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= 0221.0040.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 ... 242 1e-65 gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ... 161 2e-41 gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR ... 112 1e-26 gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR ... 62 2e-11 gi|300311921|ref|YP_003776013.1| biopolymer transport ExbD/TolR ... 54 3e-09 >gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 138 Score = 242 bits (617), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 116/138 (84%), Positives = 128/138 (92%) Query: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPRATNQPDEPKP 60 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLP+A++QPD+ KP Sbjct: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP 60 Query: 61 QNISLSIDAGGKVFWNEEAIDSEQLTARIAEAAKKQPQPELHLRAARTTQYEKVAQVMAA 120 ++I+LSIDA G VFWNEE IDS +L+ RIA AA+KQPQPELHLRA RTTQYEKVAQVM+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 = 161 bits (407), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 75/137 (54%), Positives = 104/137 (75%), 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 PQNISLSIDAGGKVFWNEEAIDSEQLTARIAEAAKKQPQPELHLRAARTTQYEKVAQVMA 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 = 112 bits (280), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 62/134 (46%), Positives = 86/134 (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 NISLSIDAGGKVFWNEEAIDSEQLTARIAEAAKKQPQPELHLRAARTTQYEKVAQVMAAA 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 = 62.0 bits (149), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 42/133 (31%), Positives = 70/133 (52%), 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---AGGKVFWNEEAIDSEQLTARIAEAAKKQPQPELHLRAARTTQYEKVAQVMAA 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 = 54.3 bits (129), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 31/119 (26%), Positives = 66/119 (55%), Gaps = 4/119 (3%) Query: 14 NPEINTTPLVDVMLVLLIIFIITIPVM--NHAVKIDLPRATNQPDEPKPQNISLSIDAGG 71 P I P++D+M+ LLI F++T+ M +KI++P+A + P +++++ +D G Sbjct: 11 EPHIEIIPMIDIMMFLLIFFMVTMLKMIDVSGLKINVPQAASAATLPS-KSLTIVVDKTG 69 Query: 72 KVFWNEEAIDSEQLTARIAEAAKKQPQPELHLRAARTTQYEKVAQVMAAAQSGGLSKIG 130 +F+ + ++ + L A++ E A + + E+ + + E + VM A++ G+ IG Sbjct: 70 AMFFEGKPLEHDALVAQLKERA-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 0.130 0.364 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: 420,710 Number of extensions: 15102 Number of successful extensions: 43 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 46 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)