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= 0099.0006.p (243 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 137 9e-34 gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 82 3e-17 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 78 7e-16 gi|300311703|ref|YP_003775795.1| ABC-type export system outer me... 71 9e-14 gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot... 69 5e-13 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 137 bits (344), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 63/83 (75%), Positives = 73/83 (87%) Query: 96 KAAFYPSIMLAPSYGVDSRNIDTLFNAPSVVWSLGVSLAQTIFDGGRISANVDFAKGGYE 155 AA+YPS ML PSYGVDSRN TLFNAPS++WSLGVS +Q++FDGGR+ A VDF++ GYE Sbjct: 312 SAAYYPSFMLQPSYGVDSRNWATLFNAPSLLWSLGVSASQSLFDGGRLRAGVDFSQAGYE 371 Query: 156 ASVASYRRVVLTAMQEVEDGITG 178 A+VASYRR VLTAMQEVEDGITG Sbjct: 372 ATVASYRRTVLTAMQEVEDGITG 394 Score = 118 bits (296), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 65/147 (44%), Positives = 85/147 (57%), Gaps = 19/147 (12%) Query: 14 GCAAGPDYRKPDVEMPVTWQLDTPWRQGTPSDDQAKGPWWERFGDARLNALQQQAIDGNQ 73 GCA+GPDY +P V+MP W + PWR P+D +GPWWERFGDA+LNALQQQA+ GNQ Sbjct: 18 GCASGPDYTRPQVDMPAAWTSEAPWRSMQPADATPRGPWWERFGDAQLNALQQQALAGNQ 77 Query: 74 TLAIAAARLTQARATANAASAXKAAFYPSIMLA------------PSYGVDSRNIDTLFN 121 TLAIA ARL QARA N A + P + L P +S N T+ N Sbjct: 78 TLAIATARLAQARAQLNVTGAAQT---PQVNLNARAARSRISANRPLTNYNSPNFSTVQN 134 Query: 122 APSVVWSLGVSLAQTIFDGGRISANVD 148 ++LG S++ + GR+ +V+ Sbjct: 135 D----FALGASVSYEVDFFGRVQRSVE 157 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 82.4 bits (202), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 46/95 (48%), Positives = 58/95 (61%), Gaps = 1/95 (1%) Query: 87 ATANAA-SAXKAAFYPSIMLAPSYGVDSRNIDTLFNAPSVVWSLGVSLAQTIFDGGRISA 145 A+ANA KAA++PS+ L+ S G S F P VWSLG LAQTIFDGG +A Sbjct: 311 ASANAKIGVAKAAYFPSLTLSASGGYQSSTFADWFTLPGRVWSLGPQLAQTIFDGGARAA 370 Query: 146 NVDFAKGGYEASVASYRRVVLTAMQEVEDGITGRR 180 D A Y+ +VA+Y++ VLTA QEVED + R Sbjct: 371 ATDQAIATYDGTVATYKQTVLTAFQEVEDNLAALR 405 Score = 67.8 bits (164), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 36/95 (37%), Positives = 53/95 (55%), Gaps = 4/95 (4%) Query: 10 IALAGCAAGPDYRKPDVEM-PVTWQLDTPWRQGTPSDDQAKGPWWERFGDARLNALQQQA 68 +ALA C+ GPDY +P ++ P ++ W+ P D A G WWE FGD +LNAL Q Sbjct: 20 LALAACSVGPDYVRPQMDTGPAIFKEGQNWKPAQPRDLVADGKWWEMFGDPQLNALVAQV 79 Query: 69 IDGNQTLAIAAARLTQARATANAASAXKAAFYPSI 103 NQ LA+A A A A ++ ++A+ P++ Sbjct: 80 DISNQNLALAEANFRSAVALVQSS---RSAYSPTL 111 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 77.8 bits (190), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 86/178 (48%), Gaps = 25/178 (14%) Query: 14 GCAAGPDYRKPDVEMPVTWQLDTP----------WRQGTPSDDQAKGPWWERFGDARLNA 63 GC+ P Y +P V+ P ++ P W+ P++D A+G WW+ FGD +LNA Sbjct: 30 GCSVAPTYERPSVDTPAAFKEAAPATQTGENGSQWKTAQPAEDIARGEWWKIFGDEKLNA 89 Query: 64 LQQQAIDGNQTLAIAAARLTQARATANAASAXKAAFYPSIML---------APSYGVDSR 114 L+ A NQ L AAARL QARA A +A ++P + +P+ Sbjct: 90 LEDTAQQANQDLKAAAARLGQARALTRDA---RAGYFPQVDAGVGATRQRPSPASQGLPA 146 Query: 115 NIDTLFNAPSVVWSLGVSLAQTIFDGGRISANVDFAKGGYEASVASYRRVVLTAMQEV 172 + DT P+ ++ V+++ + GR+++ VD A + S A + V+L +V Sbjct: 147 DADT---RPNTLYRAQVNVSYEVDLFGRVASTVDAATADAQRSEALFHSVLLALQADV 201 Score = 70.5 bits (171), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 39/89 (43%), Positives = 51/89 (57%), Gaps = 4/89 (4%) Query: 96 KAAFYPSIMLAPSYGVDSRNIDTLFNAPSVVWSLG----VSLAQTIFDGGRISANVDFAK 151 K+AF+PS+ L G +S + LFN S + LG +L+ +FDGGR A VD A+ Sbjct: 332 KSAFFPSLNLTGGLGYESAQLGDLFNWSSRTFLLGPLVGTALSMPLFDGGRRQAGVDRAR 391 Query: 152 GGYEASVASYRRVVLTAMQEVEDGITGRR 180 YE VASYR VL A +EVED + R Sbjct: 392 ASYEEQVASYRGTVLNAFREVEDNLANLR 420 >gi|300311703|ref|YP_003775795.1| ABC-type export system outer membrane channel protein [Herbaspirillum seropedicae SmR1] Length = 489 Score = 70.9 bits (172), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 43/114 (37%), Positives = 64/114 (56%), Gaps = 4/114 (3%) Query: 85 ARATANAASA----XKAAFYPSIMLAPSYGVDSRNIDTLFNAPSVVWSLGVSLAQTIFDG 140 A A +AASA AA YPS+ L +YGV +RN+ L + +WS G SL+ +F+G Sbjct: 309 AEARMHAASAAIGMSSAAQYPSLELTATYGVAARNLSQLTGPATSLWSFGPSLSTPLFNG 368 Query: 141 GRISANVDFAKGGYEASVASYRRVVLTAMQEVEDGITGRRRTGPRLRAGAGGHR 194 GR+ A D A +EAS + Y++ VLTA ++V D + + G + A + R Sbjct: 369 GRLRAQRDAAVNAFEASQSEYQQTVLTAFEQVADALRALQADGHIVSAQSAAAR 422 >gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 510 Score = 68.6 bits (166), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 40/85 (47%), Positives = 58/85 (68%) Query: 96 KAAFYPSIMLAPSYGVDSRNIDTLFNAPSVVWSLGVSLAQTIFDGGRISANVDFAKGGYE 155 +AA++P++ L+ S G +S LFN PS VWSLG +LA+++FDGG SA D A Y+ Sbjct: 346 RAAYFPTLTLSASGGYNSLAFANLFNTPSRVWSLGSALAESLFDGGARSARNDAAVAAYD 405 Query: 156 ASVASYRRVVLTAMQEVEDGITGRR 180 A+VA Y++ VL +QEVED ++ R Sbjct: 406 AAVAQYKQTVLGGLQEVEDKLSTLR 430 Score = 67.8 bits (164), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 31/73 (42%), Positives = 43/73 (58%), Gaps = 2/73 (2%) Query: 5 VAAVVIA--LAGCAAGPDYRKPDVEMPVTWQLDTPWRQGTPSDDQAKGPWWERFGDARLN 62 + A+V+A L GCA GPDY +P +++P ++ PW+ P PWWE +GD LN Sbjct: 35 MTALVLAALLGGCAVGPDYARPALDLPQAYKETGPWKLAAPRQIDDHQPWWEAYGDPVLN 94 Query: 63 ALQQQAIDGNQTL 75 AL QA NQT+ Sbjct: 95 ALMDQANAANQTI 107 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 0.318 0.128 0.384 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: 651,895 Number of extensions: 24478 Number of successful extensions: 104 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 101 Number of HSP's successfully gapped: 19 Length of query: 243 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 160 Effective length of database: 1,226,865 Effective search space: 196298400 Effective search space used: 196298400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 129 (54.3 bits)