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= 0093.0004.p (85 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot... 110 3e-26 gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 62 6e-12 gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 55 1e-09 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 54 4e-09 >gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 510 Score = 110 bits (274), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 56/66 (84%), Positives = 61/66 (92%) Query: 1 VQDQAVKAAQLSERLALSQYQAGTTTYLSVVTTQATSLTNQRTAVTLLGRQLVASVALIK 60 VQ QAV++AQL+ERLA+ QY+AGT TYLSVVTTQA SLTNQR AVTLLGRQLVASVALIK Sbjct: 438 VQAQAVQSAQLAERLAMRQYEAGTVTYLSVVTTQAASLTNQRNAVTLLGRQLVASVALIK 497 Query: 61 ATGGGW 66 ATGGGW Sbjct: 498 ATGGGW 503 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 62.4 bits (150), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 31/72 (43%), Positives = 52/72 (72%) Query: 1 VQDQAVKAAQLSERLALSQYQAGTTTYLSVVTTQATSLTNQRTAVTLLGRQLVASVALIK 60 VQ +A++AA+ + L +QY+AGT +Y++V+T QAT+L+ + +++ +L R++ ASV L K Sbjct: 413 VQGEALQAARQAVTLVNNQYKAGTVSYVNVITAQATALSAELSSLNILNRRMAASVLLAK 472 Query: 61 ATGGGWTVADID 72 A GGGW +D Sbjct: 473 ALGGGWDERSLD 484 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 55.1 bits (131), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 27/62 (43%), Positives = 41/62 (66%) Query: 5 AVKAAQLSERLALSQYQAGTTTYLSVVTTQATSLTNQRTAVTLLGRQLVASVALIKATGG 64 A+ +A+ +A S+Y+ G T YL V+T Q + L ++R A L+G++L+ SV LIKA GG Sbjct: 408 AIASARRVLEIASSRYEGGATPYLDVITAQQSLLNSERQAAQLMGQRLLVSVFLIKALGG 467 Query: 65 GW 66 W Sbjct: 468 DW 469 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 53.5 bits (127), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 29/68 (42%), Positives = 43/68 (63%) Query: 2 QDQAVKAAQLSERLALSQYQAGTTTYLSVVTTQATSLTNQRTAVTLLGRQLVASVALIKA 61 QD+AV A+ + +L+ +QY+ G +Y SV+ T L QR +VTL G + ++V LI+A Sbjct: 429 QDEAVAASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRA 488 Query: 62 TGGGWTVA 69 GGGW V Sbjct: 489 LGGGWGVP 496 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 0.309 0.118 0.305 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: 171,138 Number of extensions: 4220 Number of successful extensions: 34 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 34 Number of HSP's successfully gapped: 4 Length of query: 85 Length of database: 1,619,870 Length adjustment: 55 Effective length of query: 30 Effective length of database: 1,359,445 Effective search space: 40783350 Effective search space used: 40783350 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 123 (52.0 bits)