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= 0178.0020.p (232 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309940|ref|YP_003774032.1| biopolymer transport transmembr... 391 e-110 gi|300310025|ref|YP_003774117.1| biopolymer transport transmembr... 195 3e-51 gi|300312127|ref|YP_003776219.1| biopolymer transport transmembr... 167 1e-42 gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel f... 89 3e-19 gi|300311922|ref|YP_003776014.1| biopolymer transport protein [H... 59 2e-10 >gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 391 bits (1005), Expect = e-110, Method: Compositional matrix adjust. Identities = 190/228 (83%), Positives = 211/228 (92%), Gaps = 1/228 (0%) Query: 1 MEQPVGFAHYWAQGDAVSHAVAYALLLMSIASWYYILSKTWSSWRIRRSSNALDGFWKAP 60 MEQ +GFAHYWAQGDAVSH+VAY LL+MSIASWYYILSK W++WRIRR SNAL+ FW+AP Sbjct: 1 MEQNIGFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWAAWRIRRGSNALERFWQAP 60 Query: 61 TLTDAIAVMRTVDSEEIFIPLAQRSSEAAGISSKQSAPSPSLNAATDPGELITRTLRREI 120 TL DA A M+ +DSE+I+ P+A+R++EAA I ++Q +PSLNAATDPGELITRTLRREI Sbjct: 61 TLADATAAMQRLDSEQIYTPMAERAAEAADIGTRQQG-TPSLNAATDPGELITRTLRREI 119 Query: 121 NRVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALI 180 NRVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHAL AVSASGTVQIDKVAGPVGEALI Sbjct: 120 NRVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALI 179 Query: 181 MTALGLVVAIPAVLAYNAFTRLNRLTLAELDGFAHDLHAYLTTGERVG 228 MTALGL+VAIPAVLAYNAFTR+NR+ LAELDGFAHDLHAYLTTGERVG Sbjct: 180 MTALGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVG 227 >gi|300310025|ref|YP_003774117.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 195 bits (495), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 106/224 (47%), Positives = 135/224 (60%), Gaps = 7/224 (3%) Query: 4 PVGFAHYWAQGDAVSHAVAYALLLMSIASWYYILSKTWSSWRIRRSSNAL-DGFWKAPTL 62 P G WAQGD V+ VA LL MSIASWY I++K R+R++S A FW L Sbjct: 5 PYGLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWDTTNL 64 Query: 63 TDAIAVMRTVDSEEIFIPLAQRSSEAAGISSKQSAPSPSLNAATDPGELITRTLRREINR 122 + +A + + P A+ + S +A L+ + +T +LR+ I+ Sbjct: 65 PEGVATLGQDN------PFAEVAKAGVTAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDE 118 Query: 123 VSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMT 182 S +L+ G+ +LASVGSTAPFVGLFGTVWGIYHAL ++ +G IDKVAGPVGEALIMT Sbjct: 119 ASGKLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMT 178 Query: 183 ALGLVVAIPAVLAYNAFTRLNRLTLAELDGFAHDLHAYLTTGER 226 ALGL VAIPA YNA R N+ LA+L+ F DLHA TG R Sbjct: 179 ALGLAVAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTGAR 222 >gi|300312127|ref|YP_003776219.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 167 bits (422), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 94/228 (41%), Positives = 133/228 (58%), Gaps = 7/228 (3%) Query: 6 GFAHYWAQGDAVSHAVAYALLLMSIASWYYILSKTWSSWRIRRSS-NALDGFWKAPTLTD 64 G A+ W QGD V+ + LL MS SW ++ K ++ R+ R A FW A ++ Sbjct: 5 GLANVWLQGDVVTRFLITILLGMSSVSWIVMIVKGMANRRLSRIGLKAHKEFWAAHSIEG 64 Query: 65 AIAVMRTVDSEEIFIPLAQRSSEAAGISSKQSAPSPSLNAATDPGELITRTLRREINRVS 124 IA + ++ + +A A + ++ P L +T E + +R E++ Sbjct: 65 GIAAI-GAGTDNPYSNIA-----TAAVEAQAQKDQPLLEGSTSNTEWVAYCVRNELDEQI 118 Query: 125 ARLERGLTLLASVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMTAL 184 A L+ GL +LAS+GST+PF+GLFGTVWGIYHAL A+ ASG +D VAGPVGE+L+MTA+ Sbjct: 119 AHLQGGLAVLASIGSTSPFIGLFGTVWGIYHALIAIGASGQASLDHVAGPVGESLVMTAV 178 Query: 185 GLVVAIPAVLAYNAFTRLNRLTLAELDGFAHDLHAYLTTGERVGKGEA 232 GL VAIPAVL YN R NR +L F+H LH Y TG ++ + +A Sbjct: 179 GLFVAIPAVLGYNYVARGNRTVAQKLMRFSHQLHVYYVTGNKMREAQA 226 >gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 89.0 bits (219), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 71/212 (33%), Positives = 98/212 (46%), Gaps = 22/212 (10%) Query: 29 SIASWYYILSKTWSSWRIRRSSNALDG-FWKAPTLT----DAIAVMRTVDS-----EEIF 78 SI SW YI K ++ R + + FW L+ DA++ R E IF Sbjct: 31 SIISWTYIFRKMFTIRAARVQTEEFERVFWSGGNLSALYQDALSNRRKAGGAGGALERIF 90 Query: 79 IPLAQRSSEAAGISSKQSAPSPSLNAATDPGELIT---RTLRREINRVSARLERGLTLLA 135 G +K A + A DP L+ R +R R LE L LA Sbjct: 91 -------QAGMGEFTKAKASVAARGGAVDPSLLLDGARRAMRAAYQREMDALESHLAFLA 143 Query: 136 SVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMTALGLVVAIPAVLA 195 SVGS +P+VGLFGTVWGI +A ++ + VA + EALI TA+GL AIPAV+A Sbjct: 144 SVGSVSPYVGLFGTVWGIMNAFRGLANVQQATLAAVAPGIAEALIATAIGLFAAIPAVVA 203 Query: 196 YNAFTR-LNRLTLAELDGFAHDLHAYLTTGER 226 YN ++ ++RL + + F + L R Sbjct: 204 YNRYSHDIDRLAI-RFESFIEEFSNILQRQAR 234 >gi|300311922|ref|YP_003776014.1| biopolymer transport protein [Herbaspirillum seropedicae SmR1] Length = 241 Score = 59.3 bits (142), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 40/117 (34%), Positives = 61/117 (52%), Gaps = 6/117 (5%) Query: 100 PSLNAATDP-----GELITRTLRREINRVSARLERGLTLLASVGSTAPFVGLFGTVWGIY 154 P+L+AA + GE + R + I R L+R L LL + + P +GL GT+ GI Sbjct: 78 PTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAAITLGPLIGLLGTIIGIT 137 Query: 155 HALAAVSASGTVQIDKVAGPVGEALIMTALGLVVAIPAVLAYNAFTRLNRLTLAELD 211 + + +G+ V +G +L+ T GL+VAI V A + F++ RL L ELD Sbjct: 138 ESFNVLGTAGSSS-GAVTNGIGHSLLATGCGLLVAIAGVAANSYFSKRVRLALLELD 193 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 0.131 0.387 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: 746,767 Number of extensions: 29558 Number of successful extensions: 142 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 137 Number of HSP's successfully gapped: 6 Length of query: 232 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 150 Effective length of database: 1,231,600 Effective search space: 184740000 Effective search space used: 184740000 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)