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= 0030.0182.p (374 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311740|ref|YP_003775832.1| sugar ABC transporter permease ... 729 0.0 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 115 5e-27 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 110 2e-25 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 106 3e-24 gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease ... 97 2e-21 >gi|300311740|ref|YP_003775832.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 379 Score = 729 bits (1883), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/374 (99%), Positives = 373/374 (99%) Query: 1 MVAQSSLPGPHADSDERMRRENLVSRLLGRPEFASLAGVILVFLVFGLTAGDSGMFNLDG 60 MVAQSSLPGPHADSDERMRRENLVSRLLGRPEFASLAGVILVFLVFGLTAGDSGMFNLDG Sbjct: 6 MVAQSSLPGPHADSDERMRRENLVSRLLGRPEFASLAGVILVFLVFGLTAGDSGMFNLDG 65 Query: 61 VVNWMQVAAYLGIIAVAACLLMIGGEFDLSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFA 120 VVNWMQVAAYLGIIAVAACLLMIGGEFDLSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFA Sbjct: 66 VVNWMQVAAYLGIIAVAACLLMIGGEFDLSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFA 125 Query: 121 FATSMGLGWLNGYLVMKTRLPSFIVTLAFLFILRGLTLALSILFANRTIVSGVGERAAHD 180 FA SMGLGWLNGYLVMKTRLPSFIVTLAFLFILRGLTLALSILFANRTIVSGVGERAAHD Sbjct: 126 FAASMGLGWLNGYLVMKTRLPSFIVTLAFLFILRGLTLALSILFANRTIVSGVGERAAHD 185 Query: 181 WLGQLLFSGNVGAGLFSWLARHGWIATVADGTPLVTGIPKVILWWAVVALAASFVLARTR 240 WLGQLLFSGNVGAGLFSWLARHGWIATVADGTPLVTGIPKVILWWAVVALAASFVLARTR Sbjct: 186 WLGQLLFSGNVGAGLFSWLARHGWIATVADGTPLVTGIPKVILWWAVVALAASFVLARTR 245 Query: 241 LGNWIFAVGGDAVAAKNMGVPVRKVKIGLFVFTAFCACLFAVLQVGDFGSAAADRGLQKE 300 LGNWIFAVGGDAVAAKNMGVPVRKVKIGLFVFTAFCACLFAVLQVGDFGSAAADRGLQKE Sbjct: 246 LGNWIFAVGGDAVAAKNMGVPVRKVKIGLFVFTAFCACLFAVLQVGDFGSAAADRGLQKE 305 Query: 301 FEAIIAAVIGGALLTGGYGSVIGACFGALIFGVVQIGITYTNLSSDWFRVFLGVMLLVAV 360 FEAIIAAVIGGALLTGGYGSVIGACFGALIFGVVQIGITYTNLSSDWFRVFLGVMLLVAV Sbjct: 306 FEAIIAAVIGGALLTGGYGSVIGACFGALIFGVVQIGITYTNLSSDWFRVFLGVMLLVAV 365 Query: 361 LFNNFVRRRITEAK 374 LFNNFVRRRITEAK Sbjct: 366 LFNNFVRRRITEAK 379 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 115 bits (289), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 103/356 (28%), Positives = 176/356 (49%), Gaps = 40/356 (11%) Query: 5 SSLPGPHADSDERMRRENLVSRLLGRPEFASLAGVILVFLVFGLTAGDSGMFNLDGVVNW 64 ++LP + R +L+ L P LAG+++V L+ GL + + F L N Sbjct: 6 NALPAASLHTAASARWRSLIHSPLALP----LAGLVVVSLLMGLASDN--FFTLSNWFNV 59 Query: 65 MQVAAYLGIIAVAACLLMIGGEFDLSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFAFATS 124 ++ + +GI+AV +++ G DLS+G+ + LAG + A V G P LA+L + Sbjct: 60 LRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLA 119 Query: 125 MGLGWLNGYLVMKTRLPSFIVTLAFLFILRGLTLALSILFANRTIVSGVGERAAHDWLGQ 184 +G LNG LV R+P+ IVTLA + + RG+ L +++ +SG+ Sbjct: 120 TCIGLLNGALVAWGRMPAIIVTLATMGVARGVGL----IYSGGYPISGL----------- 164 Query: 185 LLFSGNVGAGLFSWLARHGWIATVADGTPLVTGIPKVILWWAVVALAASFVLARTRLGNW 244 GWI+ G + +P VIL V ALA +L RT G Sbjct: 165 -----------------PGWISWFGVGRIGMVPVP-VILMLIVYALA-WLLLQRTAFGRH 205 Query: 245 IFAVGGDAVAAKNMGVPVRKVKIGLFVFTAFCACLFAVLQVGDFGSAAADRGLQKEFEAI 304 ++A+GG+ +AA+ GV ++K+ ++ + F + L A++ G S + G+ E +AI Sbjct: 206 VYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAI 265 Query: 305 IAAVIGGALLTGGYGSVIGACFGALIFGVVQIGITYTNLSSDWFRVFLGVMLLVAV 360 A V+GG + GG G V+G GA++ G++ G+ ++ + GV++L+A+ Sbjct: 266 AAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAI 321 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 110 bits (275), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 95/341 (27%), Positives = 166/341 (48%), Gaps = 28/341 (8%) Query: 29 GRPEFASLAGVILVFLVFGLTAGDSGMFNLDGVVNWMQVAAYLGIIAVAACLLMIGGEFD 88 R + + A ++L+ L F + + +D +V+ +Q A G++A+A ++I D Sbjct: 33 ARQKLLAFASLLLMILFFSFASPN--FMEVDNLVSILQSTAVNGVLAIACTYVIITSGID 90 Query: 89 LSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFAFATSMGLGWLNGYLVMKTRLPSFIVTLA 148 LS+G+M+ +M + +G P L + A GW++G ++ K ++P FI TL Sbjct: 91 LSVGTMMTFCAVMAGVVLTNWGMPLPLGIAAAIFFGALSGWISGMVIAKLKVPPFIATLG 150 Query: 149 FLFILRGLTLALSILFANRTIVSGVGERAAHDWLGQLLFSGNVGAGLFSWLARHGWIATV 208 + +L+GL+L +S G R + F+ G FS +A+ I + Sbjct: 151 MMMLLKGLSLVIS------------GTRPIY-------FNDTEG---FSAIAQDSLIGDL 188 Query: 209 ADGTPLVTGIPKVILWWAVVALAASFVLARTRLGNWIFAVGGDAVAAKNMGVPVRKVKIG 268 P IP +L +VA+ AS +L +T G + FA+G + A + GV V K+ Sbjct: 189 IPSLP----IPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVA 244 Query: 269 LFVFTAFCACLFAVLQVGDFGSAAADRGLQKEFEAIIAAVIGGALLTGGYGSVIGACFGA 328 ++ F+ + ++ SA G E +AI A VIGG L+GG G+++G GA Sbjct: 245 VYTFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGA 304 Query: 329 LIFGVVQIGITYTNLSSDWFRVFLGVMLLVAVLFNNFVRRR 369 I V+ G+ +++ +W V GV++++AV + RRR Sbjct: 305 FIMSVLVNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRR 345 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 106 bits (265), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 83/304 (27%), Positives = 136/304 (44%), Gaps = 39/304 (12%) Query: 73 IIAVAACLLMIGGEFDLSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFAFATSMGLGWLNG 132 +++V ++I G DLS+GS++ LA M+++ V +GWP + A + G L G Sbjct: 62 VMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLTG 121 Query: 133 YLVMKTRLPSFIVTLAFLFILRGLTLALSILFANRTIVSGVGERAAHDWLGQLLFSGNVG 192 + + R+PSFIV+L L I RGL ++ Sbjct: 122 MVSVHWRIPSFIVSLGVLEIARGLAYQVTN------------------------------ 151 Query: 193 AGLFSWLARHGWIATVAD--GTPLVTGIPKVILWWAVVALAASFVLARTRLGNWIFAVGG 250 +R +I + D +P++ G+ L + + A VL RT LG + +G Sbjct: 152 -------SRTEYIGSAVDVISSPILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGT 204 Query: 251 DAVAAKNMGVPVRKVKIGLFVFTAFCACLFAVLQVGDFGSAAADRGLQKEFEAIIAAVIG 310 + A + GV KI F A + A+ QV +A + G+ E + I A VIG Sbjct: 205 NEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIG 264 Query: 311 GALLTGGYGSVIGACFGALIFGVVQIGITYTNLSSDWFRVFLGVMLLVAVLFNNFVRRRI 370 G L GG GS++ G LI V++ G+ +S R+ G +++VAV+ + + RR Sbjct: 265 GTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRRRGQ 324 Query: 371 TEAK 374 A+ Sbjct: 325 RHAR 328 >gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 405 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 98/373 (26%), Positives = 172/373 (46%), Gaps = 36/373 (9%) Query: 32 EFASLAGVILVFLVFGLTAGDSGMFNLDGVVNWMQVAAYLGIIAVAACLLMIGGEFDLSI 91 E+ L ++ + F + + M L+ + N + +Y+ I+A+ ++++ G DLS+ Sbjct: 34 EYGMLMSLVAIMAFFQIMTDGTLMRPLN-LTNLVLQNSYIVIMALGMLMVIVAGHIDLSV 92 Query: 92 GSMIGLAGMMVAIPTVYFGWPFWLAVLFAFATSMGLGWLNGYLVMKTRLPSFIVTLAFLF 151 GS++GL G + A+ V +GW F A + +G GY + ++PSFIVTLA + Sbjct: 93 GSVVGLIGALAAVLMVDYGWGFVPASIVCLIAGGLIGAAQGYWIAYFKIPSFIVTLAGML 152 Query: 152 ILRGLTLAL--------------------------SILFANRTIVSGVGERAA------H 179 + +G+ LAL + F +++ GV H Sbjct: 153 VFKGMALALLQGQSLGPFPQTFQMLSSGFIPELTGNTTFRTTSLIVGVIAAVVLILVKLH 212 Query: 180 DWLGQLLFSGNVGAGLFSWLARHGWIATVADGTPLVT---GIPKVILWWAVVALAASFVL 236 Q LF L + A + + L++ G+P V++ + + +F+ Sbjct: 213 GRRKQTKHGMEDEPVLFFLLKNGVFAAAIIAFSYLLSTYRGMPNVLIIMFALMVLYTFIT 272 Query: 237 ARTRLGNWIFAVGGDAVAAKNMGVPVRKVKIGLFVFTAFCACLFAVLQVGDFGSAAADRG 296 +RT LG ++AVGG+ AAK G+ +V FV A L ++ +A G Sbjct: 273 SRTTLGRRVYAVGGNEKAAKLSGIKTERVSFFTFVNMGVLAALAGLIFAARLNTATPKAG 332 Query: 297 LQKEFEAIIAAVIGGALLTGGYGSVIGACFGALIFGVVQIGITYTNLSSDWFRVFLGVML 356 L E + I A IGGA +GG G V+GA GA + GV+ G++ + D+ ++ G +L Sbjct: 333 LGFELDVIAACFIGGASASGGVGKVMGAVIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVL 392 Query: 357 LVAVLFNNFVRRR 369 L+AV F+ + + + Sbjct: 393 LMAVCFDVYNKNK 405 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 0.330 0.143 0.450 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: 1,127,348 Number of extensions: 46768 Number of successful extensions: 324 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 309 Number of HSP's successfully gapped: 17 Length of query: 374 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 287 Effective length of database: 1,207,925 Effective search space: 346674475 Effective search space used: 346674475 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 131 (55.1 bits)