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= 0025.0005.p (146 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313310|ref|YP_003777402.1| sugar ABC transporter ATPase [H... 272 8e-75 gi|300310371|ref|YP_003774463.1| sugar ABC transporter ATPase [H... 92 1e-20 gi|300311609|ref|YP_003775701.1| sugar ABC transporter ATPase [H... 91 3e-20 gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [H... 80 6e-17 gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase... 72 2e-14 >gi|300313310|ref|YP_003777402.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 502 Score = 272 bits (696), Expect = 8e-75, Method: Compositional matrix adjust. Identities = 134/146 (91%), Positives = 137/146 (93%) Query: 1 VIDRAAEAELGRQWHERVAIRTPDLSNNILSLSGGNQQKVLFARALSSDAELILMDDPMR 60 V+DRAAE ELGRQWHERVAIRTPDL+NN+LSLSGGNQQKVLFARALSSDAELILMDDPMR Sbjct: 357 VVDRAAERELGRQWHERVAIRTPDLNNNMLSLSGGNQQKVLFARALSSDAELILMDDPMR 416 Query: 61 GVDFGTKVDMYRLIRAEAARGRSFVWYTTENDELEYCDATYVFYQQQVTLKLARHELSEE 120 GVDFGTKVDMYRLIRAEAARGRSFVWYTTENDELEYCDATYVFYQQQVTLKLARHELSEE Sbjct: 417 GVDFGTKVDMYRLIRAEAARGRSFVWYTTENDELEYCDATYVFYQQQVTLKLARHELSEE 476 Query: 121 RIIAASFGNVRADGGTVTPPLEGARA 146 RIIAASFGN RA PLEGARA Sbjct: 477 RIIAASFGNARAAADAAAAPLEGARA 502 >gi|300310371|ref|YP_003774463.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 92.4 bits (228), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 47/134 (35%), Positives = 78/134 (58%), Gaps = 1/134 (0%) Query: 1 VIDRAAEAELGRQWHERVAIRTPDLSNNILSLSGGNQQKVLFARALSSDAELILMDDPMR 60 VID A E ++ + +++ IR + +++LSGGNQQKV+ ++ L S E++++D+P R Sbjct: 377 VIDEAREYKIAADFKQQMRIRCSSVLQKVVNLSGGNQQKVVLSKWLFSQPEVLILDEPTR 436 Query: 61 GVDFGTKVDMYRLIRAEAARGRSFVWYTTENDE-LEYCDATYVFYQQQVTLKLARHELSE 119 G+D G K ++Y +I AA G+ + ++E E L CD YV + Q L + E ++ Sbjct: 437 GIDVGAKFEIYNIISKLAAEGKCIIMISSEMPELLGMCDRIYVMNEGQFVGHLPKAEATQ 496 Query: 120 ERIIAASFGNVRAD 133 E I+ A N R D Sbjct: 497 ENIMRAIMRNKRID 510 >gi|300311609|ref|YP_003775701.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 522 Score = 91.3 bits (225), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 47/128 (36%), Positives = 79/128 (61%), Gaps = 1/128 (0%) Query: 1 VIDRAAEAELGRQWHERVAIRTPDLSNNILSLSGGNQQKVLFARALSSDAELILMDDPMR 60 ++D AAE+ + + + +++ IR+ ++ LSGGNQQKV+ AR L D ++L D+P R Sbjct: 375 MLDHAAESSVAQDYVKKLRIRSGSVAQAAGELSGGNQQKVVIARWLYRDCPIMLFDEPTR 434 Query: 61 GVDFGTKVDMYRLIRAEAARGRSFVWYTTENDEL-EYCDATYVFYQQQVTLKLARHELSE 119 G+D G K D+YRL AA+G+ + +++ EL + CD V ++ +R + S+ Sbjct: 435 GIDIGAKSDIYRLFAELAAQGKGLLVVSSDLRELMQICDRIAVMSAGRIADTFSRDDWSQ 494 Query: 120 ERIIAASF 127 ERI+AA+F Sbjct: 495 ERILAAAF 502 >gi|300310382|ref|YP_003774474.1| sugar ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 80.1 bits (196), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 41/123 (33%), Positives = 75/123 (60%), Gaps = 1/123 (0%) Query: 2 IDRAAEAELGRQWHERVAIRTPDLSNNILSLSGGNQQKVLFARALSSDAELILMDDPMRG 61 +D+ A E + + ++AI+TP + LSGGNQQK++ A+ L D +++ D+P RG Sbjct: 386 MDQRAIREAAQMYVRQLAIKTPSVEQQARLLSGGNQQKIVIAKWLLRDCDILFFDEPTRG 445 Query: 62 VDFGTKVDMYRLIRAEAARGRSFVWYTTENDE-LEYCDATYVFYQQQVTLKLARHELSEE 120 +D G K ++Y+L+ A A +G++ V ++E E L V + ++T +LAR + ++E Sbjct: 446 IDVGAKSEIYKLLDALAEQGKAIVMISSELPEVLRMSHRVLVMCEGRITGELARADATQE 505 Query: 121 RII 123 +I+ Sbjct: 506 KIM 508 >gi|300313777|ref|YP_003777869.1| D-xylose ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 518 Score = 72.0 bits (175), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 48/132 (36%), Positives = 72/132 (54%), Gaps = 11/132 (8%) Query: 2 IDRAAEA-----ELGRQWHERVAIRTPDLSNNILSLSGGNQQKVLFARALSSDAELILMD 56 ID +AE E+GR RV TP L I SLSGGNQQK + A+ L + +++++D Sbjct: 378 IDGSAELKTIQDEIGRM---RVKTATPFLP--ITSLSGGNQQKAVLAKMLLAQPKVLILD 432 Query: 57 DPMRGVDFGTKVDMYRLIRAEAARGRSFVWYTTENDE-LEYCDATYVFYQQQVTLKLARH 115 +P RGVD G K ++YRLI A G + + ++E E L D V + ++ Sbjct: 433 EPTRGVDVGAKAEIYRLISELAKAGLAIIMVSSELAEVLGVSDRVLVIGEGRLRGDFVND 492 Query: 116 ELSEERIIAASF 127 LS+E ++AA+ Sbjct: 493 NLSQETVLAAAI 504 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 0.319 0.134 0.386 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: 445,267 Number of extensions: 15934 Number of successful extensions: 204 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 207 Number of HSP's successfully gapped: 11 Length of query: 146 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 69 Effective length of database: 1,255,275 Effective search space: 86613975 Effective search space used: 86613975 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 (21.8 bits) S2: 126 (53.1 bits)