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= 0088.0012.p (197 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 119 1e-28 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 104 4e-24 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 93 1e-20 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 91 9e-20 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 57 1e-09 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 119 bits (299), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 68/186 (36%), Positives = 101/186 (54%), Gaps = 7/186 (3%) Query: 6 LLPALFLSVAAHAQSVDATEQLVLVGVAAPLTSPRTESGI---AAVRLAFDEANRRAIRI 62 L A+ L+ A A S +++V + PL+ P G R+A DE N + I Sbjct: 10 LTAAIGLAFAGAAYS----QEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTI 65 Query: 63 GGKQLVFRLLVEDDKGDALFATPIAQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQI 122 GGK++ F L+ EDD D AT +A + KV VIGH NSG +I + +YS AGIPQ+ Sbjct: 66 GGKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQV 125 Query: 123 PIATTSSRFPREGLRTIFQVQGHDGVGAVRLAEFVVRNLQAARIAVIEDGTAYGTDFADS 182 + T+ ++ ++G +T F+V +D L ++ V+ L +IAVI+D TAYG AD Sbjct: 126 SPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADE 185 Query: 183 FVSGVR 188 F G + Sbjct: 186 FAKGAK 191 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 104 bits (260), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 63/162 (38%), Positives = 89/162 (54%), Gaps = 1/162 (0%) Query: 26 QLVLVGVAAPLTSPRTESGIAAVRLAFDEANRRAIRIGGKQLVFRLLVEDDKGDALFATP 85 + + +G L+ P +S + +LA DEAN A + L F LL +DD G+ FA Sbjct: 29 KTIALGFTGRLSEPIAQSALQGAQLAIDEANALAAKRRSP-LRFELLPQDDHGNENFAVN 87 Query: 86 IAQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQIPIATTSSRFPREGLRTIFQVQGH 145 IA+Y+++ KV GVIG W+S ++A A +Y +A IPQI TSS++ G R F+V G Sbjct: 88 IARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQIGFTATSSQWTGMGNRMPFRVVGG 147 Query: 146 DGVGAVRLAEFVVRNLQAARIAVIEDGTAYGTDFADSFVSGV 187 A LAE R+LQ RI VI+ AY AD+ V + Sbjct: 148 TRELAATLAEVATRSLQGRRIFVIQSDAAYSRALADTLVENL 189 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 93.2 bits (230), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 57/159 (35%), Positives = 87/159 (54%), Gaps = 7/159 (4%) Query: 30 VGVAAPLTSPRTESGIA---AVRLAFDEANRRAIRIGGKQLVFRLLVEDDKGDALFATPI 86 +G A PL+ P G + V+LA EANRR +RIGGK RL+ +DD+ D A + Sbjct: 42 IGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATAEFV 101 Query: 87 AQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQIPIATTSSRFPREGLRTIFQ-VQGH 145 A+ ++ +V+ V+GHW SG S+A A +Y AG+ Q+ + S R IF+ + + Sbjct: 102 ARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRIFRTIPNN 161 Query: 146 DGVGAVRLAE-FVVRNLQAARIAVIEDGTAYGTDFADSF 183 + +G RLA + V L+ I I+D T +G A+ F Sbjct: 162 ESLG--RLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQF 198 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 90.5 bits (223), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 50/163 (30%), Positives = 90/163 (55%), Gaps = 4/163 (2%) Query: 26 QLVLVGVAAPLTSPRTESGI---AAVRLAFDEANRRAIRIGGKQLVFRLLVEDDKGDALF 82 Q+V +G ++PLT P+ +G + +A + N + I +GGK++ F ++ EDD+ D Sbjct: 28 QVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAEDDQADPKS 87 Query: 83 ATPIAQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQIPIATTSSRFPREGLRTIFQV 142 +AQ V ++G +NSG +I + +Y+ AGI +A ++ + ++G T+F+V Sbjct: 88 GVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVATVA-SNPKITQQGFATLFRV 146 Query: 143 QGHDGVGAVRLAEFVVRNLQAARIAVIEDGTAYGTDFADSFVS 185 D ++A + + L+ R+AVI+D TAYG A F+ Sbjct: 147 AASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIK 189 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 57.0 bits (136), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 86/183 (46%), Gaps = 15/183 (8%) Query: 2 KLCILLPALFLSVAAHAQSVDATEQLVLVGVAAPLTSPRTESGIA---AVRLAFDEANRR 58 K + A +S+A +Q+ D + +GV+ P T G++ V+LA E N Sbjct: 4 KTQAFVAAALMSLALTSQAADP----IKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINA- 58 Query: 59 AIRIGGKQLVFRLLVEDDKGDALFATPIAQYFI-RSKVVGVIGHWNSGPSIAVAGLYSAA 117 A + G+Q+ +L+ DD+ IAQ I + KVV +G N+G ++A Y A Sbjct: 59 AGGLLGRQI--QLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEA 116 Query: 118 GIPQIPIATT----SSRFPREGLRTIFQVQGHDGVGAVRLAEFVVRNLQAARIAVIEDGT 173 IP I T + +F +E +F+ D + A +A+ V + ++A++ D T Sbjct: 117 KIPVINNVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADST 176 Query: 174 AYG 176 YG Sbjct: 177 NYG 179 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 0.322 0.136 0.388 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: 624,508 Number of extensions: 25752 Number of successful extensions: 89 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 87 Number of HSP's successfully gapped: 6 Length of query: 197 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 117 Effective length of database: 1,241,070 Effective search space: 145205190 Effective search space used: 145205190 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 (22.0 bits) S2: 128 (53.9 bits)