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= 0001.2958.p (121 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbas... 243 4e-66 gi|300309955|ref|YP_003774047.1| two-component system sensor his... 122 1e-29 gi|300311034|ref|YP_003775126.1| chemotaxis response regulator p... 102 7e-24 gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbas... 99 1e-22 gi|300311785|ref|YP_003775877.1| chemotaxis response regulator C... 97 3e-22 >gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbaspirillum seropedicae SmR1] Length = 121 Score = 243 bits (619), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 119/121 (98%), Positives = 120/121 (99%) Query: 1 MSKTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKTHTFDLVLTDQNMPRMD 60 MSKTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAK+ TFDLVLTDQNMPRMD Sbjct: 1 MSKTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKSQTFDLVLTDQNMPRMD 60 Query: 61 GLTLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI 120 GLTLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI Sbjct: 61 GLTLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI 120 Query: 121 G 121 G Sbjct: 121 G 121 >gi|300309955|ref|YP_003774047.1| two-component system sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 122 Score = 122 bits (305), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 58/120 (48%), Positives = 80/120 (66%) Query: 1 MSKTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKTHTFDLVLTDQNMPRMD 60 M K IL VDDS SLRQ + +LK+AGY+V EA DG AL F+LV++D NMP +D Sbjct: 1 MEKNILIVDDSFSLRQTISAALKSAGYHVEEAADGKQALAHLDGRKFNLVISDLNMPHLD 60 Query: 61 GLTLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI 120 GL+ +R ++++ +Y P++MLTTE S+ K +GKAAG W+ KPF P L + V K+I Sbjct: 61 GLSFVREMKQMPAYKFTPVIMLTTESSEARKQEGKAAGIRAWVHKPFQPPVLLDAVAKLI 120 >gi|300311034|ref|YP_003775126.1| chemotaxis response regulator protein [Herbaspirillum seropedicae SmR1] Length = 126 Score = 102 bits (255), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 57/120 (47%), Positives = 77/120 (64%), Gaps = 1/120 (0%) Query: 2 SKTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKT-HTFDLVLTDQNMPRMD 60 SK+I VDDS ++ V L+ AG+ V A DGV AL+K + + DL++TD NMP MD Sbjct: 4 SKSIFLVDDSATMLMSVRSHLEMAGFAVDTAEDGVKALKKMQAGYKPDLLITDINMPNMD 63 Query: 61 GLTLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI 120 GL LIR++R L + +PIL LTTE + +GK AGA GWLVKP L ++VR+V+ Sbjct: 64 GLELIRNVRALPGFRFIPILTLTTESQSGKRDEGKKAGATGWLVKPVGGADLLKIVRQVL 123 >gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 131 Score = 98.6 bits (244), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 51/117 (43%), Positives = 75/117 (64%), Gaps = 1/117 (0%) Query: 5 ILAVDDSGSLRQMVVFSLKAAGY-NVTEAVDGVDALEKAKTHTFDLVLTDQNMPRMDGLT 63 L VDD ++R++V LK GY NV EA DGV AL+K ++ FD V++D NMP MDGLT Sbjct: 8 FLVVDDFSTMRRIVRNLLKELGYTNVDEAEDGVQALQKLRSDQFDFVVSDWNMPNMDGLT 67 Query: 64 LIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVI 120 +++ +R+ + +++P+LM+T E E AGANG++VKPF L E + K+ Sbjct: 68 MLQEIRKDPALSKLPVLMVTAEAKKENIVAAAQAGANGYVVKPFTAATLDEKLGKIF 124 >gi|300311785|ref|YP_003775877.1| chemotaxis response regulator CheY [Herbaspirillum seropedicae SmR1] Length = 122 Score = 97.4 bits (241), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 56/118 (47%), Positives = 71/118 (60%), Gaps = 1/118 (0%) Query: 5 ILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKTH-TFDLVLTDQNMPRMDGLT 63 IL VDDS ++R V LK G +V AVDG D L K K LV++D NMP MDGLT Sbjct: 4 ILVVDDSSTVRAEVGDFLKKNGLDVALAVDGRDGLSKLKGDPAIKLVVSDVNMPNMDGLT 63 Query: 64 LIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKPFDPQRLTEVVRKVIG 121 + +R A V I+MLTTE S MK +GKAAG GW+VKPF + + +K++G Sbjct: 64 MAEKIRSELGNASVNIIMLTTENSPIMKERGKAAGIKGWIVKPFKGEAVLPTFKKLVG 121 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 0.318 0.133 0.367 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: 289,199 Number of extensions: 8787 Number of successful extensions: 163 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 44 Length of query: 121 Length of database: 1,619,870 Length adjustment: 74 Effective length of query: 47 Effective length of database: 1,269,480 Effective search space: 59665560 Effective search space used: 59665560 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: 125 (52.8 bits)