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= 0004.0016.p (201 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like ... 382 e-107 gi|300309940|ref|YP_003774032.1| biopolymer transport transmembr... 58 5e-10 gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel f... 55 5e-09 gi|300311922|ref|YP_003776014.1| biopolymer transport protein [H... 54 8e-09 >gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 201 Score = 382 bits (981), Expect = e-107, Method: Compositional matrix adjust. Identities = 190/201 (94%), Positives = 195/201 (97%) Query: 1 LLAIILAAGWPIWPLLIASIIGLALVIERLAYLRRARILPPDLLGEVVRVYQSGRVNEDV 60 +LAIILAAGWPIWPLLIASIIGLALVIERL YLRR+RILPPDLL +VVRVYQSGR+ +DV Sbjct: 1 MLAIILAAGWPIWPLLIASIIGLALVIERLVYLRRSRILPPDLLNQVVRVYQSGRITDDV 60 Query: 61 IDKLEQNSPLGQVLAAGLRNVDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLM 120 DKLEQNSPLG VLAAGLRNVDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLM Sbjct: 61 ADKLEQNSPLGHVLAAGLRNVDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLM 120 Query: 121 GLFGTVVGMIEIFASQNAAGTNPAQLAHGISIALYNTGFGLAIAMPALVFYRHFRAQVDG 180 GLFGTVVGMIEIFASQNAAGTNPAQLAHGISIALYNTGFGLAIAMPALVFYRHFRA VDG Sbjct: 121 GLFGTVVGMIEIFASQNAAGTNPAQLAHGISIALYNTGFGLAIAMPALVFYRHFRALVDG 180 Query: 181 FVVDMEQQAVKFVDIVHDVRR 201 FVVDMEQQAVKFVDIVHDVRR Sbjct: 181 FVVDMEQQAVKFVDIVHDVRR 201 >gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 231 Score = 58.2 bits (139), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 38/111 (34%), Positives = 59/111 (53%), Gaps = 8/111 (7%) Query: 84 PREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLMGLFGTVVGMIEIFASQNAAGT-N 142 P E++ + + RLER LT L ++ S AP +GLFGTV G+ + +A+GT Sbjct: 107 PGELITRTLRREINRVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASGTVQ 166 Query: 143 PAQLAHGISIALYNTGFGLAIAMPALVFYRHFR-------AQVDGFVVDME 186 ++A + AL T GL +A+PA++ Y F A++DGF D+ Sbjct: 167 IDKVAGPVGEALIMTALGLLVAIPAVLAYNAFTRINRVVLAELDGFAHDLH 217 >gi|300310552|ref|YP_003774644.1| MotA/TolQ/ExbB proton channel family protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 54.7 bits (130), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 38/118 (32%), Positives = 58/118 (49%), Gaps = 5/118 (4%) Query: 81 VDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLMGLFGTVVGMIEIFAS-QNAA 139 +D R M+ A + A LE L L ++ S++P +GLFGTV G++ F N Sbjct: 117 LDGARRAMRAAYQREMDA----LESHLAFLASVGSVSPYVGLFGTVWGIMNAFRGLANVQ 172 Query: 140 GTNPAQLAHGISIALYNTGFGLAIAMPALVFYRHFRAQVDGFVVDMEQQAVKFVDIVH 197 A +A GI+ AL T GL A+PA+V Y + +D + E +F +I+ Sbjct: 173 QATLAAVAPGIAEALIATAIGLFAAIPAVVAYNRYSHDIDRLAIRFESFIEEFSNILQ 230 >gi|300311922|ref|YP_003776014.1| biopolymer transport protein [Herbaspirillum seropedicae SmR1] Length = 241 Score = 53.9 bits (128), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 33/96 (34%), Positives = 50/96 (52%) Query: 83 APREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLMGLFGTVVGMIEIFASQNAAGTN 142 A E M I+EA L+R L LG +L PL+GL GT++G+ E F AG++ Sbjct: 90 ASGEAMDRYIDEAIVRTMPELDRALWLLGAAITLGPLIGLLGTIIGITESFNVLGTAGSS 149 Query: 143 PAQLAHGISIALYNTGFGLAIAMPALVFYRHFRAQV 178 + +GI +L TG GL +A+ + +F +V Sbjct: 150 SGAVTNGIGHSLLATGCGLLVAIAGVAANSYFSKRV 185 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 0.325 0.141 0.405 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: 649,795 Number of extensions: 28270 Number of successful extensions: 192 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 5 Length of query: 201 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 120 Effective length of database: 1,236,335 Effective search space: 148360200 Effective search space used: 148360200 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 128 (53.9 bits)