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= 0005.0185.p (606 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313839|ref|YP_003777931.1| MetE/MetH family transcription ... 254 1e-68 gi|300311589|ref|YP_003775681.1| dienelactone hydrolase [Herbasp... 107 3e-24 gi|300310159|ref|YP_003774251.1| LysR family transcription regul... 59 1e-09 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 57 4e-09 gi|300313131|ref|YP_003777223.1| LysR family transcription regul... 57 5e-09 >gi|300313839|ref|YP_003777931.1| MetE/MetH family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 254 bits (650), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 132/172 (76%), Positives = 139/172 (80%), Gaps = 24/172 (13%) Query: 1 MLERIHLAVVQEVEKQGSLTAAANVLCVTQSALSHSMKKLEQQLGTDIWLREGRNLRLTQ 60 ML+RIHL++VQEVE+QGSLTAAA VL VTQSALSHSMKKLEQQLGTDIWLREGR+LRLTQ Sbjct: 1 MLDRIHLSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQ 60 Query: 61 AGEYLLAVANRVLPQLNQAEERLRQFAQGERGALRIGMECHPC----------------- 103 AG+YLLAVANRVLPQL+ AEERLRQFAQGERGALRIGMECHPC Sbjct: 61 AGQYLLAVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPD 120 Query: 104 -------XFQFGGIGALFGYEIDLLVTPDPLYKPGLKFVPVFDYEQVLVGES 148 FQFGGIGALFGYEIDLLVTPDPL KPGL F PVFDYEQVLV S Sbjct: 121 VDVDVKQKFQFGGIGALFGYEIDLLVTPDPLDKPGLVFEPVFDYEQVLVVAS 172 >gi|300311589|ref|YP_003775681.1| dienelactone hydrolase [Herbaspirillum seropedicae SmR1] Length = 329 Score = 107 bits (267), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 93/290 (32%), Positives = 126/290 (43%), Gaps = 35/290 (12%) Query: 343 VVQYPTLAAAMQTTIGPYVFDAAPDAPIAPGQFPVCVVSHGGGGSHLLYRSIAGHLAAHG 402 V YP+ GPY +A +A +A FPV V+SHG GG +R +A LA G Sbjct: 46 VAWYPSKTPETPWQAGPYTIEATRNAAVADAVFPVVVLSHGHGGMPFGHRELATRLAREG 105 Query: 403 YIVVSPEHAGDNRNDRSLSNTDAAAIGRPGQTSRALDAVLADTFFESAADAGRIAMLGHS 462 Y+V++P H GD+ + + I RP Q + AL A +D+ + D R+ +G S Sbjct: 106 YVVIAPIHVGDSAGNLDGYRQGRSLIDRPRQANAALHAAFSDSRLGAHMDPARVGAIGFS 165 Query: 463 MGGYTALALAGG-------------HPWSRS---------------GEALPVVADARIRA 494 GGYTAL +AG HP S GE P D ++A Sbjct: 166 AGGYTALVMAGAVPDFALAGRYCARHPQDSSSCGDGRNTSSSPASAGE--PFQPDYSVKA 223 Query: 495 AVLLAPATDWFMAPGALDDVHVPLLALAGERDPITPAE-SIRKVLSQLPASTPLEFSVVA 553 V++ P F A AL V +P+L PAE + V + LP + P E V+ Sbjct: 224 VVVMDPLAIPFDA-AALASVTMPVLLYRPSDTSFLPAEPNALAVAAGLP-TRPTE--VIV 279 Query: 554 GAGHFSFLTPFPEAMQRPNFPPSQDPPGFDREQFHRELPELIRAFLARTL 603 HF FL P P A +D P DR HR L + I FL + L Sbjct: 280 PGRHFVFLDPCPAAFASQEALLCKDAPEVDRIAIHRRLEDEITGFLHKHL 329 >gi|300310159|ref|YP_003774251.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 36/97 (37%), Positives = 55/97 (56%) Query: 2 LERIHLAVVQEVEKQGSLTAAANVLCVTQSALSHSMKKLEQQLGTDIWLREGRNLRLTQA 61 +E HL V + GS+ AA L + Q ALS +K LE++LG ++ R R LT A Sbjct: 1 MEFRHLRYFLGVVEHGSVAEAARRLHIAQPALSRQIKYLEEELGAALFDRSVRGATLTAA 60 Query: 62 GEYLLAVANRVLPQLNQAEERLRQFAQGERGALRIGM 98 G+ L+ A R+L L + +R+ + A+G G LR+G+ Sbjct: 61 GQQLVIDARRMLADLQETRQRVARVAEGLEGNLRMGI 97 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 32/77 (41%), Positives = 47/77 (61%) Query: 22 AANVLCVTQSALSHSMKKLEQQLGTDIWLREGRNLRLTQAGEYLLAVANRVLPQLNQAEE 81 AA +L +TQ LS + LE +LG ++ R GR +RLT G LA A+R+L QAE Sbjct: 22 AAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTEGRVFLADASRLLQLSEQAES 81 Query: 82 RLRQFAQGERGALRIGM 98 +R+ +QG+ G +R+G Sbjct: 82 TVRRASQGKTGRVRVGF 98 >gi|300313131|ref|YP_003777223.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 56.6 bits (135), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 1/87 (1%) Query: 10 VQEVEKQGSLTAAANVLCVTQSALSHSMKKLEQQLGTDIWLREGRNLRLTQAGEYLLAVA 69 V+ VE +G T AA L V QSALS +K+LE L + RE + LTQAG+ + Sbjct: 11 VEIVEARG-YTRAAERLFVAQSALSRQIKELEADLDVVLLRREAKTFELTQAGQDFYERS 69 Query: 70 NRVLPQLNQAEERLRQFAQGERGALRI 96 ++L L++A + R +GE GALR+ Sbjct: 70 RKILLDLDRAVAQARTIGKGEHGALRL 96 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 0.321 0.134 0.417 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: 1,895,919 Number of extensions: 80589 Number of successful extensions: 357 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 358 Number of HSP's successfully gapped: 9 Length of query: 606 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 515 Effective length of database: 1,188,985 Effective search space: 612327275 Effective search space used: 612327275 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 (21.9 bits) S2: 133 (55.8 bits)