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= 0011.0207.p (243 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310025|ref|YP_003774117.1| biopolymer transport transmembr... 485 e-138 gi|300312127|ref|YP_003776219.1| biopolymer transport transmembr... 217 6e-58 gi|300309940|ref|YP_003774032.1| biopolymer transport transmembr... 199 1e-52 gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel f... 82 4e-17 >gi|300310025|ref|YP_003774117.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 485 bits (1249), Expect = e-138, Method: Compositional matrix adjust. Identities = 243/243 (100%), Positives = 243/243 (100%) Query: 1 MEVSPYGLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWD 60 MEVSPYGLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWD Sbjct: 1 MEVSPYGLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWD 60 Query: 61 TTNLPEGVATLGQDNPFAEVAKAGVTAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDEAS 120 TTNLPEGVATLGQDNPFAEVAKAGVTAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDEAS Sbjct: 61 TTNLPEGVATLGQDNPFAEVAKAGVTAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDEAS 120 Query: 121 GKLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTAL 180 GKLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTAL Sbjct: 121 GKLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTAL 180 Query: 181 GLAVAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTGARAAGEDGQPNGGKAKLTAV 240 GLAVAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTGARAAGEDGQPNGGKAKLTAV Sbjct: 181 GLAVAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTGARAAGEDGQPNGGKAKLTAV 240 Query: 241 GRA 243 GRA Sbjct: 241 GRA 243 >gi|300312127|ref|YP_003776219.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 217 bits (553), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 112/232 (48%), Positives = 151/232 (65%), Gaps = 9/232 (3%) Query: 6 YGLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWDTTNLP 65 YGL ++W QGD VT+ + +LL MS SW V+I K + RL + A +FW ++ Sbjct: 4 YGLANVWLQGDVVTRFLITILLGMSSVSWIVMIVKGMANRRLSRIGLKAHKEFWAAHSIE 63 Query: 66 EGVATLG--QDNPFAEVAKAGVTAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDEASGKL 123 G+A +G DNP++ +A A V A + + L S ++WV +R +DE L Sbjct: 64 GGIAAIGAGTDNPYSNIATAAVEAQAQKD--QPLLEGSTSNTEWVAYCVRNELDEQIAHL 121 Query: 124 QAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTALGLA 183 Q G+AVLAS+GST+PF+GLFGTVWGIYHAL++IG +GQAS+D VAGPVGE+L+MTA+GL Sbjct: 122 QGGLAVLASIGSTSPFIGLFGTVWGIYHALIAIGASGQASLDHVAGPVGESLVMTAVGLF 181 Query: 184 VAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTG-----ARAAGEDGQP 230 VAIPA GYN + RGN+T+ KL +F LH +VTG A+AA E G P Sbjct: 182 VAIPAVLGYNYVARGNRTVAQKLMRFSHQLHVYYVTGNKMREAQAAKESGYP 233 >gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 199 bits (507), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 110/224 (49%), Positives = 139/224 (62%), Gaps = 6/224 (2%) Query: 7 GLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWDTTNLPE 66 G WAQGD V+ VA LLL MSIASWY I++KA R+R+ S A +FW L + Sbjct: 6 GFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWAAWRIRRGSNAL-ERFWQAPTLAD 64 Query: 67 GVA---TLGQDNPFAEVAKAGVTAMSHHTAHKG--HLHDQLSVSDWVTLSLRQAIDEASG 121 A L + + +A+ A T +G L+ + +T +LR+ I+ S Sbjct: 65 ATAAMQRLDSEQIYTPMAERAAEAADIGTRQQGTPSLNAATDPGELITRTLRREINRVSA 124 Query: 122 KLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTALG 181 +L+ G+ +LASVGSTAPFVGLFGTVWGIYHALV++ +G IDKVAGPVGEALIMTALG Sbjct: 125 RLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIMTALG 184 Query: 182 LAVAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTGARAAG 225 L VAIPA YNA R N+ +LA+L+ F DLHA TG R G Sbjct: 185 LLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVGG 228 >gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 82.0 bits (201), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 61/179 (34%), Positives = 82/179 (45%), Gaps = 19/179 (10%) Query: 30 SIASWYVIITKALQLLRLRKASAAAGHQFWDTTNLPEGVATLGQD------------NPF 77 SI SW I K + R + FW NL + L QD Sbjct: 31 SIISWTYIFRKMFTIRAARVQTEEFERVFWSGGNL----SALYQDALSNRRKAGGAGGAL 86 Query: 78 AEVAKAGV---TAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDEASGKLQAGMAVLASVG 134 + +AG+ T A +G D + D ++R A L++ +A LASVG Sbjct: 87 ERIFQAGMGEFTKAKASVAARGGAVDPSLLLDGARRAMRAAYQREMDALESHLAFLASVG 146 Query: 135 STAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTALGLAVAIPATFGYN 193 S +P+VGLFGTVWGI +A + QA++ VA + EALI TA+GL AIPA YN Sbjct: 147 SVSPYVGLFGTVWGIMNAFRGLANVQQATLAAVAPGIAEALIATAIGLFAAIPAVVAYN 205 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 0.319 0.133 0.392 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: 802,233 Number of extensions: 33340 Number of successful extensions: 174 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 172 Number of HSP's successfully gapped: 4 Length of query: 243 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 160 Effective length of database: 1,226,865 Effective search space: 196298400 Effective search space used: 196298400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 129 (54.3 bits)