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= 0001.1027.p (144 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152980805|ref|YP_001354155.1| biopolymer transport protein To... 193 3e-51 gi|152981777|ref|YP_001351936.1| biopolymer transport protein Ex... 67 3e-13 gi|152981671|ref|YP_001354584.1| biopolymer transport protein Ex... 66 9e-13 gi|152980542|ref|YP_001352053.1| biopolymer transport protein Ex... 57 4e-10 >gi|152980805|ref|YP_001354155.1| biopolymer transport protein TolR [Janthinobacterium sp. Marseille] Length = 146 Score = 193 bits (491), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 94/144 (65%), Positives = 111/144 (77%) Query: 1 MAGSSMRGGRPRKFKSEINVVPYIDVMLVLLIIFMVATPITNPSVINLPTAGKSTQPPSD 60 + SMRGGR RKFKSEINVVPYIDVMLVLL+IFMVA P+TNP VINLP A KST PP++ Sbjct: 3 FSSGSMRGGRTRKFKSEINVVPYIDVMLVLLVIFMVAAPLTNPGVINLPNAAKSTLPPTE 62 Query: 61 YIEIALKPNAQATIRINGPKSGGKKAETVTGKTDLAERLRQLHEDNPDLAVMISADKDIK 120 YI I L+P+ AT+ I G K G ET + LA++L+ +H D P+L VMISADK+IK Sbjct: 63 YIRIDLRPDTSATLTIAGSKGGKAPTETAANRAALAQKLQAIHADRPELPVMISADKNIK 122 Query: 121 YDDVVQVISEAKKQGIARVGLATK 144 YD+V+Q ISEAKK GI RVGLATK Sbjct: 123 YDEVIQAISEAKKLGIERVGLATK 146 >gi|152981777|ref|YP_001351936.1| biopolymer transport protein ExbD [Janthinobacterium sp. Marseille] Length = 142 Score = 67.4 bits (163), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 43/138 (31%), Positives = 67/138 (48%), Gaps = 10/138 (7%) Query: 8 GGRPRKFKSEINVVPYIDVMLVLLIIFMVATP-ITNPSVINLPTAGKSTQPPSDYIEIAL 66 GG SEIN P +DVMLVLLIIF++ P +TN +NLP +++ Sbjct: 8 GGEEDSVVSEINTTPLVDVMLVLLIIFLITIPVVTNTIAVNLPHE-------ENHVRETK 60 Query: 67 KPNAQATIRINGPKSGGKKAETVTGKTDLAERLRQLHEDNPDLAVMISADKDIKYDDVVQ 126 N ++ NG + E++ G L RL+ + P + I D D KY+ + + Sbjct: 61 PENINLSVDKNGKIYWDQ--ESIAGAEALTTRLKTVAVQQPQPEIQIRGDGDAKYEAIGR 118 Query: 127 VISEAKKQGIARVGLATK 144 VI ++ GI ++G T+ Sbjct: 119 VIFACQRAGIVKIGFITE 136 >gi|152981671|ref|YP_001354584.1| biopolymer transport protein ExbD [Janthinobacterium sp. Marseille] Length = 142 Score = 65.9 bits (159), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 42/130 (32%), Positives = 71/130 (54%), Gaps = 11/130 (8%) Query: 16 SEINVVPYIDVMLVLLIIFMVATPITNPSV-INLPTAGKSTQPPSDYIEIALKPNAQATI 74 ++INV P +DVMLVLL+IF++ P+ ++ ++LP+A +S P++ I+L N + Sbjct: 16 ADINVTPMVDVMLVLLVIFIITAPLFTHAIKLDLPSA-QSAPAPTEPTTISLSINGAGAV 74 Query: 75 RINGPKSGGKKAETVTGKTDLAERLRQLHEDNPDLAVMISADKDIKYDDVVQVISEAKKQ 134 N + VT DL RL + P V + ADK +Y+ + QV++ A+ Sbjct: 75 FWNN--------DAVT-LDDLNTRLATAAKQQPQPQVQLRADKGTRYEVIAQVMASAQGN 125 Query: 135 GIARVGLATK 144 GI ++G T+ Sbjct: 126 GITKLGFVTE 135 >gi|152980542|ref|YP_001352053.1| biopolymer transport protein ExbD [Janthinobacterium sp. Marseille] Length = 136 Score = 57.0 bits (136), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 41/133 (30%), Positives = 69/133 (51%), Gaps = 13/133 (9%) Query: 14 FKSEINVVPYIDVMLVLLIIFMVATPITNPSV-INLPTAGKSTQPPSDYIEIALKPNAQA 72 F EIN P +DVMLVLLIIF++ P+ N +V ++LP A P+D +KP Sbjct: 12 FNPEINTTPLVDVMLVLLIIFIMTIPVMNHAVKLDLPHAANQ---PND-----VKPE--- 60 Query: 73 TIRINGPKSGGKKAET-VTGKTDLAERLRQLHEDNPDLAVMISADKDIKYDDVVQVISEA 131 TI ++ +G V ++ + R+ + P + + AD+ Y+ V QV++ A Sbjct: 61 TINVSIDAAGQVYWNNEVLDQSQMLSRIADAAKVTPQPELHLRADRLTPYEKVAQVMAAA 120 Query: 132 KKQGIARVGLATK 144 + G+ ++G T+ Sbjct: 121 QSGGLTKMGFVTE 133 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.315 0.133 0.364 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 324,686 Number of extensions: 12138 Number of successful extensions: 46 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 45 Number of HSP's successfully gapped: 5 Length of query: 144 Length of database: 1,221,021 Length adjustment: 75 Effective length of query: 69 Effective length of database: 943,746 Effective search space: 65118474 Effective search space used: 65118474 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: 42 (22.0 bits) S2: 125 (52.8 bits)