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= 0001.0051.p (354 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 518 e-148 gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [H... 220 1e-58 gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H... 214 1e-56 gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [H... 210 1e-55 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 208 4e-55 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 518 bits (1334), Expect = e-148, Method: Compositional matrix adjust. Identities = 268/317 (84%), Positives = 281/317 (88%), Gaps = 17/317 (5%) Query: 1 MQQEHETQARAAASASAT--PLIALRNVSKRFPGVLALDNCQFE------HLL------- 45 MQ++ ET A++S++ P+IALRNV KRFPGVLALDNCQFE H L Sbjct: 1 MQEDKETSTTGVAASSSSSVPVIALRNVCKRFPGVLALDNCQFELAAGEVHALMGENGAG 60 Query: 46 --XLMKILSGVYQRDSGDILLDGTPVEIAEPRQAQALGIGIIHQELNLMNHLSAAQNIFI 103 LMKILSGVYQRDSGDILLDG PVEI EPRQAQALGIGIIHQELNLMNHLSAAQNIFI Sbjct: 61 KSTLMKILSGVYQRDSGDILLDGKPVEITEPRQAQALGIGIIHQELNLMNHLSAAQNIFI 120 Query: 104 GREPRKGFGLIIDEEQLNRQAAAIFARMRLDMDPRTPVGDLTVARQQMVEIAKALSFDSR 163 GREPRK GL IDE++LNRQAAAIFARMRLDMDP TPVG+LTVARQQMVEIAKALSFDSR Sbjct: 121 GREPRKAMGLFIDEDELNRQAAAIFARMRLDMDPSTPVGELTVARQQMVEIAKALSFDSR 180 Query: 164 VLIMDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIA 223 VLIMDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIA Sbjct: 181 VLIMDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIA 240 Query: 224 TVPMQGTSMDTIISMMVGRALDGEQRLPPDTSGNEVVLEVRGLNRGRAIRDVSFKLRRGE 283 TVPMQ TSMDTIISMMVGRALDGEQR+PPDTS N+VVLEVRGLNRGRAIRDVSF LR+GE Sbjct: 241 TVPMQETSMDTIISMMVGRALDGEQRIPPDTSRNDVVLEVRGLNRGRAIRDVSFTLRKGE 300 Query: 284 ILGFAGLMGAGRTEVXR 300 ILGFAGLMGAGRTEV R Sbjct: 301 ILGFAGLMGAGRTEVAR 317 Score = 62.4 bits (150), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 54/196 (27%), Positives = 97/196 (49%), Gaps = 18/196 (9%) Query: 58 DSGDILLDGTPVEIAEPRQAQALGIGIIHQE---LNLMNHLSAAQNIFI---GREPRKGF 111 ++G+I++ G I P A A GIG + ++ L + NI + GR R GF Sbjct: 326 EAGEIIIHGGKAVIKSPADAVAHGIGYLSEDRKHFGLAVGMDVQANIALSSMGRFTRVGF 385 Query: 112 GLIIDEEQLNRQAAAIFARMRLDMDPRTPVGD-----LTVARQQMVEIAKALSFDSRVLI 166 +D+ + R+AA ++ R + +TP + L+ QQ + IAK L D +L Sbjct: 386 ---MDQRAI-REAAQMYVR---QLAIKTPSVEQQARLLSGGNQQKIVIAKWLLRDCDILF 438 Query: 167 MDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVP 226 DEPT ++ +E+++++ L QG IV IS ++ E+ +++ RV VM +G+ + Sbjct: 439 FDEPTRGIDVGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLVMCEGRITGELA 498 Query: 227 MQGTSMDTIISMMVGR 242 + + I+ + R Sbjct: 499 RADATQEKIMQLATQR 514 >gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 546 Score = 220 bits (561), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 131/307 (42%), Positives = 189/307 (61%), Gaps = 19/307 (6%) Query: 10 RAAASASATPLIALRNVSKRFPGVLALDNCQFE-------HLL--------XLMKILSGV 54 RA A S P+++L + KRF GV+AL + F LL L+KIL+G+ Sbjct: 25 RAVADDSTAPVLSLSGIGKRFQGVVALQDVGFTVRPGEVMALLGENGAGKSTLVKILTGI 84 Query: 55 YQRDSGDILLDGTPVEIAEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKGFGLI 114 +Q D G I L G V A + A GI +HQE + LS A+NI+IGR+P G Sbjct: 85 HQPDEGSIHLGGREVRFASAQDAMRGGITAVHQETVMFEELSVAENIWIGRQPLCGTPRR 144 Query: 115 IDEEQLNRQAAAIFARMRLDMDPRTPVGDLTVARQQMVEIAKALSFDSRVLIMDEPTAAL 174 ID ++ +A A+FAR+ +D+ R V DL+VA++ VEIA+ALS ++V+IMDEPTAAL Sbjct: 145 IDWRRMEDEARALFARLEVDLPVRARVKDLSVAQRHFVEIARALSQQAQVVIMDEPTAAL 204 Query: 175 NNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPMQGTSMDT 234 ++ EI EL+RII L+ G +++ISHK DE+ +ADR +V+RDG++IA+ + + Sbjct: 205 SHHEIGELYRIIGQLRRAGTAVIFISHKFDEIYAVADRYTVLRDGRFIASGELADITEQQ 264 Query: 235 IISMMVGRALDGE--QRLPPDTSGNEV-VLEVRGLNRGRAIRDVSFKLRRGEILGFAGLM 291 ++++MVGR + G+ R +T VLEV+ L+ DVSF +R GEILGF GL+ Sbjct: 265 LVALMVGREV-GQVFSRAASNTEDQTAPVLEVKHLSHPSEFDDVSFAVRPGEILGFYGLV 323 Query: 292 GAGRTEV 298 GAGR+EV Sbjct: 324 GAGRSEV 330 Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/182 (29%), Positives = 89/182 (48%), Gaps = 12/182 (6%) Query: 47 LMKILSGVYQRDSGDILLDGTPVEIAEPRQAQALGIGII---HQELNLMNHLSAAQNIFI 103 +M L G+ G + +DG V++ P QA A G+ + Q + L QNI + Sbjct: 330 VMHALFGLSPEAQGAVWIDGREVKLCSPAQAIAHGLAYVPEDRQRQGALLSLPIFQNITL 389 Query: 104 GREPRKGFGLIIDEEQLNRQAAAIFARMRLDMDPRTP-----VGDLTVARQQMVEIAKAL 158 P GF L + R+ I R+ ++ + V L+ QQ V +AK L Sbjct: 390 PVLPGIGFFL----RRHRRREIDIARRLCEQLELKASHFHQHVAQLSGGNQQKVVLAKWL 445 Query: 159 SFDSRVLIMDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRD 218 + RVLI+DEPT ++ A + R I +L AQG+ ++ +S ++ E+ ++DR+ VM Sbjct: 446 ATQPRVLILDEPTKGIDIGSKAAVHRFIGELVAQGLAVILVSSELPEVMGMSDRIVVMHQ 505 Query: 219 GK 220 G+ Sbjct: 506 GR 507 >gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 521 Score = 214 bits (544), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 139/339 (41%), Positives = 195/339 (57%), Gaps = 31/339 (9%) Query: 18 TPLIALRNVSKRFPGVLALDNCQFE------HLL---------XLMKILSGVYQRDSGDI 62 TPL+ +R + K F LAL + H L LMK+LSGV+ D G+I Sbjct: 4 TPLLQMRGIRKSFGATLALSDMHLTIRPGEIHALMGENGAGKSTLMKVLSGVHAPDQGEI 63 Query: 63 LLDGTPVEIAEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKGFGLIIDEEQLNR 122 LLDG PV + +P ++A GI +I+QEL + ++S A N+F+G E R GLI D + Sbjct: 64 LLDGRPVALRDPGASRAAGINLIYQELAVAPNISVAANVFMGSELRTRLGLI-DHAAMRS 122 Query: 123 QAAAIFARMRLDMDPRTPVGDLTVARQQMVEIAKALSFDSRVLIMDEPTAALNNAEIAEL 182 + A+ ++ G L++A QQ VEIA+AL SR++IMDEPTAAL+ E +L Sbjct: 123 RTDAVLRQLGAGFGASDLAGRLSIAEQQQVEIARALVHRSRIVIMDEPTAALSERETEQL 182 Query: 183 FRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPMQGTSMDTIISMMVGR 242 F ++R L+ +G+ I+YISH+M E+ +ADRV+V+RDG ++ + + I+ MMVGR Sbjct: 183 FNVVRRLRDEGLAIIYISHRMAEVYALADRVTVLRDGSFVGELVRDEIDSERIVQMMVGR 242 Query: 243 ALD---GEQRL-PPDTSGNEVVLEVRGLNRGRAIRDVSFKLRRGEILGFAGLMGAGRTEV 298 +L QR+ P D + V++VR L G+ IR SF +R GE+LGFAGL+GAGRTE+ Sbjct: 243 SLSEFYQHQRIAPADAAQLPTVMQVRALAGGK-IRPASFDVRAGEVLGFAGLVGAGRTEL 301 Query: 299 XR-----DPPAGRCGGAWHRLPVGRPQAFRIGRGHGRAG 332 R DP R GG L GRP R RAG Sbjct: 302 ARLLFGADP---RSGGDI--LLEGRPVHIDQPRAAMRAG 335 Score = 94.0 bits (232), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 61/177 (34%), Positives = 95/177 (53%), Gaps = 4/177 (2%) Query: 47 LMKILSGVYQRDSGDILLDGTPVEIAEPRQAQALGIGIIHQELN---LMNHLSAAQNIFI 103 L ++L G R GDILL+G PV I +PR A GI + ++ L ++ A N + Sbjct: 301 LARLLFGADPRSGGDILLEGRPVHIDQPRAAMRAGIAYVPEDRKGQGLFLQMAVAANATM 360 Query: 104 GREPRKGFGLIIDEEQLNRQAAAIFARMRLDM-DPRTPVGDLTVARQQMVEIAKALSFDS 162 R ++ L A A R+ + + P TPVG L+ QQ V +A+ L Sbjct: 361 NVASRHTRLGLVRSRSLGGVARAAIQRLNVKVAHPETPVGKLSGGNQQKVLLARWLEIAP 420 Query: 163 RVLIMDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDG 219 +VLI+DEPT ++ +E+++++ L +QGV +V IS ++ E+ I DRV VMR+G Sbjct: 421 KVLILDEPTRGVDIYAKSEIYQLVHRLASQGVAVVVISSELPEVIGICDRVLVMREG 477 >gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 506 Score = 210 bits (535), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 113/256 (44%), Positives = 162/256 (63%), Gaps = 8/256 (3%) Query: 47 LMKILSGVYQRDSGDILLDGTPVEIAEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGRE 106 LMKIL G+ + D+G+I +DG P R A A G+G++ QE +L+ +L A N+F+ RE Sbjct: 47 LMKILCGIVRPDAGEIRIDGQPCRFDSYRAAIAGGVGVVFQEFSLIPYLDAVDNMFLARE 106 Query: 107 PRKGFGLIIDEEQLNRQAAAIFARMRLDMDPRTPVGDLTVARQQMVEIAKALSFDSRVLI 166 R +G + + R+A I ++ + + PV L+VA+QQ VEIAKAL+ D+R+L+ Sbjct: 107 LRSRWGWL-QRAAMRRRAQEIIGQLGVAIPLDVPVCKLSVAQQQFVEIAKALALDARILV 165 Query: 167 MDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVP 226 +DEPTA L AE+ LF ++R L+AQGV I++ISH ++E+ +I DR++V+RDG Y+AT Sbjct: 166 LDEPTATLTPAEVEHLFAVMRSLRAQGVAIIFISHHLEEIFEICDRITVLRDGAYVATCA 225 Query: 227 MQGTSMDTIISMMVGRALDGEQRLPPDTSG-----NEVVLEVRGLNRGRAIRDVSFKLRR 281 ++ MMVGR + E PP + EVVLEV L R F+LRR Sbjct: 226 TAEVDQARLVEMMVGRRI--ENCFPPKPAKGGEGEGEVVLEVHALQLRRQAPVSQFQLRR 283 Query: 282 GEILGFAGLMGAGRTE 297 GEILGFAGL+G+GRTE Sbjct: 284 GEILGFAGLVGSGRTE 299 Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 54/190 (28%), Positives = 98/190 (51%), Gaps = 5/190 (2%) Query: 53 GVYQRDSGDILLDGTPVEIAEPRQAQALGIGII---HQELNLMNHLSAAQNIFIGREPRK 109 G + S + + G P+ A+P QA GIG++ +E L+ S N+ + + Sbjct: 306 GAHAALSCKLSMHGVPLRFADPAQALQAGIGLLPESRKEQGLITSFSILHNVSLNNYGKY 365 Query: 110 GFG-LIIDEEQLNRQAAAIFARMRLDM-DPRTPVGDLTVARQQMVEIAKALSFDSRVLIM 167 G L +D + + A R+R+ + V L+ QQ V IA+ ++ +VLI Sbjct: 366 RLGGLFLDRRREQQATEAAMQRVRVKAPGAQVRVDTLSGGNQQKVVIARWINHAMKVLIF 425 Query: 168 DEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPM 227 DEPT ++ +E+++++R+ AQG I+ IS ++ E+ +ADRV V R G +AT+ Sbjct: 426 DEPTRGIDVGAKSEIYQLMREFTAQGYSILMISSELPEVVGMADRVCVFRGGGIVATLEG 485 Query: 228 QGTSMDTIIS 237 + + + I++ Sbjct: 486 EAVNAEEIMT 495 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 208 bits (530), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 130/306 (42%), Positives = 185/306 (60%), Gaps = 31/306 (10%) Query: 20 LIALRNVSKRFPGVLALDNCQFE---------------HLLXLMKILSGVYQRDS--GDI 62 L+ ++ + K F GV AL+ + LMKILSGVY + G+I Sbjct: 5 LLEMKGIVKSFGGVRALNGIDIKIRPGECVGLCGENGAGKSTLMKILSGVYPHGTWEGEI 64 Query: 63 LLDGTPVEIAEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKGFGLIIDEEQLNR 122 L DG P++ R +A GI IIHQEL L+ LS A+NIF+G E G + + + R Sbjct: 65 LWDGKPLQAHSVRDTEAAGIVIIHQELMLVPELSVAENIFMGHEITLPGGRM-NYPAMYR 123 Query: 123 QAAAIFARMRL-DMDPRTPVGDLTVARQQMVEIAKALSFDSRVLIMDEPTAALNNAEIAE 181 +A + + + D++ PV QQ+VEIAKAL+ D+R+LI+DEP+++L +EI Sbjct: 124 RAEELMRELNMPDINVALPVSQYGGGHQQLVEIAKALNKDARLLILDEPSSSLTASEIGV 183 Query: 182 LFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPMQGTSMDTIISMMVG 241 L +II+DL+A+GV VYISHK+DE+ ++ D +SV+RDGK+IAT PMQ +D II+ MVG Sbjct: 184 LLKIIKDLKARGVACVYISHKLDEVAEVCDTISVIRDGKHIATTPMQEMDVDKIITQMVG 243 Query: 242 RALDGEQRLPPDTSG--NEVVLEVRGLN-------RGRAIRDVSFKLRRGEILGFAGLMG 292 R + + P+ + EVVLE R + R + + DVSF +RRGEILG AGL+G Sbjct: 244 REITA---MYPERNHAIGEVVLEARNITCYDIDNPRRKRVDDVSFSVRRGEILGIAGLVG 300 Query: 293 AGRTEV 298 AGRTE+ Sbjct: 301 AGRTEL 306 Score = 72.4 bits (176), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 53/201 (26%), Positives = 100/201 (49%), Gaps = 5/201 (2%) Query: 47 LMKILSGVYQ-RDSGDILLDGTPVEIAEPRQAQALGIGIIHQELN---LMNHLSAAQNIF 102 L+ + G Y+ R G +LL+G P + + P ++ G+ ++ ++ ++ L QNI Sbjct: 306 LVSAIFGAYRGRYEGQVLLEGKPADTSSPLKSIRRGLCMVPEDRKHHGIVPDLDVGQNIT 365 Query: 103 IGREPRKGFGLIIDEEQLNRQAAAIFARMRLDM-DPRTPVGDLTVARQQMVEIAKALSFD 161 + R G ID + RMR+ P P+ L+ QQ +AK L Sbjct: 366 LTVLNRFSRGSRIDGSAELKTIQDEIGRMRVKTATPFLPITSLSGGNQQKAVLAKMLLAQ 425 Query: 162 SRVLIMDEPTAALNNAEIAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKY 221 +VLI+DEPT ++ AE++R+I +L G+ I+ +S ++ E+ ++DRV V+ +G+ Sbjct: 426 PKVLILDEPTRGVDVGAKAEIYRLISELAKAGLAIIMVSSELAEVLGVSDRVLVIGEGRL 485 Query: 222 IATVPMQGTSMDTIISMMVGR 242 S +T+++ + + Sbjct: 486 RGDFVNDNLSQETVLAAAINQ 506 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 0.322 0.138 0.400 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: 1,125,817 Number of extensions: 50407 Number of successful extensions: 496 Number of sequences better than 1.0e-08: 79 Number of HSP's gapped: 423 Number of HSP's successfully gapped: 90 Length of query: 354 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 268 Effective length of database: 1,212,660 Effective search space: 324992880 Effective search space used: 324992880 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: 131 (55.1 bits)