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= 0225.0020.p (255 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... 260 7e-71 gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 191 4e-50 gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H... 184 7e-48 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 167 9e-43 gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [H... 167 1e-42 >gi|300310396|ref|YP_003774488.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 506 Score = 260 bits (665), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 132/218 (60%), Positives = 159/218 (72%) Query: 3 TILELQGICKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRII 62 +L+L GI K FG + L GVDL V GE+HALLGENGAGKSTLMKIL G+ RPD G I Sbjct: 4 AMLQLTGIKKNFGPVTVLRGVDLEVRAGEVHALLGENGAGKSTLMKILCGIVRPDAGEIR 63 Query: 63 VGGEERHFTSYHDAIKSGVAIIFQEFSLIPYLNAVDNMFLGREMRNTFGLLSRTMMRRRA 122 + G+ F SY AI GV ++FQEFSLIPYL+AVDNMFL RE+R+ +G L R MRRRA Sbjct: 64 IDGQPCRFDSYRAAIAGGVGVVFQEFSLIPYLDAVDNMFLARELRSRWGWLQRAAMRRRA 123 Query: 123 EAIFRRLGVTIDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFT 182 + I +LGV I L + V +LS+AQQQFVEI KAL+L+ARIL+LDEPTATLTPAE HLF Sbjct: 124 QEIIGQLGVAIPLDVPVCKLSVAQQQFVEIAKALALDARILVLDEPTATLTPAEVEHLFA 183 Query: 183 VMRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIV 220 VMR L+ GVA+IFISH + + I R+ V+ G V Sbjct: 184 VMRSLRAQGVAIIFISHHLEEIFEICDRITVLRDGAYV 221 Score = 55.1 bits (131), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 50/197 (25%), Positives = 91/197 (46%), Gaps = 6/197 (3%) Query: 30 GEIHALLGENGAGKSTLMKILGGVHRPDQGRIIVGGEERHFTSYHDAIKSGVAIIFQ--- 86 GEI G G+G++ + + G H ++ + G F A+++G+ ++ + Sbjct: 284 GEILGFAGLVGSGRTETVLAMLGAHAALSCKLSMHGVPLRFADPAQALQAGIGLLPESRK 343 Query: 87 EFSLIPYLNAVDNMFLGREMRNTFG--LLSRTMMRRRAEAIFRRLGVTID-LSMEVRRLS 143 E LI + + N+ L + G L R ++ EA +R+ V + V LS Sbjct: 344 EQGLITSFSILHNVSLNNYGKYRLGGLFLDRRREQQATEAAMQRVRVKAPGAQVRVDTLS 403 Query: 144 LAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFTVMRELKRLGVAMIFISHDMAV 203 QQ V I + ++ ++LI DEPT + + ++ +MRE G +++ IS ++ Sbjct: 404 GGNQQKVVIARWINHAMKVLIFDEPTRGIDVGAKSEIYQLMREFTAQGYSILMISSELPE 463 Query: 204 VERISHRVAVMYLGQIV 220 V ++ RV V G IV Sbjct: 464 VVGMADRVCVFRGGGIV 480 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 191 bits (486), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 99/222 (44%), Positives = 147/222 (66%), Gaps = 1/222 (0%) Query: 4 ILELQGICKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRIIV 63 ++ L+ +CK+F + AL+ +A GE+HAL+GENGAGKSTLMKIL GV++ D G I++ Sbjct: 22 VIALRNVCKRFPGVLALDNCQFELAAGEVHALMGENGAGKSTLMKILSGVYQRDSGDILL 81 Query: 64 GGEERHFTSYHDAIKSGVAIIFQEFSLIPYLNAVDNMFLGREMRNTFGL-LSRTMMRRRA 122 G+ T A G+ II QE +L+ +L+A N+F+GRE R GL + + R+A Sbjct: 82 DGKPVEITEPRQAQALGIGIIHQELNLMNHLSAAQNIFIGREPRKAMGLFIDEDELNRQA 141 Query: 123 EAIFRRLGVTIDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFT 182 AIF R+ + +D S V L++A+QQ VEI KALS ++R+LI+DEPTA L AE A LF Sbjct: 142 AAIFARMRLDMDPSTPVGELTVARQQMVEIAKALSFDSRVLIMDEPTAALNNAEIAELFR 201 Query: 183 VMRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIVEIGP 224 ++R+L+ GV +++ISH M + +I+ RV+VM G+ + P Sbjct: 202 IIRDLQAQGVGIVYISHKMDELRQIADRVSVMRDGKYIATVP 243 Score = 77.4 bits (189), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 63/222 (28%), Positives = 108/222 (48%), Gaps = 9/222 (4%) Query: 4 ILELQGICKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRIIV 63 +LE++G+ R +A+ V + GEI G GAG++ + + + G + G II+ Sbjct: 277 VLEVRGL----NRGRAIRDVSFTLRKGEILGFAGLMGAGRTEVARAIFGADPLEAGEIII 332 Query: 64 GGEERHFTSYHDAIKSGVAIIFQE---FSLIPYLNAVDNMFLGREMRNT-FGLLSRTMMR 119 G + S DA+ G+ + ++ F L ++ N+ L R T G + + +R Sbjct: 333 HGGKAVIKSPADAVAHGIGYLSEDRKHFGLAVGMDVQANIALSSMGRFTRVGFMDQRAIR 392 Query: 120 RRAEAIFRRLGV-TIDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAA 178 A+ R+L + T + + R LS QQ + I K L + IL DEPT + + Sbjct: 393 EAAQMYVRQLAIKTPSVEQQARLLSGGNQQKIVIAKWLLRDCDILFFDEPTRGIDVGAKS 452 Query: 179 HLFTVMRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIV 220 ++ ++ L G A++ IS ++ V R+SHRV VM G+I Sbjct: 453 EIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLVMCEGRIT 494 >gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 521 Score = 184 bits (466), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 97/217 (44%), Positives = 139/217 (64%) Query: 4 ILELQGICKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRIIV 63 +L+++GI K FG AL+ + L + GEIHAL+GENGAGKSTLMK+L GVH PDQG I++ Sbjct: 6 LLQMRGIRKSFGATLALSDMHLTIRPGEIHALMGENGAGKSTLMKVLSGVHAPDQGEILL 65 Query: 64 GGEERHFTSYHDAIKSGVAIIFQEFSLIPYLNAVDNMFLGREMRNTFGLLSRTMMRRRAE 123 G + +G+ +I+QE ++ P ++ N+F+G E+R GL+ MR R + Sbjct: 66 DGRPVALRDPGASRAAGINLIYQELAVAPNISVAANVFMGSELRTRLGLIDHAAMRSRTD 125 Query: 124 AIFRRLGVTIDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFTV 183 A+ R+LG S RLS+A+QQ VEI +AL +RI+I+DEPTA L+ E LF V Sbjct: 126 AVLRQLGAGFGASDLAGRLSIAEQQQVEIARALVHRSRIVIMDEPTAALSERETEQLFNV 185 Query: 184 MRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIV 220 +R L+ G+A+I+ISH MA V ++ RV V+ G V Sbjct: 186 VRRLRDEGLAIIYISHRMAEVYALADRVTVLRDGSFV 222 Score = 63.2 bits (152), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/198 (28%), Positives = 93/198 (46%), Gaps = 5/198 (2%) Query: 27 VAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRIIVGGEERHFTSYHDAIKSGVAIIFQ 86 V GE+ G GAG++ L ++L G G I++ G H A+++G+A + + Sbjct: 282 VRAGEVLGFAGLVGAGRTELARLLFGADPRSGGDILLEGRPVHIDQPRAAMRAGIAYVPE 341 Query: 87 EFS---LIPYLNAVDNMFLGREMRNT-FGLLSRTMMRRRAEAIFRRLGVTI-DLSMEVRR 141 + L + N + R+T GL+ + A A +RL V + V + Sbjct: 342 DRKGQGLFLQMAVAANATMNVASRHTRLGLVRSRSLGGVARAAIQRLNVKVAHPETPVGK 401 Query: 142 LSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFTVMRELKRLGVAMIFISHDM 201 LS QQ V + + L + ++LILDEPT + + ++ ++ L GVA++ IS ++ Sbjct: 402 LSGGNQQKVLLARWLEIAPKVLILDEPTRGVDIYAKSEIYQLVHRLASQGVAVVVISSEL 461 Query: 202 AVVERISHRVAVMYLGQI 219 V I RV VM G I Sbjct: 462 PEVIGICDRVLVMREGMI 479 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 167 bits (422), Expect = 9e-43, Method: Compositional matrix adjust. Identities = 91/224 (40%), Positives = 139/224 (62%), Gaps = 3/224 (1%) Query: 4 ILELQGICKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGV--HRPDQGRI 61 +LE++GI K FG ++ALNG+D+ + GE L GENGAGKSTLMKIL GV H +G I Sbjct: 5 LLEMKGIVKSFGGVRALNGIDIKIRPGECVGLCGENGAGKSTLMKILSGVYPHGTWEGEI 64 Query: 62 IVGGEERHFTSYHDAIKSGVAIIFQEFSLIPYLNAVDNMFLGREMRNTFGLLSRTMMRRR 121 + G+ S D +G+ II QE L+P L+ +N+F+G E+ G ++ M RR Sbjct: 65 LWDGKPLQAHSVRDTEAAGIVIIHQELMLVPELSVAENIFMGHEITLPGGRMNYPAMYRR 124 Query: 122 AEAIFRRLGVT-IDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHL 180 AE + R L + I++++ V + QQ VEI KAL+ +AR+LILDEP+++LT +E L Sbjct: 125 AEELMRELNMPDINVALPVSQYGGGHQQLVEIAKALNKDARLLILDEPSSSLTASEIGVL 184 Query: 181 FTVMRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIVEIGP 224 ++++LK GVA ++ISH + V + ++V+ G+ + P Sbjct: 185 LKIIKDLKARGVACVYISHKLDEVAEVCDTISVIRDGKHIATTP 228 Score = 66.2 bits (160), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 57/212 (26%), Positives = 108/212 (50%), Gaps = 10/212 (4%) Query: 16 RIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPD-QGRIIVGGEERHFTSYH 74 R K ++ V +V GEI + G GAG++ L+ + G +R +G++++ G+ +S Sbjct: 276 RRKRVDDVSFSVRRGEILGIAGLVGAGRTELVSAIFGAYRGRYEGQVLLEGKPADTSSPL 335 Query: 75 DAIKSGVAIIFQE---FSLIPYLNAVDNMFLGREMRNTFGLLSRTMMRRRAEAIFRRLG- 130 +I+ G+ ++ ++ ++P L+ N+ L + N F SR + I +G Sbjct: 336 KSIRRGLCMVPEDRKHHGIVPDLDVGQNITL--TVLNRFSRGSRIDGSAELKTIQDEIGR 393 Query: 131 ---VTIDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFTVMREL 187 T + + LS QQ + K L + ++LILDEPT + A ++ ++ EL Sbjct: 394 MRVKTATPFLPITSLSGGNQQKAVLAKMLLAQPKVLILDEPTRGVDVGAKAEIYRLISEL 453 Query: 188 KRLGVAMIFISHDMAVVERISHRVAVMYLGQI 219 + G+A+I +S ++A V +S RV V+ G++ Sbjct: 454 AKAGLAIIMVSSELAEVLGVSDRVLVIGEGRL 485 >gi|300313728|ref|YP_003777820.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 546 Score = 167 bits (422), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 91/221 (41%), Positives = 138/221 (62%), Gaps = 1/221 (0%) Query: 4 ILELQGICKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRIIV 63 +L L GI K+F + AL V V GE+ ALLGENGAGKSTL+KIL G+H+PD+G I + Sbjct: 35 VLSLSGIGKRFQGVVALQDVGFTVRPGEVMALLGENGAGKSTLVKILTGIHQPDEGSIHL 94 Query: 64 GGEERHFTSYHDAIKSGVAIIFQEFSLIPYLNAVDNMFLGRE-MRNTFGLLSRTMMRRRA 122 GG E F S DA++ G+ + QE + L+ +N+++GR+ + T + M A Sbjct: 95 GGREVRFASAQDAMRGGITAVHQETVMFEELSVAENIWIGRQPLCGTPRRIDWRRMEDEA 154 Query: 123 EAIFRRLGVTIDLSMEVRRLSLAQQQFVEIGKALSLEARILILDEPTATLTPAEAAHLFT 182 A+F RL V + + V+ LS+AQ+ FVEI +ALS +A+++I+DEPTA L+ E L+ Sbjct: 155 RALFARLEVDLPVRARVKDLSVAQRHFVEIARALSQQAQVVIMDEPTAALSHHEIGELYR 214 Query: 183 VMRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIVEIG 223 ++ +L+R G A+IFISH + ++ R V+ G+ + G Sbjct: 215 IIGQLRRAGTAVIFISHKFDEIYAVADRYTVLRDGRFIASG 255 Score = 75.5 bits (184), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 102/235 (43%), Gaps = 35/235 (14%) Query: 11 CKQFGRIKALNGVDLAVAGGEIHALLGENGAGKSTLMKILGGVHRPDQGRIIVGGEERHF 70 K + V AV GEI G GAG+S +M L G+ QG + + G E Sbjct: 295 VKHLSHPSEFDDVSFAVRPGEILGFYGLVGAGRSEVMHALFGLSPEAQGAVWIDGREVKL 354 Query: 71 TSYHDAIKSGVAI---------------IFQEFSLIPYLNAVDNMFLGREMRNTFGLLSR 115 S AI G+A IFQ +L P L + FL R Sbjct: 355 CSPAQAIAHGLAYVPEDRQRQGALLSLPIFQNITL-PVLPGI-GFFLRRH---------- 402 Query: 116 TMMRRRAEAIFRRLGVTIDLS-----MEVRRLSLAQQQFVEIGKALSLEARILILDEPTA 170 RRR I RRL ++L V +LS QQ V + K L+ + R+LILDEPT Sbjct: 403 ---RRREIDIARRLCEQLELKASHFHQHVAQLSGGNQQKVVLAKWLATQPRVLILDEPTK 459 Query: 171 TLTPAEAAHLFTVMRELKRLGVAMIFISHDMAVVERISHRVAVMYLGQIVEIGPR 225 + A + + EL G+A+I +S ++ V +S R+ VM+ G++ ++ R Sbjct: 460 GIDIGSKAAVHRFIGELVAQGLAVILVSSELPEVMGMSDRIVVMHQGRVQQVFSR 514 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 0.325 0.139 0.394 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: 710,818 Number of extensions: 28222 Number of successful extensions: 473 Number of sequences better than 1.0e-08: 129 Number of HSP's gapped: 281 Number of HSP's successfully gapped: 144 Length of query: 255 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 172 Effective length of database: 1,226,865 Effective search space: 211020780 Effective search space used: 211020780 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)