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= 0009.0075.p (138 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR ... 244 2e-66 gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ... 162 8e-42 gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR ... 114 4e-27 gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR ... 63 8e-12 gi|300311921|ref|YP_003776013.1| biopolymer transport ExbD/TolR ... 56 1e-09 >gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 138 Score = 244 bits (623), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 117/138 (84%), Positives = 129/138 (93%) Query: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPRATNQPDEPKP 60 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLP+A++QPD+ KP Sbjct: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP 60 Query: 61 QNISLSIDAGGKVFWNEEAIDSEQLTARIAEAARKQPQPELHLRAERTTQYEKVAQVMAA 120 ++I+LSIDA G VFWNEE IDS +L+ RIA AA+KQPQPELHLRAERTTQYEKVAQVM+A Sbjct: 61 ESINLSIDASGNVFWNEEKIDSGELSVRIAAAAQKQPQPELHLRAERTTQYEKVAQVMSA 120 Query: 121 AQSGGLSKIGFVTDPQAK 138 AQSGGL+KIGFVTDP K Sbjct: 121 AQSGGLAKIGFVTDPDKK 138 >gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 148 Score = 162 bits (410), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 75/137 (54%), Positives = 105/137 (76%), Gaps = 1/137 (0%) Query: 1 MAMGSLSDSDDDF-NPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPRATNQPDEPK 59 M+ G +D+ + +IN TP+VDVMLVLL+IFIIT P+ HA+K+DLP A + P K Sbjct: 1 MSFGGFNDNQNSAPMADINVTPMVDVMLVLLVIFIITAPMFTHALKLDLPTAQSAPAPEK 60 Query: 60 PQNISLSIDAGGKVFWNEEAIDSEQLTARIAEAARKQPQPELHLRAERTTQYEKVAQVMA 119 P+ I+L IDA GK++WN++ + SE+L AR+ AA KQPQPEL LRA+++T+Y+ +A+VM+ Sbjct: 61 PETITLGIDAAGKLYWNDQPVSSEELDARLTAAAGKQPQPELQLRADKSTRYQTIAEVMS 120 Query: 120 AAQSGGLSKIGFVTDPQ 136 AAQ GLSK+GFVTDP+ Sbjct: 121 AAQGAGLSKLGFVTDPK 137 >gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 139 Score = 114 bits (284), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 62/134 (46%), Positives = 87/134 (64%), Gaps = 1/134 (0%) Query: 3 MGSLSDSDDD-FNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPRATNQPDEPKPQ 61 M ++D+ D EIN TPL+DVMLVLLIIFI+T+P +N AVK+ LP+AT QP E + Sbjct: 1 MSMMNDAGGDGLATEINMTPLIDVMLVLLIIFIVTLPAINQAVKVTLPKATAQPTETASK 60 Query: 62 NISLSIDAGGKVFWNEEAIDSEQLTARIAEAARKQPQPELHLRAERTTQYEKVAQVMAAA 121 +I +SI A G V WN + ++L A + AA P +++ A+ Y VA+V+A Sbjct: 61 DIDISIQADGTVLWNRVPANLDELRAHVVAAAAAAVPPAVNVYADEQVPYGSVAKVLAGV 120 Query: 122 QSGGLSKIGFVTDP 135 Q+GGLS+I FVT+P Sbjct: 121 QAGGLSRINFVTEP 134 >gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 144 Score = 63.2 bits (152), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 42/133 (31%), Positives = 71/133 (53%), Gaps = 15/133 (11%) Query: 13 FNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPRATNQPDEP--------KPQN-I 63 F EIN P +DVMLVLLIIF++ P+ N +V I+LP A P KP + Sbjct: 14 FKSEINVVPYIDVMLVLLIIFMVATPITNPSV-INLPTAGKSTQPPSDYIEIALKPNSQA 72 Query: 64 SLSID---AGGKVFWNEEAIDSEQLTARIAEAARKQPQPELHLRAERTTQYEKVAQVMAA 120 ++ I+ +GGK E L+ R+ + P+ + + A++ +Y++V QV++ Sbjct: 73 TIRINGPKSGGK--KAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISE 130 Query: 121 AQSGGLSKIGFVT 133 A+ G++++G T Sbjct: 131 AKKQGIARVGLAT 143 >gi|300311921|ref|YP_003776013.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 132 Score = 55.8 bits (133), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 31/118 (26%), Positives = 67/118 (56%), Gaps = 4/118 (3%) Query: 15 PEINTTPLVDVMLVLLIIFIITIPVM--NHAVKIDLPRATNQPDEPKPQNISLSIDAGGK 72 P I P++D+M+ LLI F++T+ M +KI++P+A + P +++++ +D G Sbjct: 12 PHIEIIPMIDIMMFLLIFFMVTMLKMIDVSGLKINVPQAASAATLPS-KSLTIVVDKTGA 70 Query: 73 VFWNEEAIDSEQLTARIAEAARKQPQPELHLRAERTTQYEKVAQVMAAAQSGGLSKIG 130 +F+ + ++ + L A++ E A + + E+ + ++ E + VM A++ G+ IG Sbjct: 71 MFFEGKPLEHDALVAQLKERA-QTAKLEVLVAGDKEVSLENLLHVMDVARAAGIEDIG 127 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 0.315 0.131 0.365 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: 425,458 Number of extensions: 15519 Number of successful extensions: 41 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 44 Number of HSP's successfully gapped: 6 Length of query: 138 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 62 Effective length of database: 1,260,010 Effective search space: 78120620 Effective search space used: 78120620 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 (21.6 bits) S2: 126 (53.1 bits)