALCGGNGAGKSTFLGILMGLLRRDSGEV 62 +++LE G+++ A+ D L++G + G GAG++ + G ++GE+ Sbjct: 275 DVVLEVRGLNRG----RAIRDVSFTLRKGEILGFAGLMGAGRTEVARAIFGADPLEAGEI 330 Query: 63 RLKGKSVDFHSPAEALDHHIAIITQE---LSPIAGMSVAENLFL---GREPRIGGICVNT 116 + G SPA+A+ H I ++++ GM V N+ L GR R+G ++ Sbjct: 331 IIHGGKAVIKSPADAVAHGIGYLSEDRKHFGLAVGMDVQANIALSSMGRFTRVG--FMDQ 388 Query: 117 RAMQRQAQALLDRLQFQ---VDARALMQDLSLAQVQLVEIAKAFSHDCDVMIMDEPTSAI 173 RA++ AQ + +L + V+ +A + LS Q + IAK DCD++ DEPT I Sbjct: 389 RAIREAAQMYVRQLAIKTPSVEQQARL--LSGGNQQKIVIAKWLLRDCDILFFDEPTRGI 446 Query: 174 GEKETEVLFRAIRSVAAQGTGIIYVSHRLSEIFQIADSYTVFRDGR 219 +++ + ++A QG I+ +S L E+ +++ V +GR Sbjct: 447 DVGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLVMCEGR 492 >gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 506 Score = 312 bits (800), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 185/499 (37%), Positives = 286/499 (57%), Gaps = 8/499 (1%) Query: 1 MAELLLEAHGVSKAFNEVAALTDGRLQLKRGSVHALCGGNGAGKSTFLGILMGLLRRDSG 60 M +L+ G+ K F V L L+++ G VHAL G NGAGKST + IL G++R D+G Sbjct: 1 MEAAMLQLTGIKKNFGPVTVLRGVDLEVRAGEVHALLGENGAGKSTLMKILCGIVRPDAG 60 Query: 61 EVRLKGKSVDFHSPAEALDHHIAIITQELSPIAGMSVAENLFLGREPRIGGICVNTRAMQ 120 E+R+ G+ F S A+ + ++ QE S I + +N+FL RE R + AM+ Sbjct: 61 EIRIDGQPCRFDSYRAAIAGGVGVVFQEFSLIPYLDAVDNMFLARELRSRWGWLQRAAMR 120 Query: 121 RQAQALLDRLQFQVDARALMQDLSLAQVQLVEIAKAFSHDCDVMIMDEPTSAIGEKETEV 180 R+AQ ++ +L + + LS+AQ Q VEIAKA + D ++++DEPT+ + E E Sbjct: 121 RRAQEIIGQLGVAIPLDVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPAEVEH 180 Query: 181 LFRAIRSVAAQGTGIIYVSHRLSEIFQIADSYTVFRDGRYVQSGLMRDIDRSELVKAIVG 240 LF +RS+ AQG II++SH L EIF+I D TV RDG YV + ++D++ LV+ +VG Sbjct: 181 LFAVMRSLRAQGVAIIFISHHLEEIFEICDRITVLRDGAYVATCATAEVDQARLVEMMVG 240 Query: 241 RTLQG--RERNRRQG---GAPVLATDTLSRHGEFEDISLRVHAGEVVGIYGLMGSGRSEY 295 R ++ + + G G VL L + ++ GE++G GL+GSGR+E Sbjct: 241 RRIENCFPPKPAKGGEGEGEVVLEVHALQLRRQAPVSQFQLRRGEILGFAGLVGSGRTET 300 Query: 296 LNCIYGLTRAHRGSVALAERPLPAGKPAASIAAGLSLVTEDRKESGLVLCASIQDNIALA 355 + + G A +++ PL PA ++ AG+ L+ E RKE GL+ SI N++L Sbjct: 301 VLAMLGAHAALSCKLSMHGVPLRFADPAQALQAGIGLLPESRKEQGLITSFSILHNVSLN 360 Query: 356 AY--RRLSRLPLIRRSRVETLVGQMIQRLQIKVSSPHLPVSSMSGGNQQKVVLARCLSTQ 413 Y RL L L RR + M QR+++K + V ++SGGNQQKVV+AR ++ Sbjct: 361 NYGKYRLGGLFLDRRREQQATEAAM-QRVRVKAPGAQVRVDTLSGGNQQKVVIARWINHA 419 Query: 414 PRCLLCDEPTRGIDEGAKREVYQLIDRFVHEGGAALVVSSEAQEILDLCDRIAIFKSGRM 473 + L+ DEPTRGID GAK E+YQL+ F +G + L++SSE E++ + DR+ +F+ G + Sbjct: 420 MKVLIFDEPTRGIDVGAKSEIYQLMREFTAQGYSILMISSELPEVVGMADRVCVFRGGGI 479 Query: 474 VQVVDAHRTTQEELLHLAS 492 V ++ EE++ A+ Sbjct: 480 VATLEGEAVNAEEIMTHAT 498 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 310 bits (795), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 180/485 (37%), Positives = 275/485 (56%), Gaps = 12/485 (2%) Query: 1 MAELLLEAHGVSKAFNEVAALTDGRLQLKRGSVHALCGGNGAGKSTFLGILMGLLRRDS- 59 M+E LLE G+ K+F V AL ++++ G LCG NGAGKST + IL G+ + Sbjct: 1 MSEYLLEMKGIVKSFGGVRALNGIDIKIRPGECVGLCGENGAGKSTLMKILSGVYPHGTW 60 Query: 60 -GEVRLKGKSVDFHSPAEALDHHIAIITQELSPIAGMSVAENLFLGREPRIGGICVNTRA 118 GE+ GK + HS + I II QEL + +SVAEN+F+G E + G +N A Sbjct: 61 EGEILWDGKPLQAHSVRDTEAAGIVIIHQELMLVPELSVAENIFMGHEITLPGGRMNYPA 120 Query: 119 MQRQAQALLDRLQF-QVDARALMQDLSLAQVQLVEIAKAFSHDCDVMIMDEPTSAIGEKE 177 M R+A+ L+ L ++ + QLVEIAKA + D ++I+DEP+S++ E Sbjct: 121 MYRRAEELMRELNMPDINVALPVSQYGGGHQQLVEIAKALNKDARLLILDEPSSSLTASE 180 Query: 178 TEVLFRAIRSVAAQGTGIIYVSHRLSEIFQIADSYTVFRDGRYVQSGLMRDIDRSELVKA 237 VL + I+ + A+G +Y+SH+L E+ ++ D+ +V RDG+++ + M+++D +++ Sbjct: 181 IGVLLKIIKDLKARGVACVYISHKLDEVAEVCDTISVIRDGKHIATTPMQEMDVDKIITQ 240 Query: 238 IVGRTLQGRERNRRQG-GAPVLATDTLS-------RHGEFEDISLRVHAGEVVGIYGLMG 289 +VGR + R G VL ++ R +D+S V GE++GI GL+G Sbjct: 241 MVGREITAMYPERNHAIGEVVLEARNITCYDIDNPRRKRVDDVSFSVRRGEILGIAGLVG 300 Query: 290 SGRSEYLNCIYGLTRA-HRGSVALAERPLPAGKPAASIAAGLSLVTEDRKESGLVLCASI 348 +GR+E ++ I+G R + G V L +P P SI GL +V EDRK G+V + Sbjct: 301 AGRTELVSAIFGAYRGRYEGQVLLEGKPADTSSPLKSIRRGLCMVPEDRKHHGIVPDLDV 360 Query: 349 QDNIALAAYRRLSRLPLIRRSRVETLVGQMIQRLQIKVSSPHLPVSSMSGGNQQKVVLAR 408 NI L R SR I S + I R+++K ++P LP++S+SGGNQQK VLA+ Sbjct: 361 GQNITLTVLNRFSRGSRIDGSAELKTIQDEIGRMRVKTATPFLPITSLSGGNQQKAVLAK 420 Query: 409 CLSTQPRCLLCDEPTRGIDEGAKREVYQLIDRFVHEGGAALVVSSEAQEILDLCDRIAIF 468 L QP+ L+ DEPTRG+D GAK E+Y+LI G A ++VSSE E+L + DR+ + Sbjct: 421 MLLAQPKVLILDEPTRGVDVGAKAEIYRLISELAKAGLAIIMVSSELAEVLGVSDRVLVI 480 Query: 469 KSGRM 473 GR+ Sbjct: 481 GEGRL 485 Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/210 (24%), Positives = 102/210 (48%), Gaps = 16/210 (7%) Query: 272 ISLRVHAGEVVGIYGLMGSGRSEYLNCIYGLTR--AHRGSVALAERPLPAGKPAASIAAG 329 I +++ GE VG+ G G+G+S + + G+ G + +PL A + AAG Sbjct: 24 IDIKIRPGECVGLCGENGAGKSTLMKILSGVYPHGTWEGEILWDGKPLQAHSVRDTEAAG 83 Query: 330 LSLVTEDRKESGLVLCASIQDNIALA-----AYRRLSRLPLIRRSRVETLVGQMIQRLQI 384 + ++ +E LV S+ +NI + R++ + RR+ ++++ L + Sbjct: 84 IVII---HQELMLVPELSVAENIFMGHEITLPGGRMNYPAMYRRAE------ELMRELNM 134 Query: 385 KVSSPHLPVSSMSGGNQQKVVLARCLSTQPRCLLCDEPTRGIDEGAKREVYQLIDRFVHE 444 + LPVS GG+QQ V +A+ L+ R L+ DEP+ + + ++I Sbjct: 135 PDINVALPVSQYGGGHQQLVEIAKALNKDARLLILDEPSSSLTASEIGVLLKIIKDLKAR 194 Query: 445 GGAALVVSSEAQEILDLCDRIAIFKSGRMV 474 G A + +S + E+ ++CD I++ + G+ + Sbjct: 195 GVACVYISHKLDEVAEVCDTISVIRDGKHI 224 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 0.321 0.136 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: 1,402,008 Number of extensions: 58175 Number of successful extensions: 812 Number of sequences better than 1.0e-08: 119 Number of HSP's gapped: 578 Number of HSP's successfully gapped: 202 Length of query: 492 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 403 Effective length of database: 1,198,455 Effective search space: 482977365 Effective search space used: 482977365 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 (21.9 bits) S2: 132 (55.5 bits)