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= 0001.0567.p (231 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... 445 e-126 gi|300310025|ref|YP_003774117.1| biopolymer transport transmembr... 204 6e-54 gi|300312127|ref|YP_003776219.1| biopolymer transport transmembr... 183 1e-47 gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel f... 91 9e-20 gi|300311922|ref|YP_003776014.1| biopolymer transport protein [H... 57 1e-09 >gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 445 bits (1145), Expect = e-126, Method: Compositional matrix adjust. Identities = 220/231 (95%), Positives = 226/231 (97%) Query: 1 MEPNVGFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWTALRIRRGSNALEQFWQAP 60 ME N+GFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAW A RIRRGSNALE+FWQAP Sbjct: 1 MEQNIGFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWAAWRIRRGSNALERFWQAP 60 Query: 61 TLADASAAMQRLDSEQIYTPMAERAAEAADIGSRQQGAPSLNAATDPSELITRTLRREIN 120 TLADA+AAMQRLDSEQIYTPMAERAAEAADIG+RQQG PSLNAATDP ELITRTLRREIN Sbjct: 61 TLADATAAMQRLDSEQIYTPMAERAAEAADIGTRQQGTPSLNAATDPGELITRTLRREIN 120 Query: 121 RVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIM 180 RVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIM Sbjct: 121 RVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIM 180 Query: 181 TALGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVGGMRK 231 TALGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVGG+R+ Sbjct: 181 TALGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVGGVRR 231 >gi|300310025|ref|YP_003774117.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 204 bits (518), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 112/224 (50%), Positives = 141/224 (62%), Gaps = 6/224 (2%) Query: 6 GFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWTALRIRRGSNAL-EQFWQAPTLAD 64 G WAQGD V+ VA LLL MSIASWY I++KA LR+R+ S A QFW L + Sbjct: 7 GLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWDTTNLPE 66 Query: 65 ASAAMQRLDSEQIYTPMAERAAEAADIGSRQQGAPSLNAATDPSELITRTLRREINRVSA 124 A L + + +A+ A + +G L+ S+ +T +LR+ I+ S Sbjct: 67 GVAT---LGQDNPFAEVAKAGVTAMSHHTAHKG--HLHDQLSVSDWVTLSLRQAIDEASG 121 Query: 125 RLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIMTALG 184 +L+ G+ +LASVGSTAPFVGLFGTVWGIYHALV++ +G IDKVAGPVGEALIMTALG Sbjct: 122 KLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMTALG 181 Query: 185 LLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVGG 228 L VAIPA YNA R N+ +LA+L+ F DLHA TG R G Sbjct: 182 LAVAIPATFGYNALVRGNKTILAKLNKFGFDLHALFVTGARAAG 225 >gi|300312127|ref|YP_003776219.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 183 bits (464), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 100/224 (44%), Positives = 138/224 (61%), Gaps = 6/224 (2%) Query: 4 NVGFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWTALRIRR-GSNALEQFWQAPTL 62 N G A+ W QGD V+ + +LL MS SW ++ K R+ R G A ++FW A ++ Sbjct: 3 NYGLANVWLQGDVVTRFLITILLGMSSVSWIVMIVKGMANRRLSRIGLKAHKEFWAAHSI 62 Query: 63 ADASAAMQRLDSEQIYTPMAERAAEAADIGSRQQGAPSLNAATDPSELITRTLRREINRV 122 AA+ ++ Y+ +A A EA Q+ P L +T +E + +R E++ Sbjct: 63 EGGIAAIGA-GTDNPYSNIATAAVEA----QAQKDQPLLEGSTSNTEWVAYCVRNELDEQ 117 Query: 123 SARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIMTA 182 A L+ GL +LAS+GST+PF+GLFGTVWGIYHAL+A+ ASG +D VAGPVGE+L+MTA Sbjct: 118 IAHLQGGLAVLASIGSTSPFIGLFGTVWGIYHALIAIGASGQASLDHVAGPVGESLVMTA 177 Query: 183 LGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERV 226 +GL VAIPAVL YN R NR V +L F+H LH Y TG ++ Sbjct: 178 VGLFVAIPAVLGYNYVARGNRTVAQKLMRFSHQLHVYYVTGNKM 221 >gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 90.5 bits (223), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 73/212 (34%), Positives = 102/212 (48%), Gaps = 23/212 (10%) Query: 29 SIASWYYILSKAWTALRIRRGSNALEQ-FWQAPTLA----DASAAMQRLDS-----EQIY 78 SI SW YI K +T R + E+ FW L+ DA + ++ E+I+ Sbjct: 31 SIISWTYIFRKMFTIRAARVQTEEFERVFWSGGNLSALYQDALSNRRKAGGAGGALERIF 90 Query: 79 TP-MAERAAEAADIGSRQQGAPSLNAATDPSELIT---RTLRREINRVSARLERGLTLLA 134 M E A + +R A DPS L+ R +R R LE L LA Sbjct: 91 QAGMGEFTKAKASVAAR-------GGAVDPSLLLDGARRAMRAAYQREMDALESHLAFLA 143 Query: 135 SVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIMTALGLLVAIPAVLA 194 SVGS +P+VGLFGTVWGI +A ++ + VA + EALI TA+GL AIPAV+A Sbjct: 144 SVGSVSPYVGLFGTVWGIMNAFRGLANVQQATLAAVAPGIAEALIATAIGLFAAIPAVVA 203 Query: 195 YNAFTR-INRVVLAELDGFAHDLHAYLTTGER 225 YN ++ I+R+ + + F + L R Sbjct: 204 YNRYSHDIDRLAI-RFESFIEEFSNILQRQAR 234 >gi|300311922|ref|YP_003776014.1| biopolymer transport protein [Herbaspirillum seropedicae SmR1] Length = 241 Score = 57.4 bits (137), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 42/129 (32%), Positives = 64/129 (49%), Gaps = 9/129 (6%) Query: 90 DIGSRQQG---APSLNAATDP-----SELITRTLRREINRVSARLERGLTLLASVGSTAP 141 DI R + P+L+AA + E + R + I R L+R L LL + + P Sbjct: 66 DIAQRYRATVFGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAAITLGP 125 Query: 142 FVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIMTALGLLVAIPAVLAYNAFTRI 201 +GL GT+ GI + + +G+ V +G +L+ T GLLVAI V A + F++ Sbjct: 126 LIGLLGTIIGITESFNVLGTAGSSS-GAVTNGIGHSLLATGCGLLVAIAGVAANSYFSKR 184 Query: 202 NRVVLAELD 210 R+ L ELD Sbjct: 185 VRLALLELD 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 0.321 0.132 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: 726,740 Number of extensions: 28625 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 130 Number of HSP's successfully gapped: 6 Length of query: 231 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 149 Effective length of database: 1,231,600 Effective search space: 183508400 Effective search space used: 183508400 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 (21.9 bits) S2: 129 (54.3 bits)