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= 0001.0068.p (440 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [H... 461 e-131 gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H... 222 5e-59 gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 216 2e-57 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 205 7e-54 gi|300310367|ref|YP_003774459.1| sugar ABC transporter ATPase [H... 194 1e-50 >gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 506 Score = 461 bits (1186), Expect = e-131, Method: Compositional matrix adjust. Identities = 234/274 (85%), Positives = 243/274 (88%), Gaps = 13/274 (4%) Query: 1 MLQLTGIKKNFGPVTVLRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRI 60 MLQLTGIKKNFGPVTVLRGVDL+VRAGEVHALLGENGAGKSTLMKILCGIV PDAGEIRI Sbjct: 5 MLQLTGIKKNFGPVTVLRGVDLEVRAGEVHALLGENGAGKSTLMKILCGIVRPDAGEIRI 64 Query: 61 DGQACRFASYHEAIAAGVGVVFQEFSLIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTX 120 DGQ CRF SY AIA GVGVVFQEFSLIPYLDAVDNMFLARELRS +G LQRAAM+R Sbjct: 65 DGQPCRFDSYRAAIAGGVGVVFQEFSLIPYLDAVDNMFLARELRSRWGWLQRAAMRR--- 121 Query: 121 SEGRAAQIIAQLGVEIPLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEV 180 RA +II QLGV IPL+VPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTP EV Sbjct: 122 ---RAQEIIGQLGVAIPLDVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPAEV 178 Query: 181 EHLFKVMRGLREQGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMM 240 EHLF VMR LR QGVAIIFISHHLEEIFEICDRI+VLRDGAY+ TCA +EVDQARLVEMM Sbjct: 179 EHLFAVMRSLRAQGVAIIFISHHLEEIFEICDRITVLRDGAYVATCATAEVDQARLVEMM 238 Query: 241 VGRRIENCFPPKP-------GEVVLEVQALQLKR 267 VGRRIENCFPPKP GEVVLEV ALQL+R Sbjct: 239 VGRRIENCFPPKPAKGGEGEGEVVLEVHALQLRR 272 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 57/209 (27%), Positives = 102/209 (48%), Gaps = 10/209 (4%) Query: 22 LQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRIDGQACRFASYHEAIAAGVGVV 81 Q+R GE+ G G+G++ + + G + ++ + G RFA +A+ AG+G++ Sbjct: 279 FQLRRGEILGFAGLVGSGRTETVLAMLGAHAALSCKLSMHGVPLRFADPAQALQAGIGLL 338 Query: 82 ---FQEFSLIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTXSEGRAAQIIAQ-LGVEIP 137 +E LI + N+ L +++G + + E +A + Q + V+ P Sbjct: 339 PESRKEQGLITSFSILHNVSL-----NNYGKYRLGGLFLDRRREQQATEAAMQRVRVKAP 393 Query: 138 -LEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEVEHLFKVMRGLREQGVA 196 +V V LS QQ V IA+ + ++L+ DEPT + G ++++MR QG + Sbjct: 394 GAQVRVDTLSGGNQQKVVIARWINHAMKVLIFDEPTRGIDVGAKSEIYQLMREFTAQGYS 453 Query: 197 IIFISHHLEEIFEICDRISVLRDGAYIGT 225 I+ IS L E+ + DR+ V R G + T Sbjct: 454 ILMISSELPEVVGMADRVCVFRGGGIVAT 482 >gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 521 Score = 222 bits (565), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 108/249 (43%), Positives = 164/249 (65%), Gaps = 6/249 (2%) Query: 1 MLQLTGIKKNFGPVTVLRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRI 60 +LQ+ GI+K+FG L + L +R GE+HAL+GENGAGKSTLMK+L G+ PD GEI + Sbjct: 6 LLQMRGIRKSFGATLALSDMHLTIRPGEIHALMGENGAGKSTLMKVLSGVHAPDQGEILL 65 Query: 61 DGQACRFASYHEAIAAGVGVVFQEFSLIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTX 120 DG+ + AAG+ +++QE ++ P + N+F+ ELR+ GL+ AAM+ T Sbjct: 66 DGRPVALRDPGASRAAGINLIYQELAVAPNISVAANVFMGSELRTRLGLIDHAAMRSRTD 125 Query: 121 SEGRAAQIIAQLGVEIPLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEV 180 + ++ QLG +LS+A+QQ VEIA+AL +RI+++DEPTA L+ E Sbjct: 126 A------VLRQLGAGFGASDLAGRLSIAEQQQVEIARALVHRSRIVIMDEPTAALSERET 179 Query: 181 EHLFKVMRGLREQGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMM 240 E LF V+R LR++G+AII+ISH + E++ + DR++VLRDG+++G E+D R+V+MM Sbjct: 180 EQLFNVVRRLRDEGLAIIYISHRMAEVYALADRVTVLRDGSFVGELVRDEIDSERIVQMM 239 Query: 241 VGRRIENCF 249 VGR + + Sbjct: 240 VGRSLSEFY 248 Score = 90.1 bits (222), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 113/238 (47%), Gaps = 9/238 (3%) Query: 17 LRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRIDGQACRFASYHEAIAA 76 +R VRAGEV G GAG++ L ++L G G+I ++G+ A+ A Sbjct: 275 IRPASFDVRAGEVLGFAGLVGAGRTELARLLFGADPRSGGDILLEGRPVHIDQPRAAMRA 334 Query: 77 GVGVVFQEFS---LIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTXSEGRAAQIIAQLG 133 G+ V ++ L + N + R + R + RS G A I +L Sbjct: 335 GIAYVPEDRKGQGLFLQMAVAANATMNVASRHT-----RLGLVRSRSLGGVARAAIQRLN 389 Query: 134 VEIPL-EVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEVEHLFKVMRGLRE 192 V++ E PV KLS QQ V +A+ L + ++L+LDEPT + +++++ L Sbjct: 390 VKVAHPETPVGKLSGGNQQKVLLARWLEIAPKVLILDEPTRGVDIYAKSEIYQLVHRLAS 449 Query: 193 QGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMMVGRRIENCFP 250 QGVA++ IS L E+ ICDR+ V+R+G G A + + Q ++ + + P Sbjct: 450 QGVAVVVISSELPEVIGICDRVLVMREGMITGELAGAAITQENIMRLATDTNVPRTAP 507 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 216 bits (551), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 117/275 (42%), Positives = 173/275 (62%), Gaps = 11/275 (4%) Query: 1 MLQLTGIKKNFGPVTVLRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRI 60 ++ L + K F V L ++ AGEVHAL+GENGAGKSTLMKIL G+ D+G+I + Sbjct: 22 VIALRNVCKRFPGVLALDNCQFELAAGEVHALMGENGAGKSTLMKILSGVYQRDSGDILL 81 Query: 61 DGQACRFASYHEAIAAGVGVVFQEFSLIPYLDAVDNMFLARELRSSFGL-LQRAAMKRST 119 DG+ +A A G+G++ QE +L+ +L A N+F+ RE R + GL + + R Sbjct: 82 DGKPVEITEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKAMGLFIDEDELNR-- 139 Query: 120 XSEGRAAQIIAQLGVEIPLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGE 179 +AA I A++ +++ PV +L+VA+QQ VEIAKAL+ D+R+L++DEPTA L E Sbjct: 140 ----QAAAIFARMRLDMDPSTPVGELTVARQQMVEIAKALSFDSRVLIMDEPTAALNNAE 195 Query: 180 VEHLFKVMRGLREQGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEM 239 + LF+++R L+ QGV I++ISH ++E+ +I DR+SV+RDG YI T + E ++ M Sbjct: 196 IAELFRIIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVPMQETSMDTIISM 255 Query: 240 MVGRRI--ENCFPPKP--GEVVLEVQALQLKRXRR 270 MVGR + E PP +VVLEV+ L R R Sbjct: 256 MVGRALDGEQRIPPDTSRNDVVLEVRGLNRGRAIR 290 Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 109/231 (47%), Gaps = 9/231 (3%) Query: 17 LRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRIDGQACRFASYHEAIAA 76 +R V +R GE+ G GAG++ + + + G +AGEI I G S +A+A Sbjct: 289 IRDVSFTLRKGEILGFAGLMGAGRTEVARAIFGADPLEAGEIIIHGGKAVIKSPADAVAH 348 Query: 77 GVGVVFQE---FSLIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTXSEGRAAQIIAQLG 133 G+G + ++ F L +D N+ L SS G R A + QL Sbjct: 349 GIGYLSEDRKHFGLAVGMDVQANIAL-----SSMGRFTRVGFMDQRAIREAAQMYVRQLA 403 Query: 134 VEIP-LEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEVEHLFKVMRGLRE 192 ++ P +E LS QQ + IAK L D IL DEPT + G ++K++ L E Sbjct: 404 IKTPSVEQQARLLSGGNQQKIVIAKWLLRDCDILFFDEPTRGIDVGAKSEIYKLLDALAE 463 Query: 193 QGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMMVGR 243 QG AI+ IS L E+ + R+ V+ +G G A ++ Q +++++ R Sbjct: 464 QGKAIVMISSELPEVLRMSHRVLVMCEGRITGELARADATQEKIMQLATQR 514 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 205 bits (521), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 115/281 (40%), Positives = 172/281 (61%), Gaps = 15/281 (5%) Query: 1 MLQLTGIKKNFGPVTVLRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDA--GEI 58 +L++ GI K+FG V L G+D+++R GE L GENGAGKSTLMKIL G+ GEI Sbjct: 5 LLEMKGIVKSFGGVRALNGIDIKIRPGECVGLCGENGAGKSTLMKILSGVYPHGTWEGEI 64 Query: 59 RIDGQACRFASYHEAIAAGVGVVFQEFSLIPYLDAVDNMFLARELRSSFGLLQRAAMKRS 118 DG+ + S + AAG+ ++ QE L+P L +N+F+ E+ G + AM R Sbjct: 65 LWDGKPLQAHSVRDTEAAGIVIIHQELMLVPELSVAENIFMGHEITLPGGRMNYPAMYR- 123 Query: 119 TXSEGRAAQIIAQLGV-EIPLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTP 177 RA +++ +L + +I + +PV + QQ VEIAKAL DAR+L+LDEP+++LT Sbjct: 124 -----RAEELMRELNMPDINVALPVSQYGGGHQQLVEIAKALNKDARLLILDEPSSSLTA 178 Query: 178 GEVEHLFKVMRGLREQGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLV 237 E+ L K+++ L+ +GVA ++ISH L+E+ E+CD ISV+RDG +I T + E+D +++ Sbjct: 179 SEIGVLLKIIKDLKARGVACVYISHKLDEVAEVCDTISVIRDGKHIATTPMQEMDVDKII 238 Query: 238 EMMVGRRIENCFPPKP---GEVVLE---VQALQLKRXRRAR 272 MVGR I +P + GEVVLE + + RR R Sbjct: 239 TQMVGREITAMYPERNHAIGEVVLEARNITCYDIDNPRRKR 279 Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 111/237 (46%), Gaps = 12/237 (5%) Query: 20 VDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPD-AGEIRIDGQACRFASYHEAIAAGV 78 V VR GE+ + G GAG++ L+ + G G++ ++G+ +S ++I G+ Sbjct: 283 VSFSVRRGEILGIAGLVGAGRTELVSAIFGAYRGRYEGQVLLEGKPADTSSPLKSIRRGL 342 Query: 79 GVVFQE---FSLIPYLDAVDNMFLARELRSSFG--LLQRAAMKRSTXSEGRAAQIIAQLG 133 +V ++ ++P LD N+ L R S G + A +K GR ++ Sbjct: 343 CMVPEDRKHHGIVPDLDVGQNITLTVLNRFSRGSRIDGSAELKTIQDEIGRM-----RVK 397 Query: 134 VEIPLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEVEHLFKVMRGLREQ 193 P +P+ LS QQ +AK L ++L+LDEPT + G +++++ L + Sbjct: 398 TATPF-LPITSLSGGNQQKAVLAKMLLAQPKVLILDEPTRGVDVGAKAEIYRLISELAKA 456 Query: 194 GVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMMVGRRIENCFP 250 G+AII +S L E+ + DR+ V+ +G G + Q ++ + + + P Sbjct: 457 GLAIIMVSSELAEVLGVSDRVLVIGEGRLRGDFVNDNLSQETVLAAAINQPVPQATP 513 >gi|300310367|ref|YP_003774459.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 516 Score = 194 bits (493), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 107/242 (44%), Positives = 157/242 (64%), Gaps = 7/242 (2%) Query: 1 MLQLTGIKKNFGPVTVLRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRI 60 ML+L+GI K F V L V L++ GEVH L+G+NGAGKSTL+K+L G+ PD G+I + Sbjct: 12 MLELSGIHKAFAGVKALTDVGLRLFPGEVHTLMGQNGAGKSTLIKVLTGVHEPDGGKIEL 71 Query: 61 DGQACRFASYHEAIAAGVGVVFQEFSLIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTX 120 DG+A AS EA A G+ V+QE +L P L +N+F+ R + FG + +S Sbjct: 72 DGRAIAPASTLEAQALGISTVYQEVNLCPNLSVAENIFVGR-YPTRFGRID----WKSVH 126 Query: 121 SEGRAAQIIAQLGVEIPLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEV 180 ++ R Q ++I + P+ +A QQ V I++AL++ A++L+LDEPT++L EV Sbjct: 127 TQSRQLLQQLQ--IDIDVAAPLSSYPLAIQQMVAISRALSVSAKVLILDEPTSSLDEAEV 184 Query: 181 EHLFKVMRGLREQGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMM 240 + LFKV+R LREQG+AI+F++H L++ +EI DRI+VLR+G G VSE+ + LV M Sbjct: 185 QQLFKVLRRLREQGMAILFVTHFLDQTYEISDRITVLRNGVREGEYLVSELSRLDLVNKM 244 Query: 241 VG 242 VG Sbjct: 245 VG 246 Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 76/238 (31%), Positives = 123/238 (51%), Gaps = 9/238 (3%) Query: 9 KNFGPVTVLRGVDLQVRAGEVHALLGENGAGKSTLMKILCGIVTPDAGEIRIDGQACRFA 68 + FG VL DLQ+R GEV L G G+G++ + ++L G D G++RI+G+ R Sbjct: 281 EGFGRRGVLAPQDLQLRRGEVFGLCGLLGSGRTEMARLLFGADRADCGQLRIEGKEVRLN 340 Query: 69 SYHEAIAAGVGVVFQEFS---LIPYLDAVDNMFLARELRSSFGLLQRAAMKRSTXSEGRA 125 +AIAAG+G ++ I L +N+ LA + R GL + KR A Sbjct: 341 VPRDAIAAGIGFCSEDRKKEGAILELSVRENIILALQARQ--GLFRVLPRKRQNQI---A 395 Query: 126 AQIIAQLGVEI-PLEVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPGEVEHLF 184 A + LG++ LE P+ LS QQ +A+ LA D +L+LDEPT + + + Sbjct: 396 ADYVKWLGIKTADLETPIGLLSGGNQQKALLARWLATDPGMLILDEPTRGIDVRAKQEIM 455 Query: 185 KVMRGLREQGVAIIFISHHLEEIFEICDRISVLRDGAYIGTCAVSEVDQARLVEMMVG 242 + + +G++I+FIS + E+ DR+ VLRD G E+D+ +++++ G Sbjct: 456 DFVIAMCRKGMSILFISSEIPEVLRCSDRMLVLRDRRACGEYRRGELDEQSVLQVIAG 513 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 0.136 0.409 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: 1,412,822 Number of extensions: 61114 Number of successful extensions: 629 Number of sequences better than 1.0e-08: 127 Number of HSP's gapped: 411 Number of HSP's successfully gapped: 142 Length of query: 440 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 352 Effective length of database: 1,203,190 Effective search space: 423522880 Effective search space used: 423522880 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)