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= 0003.0054.p (208 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 155 3e-39 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 151 4e-38 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 148 3e-37 gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 147 7e-37 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 155 bits (392), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 80/167 (47%), Positives = 106/167 (63%), Gaps = 1/167 (0%) Query: 40 FSGDVVKIGILNDQSGLYADLAGLGSVEAAKMAIEEMGGAVAGKKIELVSGNHQNKADVG 99 SGDV+KIG + D SG+Y+D+ G G EA KMAI +MGGA+ GKKIEL+ +HQNKADV Sbjct: 26 ISGDVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQNKADVA 85 Query: 100 AVIARGWFDKDGVDMIADFSNSSVAFAVQGLAAERGKIAM-IAAASSDFTGKSCTATSAQ 158 A AR WFD+ GVDM+ +NS A A +AAE+ K+ M I A S+ T + C+ + Sbjct: 86 ASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVH 145 Query: 159 WVYNSYTNGYGLAKVLTEQGYNSWFLLTVDYAFGHAFASDMKAAIKA 205 + Y++ G + +QG SWF LT DYAFGH+ SD +KA Sbjct: 146 YAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKA 192 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 151 bits (381), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 82/194 (42%), Positives = 116/194 (59%), Gaps = 3/194 (1%) Query: 14 TAGLKRTGLAALLACAFAGAQAAPGV-FSGDVVKIGILNDQSGLYADLAGLGSVEAAKMA 72 T ++R L+A ACA GA P +GD +KIG + D SG YAD G G VEA +MA Sbjct: 2 TPFIRRAALSAT-ACALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMA 60 Query: 73 IEEMGGAVAGKKIELVSGNHQNKADVGAVIARGWFDKDGVDMIADFSNSSVAFAVQGLAA 132 I + GGA+ GKK+ELV +HQNKAD+ A AR WFD+DGVDM+ NS+ + A+ +A Sbjct: 61 IADAGGAINGKKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAG 120 Query: 133 ERGKIAM-IAAASSDFTGKSCTATSAQWVYNSYTNGYGLAKVLTEQGYNSWFLLTVDYAF 191 E+ K+ + + A ++ T + C A + Q+ Y++ G +T QG SW+ LT DYAF Sbjct: 121 EKKKVFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAF 180 Query: 192 GHAFASDMKAAIKA 205 G + D +K+ Sbjct: 181 GTSLEKDTSEVVKS 194 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 148 bits (373), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 78/190 (41%), Positives = 114/190 (60%), Gaps = 3/190 (1%) Query: 17 LKRTGLAALLACAFAGAQAAPGVFSGDVVKIGILNDQSGLYADLAGLGSVEAAKMAIEEM 76 L+R A +A F+GA A S D V+IG + D SG YAD GLG +EA +MA+ + Sbjct: 7 LRRLAAACAIAGIFSGAALAQ--VSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADF 64 Query: 77 GGAVAGKKIELVSGNHQNKADVGAVIARGWFDKDGVDMIADFSNSSVAFAVQGLAAERGK 136 GG V GK IE++S +HQNKAD+ A AR W D+ G+DM+ NS+ A ++ + AE+ + Sbjct: 65 GGTVLGKPIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKR 124 Query: 137 IAM-IAAASSDFTGKSCTATSAQWVYNSYTNGYGLAKVLTEQGYNSWFLLTVDYAFGHAF 195 + + I A ++ T + CT + + Y++ G A + +QG SWF L DYAFGH+ Sbjct: 125 VYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHSL 184 Query: 196 ASDMKAAIKA 205 A+D A +KA Sbjct: 185 ANDTSAVVKA 194 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 147 bits (370), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 84/193 (43%), Positives = 116/193 (60%), Gaps = 4/193 (2%) Query: 17 LKRTGLAALLACAFAGAQAAPGVFSGD--VVKIGILNDQSGLYADLAGLGSVEAAKMAIE 74 L R+ AA +AC + A A ++ D VKIG+L D SG Y+ + G GSV AAKMA+E Sbjct: 6 LGRSLTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVE 65 Query: 75 E-MGGAVAGKKIELVSGNHQNKADVGAVIARGWFDKDGVDMIADFSNSSVAFAVQGLAAE 133 + + G KIE++S ++QNK DVG AR W D+D V+ IAD +NSSVA AVQ L + Sbjct: 66 DCLKNECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIKD 125 Query: 134 RGKIAMIA-AASSDFTGKSCTATSAQWVYNSYTNGYGLAKVLTEQGYNSWFLLTVDYAFG 192 +G IAM + A+ T C W++++Y+ G A LT+ G SW+ +TVDYAFG Sbjct: 126 KGGIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTVDYAFG 185 Query: 193 HAFASDMKAAIKA 205 H+ D +KA Sbjct: 186 HSLEKDASDVVKA 198 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 0.317 0.129 0.375 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: 575,535 Number of extensions: 21296 Number of successful extensions: 103 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 101 Number of HSP's successfully gapped: 4 Length of query: 208 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 127 Effective length of database: 1,236,335 Effective search space: 157014545 Effective search space used: 157014545 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 128 (53.9 bits)