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= 0016.0019.p (230 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... 400 e-113 gi|300310025|ref|YP_003774117.1| biopolymer transport transmembr... 189 2e-49 gi|300312127|ref|YP_003776219.1| biopolymer transport transmembr... 176 1e-45 gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel f... 88 5e-19 gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like ... 60 1e-10 >gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 400 bits (1028), Expect = e-113, Method: Compositional matrix adjust. Identities = 193/227 (85%), Positives = 214/227 (94%), Gaps = 1/227 (0%) Query: 1 MEQTVGFAHYWAQGDAVSHAVAYVLLLMSVASWYYILSKTWSSWRIRRGSNALEGFWKAP 60 MEQ +GFAHYWAQGDAVSH+VAY+LL+MS+ASWYYILSK W++WRIRRGSNALE FW+AP Sbjct: 1 MEQNIGFAHYWAQGDAVSHSVAYLLLIMSIASWYYILSKAWAAWRIRRGSNALERFWQAP 60 Query: 61 TLTDAIAVMRTVDSEEIFTPLAQRSSEAAGISSKQN-TPSLNAATDPGELITRTLRREIN 119 TL DA A M+ +DSE+I+TP+A+R++EAA I ++Q TPSLNAATDPGELITRTLRREIN Sbjct: 61 TLADATAAMQRLDSEQIYTPMAERAAEAADIGTRQQGTPSLNAATDPGELITRTLRREIN 120 Query: 120 RVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIM 179 RVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHAL AVSASGTVQIDKVAGPVGEALIM Sbjct: 121 RVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIM 180 Query: 180 TALGLVVAIPAVLAYNAFTRLNRLTLAELDGFAHDLHAYLTTGERVG 226 TALGL+VAIPAVLAYNAFTR+NR+ LAELDGFAHDLHAYLTTGERVG Sbjct: 181 TALGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLHAYLTTGERVG 227 >gi|300310025|ref|YP_003774117.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 189 bits (480), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 105/224 (46%), Positives = 139/224 (62%), Gaps = 13/224 (5%) Query: 6 GFAHYWAQGDAVSHAVAYVLLLMSVASWYYILSKTWSSWRIRRGSNAL-EGFWKAPTLTD 64 G WAQGD V+ VA +LL MS+ASWY I++K R+R+ S A FW L + Sbjct: 7 GLESLWAQGDFVTKGVAVLLLAMSIASWYVIITKALQLLRLRKASAAAGHQFWDTTNLPE 66 Query: 65 AIAVMRTVDSEEIFTPLAQRSSEAAGISSKQNTPS----LNAATDPGELITRTLRREINR 120 +A T+ + F +A+ AG+++ + + L+ + +T +LR+ I+ Sbjct: 67 GVA---TLGQDNPFAEVAK-----AGVTAMSHHTAHKGHLHDQLSVSDWVTLSLRQAIDE 118 Query: 121 VSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMT 180 S +L+ G+ +LASVGSTAPFVGLFGTVWGIYHAL ++ +G IDKVAGPVGEALIMT Sbjct: 119 ASGKLQAGMAVLASVGSTAPFVGLFGTVWGIYHALVSIGTTGQASIDKVAGPVGEALIMT 178 Query: 181 ALGLVVAIPAVLAYNAFTRLNRLTLAELDGFAHDLHAYLTTGER 224 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 = 176 bits (446), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 96/229 (41%), Positives = 141/229 (61%), Gaps = 5/229 (2%) Query: 3 QTVGFAHYWAQGDAVSHAVAYVLLLMSVASWYYILSKTWSSWRIRR-GSNALEGFWKAPT 61 + G A+ W QGD V+ + +LL MS SW ++ K ++ R+ R G A + FW A + Sbjct: 2 ENYGLANVWLQGDVVTRFLITILLGMSSVSWIVMIVKGMANRRLSRIGLKAHKEFWAAHS 61 Query: 62 LTDAIAVMRTVDSEEIFTPLAQRSSEAAGISSKQNTPSLNAATDPGELITRTLRREINRV 121 + IA + ++ ++ +A + EA ++++ P L +T E + +R E++ Sbjct: 62 IEGGIAAI-GAGTDNPYSNIATAAVEA---QAQKDQPLLEGSTSNTEWVAYCVRNELDEQ 117 Query: 122 SARLERGLTLLASVGSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMTA 181 A L+ GL +LAS+GST+PF+GLFGTVWGIYHAL A+ ASG +D VAGPVGE+L+MTA Sbjct: 118 IAHLQGGLAVLASIGSTSPFIGLFGTVWGIYHALIAIGASGQASLDHVAGPVGESLVMTA 177 Query: 182 LGLVVAIPAVLAYNAFTRLNRLTLAELDGFAHDLHAYLTTGERVGKGEA 230 +GL VAIPAVL YN R NR +L F+H LH Y TG ++ + +A Sbjct: 178 VGLFVAIPAVLGYNYVARGNRTVAQKLMRFSHQLHVYYVTGNKMREAQA 226 >gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 88.2 bits (217), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 70/210 (33%), Positives = 99/210 (47%), Gaps = 20/210 (9%) Query: 29 SVASWYYILSKTWSSWRIRRGSNALEG-FWKAPTLT----DAIAVMRTVDS-----EEIF 78 S+ SW YI K ++ R + E FW L+ DA++ R E IF Sbjct: 31 SIISWTYIFRKMFTIRAARVQTEEFERVFWSGGNLSALYQDALSNRRKAGGAGGALERIF 90 Query: 79 TPLAQRSSEAAGISSKQNTPSLNAATDPGELIT---RTLRREINRVSARLERGLTLLASV 135 ++A K + + A DP L+ R +R R LE L LASV Sbjct: 91 QAGMGEFTKA-----KASVAARGGAVDPSLLLDGARRAMRAAYQREMDALESHLAFLASV 145 Query: 136 GSTAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMTALGLVVAIPAVLAYN 195 GS +P+VGLFGTVWGI +A ++ + VA + EALI TA+GL AIPAV+AYN Sbjct: 146 GSVSPYVGLFGTVWGIMNAFRGLANVQQATLAAVAPGIAEALIATAIGLFAAIPAVVAYN 205 Query: 196 AFTR-LNRLTLAELDGFAHDLHAYLTTGER 224 ++ ++RL + + F + L R Sbjct: 206 RYSHDIDRLAI-RFESFIEEFSNILQRQAR 234 >gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 201 Score = 60.5 bits (145), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 44/140 (31%), Positives = 68/140 (48%), Gaps = 15/140 (10%) Query: 84 RSSEAAGISSKQNTP-------SLNAATDPGELITRTLRREINRVSARLERGLTLLASVG 136 R ++ +QN+P L P E++ + + RLER LT L ++ Sbjct: 55 RITDDVADKLEQNSPLGHVLAAGLRNVDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIA 114 Query: 137 STAPFVGLFGTVWGIYHALAAVSASGTVQIDKVAGPVGEALIMTALGLVVAIPAVLAYNA 196 S AP +GLFGTV G+ A+ +A+GT ++A + AL T GL +A+PA++ Y Sbjct: 115 SLAPLMGLFGTVVGMIEIFASQNAAGT-NPAQLAHGISIALYNTGFGLAIAMPALVFYRH 173 Query: 197 FTRLNRLTLAELDGFAHDLH 216 F L +DGF D+ Sbjct: 174 FRAL-------VDGFVVDME 186 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 0.386 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: 732,131 Number of extensions: 29063 Number of successful extensions: 129 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 124 Number of HSP's successfully gapped: 6 Length of query: 230 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 148 Effective length of database: 1,231,600 Effective search space: 182276800 Effective search space used: 182276800 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)