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= 0001.3917.p (268 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313316|ref|YP_003777408.1| lipoprotein [Herbaspirillum ser... 461 e-131 gi|300310091|ref|YP_003774183.1| outer membrane protein and rela... 454 e-129 gi|300312990|ref|YP_003777082.1| signal peptide protein [Herbasp... 86 2e-18 gi|300313671|ref|YP_003777763.1| OmpA family protein [Herbaspiri... 83 2e-17 >gi|300313316|ref|YP_003777408.1| lipoprotein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 461 bits (1186), Expect = e-131, Method: Compositional matrix adjust. Identities = 230/268 (85%), Positives = 248/268 (92%), Gaps = 1/268 (0%) Query: 1 LNMNILSSPSRLTLLAAALLACTVSQAQNVAPPVATPAPGQVLVTGTVPDEASKAAALAR 60 + NILS RL L +A L+CT S AQN+APPVATPAPGQVLVTGTVPDEASKAAAL R Sbjct: 1 MKTNILSLFYRLAL-SAVCLSCTTSDAQNLAPPVATPAPGQVLVTGTVPDEASKAAALTR 59 Query: 61 LREIYGTDRVVDQIAVGQVVLPANWNNHVQKLISPNLKAVSRGQLKIDGTSVSITGEVAN 120 LRE+YG DRVVDQI+VG VVLPANWNNHVQKLISPNLKAV +GQLKIDGT+VSI+GEV++ Sbjct: 60 LRELYGHDRVVDQISVGPVVLPANWNNHVQKLISPNLKAVRQGQLKIDGTNVSISGEVSH 119 Query: 121 EAQRQQIASDMAASLNSSYTVNNGLRVSTSEQGLLDNALANRVVSFESGQATLTPEGKRI 180 EAQRQQIASDMA SLNSSY +NNGLRVSTSEQG+LDN LANRVVSFESG+ATLTPEGKRI Sbjct: 120 EAQRQQIASDMATSLNSSYIINNGLRVSTSEQGVLDNTLANRVVSFESGRATLTPEGKRI 179 Query: 181 LDEIAATMLKLKGRHVEIIGNTDNEGLRASNISLSLARADAVKAYLSAKGVDESLLTTSG 240 LDEIAATML+LKGR VEIIGNTDNEGLRASNISLSLARADAVKAYLS KGVD+SLLTTSG Sbjct: 180 LDEIAATMLQLKGRRVEIIGNTDNEGLRASNISLSLARADAVKAYLSTKGVDDSLLTTSG 239 Query: 241 QGPDRPVASNATAEGRAKNRRIEFRIAK 268 QGPDRPVASNAT+EGRA+NRRIEFRIAK Sbjct: 240 QGPDRPVASNATSEGRARNRRIEFRIAK 267 >gi|300310091|ref|YP_003774183.1| outer membrane protein and related peptidoglycan-associated (lipo)proteins [Herbaspirillum seropedicae SmR1] Length = 271 Score = 454 bits (1168), Expect = e-129, Method: Compositional matrix adjust. Identities = 241/271 (88%), Positives = 250/271 (92%), Gaps = 3/271 (1%) Query: 1 LNMNILSSPSRLTLLAAALLACT---VSQAQNVAPPVATPAPGQVLVTGTVPDEASKAAA 57 ++ + S R + AA L C V+ AQN APPVATPAPGQVLVTGTVPDEASKAAA Sbjct: 1 MDTSFFPSLRRPACVFAAALLCNLANVALAQNAAPPVATPAPGQVLVTGTVPDEASKAAA 60 Query: 58 LARLREIYGTDRVVDQIAVGQVVLPANWNNHVQKLISPNLKAVSRGQLKIDGTSVSITGE 117 LARLRE+YG DRVVDQIAVGQVVLPANWNNHVQ LISPNLKAVSRGQLKIDGT+VSITGE Sbjct: 61 LARLREVYGADRVVDQIAVGQVVLPANWNNHVQSLISPNLKAVSRGQLKIDGTTVSITGE 120 Query: 118 VANEAQRQQIASDMAASLNSSYTVNNGLRVSTSEQGLLDNALANRVVSFESGQATLTPEG 177 VANEAQRQQIASDMA+SLNSSYTVNNGLRVSTSEQGLLDNALANRVVSFESGQATLTPEG Sbjct: 121 VANEAQRQQIASDMASSLNSSYTVNNGLRVSTSEQGLLDNALANRVVSFESGQATLTPEG 180 Query: 178 KRILDEIAATMLKLKGRHVEIIGNTDNEGLRASNISLSLARADAVKAYLSAKGVDESLLT 237 KRILDEIAATMLKLKGRHVEIIGNTDNEGLRASNISLSLARADAVKAYL AKGVDESLL+ Sbjct: 181 KRILDEIAATMLKLKGRHVEIIGNTDNEGLRASNISLSLARADAVKAYLGAKGVDESLLS 240 Query: 238 TSGQGPDRPVASNATAEGRAKNRRIEFRIAK 268 TSGQGPDRPVASNATAEGRAKNRRIEFRIAK Sbjct: 241 TSGQGPDRPVASNATAEGRAKNRRIEFRIAK 271 >gi|300312990|ref|YP_003777082.1| signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 203 Score = 86.3 bits (212), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 49/104 (47%), Positives = 68/104 (65%), Gaps = 6/104 (5%) Query: 166 FESGQATLTPEGKRILDEIAATMLKLKGRHVEII---GNTDNEGLRASNISLSLARADAV 222 F+ +ATL P GK LDE+ LK ++E+I G+TD+ G A N LS+ RA++V Sbjct: 98 FDFDKATLKPAGKAKLDELVGN---LKAINLEVIIAVGHTDSIGSVAYNQKLSVRRAESV 154 Query: 223 KAYLSAKGVDESLLTTSGQGPDRPVASNATAEGRAKNRRIEFRI 266 KAYL +KGV+ + + T G+G +PVA N TA GRAKNRR+E + Sbjct: 155 KAYLVSKGVEANRVYTEGKGKSQPVADNKTAAGRAKNRRVEIEV 198 >gi|300313671|ref|YP_003777763.1| OmpA family protein [Herbaspirillum seropedicae SmR1] Length = 241 Score = 82.8 bits (203), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 41/105 (39%), Positives = 66/105 (62%) Query: 164 VSFESGQATLTPEGKRILDEIAATMLKLKGRHVEIIGNTDNEGLRASNISLSLARADAVK 223 +SF++G+A + PE + +LD AAT+++ V I+G+TDN G A N LSL RA + Sbjct: 110 ISFDTGRADIKPEMRPVLDRFAATLVENPATTVTIVGHTDNTGSDAINDPLSLQRASRTR 169 Query: 224 AYLSAKGVDESLLTTSGQGPDRPVASNATAEGRAKNRRIEFRIAK 268 YLS++GV + + G+G P+ +N + RA+NRR+E +A+ Sbjct: 170 DYLSSRGVAANRFSIQGRGSHEPLVANTSDANRARNRRVEIFVAE 214 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 0.311 0.126 0.336 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: 740,414 Number of extensions: 28943 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 4 Length of query: 268 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 184 Effective length of database: 1,222,130 Effective search space: 224871920 Effective search space used: 224871920 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 130 (54.7 bits)