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= 0012.0140.p (538 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310853|ref|YP_003774945.1| cation/multidrug efflux pump pr... 472 e-134 gi|300311798|ref|YP_003775890.1| cation/multidrug efflux pump pr... 235 8e-63 gi|300310852|ref|YP_003774944.1| cation/multidrug efflux pump tr... 209 4e-55 gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 139 6e-34 gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot... 70 3e-13 >gi|300310853|ref|YP_003774945.1| cation/multidrug efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 1078 Score = 472 bits (1215), Expect = e-134, Method: Compositional matrix adjust. Identities = 233/291 (80%), Positives = 261/291 (89%), Gaps = 1/291 (0%) Query: 1 VAGASLFLQAVQDIRVGARQSDSQYEYTLQSDDLELLRTWEPKIRVAFSNLPQLEDVSTD 60 VAGA +FL VQDIR+GARQSDSQYEY+L+SDD+ LLR WEPKIR+A SNL +LED+STD Sbjct: 648 VAGARVFLVPVQDIRIGARQSDSQYEYSLKSDDVGLLRIWEPKIRLALSNLKELEDISTD 707 Query: 61 QQDKGLQTTLTIDRETAIRSGVTPQLIDTSLSDLFGQRQISTIYSGMNQYHVVMEAAPQY 120 QQD GLQTTLTIDRETA+R+GVTPQLID++LSDLFGQRQISTIYSGMNQYHVVMEAAPQY Sbjct: 708 QQDNGLQTTLTIDRETAMRAGVTPQLIDSTLSDLFGQRQISTIYSGMNQYHVVMEAAPQY 767 Query: 121 WQSPEILNSTYVSLANSTANLSPTTSALGTPPALTAGGKLNSNSSLALTLSTAASKQVPL 180 WQSPE L TYVSLA S+ NLSPTTS+L TPPAL+A GKLN+N+ LA T+STA S+Q+PL Sbjct: 768 WQSPETLRDTYVSLAGSS-NLSPTTSSLSTPPALSASGKLNANTGLAQTISTAPSRQIPL 826 Query: 181 TSFSSFAPTTTSLSVSHEGQFIASTISFNLAEGVSLSQATQVINDTLARLGVPTAVHGAF 240 +FS F PTTTSLSVSHEGQF+AST+SFNLAEGVSLSQAT I+ +A+LGVPT V G F Sbjct: 827 AAFSRFEPTTTSLSVSHEGQFVASTLSFNLAEGVSLSQATAAIDRAMAQLGVPTNVLGTF 886 Query: 241 AGTANAFQSSLDSQPVLILTALLAVYIVLGILYESLVHPITIISTLPSAGV 291 AGTANAFQSS SQP+LILTALLAVYIVLGILYESL+HPITIISTLPSAGV Sbjct: 887 AGTANAFQSSTSSQPLLILTALLAVYIVLGILYESLIHPITIISTLPSAGV 937 >gi|300311798|ref|YP_003775890.1| cation/multidrug efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 1051 Score = 235 bits (599), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 127/292 (43%), Positives = 173/292 (59%), Gaps = 38/292 (13%) Query: 1 VAGASLFLQAVQDIRVGARQSDSQYEYTLQSDDLELLRTWEPKIRVAFSNLPQLEDVSTD 60 + G +LF+QA QDI VG R S +QY+YT+ DL+ L W P++ F LPQL DV++D Sbjct: 651 IEGVNLFMQASQDINVGGRLSRTQYQYTITDTDLDELNVWAPRMLERFRQLPQLTDVASD 710 Query: 61 QQDKGLQTTLTIDRETAIRSGVTPQLIDTSLSDLFGQRQISTIYSGMNQYHVVMEAAPQY 120 QQ++ +TIDR A G++P LID ++ D GQRQ++ ++ +N Y V++E P Sbjct: 711 QQNQAAAAVITIDRARASSFGISPSLIDATIYDAIGQRQVAQYFTQINSYRVILEVTPAL 770 Query: 121 WQSPEILNSTYVSLANSTANLSPTTSALGTPPALTAGGKLNSNSSLALTLSTAASKQVPL 180 + P + + Y++ SP T +QVPL Sbjct: 771 QKDPALFDKLYLT--------SPLTG-----------------------------QQVPL 793 Query: 181 TSFSSFAPTTTS-LSVSHEGQFIASTISFNLAEGVSLSQATQVINDTLARLGVPTAVHGA 239 ++F + TS LS+SH+ QF A TISFNLA+GVSL +A VI T ++GVP + G Sbjct: 794 STFVKIDTSKTSYLSISHQSQFPAVTISFNLAKGVSLGEAVDVIQKTKDQMGVPQTLVGN 853 Query: 240 FAGTANAFQSSLDSQPVLILTALLAVYIVLGILYESLVHPITIISTLPSAGV 291 F GTA AF SL SQP LI AL+AVYIVLG+LYES +HP+TI+STLPSAGV Sbjct: 854 FQGTAKAFGDSLSSQPYLIAAALIAVYIVLGLLYESYIHPLTILSTLPSAGV 905 >gi|300310852|ref|YP_003774944.1| cation/multidrug efflux pump transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 1048 Score = 209 bits (533), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 120/291 (41%), Positives = 167/291 (57%), Gaps = 38/291 (13%) Query: 1 VAGASLFLQAVQDIRVGARQSDSQYEYTLQSDDLELLRTWEPKIRVAFSNLPQLEDVSTD 60 V G +L++Q VQD+ + S +QY++TL+ D +L TW PK+ +L DV+T+ Sbjct: 643 VPGITLYMQPVQDLTIEDSVSRTQYQFTLEDADPAVLSTWVPKLIARLQQQSELADVATN 702 Query: 61 QQDKGLQTTLTIDRETAIRSGVTPQLIDTSLSDLFGQRQISTIYSGMNQYHVVMEAAPQY 120 QD+GLQ + IDR A R G+T ID +L + FGQR ISTIY+ NQY VVME P++ Sbjct: 703 LQDQGLQAYIEIDRNAASRLGITTAAIDNALYNAFGQRLISTIYTQSNQYRVVMEVKPEF 762 Query: 121 WQSPEILNSTYVSLANSTANLSPTTSALGTPPALTAGGKLNSNSSLALTLSTAASKQVPL 180 P L+S Y+ +T+GG +VPL Sbjct: 763 QHGPAALDSIYL---------------------VTSGG-----------------GKVPL 784 Query: 181 TSFSSFAPTTTSLSVSHEGQFIASTISFNLAEGVSLSQATQVINDTLARLGVPTAVHGAF 240 +S ++ T L V+H GQF A+T+SFNLA+G SL +A + I +G+P + F Sbjct: 785 SSIATVTERTAPLVVNHIGQFPAATVSFNLAKGASLGEAVKAIKAAEEEIGMPASTVTNF 844 Query: 241 AGTANAFQSSLDSQPVLILTALLAVYIVLGILYESLVHPITIISTLPSAGV 291 G A AFQ+SL + LIL A++ +YIVLG+LYES +HPITI+STLPSAGV Sbjct: 845 QGAALAFQASLSNTLWLILAAIVTMYIVLGVLYESYIHPITILSTLPSAGV 895 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 139 bits (350), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 69/107 (64%), Positives = 80/107 (74%), Gaps = 3/107 (2%) Query: 358 MTMTSVLRKRALILTPLV--LALAACSVGPDYVRPQTAAVPTAFKEMKDWKPAQPNELAM 415 MT + + + L L LV LALAACSVGPDYVRPQ P FKE ++WKPAQP +L Sbjct: 1 MTQQDLFKLKPL-LAMLVASLALAACSVGPDYVRPQMDTGPAIFKEGQNWKPAQPRDLVA 59 Query: 416 NGKWWEMFGDRQLNALVEQIDISNQNLAQSEANFRKAMALVQGARXA 462 +GKWWEMFGD QLNALV Q+DISNQNLA +EANFR A+ALVQ +R A Sbjct: 60 DGKWWEMFGDPQLNALVAQVDISNQNLALAEANFRSAVALVQSSRSA 106 >gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 510 Score = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 34/74 (45%), Positives = 47/74 (63%), Gaps = 3/74 (4%) Query: 371 LTPLVLA--LAACSVGPDYVRPQTAAVPTAFKEMKDWKPAQPNELAMNGKWWEMFGDRQL 428 +T LVLA L C+VGPDY RP +P A+KE WK A P ++ + WWE +GD L Sbjct: 35 MTALVLAALLGGCAVGPDYARP-ALDLPQAYKETGPWKLAAPRQIDDHQPWWEAYGDPVL 93 Query: 429 NALVEQIDISNQNL 442 NAL++Q + +NQ + Sbjct: 94 NALMDQANAANQTI 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 0.317 0.128 0.368 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: 1,265,259 Number of extensions: 45012 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 234 Number of HSP's successfully gapped: 8 Length of query: 538 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 448 Effective length of database: 1,193,720 Effective search space: 534786560 Effective search space used: 534786560 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 (21.7 bits) S2: 133 (55.8 bits)