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= 0001.0897.p (328 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... 254 7e-69 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 232 4e-62 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 189 2e-49 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 154 8e-39 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 149 4e-37 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 254 bits (649), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 134/296 (45%), Positives = 204/296 (68%) Query: 31 LAALIVLCLALSLATPYFMTLENWTDILRQTSINGILAIGMTYVVLTGGIDLSVGALLAF 90 LA L+V+ L + LA+ F TL NW ++LRQ SI GILA+GM++V+LTGGIDLSVGA +A Sbjct: 33 LAGLVVVSLLMGLASDNFFTLSNWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMAL 92 Query: 91 SGMVAAWLATGGGYSPAVAVLAGLGAGAGLGAISGLLVARLAVPSFVATLGMLSAARGAT 150 +G ++A L G +A+L G+G +G ++G LVA +P+ + TL + ARG Sbjct: 93 AGTISAGLIVNSGLPAPLALLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVG 152 Query: 151 YIYNDGMPVSDLPSGLLAIGSAQILHVPVPIVIFGVVIALSWFVLRFTVYGRYIYAVGGN 210 IY+ G P+S LP + G +I VPVP+++ +V AL+W +L+ T +GR++YA+GGN Sbjct: 153 LIYSGGYPISGLPGWISWFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGN 212 Query: 211 AKSAKTSGIDPRKVFFAVYVVSGLLAGLAGVLLAARTTAALPQAGVSYELDAIAAVVIGG 270 +A+ SG+ ++ AVY +SG +GLA ++L R + P AGV +ELDAIAAVV+GG Sbjct: 213 EMAARLSGVKTTRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGG 272 Query: 271 TSLSGGTGTLGGTVVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGAVLLDSSRK 326 T+++GG G + GT++GA+L+G++NNGLNL+G++ Y Q +I+GVII+ A+ + + Sbjct: 273 TAIAGGRGLVVGTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAIYIAREWR 328 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 232 bits (591), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 140/286 (48%), Positives = 194/286 (67%), Gaps = 5/286 (1%) Query: 45 TPYFMTLENWTDILRQTSINGILAIGMTYVVLTGGIDLSVGALLAFSGMVAAWLATGGGY 104 T F + EN +ILRQ +IN +LA GMT+V+LT GIDLSVG++LA S ++ ++ G Sbjct: 57 TSNFASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGA-- 114 Query: 105 SPAVAVLAGLGAGAGLGAISGLLVARLAVPSFVATLGMLSAARGATYIYNDGMPV--SDL 162 +P A+ + +G +G ++G +VA L + +FV TLG ++A RGA Y+ DG V +D+ Sbjct: 115 APGWAIPMFIFSGLVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDI 174 Query: 163 PSGLLAIGSAQILHVPVPIVIFGVVIALSWFVLRFTVYGRYIYAVGGNAKSAKTSGIDPR 222 PS IG+ LHVP I + V+ LSW +LR TV G +IYA+GGN ++A+ +GI Sbjct: 175 PS-FEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVG 233 Query: 223 KVFFAVYVVSGLLAGLAGVLLAARTTAALPQAGVSYELDAIAAVVIGGTSLSGGTGTLGG 282 V VY +SGL +GLAG + A+R A G YELDAIAAVV+GGTSL GG G++ G Sbjct: 234 LVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWG 293 Query: 283 TVVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGAVLLDSSRKKN 328 TVVGAL+IGV+NNGL +LG+SS++Q V KG +IV AV+LD R+K+ Sbjct: 294 TVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 189 bits (481), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 130/326 (39%), Positives = 202/326 (61%), Gaps = 16/326 (4%) Query: 12 RLASPSLISLRQATARYGVLAALIVLCLALSLATPYFMTLENWTDILRQTSINGILAIGM 71 RL +P+ A + A+L+++ L S A+P FM ++N IL+ T++NG+LAI Sbjct: 27 RLFNPA------ARQKLLAFASLLLMILFFSFASPNFMEVDNLVSILQSTAVNGVLAIAC 80 Query: 72 TYVVLTGGIDLSVGALLAFSGMVAAWLATGGGYSPAVAVLAGLGAGAGLGAISGLLVARL 131 TYV++T GIDLSVG ++ F ++A + T G + + A + GA G ISG+++A+L Sbjct: 81 TYVIITSGIDLSVGTMMTFCAVMAGVVLTNWGMPLPLGIAAAIFFGALSGWISGMVIAKL 140 Query: 132 AVPSFVATLGMLSAARGATYIYNDGMPVS-DLPSGLLAIGSAQIL-----HVPVP---IV 182 VP F+ATLGM+ +G + + + P+ + G AI ++ +P+P ++ Sbjct: 141 KVPPFIATLGMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSLIGDLIPSLPIPNAVLI 200 Query: 183 IFGVVIALSWFVLRFTVYGRYIYAVGGNAKSAKTSGIDPRKVFFAVYVVSGLLAGLAGVL 242 +F V I S +L TV+GRY +A+G N ++ + SG+ AVY SG + G+AG++ Sbjct: 201 LFLVAIGAS-IILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTFSGAICGIAGLI 259 Query: 243 LAARTTAALPQAGVSYELDAIAAVVIGGTSLSGGTGTLGGTVVGALLIGVINNGLNLLGV 302 +A+R +A P G YELDAIAAVVIGGTSLSGGTGT+ GT++GA ++ V+ NGL ++ V Sbjct: 260 IASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLVNGLRIMSV 319 Query: 303 SSYYQQVIKGVIIVGAVLLDSSRKKN 328 + +Q V+ GVII+ AV LD R++ Sbjct: 320 AQEWQTVVTGVIIILAVYLDILRRRR 345 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 154 bits (389), Expect = 8e-39, Method: Compositional matrix adjust. Identities = 103/288 (35%), Positives = 167/288 (57%), Gaps = 9/288 (3%) Query: 46 PYFMTLENWTDILRQTSINGILAIGMTYVVLTGGIDLSVGALLAFSGMVAAWLATGGGYS 105 P F++ ++ ++L ++I +LA+ V+LT GIDLSV + LA SGM++A LA + Sbjct: 47 PVFLSAQSMDNLLTDSAITIMLALAQMLVILTRGIDLSVASNLALSGMMSALLAM---HF 103 Query: 106 PA----VAVLAGLGAGAGLGAISGLLVARLAVPSFVATLGMLSAARGATYIYNDGMPVS- 160 PA V +L + G LG ++G L+ L +P V TLG +S RG ++ + G VS Sbjct: 104 PALPVGVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSS 163 Query: 161 -DLPSGLLAIGSAQILHVPVPIVIFGVVIALSWFVLRFTVYGRYIYAVGGNAKSAKTSGI 219 ++P+ +A A++ + + + + + WF+ R T +GR +YA+G + +A GI Sbjct: 164 RNMPADFIAFPLARLGGLTHLVWLGALAVVAIWFLARHTRFGRDLYAIGNDPAAAAYVGI 223 Query: 220 DPRKVFFAVYVVSGLLAGLAGVLLAARTTAALPQAGVSYELDAIAAVVIGGTSLSGGTGT 279 R Y +SG +AGLAG L AR A + +EL IAA VIGG S++GG G Sbjct: 224 ASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGVSIAGGVGQ 283 Query: 280 LGGTVVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGAVLLDSSRKK 327 + G V+GAL + VINN L ++ +S ++Q + G++I+ AV+L++ K+ Sbjct: 284 VSGAVLGALFLSVINNALPIMRISPFWQSALTGLVILCAVVLNARGKQ 331 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 149 bits (375), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 100/309 (32%), Positives = 170/309 (55%), Gaps = 21/309 (6%) Query: 29 GVLAALIVLCLALSLATPYFMTLENWTDILRQTSINGILAIGMTYVVLTGGIDLSVGALL 88 G++AAL+ +C+ + + F++ + + ++++GMT++++ GGIDLSVG+++ Sbjct: 25 GLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGIDLSVGSVM 84 Query: 89 AFSGMVAAWLATGGGYSPAVAVLAGLGAGAGLGAISGLLVARLAVPSFVATLGMLSAARG 148 A + + + G+ A G+ A G ++G++ +PSF+ +LG+L ARG Sbjct: 85 ALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLTGMVSVHWRIPSFIVSLGVLEIARG 144 Query: 149 ATYIYNDGMPVSDLPSGLLAIGSA-QILHVPVPIVIFGV---------VIALSWFVLRFT 198 Y + S IGSA ++ P+ +FG+ ++ ++ VL T Sbjct: 145 LAYQVTN--------SRTEYIGSAVDVISSPI---LFGMSPAFLSAIAIVIIAQLVLTRT 193 Query: 199 VYGRYIYAVGGNAKSAKTSGIDPRKVFFAVYVVSGLLAGLAGVLLAARTTAALPQAGVSY 258 V GRY +G N ++ + SG++P + + G LAG+A + +R AA P GV Sbjct: 194 VLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGM 253 Query: 259 ELDAIAAVVIGGTSLSGGTGTLGGTVVGALLIGVINNGLNLLGVSSYYQQVIKGVIIVGA 318 EL IAAVVIGGTSL GG G++ T +G L+I V+ GL +GVS +++I G +IV A Sbjct: 254 ELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVA 313 Query: 319 VLLDSSRKK 327 V+LD+ R++ Sbjct: 314 VILDTYRRR 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 0.322 0.138 0.392 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: 647,382 Number of extensions: 19233 Number of successful extensions: 165 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 155 Number of HSP's successfully gapped: 21 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 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)