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= 0092.0014.p (136 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309871|ref|YP_003773963.1| transcription regulator protein... 89 2e-19 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 80 8e-17 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 70 5e-14 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 66 1e-12 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 64 5e-12 >gi|300309871|ref|YP_003773963.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 88.6 bits (218), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 81/142 (57%), Gaps = 11/142 (7%) Query: 1 MRQRVLFREHYVLVGRSGHP-KLRRKPTAAQFCTLEHVIVSPDGGGFRGVTDEALAAAGL 59 +R + LFR+ +V R+GHP R+ +A ++C +HV SP G G EALAA GL Sbjct: 177 VRLQTLFRDRFVGAVRTGHPLAALRRVSAERYCAFDHVSASPRGVAA-GPLHEALAARGL 235 Query: 60 TRRVVLSVPHFLFMMSVLANTDLVAMLPSRLLR--------GSAA-LQVVEPPVDVAGYD 110 RRVV VP F ++V+ +DLV M+P L GSAA + V E P+ + Sbjct: 236 VRRVVAVVPSFPGALAVVRTSDLVTMVPGSFLTRAGAERKDGSAAGIHVFELPLPLEPII 295 Query: 111 MAMLWHERSHRDPAHQWLREHL 132 ++++WH R DPAH+WLR+ + Sbjct: 296 VSLMWHPRVELDPAHRWLRDKV 317 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 79.7 bits (195), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 45/131 (34%), Positives = 69/131 (52%), Gaps = 4/131 (3%) Query: 6 LFREHYVLVGRSGHPKLRRKPTAAQFCTLEHVIVSPDGGGFRGVTDEALAAAGLTRRVVL 65 L+ YV V HP + T +C +H++VS G V D+ LA R+++L Sbjct: 176 LYTGQYVCVMHKSHPLAGQPLTLDSYCNADHLLVSLSGKP-HAVIDDVLAGMNRERKILL 234 Query: 66 SVPHFLFMMSVLANTDLVAMLPSRLLRGSA---ALQVVEPPVDVAGYDMAMLWHERSHRD 122 +V F ++A+++L+ +LP L+ + AL V E P + MLWHER R+ Sbjct: 235 TVNQFFTAGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARN 294 Query: 123 PAHQWLREHLA 133 PAH+WLR HL+ Sbjct: 295 PAHKWLRAHLS 305 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 70.1 bits (170), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 45/144 (31%), Positives = 75/144 (52%), Gaps = 11/144 (7%) Query: 1 MRQRVLFREHYVLVGRSGH---PKLRRKPTAAQFCTLEHVIVSPDGGGFRGVTDEALAAA 57 + QR LFR+ YV + R GH R + + +F EH++VS + + ++ L A Sbjct: 164 LYQRRLFRQEYVSMFRIGHALDKPGRGEVSLKEFLAAEHLMVSSQESPYDRI-NQNLEKA 222 Query: 58 GLTRRVVLSVPHFLFMMSVLANTDLVAMLPSRLLRGSAA---LQVVEPPVDVAGYDMAML 114 G+ V VPHF + ++++T LV +P +L +AA L+ ++PP+ + M Sbjct: 223 GILPSVRFRVPHFTAVPYIVSSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMF 282 Query: 115 WHERSHRDPAHQWLR----EHLAD 134 WH R ++D + WLR EH A+ Sbjct: 283 WHRRYNQDEGNVWLRGFISEHFAE 306 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 65.9 bits (159), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 39/130 (30%), Positives = 70/130 (53%), Gaps = 4/130 (3%) Query: 3 QRVLFREHYVLVGRSGHPKLRRKPTAAQFCTLEHVIVSPDGGGFRGVTDEALAAAGLTRR 62 Q+ LF + +V + R+GHP +K + + H++V +G + + + L + RR Sbjct: 162 QQRLFSQDFVCLLRAGHPLPAQKISLEHYQAAGHIVVKAEGRD-QPMCERFLLRRKIRRR 220 Query: 63 VVLSVPHFLFMMSVLANTDLVAMLP---SRLLRGSAALQVVEPPVDVAGYDMAMLWHERS 119 VVLS HF+ + ++A +DLVA +P + A +++VEP ++ D+ WH + Sbjct: 221 VVLSTAHFMAIPLLVATSDLVATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKY 280 Query: 120 HRDPAHQWLR 129 H+D + WLR Sbjct: 281 HKDAGNAWLR 290 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 63.5 bits (153), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 40/137 (29%), Positives = 68/137 (49%), Gaps = 9/137 (6%) Query: 5 VLFREHYVLV--GRSGHPKLRRKPTAAQFCTLEHVIVSPDGGGFRGVTDEALAAAGLTRR 62 +LFRE YV + R G P+ R + +F + HV+V V + + G+ RR Sbjct: 166 LLFRETYVCLMRQRDGLPQ-RAQLELDEFLAMSHVLVESAESSHHQV-ENSFQKLGVQRR 223 Query: 63 VVLSVPHFLFMMSVLANTDLVAMLPSRLLR-----GSAALQVVEPPVDVAGYDMAMLWHE 117 + LS+PHF + +L +DLVA +P+R+ R + PV++ ++ + WH+ Sbjct: 224 ISLSIPHFTVLPRILGKSDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQ 283 Query: 118 RSHRDPAHQWLREHLAD 134 D + WLR+ + D Sbjct: 284 SFDHDAGNSWLRQIVID 300 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 0.326 0.137 0.423 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: 473,826 Number of extensions: 18746 Number of successful extensions: 87 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 82 Number of HSP's successfully gapped: 5 Length of query: 136 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 60 Effective length of database: 1,260,010 Effective search space: 75600600 Effective search space used: 75600600 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 125 (52.8 bits)