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= 0025.0194.p (309 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 250 1e-67 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 221 6e-59 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 183 2e-47 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 165 3e-42 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 156 2e-39 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 250 bits (638), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 131/290 (45%), Positives = 201/290 (69%), Gaps = 1/290 (0%) Query: 11 LAALIALCIFLSFSNQYFMSWGNWADILRQTSINGILAIGMTFVVLTAGIDLSVGAILAF 70 LA L+ + + + ++ F + NW ++LRQ SI GILA+GM+FV+LT GIDLSVGA +A Sbjct: 33 LAGLVVVSLLMGLASDNFFTLSNWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMAL 92 Query: 71 AGMVSAWLVAGDSTYGLTMSLLVGLGVGALLGAVNGLLVARLSVPPFVASLGMLSAARGL 130 AG +SA L+ +S ++LL G+G+ +G +NG LVA +P + +L + ARG+ Sbjct: 93 AGTISAGLIV-NSGLPAPLALLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGV 151 Query: 131 TYIYNDGMPVSDLPDDFLAIGAGHVWQVPVPILIFVAVIAISWFVLRYTIYGRYIYAVGG 190 IY+ G P+S LP G G + VPVP+++ + V A++W +L+ T +GR++YA+GG Sbjct: 152 GLIYSGGYPISGLPGWISWFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGG 211 Query: 191 NSKSAKTSGISTRKVLFAVYVVSGFLAALAGILLAARTTAALPQAGVSYELDAIAAVVIG 250 N +A+ SG+ T ++ AVY +SGF + LA I+L R + P AGV +ELDAIAAVV+G Sbjct: 212 NEMAARLSGVKTTRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLG 271 Query: 251 GTSLSGGTGSLGGTVVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGAV 300 GT+++GG G + GT++GA+L+G++NNGLNL+G++ Y Q +I+GVII+ A+ Sbjct: 272 GTAIAGGRGLVVGTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAI 321 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 221 bits (563), Expect = 6e-59, Method: Compositional matrix adjust. Identities = 139/285 (48%), Positives = 190/285 (66%), Gaps = 8/285 (2%) Query: 28 FMSWGNWADILRQTSINGILAIGMTFVVLTAGIDLSVGAILAFAGMVSAWLVAGDST-YG 86 F S N +ILRQ +IN +LA GMTFV+LTAGIDLSVG++LA + ++ + G + + Sbjct: 60 FASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGAAPGWA 119 Query: 87 LTMSLLVGLGVGALLGAVNGLLVARLSVPPFVASLGMLSAARGLTYIYNDGMPV--SDLP 144 + M + GL ++G VNG +VA L++ FV +LG ++A RG Y+ DG V +D+P Sbjct: 120 IPMFIFSGL----VMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIP 175 Query: 145 DDFLAIGAGHVWQVPVPILIFVAVIAISWFVLRYTIYGRYIYAVGGNSKSAKTSGISTRK 204 F IG G VP I + VAV+ +SW +LR T+ G +IYA+GGN ++A+ +GI Sbjct: 176 S-FEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGL 234 Query: 205 VLFAVYVVSGFLAALAGILLAARTTAALPQAGVSYELDAIAAVVIGGTSLSGGTGSLGGT 264 VL VY +SG + LAG + A+R A G YELDAIAAVV+GGTSL GG GS+ GT Sbjct: 235 VLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGT 294 Query: 265 VVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGAVLLDVSRKKQ 309 VVGAL+IGV+NNGL +LG+SS++Q V KG +IV AV+LD R+K Sbjct: 295 VVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 183 bits (464), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 124/319 (38%), Positives = 206/319 (64%), Gaps = 21/319 (6%) Query: 6 ARYGILA--ALIALCIFLSFSNQYFMSWGNWADILRQTSINGILAIGMTFVVLTAGIDLS 63 AR +LA +L+ + +F SF++ FM N IL+ T++NG+LAI T+V++T+GIDLS Sbjct: 33 ARQKLLAFASLLLMILFFSFASPNFMEVDNLVSILQSTAVNGVLAIACTYVIITSGIDLS 92 Query: 64 VGAILAFAGMVSAWLVAGDSTYGLTMSLLVGLGV--GALLGAVNGLLVARLSVPPFVASL 121 VG ++ F +++ ++ + +G+ + L + + GAL G ++G+++A+L VPPF+A+L Sbjct: 93 VGTMMTFCAVMAGVVL---TNWGMPLPLGIAAAIFFGALSGWISGMVIAKLKVPPFIATL 149 Query: 122 GMLSAARGLTYI--------YNDGMPVSDLPDDFLAIGAGHVWQVPVP---ILIFVAVIA 170 GM+ +GL+ + +ND S + D L IG + +P+P +++F+ I Sbjct: 150 GMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSL-IG-DLIPSLPIPNAVLILFLVAIG 207 Query: 171 ISWFVLRYTIYGRYIYAVGGNSKSAKTSGISTRKVLFAVYVVSGFLAALAGILLAARTTA 230 S +L T++GRY +A+G N ++ + SG+ AVY SG + +AG+++A+R + Sbjct: 208 AS-IILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTFSGAICGIAGLIIASRLNS 266 Query: 231 ALPQAGVSYELDAIAAVVIGGTSLSGGTGSLGGTVVGALLIGVINNGLNLLGVSSYYQQV 290 A P G YELDAIAAVVIGGTSLSGGTG++ GT++GA ++ V+ NGL ++ V+ +Q V Sbjct: 267 AQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLVNGLRIMSVAQEWQTV 326 Query: 291 IKGVIIVGAVLLDVSRKKQ 309 + GVII+ AV LD+ R+++ Sbjct: 327 VTGVIIILAVYLDILRRRR 345 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 165 bits (418), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 112/295 (37%), Positives = 175/295 (59%), Gaps = 20/295 (6%) Query: 28 FMSWGNWADILRQTSINGILAIGMTFVVLTAGIDLSVGAILAFAGMVSAWLVAGDSTYGL 87 F+S + ++L ++I +LA+ V+LT GIDLSV + LA +GM+SA L + Sbjct: 49 FLSAQSMDNLLTDSAITIMLALAQMLVILTRGIDLSVASNLALSGMMSALLAMHFPALPV 108 Query: 88 TMSLLVGLGVGALLGAVNGLLVARLSVPPFVASLGMLSAARGLTYIYNDGMPVS--DLPD 145 + +L+ + +G +LG +NG L+ L +PP V +LG +S RG+ ++ + G VS ++P Sbjct: 109 GVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRNMPA 168 Query: 146 DFLAI------GAGH-VWQVPVPILIFVAVIAISWFVLRYTIYGRYIYAVGGNSKSAKTS 198 DF+A G H VW L +AV+AI WF+ R+T +GR +YA+G + +A Sbjct: 169 DFIAFPLARLGGLTHLVW------LGALAVVAI-WFLARHTRFGRDLYAIGNDPAAAAYV 221 Query: 199 GISTRKVLFAVYVVSGFLAALAGILLAARTTAALPQAGVSYELDAIAAVVIGGTSLSGGT 258 GI++R L Y +SG +A LAG L AR A + +EL IAA VIGG S++GG Sbjct: 222 GIASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGVSIAGGV 281 Query: 259 GSLGGTVVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGAVLLDVS----RKKQ 309 G + G V+GAL + VINN L ++ +S ++Q + G++I+ AV+L+ R+KQ Sbjct: 282 GQVSGAVLGALFLSVINNALPIMRISPFWQSALTGLVILCAVVLNARGKQGRRKQ 336 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 156 bits (394), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 108/315 (34%), Positives = 175/315 (55%), Gaps = 16/315 (5%) Query: 1 LQQFYARYGILAALIALCIFLSFSNQYFMSWGNWADILRQTSINGILAIGMTFVVLTAGI 60 L F G++AAL+A+C+ +F ++ F+S + + ++++GMTF+++ GI Sbjct: 17 LAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGI 76 Query: 61 DLSVGAILAFAG-MVSAWLVAGDSTYGLTMSLLVGLGVGALLGAVNGLLVARLSVPPFVA 119 DLSVG+++A A M+S +V + L + +G+ V AL G + G++ +P F+ Sbjct: 77 DLSVGSVMALAASMLSMAMVRWG--WPLYAAAPLGVVVAALCGTLTGMVSVHWRIPSFIV 134 Query: 120 SLGMLSAARGLTYIYNDGMPVSDLPDDFLAIGAGHVWQVPV------PILIFVAVIAISW 173 SLG+L ARGL Y V++ +++ A V P+ L +A++ I+ Sbjct: 135 SLGVLEIARGLAY------QVTNSRTEYIG-SAVDVISSPILFGMSPAFLSAIAIVIIAQ 187 Query: 174 FVLRYTIYGRYIYAVGGNSKSAKTSGISTRKVLFAVYVVSGFLAALAGILLAARTTAALP 233 VL T+ GRY +G N ++ + SG++ + + G LA +A + +R AA P Sbjct: 188 LVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADP 247 Query: 234 QAGVSYELDAIAAVVIGGTSLSGGTGSLGGTVVGALLIGVINNGLNLLGVSSYYQQVIKG 293 GV EL IAAVVIGGTSL GG GS+ T +G L+I V+ GL +GVS +++I G Sbjct: 248 NGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKRIITG 307 Query: 294 VIIVGAVLLDVSRKK 308 +IV AV+LD R++ Sbjct: 308 AVIVVAVILDTYRRR 322 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 0.141 0.411 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: 692,459 Number of extensions: 24053 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 21 Length of query: 309 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 224 Effective length of database: 1,217,395 Effective search space: 272696480 Effective search space used: 272696480 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: 130 (54.7 bits)