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= 0001.0650.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 ... 273 5e-75 gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ... 167 2e-43 gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR ... 114 4e-27 gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR ... 67 7e-13 gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-relat... 55 2e-09 >gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 138 Score = 273 bits (697), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 133/138 (96%), Positives = 136/138 (98%) Query: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP 60 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP Sbjct: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP 60 Query: 61 ESINLSIDAAGNVFWNEEKIDSSELNARIAAAAQKQPQPELHLRAERTTQYEKVAQVMSA 120 ESINLSIDA+GNVFWNEEKIDS EL+ RIAAAAQKQPQPELHLRAERTTQYEKVAQVMSA Sbjct: 61 ESINLSIDASGNVFWNEEKIDSGELSVRIAAAAQKQPQPELHLRAERTTQYEKVAQVMSA 120 Query: 121 AQSGGLAKIGFVTDPEKK 138 AQSGGLAKIGFVTDP+KK Sbjct: 121 AQSGGLAKIGFVTDPDKK 138 >gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 148 Score = 167 bits (424), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 78/137 (56%), Positives = 106/137 (77%), Gaps = 1/137 (0%) Query: 1 MAMGSLSDSDDDFN-PEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVK 59 M+ G +D+ + +IN TP+VDVMLVLL+IFIIT P+ HA+K+DLP A S P K Sbjct: 1 MSFGGFNDNQNSAPMADINVTPMVDVMLVLLVIFIITAPMFTHALKLDLPTAQSAPAPEK 60 Query: 60 PESINLSIDAAGNVFWNEEKIDSSELNARIAAAAQKQPQPELHLRAERTTQYEKVAQVMS 119 PE+I L IDAAG ++WN++ + S EL+AR+ AAA KQPQPEL LRA+++T+Y+ +A+VMS Sbjct: 61 PETITLGIDAAGKLYWNDQPVSSEELDARLTAAAGKQPQPELQLRADKSTRYQTIAEVMS 120 Query: 120 AAQSGGLAKIGFVTDPE 136 AAQ GL+K+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 = 62/137 (45%), Positives = 90/137 (65%), Gaps = 1/137 (0%) Query: 3 MGSLSDSDDD-FNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKPE 61 M ++D+ D EIN TPL+DVMLVLLIIFI+T+P +N AVK+ LPKA++QP + + Sbjct: 1 MSMMNDAGGDGLATEINMTPLIDVMLVLLIIFIVTLPAINQAVKVTLPKATAQPTETASK 60 Query: 62 SINLSIDAAGNVFWNEEKIDSSELNARIAAAAQKQPQPELHLRAERTTQYEKVAQVMSAA 121 I++SI A G V WN + EL A + AAA P +++ A+ Y VA+V++ Sbjct: 61 DIDISIQADGTVLWNRVPANLDELRAHVVAAAAAAVPPAVNVYADEQVPYGSVAKVLAGV 120 Query: 122 QSGGLAKIGFVTDPEKK 138 Q+GGL++I FVT+P K+ Sbjct: 121 QAGGLSRINFVTEPVKE 137 >gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 144 Score = 66.6 bits (161), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 73/131 (55%), Gaps = 11/131 (8%) Query: 13 FNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKA--SSQPDQ------VKPES-I 63 F EIN P +DVMLVLLIIF++ P+ N +V I+LP A S+QP +KP S Sbjct: 14 FKSEINVVPYIDVMLVLLIIFMVATPITNPSV-INLPTAGKSTQPPSDYIEIALKPNSQA 72 Query: 64 NLSIDAAGNVFWNEEKIDS-SELNARIAAAAQKQPQPELHLRAERTTQYEKVAQVMSAAQ 122 + I+ + E + ++L+ R+ P+ + + A++ +Y++V QV+S A+ Sbjct: 73 TIRINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISEAK 132 Query: 123 SGGLAKIGFVT 133 G+A++G T Sbjct: 133 KQGIARVGLAT 143 >gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-related transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 142 Score = 55.5 bits (132), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 65/131 (49%), Gaps = 9/131 (6%) Query: 16 EINTTPLVDVMLVLLIIFIITIPVMNH-AVKIDLPKASSQPDQVKPESINLSIDAAGNVF 74 EIN P +DV+LV++I ++T A+++ LP A + +P +N+++DA G Sbjct: 13 EINLIPFIDVLLVIVIFLMVTTTYSKFTALQLTLPTADAPKALEQPFELNIAVDANGRYA 72 Query: 75 WNEEKID-------SSELNARIAAAAQKQPQPELHLRAERTTQYEKVAQVMSAAQSGGLA 127 N ++I S E+ A + A+A K P + + A+ ++ V V+ AA+ G Sbjct: 73 LNNKRISARDAQGLSEEMQAVVRASASKL-DPVIIINADALATHQTVVNVLEAARMAGYP 131 Query: 128 KIGFVTDPEKK 138 K+ F K Sbjct: 132 KVTFAAQASSK 142 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 0.313 0.129 0.354 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: 402,363 Number of extensions: 13847 Number of successful extensions: 36 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 37 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 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 126 (53.1 bits)