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= 0017.0030.p (247 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 360 e-101 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 100 1e-22 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 95 4e-21 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 77 1e-15 gi|300310369|ref|YP_003774461.1| sugar ABC transporter permease ... 73 2e-14 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 360 bits (925), Expect = e-101, Method: Compositional matrix adjust. Identities = 180/238 (75%), Positives = 208/238 (87%), Gaps = 1/238 (0%) Query: 9 QTKIMTHPNRTFSVYGLSAVKNYLGLIGALLAMCVLFSFLSENFLTLATFSTLSNDIPTL 68 QT T + Y L+ KNYLGL+ ALLAMCV+F+FLSENFL+ ATF TLSNDIP L Sbjct: 2 QTSSSTPAASRQAAY-LAGFKNYLGLMAALLAMCVMFAFLSENFLSAATFITLSNDIPPL 60 Query: 69 VVMAVGMTFVLIVGGIDLSVGSVMALAASILSMAMVRWGWPLFAAGLLGILVASLCGMLT 128 VVM+VGMTF+LI+GGIDLSVGSVMALAAS+LSMAMVRWGWPL+AA LG++VA+LCG LT Sbjct: 61 VVMSVGMTFILIIGGIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLT 120 Query: 129 GLISVGWRIPSFIVSLGVLEMARGMAYQVTNSRTEYIGSAVDGISSPIFLGLSPAFIASI 188 G++SV WRIPSFIVSLGVLE+ARG+AYQVTNSRTEYIGSAVD ISSPI G+SPAF+++I Sbjct: 121 GMVSVHWRIPSFIVSLGVLEIARGLAYQVTNSRTEYIGSAVDVISSPILFGMSPAFLSAI 180 Query: 189 AVVVIGHLVLTRTVLGRHWIGIGTNEEAVRLAGINPRPSKILVFALMGLLAGVGALFQ 246 A+V+I LVLTRTVLGR+WIGIGTNEEAVRL+G+NP PSKIL FALMG LAG+ ALFQ Sbjct: 181 AIVIIAQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQ 238 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 70/251 (27%), Positives = 124/251 (49%), Gaps = 13/251 (5%) Query: 3 TTTQAKQTKIMTHPNRTFSVYGLSAVKNYLGLIGALLAMCVLFSFLSENFLTLATFSTLS 62 +TT A R F+ A + L +LL M + FSF S NF+ + ++ Sbjct: 12 STTMANTASAQGLRARLFN----PAARQKLLAFASLLLMILFFSFASPNFMEVDNLVSIL 67 Query: 63 NDIPTLVVMAVGMTFVLIVGGIDLSVGSVMALAASILSMAMVRWGWPLFAAGLLGILVAS 122 V+A+ T+V+I GIDLSVG++M A + + + WG PL I + Sbjct: 68 QSTAVNGVLAIACTYVIITSGIDLSVGTMMTFCAVMAGVVLTNWGMPLPLGIAAAIFFGA 127 Query: 123 LCGMLTGLISVGWRIPSFIVSLGVLEMARGMAYQVTNSRTEYIGSA--VDGISSPIFLG- 179 L G ++G++ ++P FI +LG++ + +G++ ++ +R Y I+ +G Sbjct: 128 LSGWISGMVIAKLKVPPFIATLGMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSLIGD 187 Query: 180 LSPAFIASIAVVVI------GHLVLTRTVLGRHWIGIGTNEEAVRLAGINPRPSKILVFA 233 L P+ AV+++ ++L +TV GR+ +G+NEEA+RL+G+ K+ V+ Sbjct: 188 LIPSLPIPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYT 247 Query: 234 LMGLLAGVGAL 244 G + G+ L Sbjct: 248 FSGAICGIAGL 258 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 95.1 bits (235), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 72/214 (33%), Positives = 117/214 (54%), Gaps = 13/214 (6%) Query: 38 LLAMCVLFSFLSENFLTLATFSTLSNDIPTLVVMAVGMTFVLIVGGIDLSVGSVMALAAS 97 L+ + +L S+NF TL+ + + + + ++AVGM+FV++ GGIDLSVG+ MALA + Sbjct: 36 LVVVSLLMGLASDNFFTLSNWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGT 95 Query: 98 ILSMAMVRWGWPLFAAGLLGILVASLCGMLTGLISVGWRIPSFIVSLGVLEMARGMAYQV 157 I + +V G P A L G+ +A+ G+L G + R+P+ IV+L + +ARG+ Sbjct: 96 ISAGLIVNSGLPAPLALLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIY 155 Query: 158 TNSRTEYIGSAVDGISSPI------FLGLSP-AFIASIAVVVIGHLVLTRTVLGRHWIGI 210 + G + G+ I +G+ P I + V + L+L RT GRH I Sbjct: 156 SG------GYPISGLPGWISWFGVGRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAI 209 Query: 211 GTNEEAVRLAGINPRPSKILVFALMGLLAGVGAL 244 G NE A RL+G+ K+ V+A+ G +G+ A+ Sbjct: 210 GGNEMAARLSGVKTTRIKLAVYAISGFTSGLAAI 243 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 77.0 bits (188), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 64/200 (32%), Positives = 104/200 (52%), Gaps = 14/200 (7%) Query: 49 SENFLTLATFSTLSNDIPTLVVMAVGMTFVLIVGGIDLSVGSVMALAASILSM-----AM 103 + NF + + + +V+A GMTFV++ GIDLSVGSV+A++A +L M A Sbjct: 57 TSNFASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSA-VLGMQVSLGAA 115 Query: 104 VRWGWPLFAAGLLGILVASLCGMLTGLISVGWRIPSFIVSLGVLEMARGMAYQVTNSRTE 163 W P+F I + GM+ G + I +F+V+LG + RG AY + + T Sbjct: 116 PGWAIPMF------IFSGLVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTV 169 Query: 164 YIGS--AVDGISSPIFLGLSPAFIASIAVVVIGHLVLTRTVLGRHWIGIGTNEEAVRLAG 221 + + I + FL + ++AVV++ ++L +TVLG H IG N +A RL G Sbjct: 170 LNNDIPSFEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTG 229 Query: 222 INPRPSKILVFALMGLLAGV 241 I + V+++ GL +G+ Sbjct: 230 IRVGLVLLFVYSISGLFSGL 249 >gi|300310369|ref|YP_003774461.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 340 Score = 72.8 bits (177), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/213 (32%), Positives = 105/213 (49%), Gaps = 27/213 (12%) Query: 50 ENFLTLATFSTLSNDIPTLVVMAVGMTFVLIVGGIDLSVGSVMALAASILSMAMVRWGW- 108 + FL+ L D L+V+A+GMTFV++ GGIDLSVGSV+AL + + + W W Sbjct: 37 DGFLSPQVMLNLLIDNAFLLVVAIGMTFVILSGGIDLSVGSVLALTTMVAAFLLQNWHWH 96 Query: 109 PLFAAGLLGILVASLCGMLTGLISVGW-RIPSFIVSLGVLEMARGMAYQVT-NSRTEYIG 166 PL ++ +L+ + + ++ +FIV+L + +ARG+ Y ++ NS T Sbjct: 97 PLLV--IVTVLLMGAGFGAAMGAMIHYFKLQAFIVTLAGMFLARGLCYLISINSIT---- 150 Query: 167 SAVDGISSPIFLGLSPA-------FIASIAVVVIGHLVLT-----RTVLGRHWIGIGTNE 214 I P+F LS FI+ V+ + L L T GR IG NE Sbjct: 151 -----IDDPLFTTLSQTRLELAGLFISPSVVIALFMLALAIWMAHCTRFGRAVYAIGGNE 205 Query: 215 EAVRLAGINPRPSKILVFALMGLLAGV-GALFQ 246 + L G+ +K+LV+A GL A V G LF Sbjct: 206 NSALLMGLPVGRTKVLVYAFSGLCAAVAGVLFS 238 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 0.326 0.139 0.409 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: 634,237 Number of extensions: 24533 Number of successful extensions: 216 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 13 Length of query: 247 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 164 Effective length of database: 1,226,865 Effective search space: 201205860 Effective search space used: 201205860 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 (21.7 bits) S2: 129 (54.3 bits)