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= 0016.0006.p (155 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 ... 264 3e-72 gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ... 163 7e-42 gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR ... 112 2e-26 gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR ... 66 1e-12 gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-relat... 53 9e-09 >gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 138 Score = 264 bits (674), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 128/135 (94%), Positives = 130/135 (96%) Query: 1 MGMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP 60 M MGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP Sbjct: 1 MAMGSLSDSDDDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKP 60 Query: 61 ESINLSIDAAGNVFWNEEKIDSSELSARIAVAAQKQPQPEMHLRAERTTQYEKVAQVMSA 120 ESINLSIDA+GNVFWNEEKIDS ELS RIA AAQKQPQPE+HLRAERTTQYEKVAQVMSA Sbjct: 61 ESINLSIDASGNVFWNEEKIDSGELSVRIAAAAQKQPQPELHLRAERTTQYEKVAQVMSA 120 Query: 121 AQSGGLTKIGFVTDP 135 AQSGGL KIGFVTDP Sbjct: 121 AQSGGLAKIGFVTDP 135 >gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 148 Score = 163 bits (412), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 76/136 (55%), Positives = 102/136 (75%), Gaps = 1/136 (0%) Query: 1 MGMGSLSDSDDDFN-PEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVK 59 M G +D+ + +IN TP+VDVMLVLL+IFIIT P+ HA+K+DLP A S P K Sbjct: 1 MSFGGFNDNQNSAPMADINVTPMVDVMLVLLVIFIITAPMFTHALKLDLPTAQSAPAPEK 60 Query: 60 PESINLSIDAAGNVFWNEEKIDSSELSARIAVAAQKQPQPEMHLRAERTTQYEKVAQVMS 119 PE+I L IDAAG ++WN++ + S EL AR+ AA KQPQPE+ LRA+++T+Y+ +A+VMS Sbjct: 61 PETITLGIDAAGKLYWNDQPVSSEELDARLTAAAGKQPQPELQLRADKSTRYQTIAEVMS 120 Query: 120 AAQSGGLTKIGFVTDP 135 AAQ GL+K+GFVTDP Sbjct: 121 AAQGAGLSKLGFVTDP 136 >gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 139 Score = 112 bits (279), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 58/125 (46%), Positives = 82/125 (65%) Query: 11 DDFNPEINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQVKPESINLSIDAA 70 D EIN TPL+DVMLVLLIIFI+T+P +N AVK+ LPKA++QP + + I++SI A Sbjct: 10 DGLATEINMTPLIDVMLVLLIIFIVTLPAINQAVKVTLPKATAQPTETASKDIDISIQAD 69 Query: 71 GNVFWNEEKIDSSELSARIAVAAQKQPQPEMHLRAERTTQYEKVAQVMSAAQSGGLTKIG 130 G V WN + EL A + AA P +++ A+ Y VA+V++ Q+GGL++I Sbjct: 70 GTVLWNRVPANLDELRAHVVAAAAAAVPPAVNVYADEQVPYGSVAKVLAGVQAGGLSRIN 129 Query: 131 FVTDP 135 FVT+P Sbjct: 130 FVTEP 134 >gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 144 Score = 65.9 bits (159), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 72/131 (54%), 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 NLSIDAAGNVFWNEEKID-SSELSARIAVAAQKQPQPEMHLRAERTTQYEKVAQVMSAAQ 122 + I+ + E + ++LS R+ P+ + + A++ +Y++V QV+S A+ Sbjct: 73 TIRINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISEAK 132 Query: 123 SGGLTKIGFVT 133 G+ ++G T Sbjct: 133 KQGIARVGLAT 143 >gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-related transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 142 Score = 53.1 bits (126), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 35/124 (28%), Positives = 63/124 (50%), Gaps = 9/124 (7%) 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-------SSELSARIAVAAQKQPQPEMHLRAERTTQYEKVAQVMSAAQSGGLT 127 N ++I S E+ A + +A K P + + A+ ++ V V+ AA+ G Sbjct: 73 LNNKRISARDAQGLSEEMQAVVRASASKL-DPVIIINADALATHQTVVNVLEAARMAGYP 131 Query: 128 KIGF 131 K+ F Sbjct: 132 KVTF 135 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 0.316 0.132 0.369 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: 434,670 Number of extensions: 14793 Number of successful extensions: 53 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 56 Number of HSP's successfully gapped: 6 Length of query: 155 Length of database: 1,619,870 Length adjustment: 78 Effective length of query: 77 Effective length of database: 1,250,540 Effective search space: 96291580 Effective search space used: 96291580 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)