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= 0001.3660.p (131 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313045|ref|YP_003777137.1| two component sensor histidine ... 215 1e-57 gi|300310565|ref|YP_003774657.1| response regulator containing a... 65 1e-12 gi|300311034|ref|YP_003775126.1| chemotaxis response regulator p... 64 4e-12 gi|300312322|ref|YP_003776414.1| two component hybrid sensor his... 63 6e-12 gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbas... 59 1e-10 >gi|300313045|ref|YP_003777137.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 120 Score = 215 bits (547), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 102/119 (85%), Positives = 111/119 (93%) Query: 12 LPLLLIVDDEIDITDTYAMLLELHGYRVVSAIHGADALTKAQQQWPDLVISDCMMPVMNG 71 +PLLLIVDDE+DITDTY+MLLELHGYRV++A HGADAL KA+Q WPDLVISDCMMPVMNG Sbjct: 1 MPLLLIVDDEVDITDTYSMLLELHGYRVITACHGADALDKARQHWPDLVISDCMMPVMNG 60 Query: 72 LELCAALRALPGGPALPIILCSGAPERHDLSQSSHNLFLRKPVFFERLLQEIQRLLPTR 130 LELCAALR LPGG LP+ILCSGAPERHDLSQSSHNLFLRKPVFF+RLL+EI RLLP R Sbjct: 61 LELCAALRRLPGGAQLPVILCSGAPERHDLSQSSHNLFLRKPVFFDRLLEEIGRLLPGR 119 >gi|300310565|ref|YP_003774657.1| response regulator containing a CheY-like receiver domain and an HD-GYP domain [Herbaspirillum seropedicae SmR1] Length = 348 Score = 65.5 bits (158), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 40/122 (32%), Positives = 65/122 (53%), Gaps = 3/122 (2%) Query: 12 LPLLLIVDDEIDITDTYAMLLELHGYRVVSAIHGADALTKAQQQWPDLVISDCMMPVMNG 71 + +L++ DD+ +++ ML ++ R+ + AL Q+ PDL++ D MMP M+G Sbjct: 4 MNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAPDLILLDYMMPGMDG 63 Query: 72 LELCAALRALPGGPALPIILCS---GAPERHDLSQSSHNLFLRKPVFFERLLQEIQRLLP 128 L+ + RA+PG P+I+ + G RH Q S N FL KPV LL ++ +L Sbjct: 64 LDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVKNMLA 123 Query: 129 TR 130 R Sbjct: 124 MR 125 >gi|300311034|ref|YP_003775126.1| chemotaxis response regulator protein [Herbaspirillum seropedicae SmR1] Length = 126 Score = 63.9 bits (154), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 42/118 (35%), Positives = 67/118 (56%), Gaps = 4/118 (3%) Query: 15 LLIVDDEIDITDTYAMLLELHGYRVVSAIHGADALTKAQQQW-PDLVISDCMMPVMNGLE 73 + +VDD + + LE+ G+ V +A G AL K Q + PDL+I+D MP M+GLE Sbjct: 7 IFLVDDSATMLMSVRSHLEMAGFAVDTAEDGVKALKKMQAGYKPDLLITDINMPNMDGLE 66 Query: 74 LCAALRALPGGPALPIILC---SGAPERHDLSQSSHNLFLRKPVFFERLLQEIQRLLP 128 L +RALPG +PI+ S + +R + ++ +L KPV LL+ ++++LP Sbjct: 67 LIRNVRALPGFRFIPILTLTTESQSGKRDEGKKAGATGWLVKPVGGADLLKIVRQVLP 124 >gi|300312322|ref|YP_003776414.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 775 Score = 63.2 bits (152), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 38/129 (29%), Positives = 61/129 (47%), Gaps = 4/129 (3%) Query: 3 GVSPPQQAVLPLLLIVDDEIDITDTYAMLLELHGYRVVSAIHGADALTKAQQQWPDLVIS 62 G +P A +L+VDD + + + LL GY+V A+ G D + DLVI+ Sbjct: 643 GAAPTTTAARKKVLVVDDSLTVRELERKLLTNRGYQVTVAVDGMDGWNAVRADSFDLVIT 702 Query: 63 DCMMPVMNGLELCAALRALPGGPALPIILCSGAPERHD----LSQSSHNLFLRKPVFFER 118 D MP M+G+EL + +R +LP+++ S D L + + F + E Sbjct: 703 DIDMPRMDGIELVSLIRGAANLQSLPVMIVSYKDREEDRQRGLEAGADHYFTKSSFHDES 762 Query: 119 LLQEIQRLL 127 LLQ + L+ Sbjct: 763 LLQAVTDLI 771 >gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbaspirillum seropedicae SmR1] Length = 121 Score = 59.3 bits (142), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 37/116 (31%), Positives = 60/116 (51%), Gaps = 3/116 (2%) Query: 15 LLIVDDEIDITDTYAMLLELHGYRVVSAIHGADALTKAQQQWPDLVISDCMMPVMNGLEL 74 +L VDD + L+ GY V A+ G DAL KA+ Q DLV++D MP M+GL L Sbjct: 5 ILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKSQTFDLVLTDQNMPRMDGLTL 64 Query: 75 CAALRALPGGPALPIILCS---GAPERHDLSQSSHNLFLRKPVFFERLLQEIQRLL 127 +LR L +PI++ + + + N +L KP +RL + +++++ Sbjct: 65 IRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI 120 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 0.323 0.139 0.418 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: 353,776 Number of extensions: 10748 Number of successful extensions: 126 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 8 Length of query: 131 Length of database: 1,619,870 Length adjustment: 75 Effective length of query: 56 Effective length of database: 1,264,745 Effective search space: 70825720 Effective search space used: 70825720 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 125 (52.8 bits)