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= 0007.0187.p (235 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... 270 7e-74 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 164 7e-42 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 147 5e-37 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 135 2e-33 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 130 7e-32 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 270 bits (690), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 136/220 (61%), Positives = 177/220 (80%) Query: 10 PPALAIPIGFAVGIAIGLMNGFCIAYAGMPPIIVTLATMGIARGIALVATGGYPIDGLPD 69 P LA+ G + IGL+NG +A+ MP IIVTLATMG+ARG+ L+ +GGYPI GLP Sbjct: 107 PAPLALLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPG 166 Query: 70 WFEFFGRGDVFGLQAPILIMLLVFAAMYVVLDHTPFGRYVYALGGNEEAARLSGVRVARY 129 W +FG G + + P+++ML+V+A +++L T FGR+VYA+GGNE AARLSGV+ R Sbjct: 167 WISWFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRI 226 Query: 130 KLLVYAISGLCASIAGLVLTSRLMSGQPNAGVSFELDAIAAVVIGGTSISGGRGSVIGTL 189 KL VYAISG + +A ++LT RLMSGQPNAGV FELDAIAAVV+GGT+I+GGRG V+GTL Sbjct: 227 KLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTL 286 Query: 190 IGAMLLGVLNNGLNMIGVSPYVQNIIKGVIILLAIYISRE 229 IGA+LLG+LNNGLN++G++PY+Q+II+GVIILLAIYI+RE Sbjct: 287 IGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAIYIARE 326 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 164 bits (415), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 96/227 (42%), Positives = 143/227 (62%), Gaps = 7/227 (3%) Query: 10 PPALAIPIGFAVGIAIGLMNGFCIAYAGMPPIIVTLATMGIARGIALVATGGYPI--DGL 67 P AIP+ G+ +G++NG +A + +VTL TM RG A + G + + + Sbjct: 115 APGWAIPMFIFSGLVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDI 174 Query: 68 PDWFEFFGRGDVFGLQAPILIMLLVFAAM--YVVLDHTPFGRYVYALGGNEEAARLSGVR 125 P FE+ G GD L P LI + V + +V+L T G ++YA+GGN +AARL+G+R Sbjct: 175 PS-FEWIGNGDF--LHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIR 231 Query: 126 VARYKLLVYAISGLCASIAGLVLTSRLMSGQPNAGVSFELDAIAAVVIGGTSISGGRGSV 185 V L VY+ISGL + +AG + SRL N G +ELDAIAAVV+GGTS+ GG GS+ Sbjct: 232 VGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSI 291 Query: 186 IGTLIGAMLLGVLNNGLNMIGVSPYVQNIIKGVIILLAIYISRERSK 232 GT++GA+++GV+NNGL ++G+S + Q + KG +I+LA+ + + R K Sbjct: 292 WGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQK 338 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 147 bits (372), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 101/231 (43%), Positives = 143/231 (61%), Gaps = 12/231 (5%) Query: 15 IPIGFAVGIAIGLMNGF----CIAYAGMPPIIVTLATMGIARGIALVATGGYPID-GLPD 69 +P+G A I G ++G+ IA +PP I TL M + +G++LV +G PI + Sbjct: 115 LPLGIAAAIFFGALSGWISGMVIAKLKVPPFIATLGMMMLLKGLSLVISGTRPIYFNDTE 174 Query: 70 WFEFFGRGDVFGLQAP-------ILIMLLVFAAMYVVLDHTPFGRYVYALGGNEEAARLS 122 F + + G P +LI+ LV ++L+ T FGRY +ALG NEEA RLS Sbjct: 175 GFSAIAQDSLIGDLIPSLPIPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLS 234 Query: 123 GVRVARYKLLVYAISGLCASIAGLVLTSRLMSGQPNAGVSFELDAIAAVVIGGTSISGGR 182 GV+V +K+ VY SG IAGL++ SRL S QP G +ELDAIAAVVIGGTS+SGG Sbjct: 235 GVKVDFWKVAVYTFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGT 294 Query: 183 GSVIGTLIGAMLLGVLNNGLNMIGVSPYVQNIIKGVIILLAIYISRERSKR 233 G+++GT+IGA ++ VL NGL ++ V+ Q ++ GVII+LA+Y+ R +R Sbjct: 295 GTILGTIIGAFIMSVLVNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRR 345 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 135 bits (341), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 88/230 (38%), Positives = 123/230 (53%), Gaps = 3/230 (1%) Query: 6 RPXWPPALAIPIGFAVGIAIGLMNGFCIAYAGMPPIIVTLATMGIARGIALVATGGYPID 65 R WP A P+G V G + G + +P IV+L + IARG+A T + Sbjct: 97 RWGWPLYAAAPLGVVVAALCGTLTGMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRT-E 155 Query: 66 GLPDWFEFFGRGDVFGLQAPILIMLLVFAAMYVVLDHTPFGRYVYALGGNEEAARLSGVR 125 + + +FG+ L + + +VL T GRY +G NEEA RLSGV Sbjct: 156 YIGSAVDVISSPILFGMSPAFLSAIAIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVN 215 Query: 126 VARYKLLVYAISGLCASIAGLVLTSRLMSGQPNAGVSFELDAIAAVVIGGTSISGGRGSV 185 K+L +A+ G A IA L SRL + PN GV EL IAAVVIGGTS+ GGRGS+ Sbjct: 216 PNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGMELQVIAAVVIGGTSLMGGRGSI 275 Query: 186 IGTLIGAMLLGVLNNGLNMIGVSPYVQNIIKGVIILLAIYIS--RERSKR 233 + T IG +++ VL GL +GVS ++ II G +I++A+ + R R +R Sbjct: 276 VSTFIGVLIISVLEAGLAQVGVSEPMKRIITGAVIVVAVILDTYRRRGQR 325 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 130 bits (328), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 79/220 (35%), Positives = 125/220 (56%), Gaps = 1/220 (0%) Query: 10 PPALAIPIGFAVGIAIGLMNGFCIAYAGMPPIIVTLATMGIARGIALVATGGYPIDGLPD 69 PP + + A G A GL+NG + G+P I+VT+ +M + RG+A V G P+ Sbjct: 113 PPLGLLLVAIATGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVLGDQAFTQYPE 172 Query: 70 WFEFFGRGDVFG-LQAPILIMLLVFAAMYVVLDHTPFGRYVYALGGNEEAARLSGVRVAR 128 +G+G F L P ++ LL V+L T +GR +YA+G N AAR SGV V R Sbjct: 173 VLGDWGQGYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNNPVAARFSGVAVDR 232 Query: 129 YKLLVYAISGLCASIAGLVLTSRLMSGQPNAGVSFELDAIAAVVIGGTSISGGRGSVIGT 188 Y+L ++ ++G A +A LT R+ S +PN + +EL+ I V++GG SI+GG GS+ G Sbjct: 233 YRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEIITVVILGGVSIAGGTGSIGGV 292 Query: 189 LIGAMLLGVLNNGLNMIGVSPYVQNIIKGVIILLAIYISR 228 ++ +++G+L GL + + + I+ G ++L I I R Sbjct: 293 MLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPR 332 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 0.327 0.146 0.440 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: 660,168 Number of extensions: 28117 Number of successful extensions: 211 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 212 Number of HSP's successfully gapped: 19 Length of query: 235 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 153 Effective length of database: 1,231,600 Effective search space: 188434800 Effective search space used: 188434800 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 (21.6 bits) S2: 129 (54.3 bits)