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= 0216.0006.p (178 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310448|ref|YP_003774540.1| transcription regulator protein... 180 7e-47 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 84 9e-18 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 72 4e-14 gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 62 3e-11 gi|300312554|ref|YP_003776646.1| transcription regulator protein... 55 2e-09 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 180 bits (456), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 95/142 (66%), Positives = 106/142 (74%), Gaps = 12/142 (8%) Query: 3 AIDLKSEMESGRVDLAIGAFDNVSGALYQRRLFRQNYVSMFRQGHPLSGK---TVTMKDF 59 AIDLKSEMESGRVDLAIGAFDN+S ALYQRRLFRQ YVSMFR GH L V++K+F Sbjct: 138 AIDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEYVSMFRIGHALDKPGRGEVSLKEF 197 Query: 60 LAAQHLVVSSLESPYDRINQNLEKAGIRANVNFRVPHFTAVPYIVSTTDLIVTVGKNWPR 119 LAA+HL+VSS ESPYDRINQNLEKAGI +V FRVPHFTAVPYIVS+T L+VTV PR Sbjct: 198 LAAEHLMVSSQESPYDRINQNLEKAGILPSVRFRVPHFTAVPYIVSSTALVVTV----PR 253 Query: 120 ARRNHSTYNTFVRPCGCRRCRP 141 + P G R +P Sbjct: 254 -----KLAESAAAPFGLRYIKP 270 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 83.6 bits (205), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 50/139 (35%), Positives = 76/139 (54%), Gaps = 12/139 (8%) Query: 5 DLKSEMESGRVDLAIGAFDNVSGA-LYQRRLFRQNYVSMFRQGHPLSGKTVTMKDFLAAQ 63 +L + +ESG VDLAIG F ++ +Q+RLF Q++V + R GHPL + ++++ + AA Sbjct: 135 ELVAALESGEVDLAIGYFPDLRNRNFFQQRLFSQDFVCLLRAGHPLPAQKISLEHYQAAG 194 Query: 64 HLVVSSLESPYDRINQNLEKAGIRANVNFRVPHFTAVPYIVSTTDLIVTVGKNWPRARRN 123 H+VV + + L + IR V HF A+P +V+T+DL+ TV PRA Sbjct: 195 HIVVKAEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIPLLVATSDLVATV----PRA--- 247 Query: 124 HSTYNTF-VRPCGCRRCRP 141 + F VR G R P Sbjct: 248 ---FGEFVVRFAGIRLVEP 263 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 71.6 bits (174), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 37/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%) Query: 6 LKSEMESGRVDLAIGAFDNVSGALYQRRLFRQNYVSMFRQGHPLSGKT-VTMKDFLAAQH 64 L+ + +G++D A G + LFR+ YV + RQ L + + + +FLA H Sbjct: 139 LEEALRTGQLDFAFGNLPALKPVTCHELLFRETYVCLMRQRDGLPQRAQLELDEFLAMSH 198 Query: 65 LVVSSLESPYDRINQNLEKAGIRANVNFRVPHFTAVPYIVSTTDLIVTVGKNWPRARRNH 124 ++V S ES + ++ + +K G++ ++ +PHFT +P I+ +DL+ TV AR H Sbjct: 199 VLVESAESSHHQVENSFQKLGVQRRISLSIPHFTVLPRILGKSDLVATVPARI--ARLFH 256 Query: 125 STY 127 S + Sbjct: 257 SEH 259 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 62.0 bits (149), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 34/119 (28%), Positives = 62/119 (52%), Gaps = 2/119 (1%) Query: 5 DLKSEMESGRVDLAIGAFDNVSGALYQRRLFRQNYVSMFRQGHPLSGKTVTMKDFLAAQH 64 +L + M +G VDLA G + + + +Y+ M R+ HPL+ +T+++ L ++ Sbjct: 140 NLGAAMRNGDVDLAFGYLPGLPEDCQSQLVLYDDYICMLRREHPLAQGPLTLENLLQLRY 199 Query: 65 LVVSSLESPYDRINQNLEKAGIRANVNFRVPHFTAVPYIVSTTDLIVTVGKNWPRARRN 123 + + + + L AG++ +V R+PHFT P IV TDL + + ++ A RN Sbjct: 200 VYTVTNTTGHQLAEDVLRNAGVKRDVALRMPHFTVAPQIVRITDLALFLPRSI--AERN 256 >gi|300312554|ref|YP_003776646.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 55.5 bits (132), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 34/118 (28%), Positives = 58/118 (49%), Gaps = 5/118 (4%) Query: 5 DLKSEMESGRVDLAIGAFDNVSGALYQRRLFRQNYVSMFRQGHPLSGKT----VTMKDFL 60 D + G +DL I +D L+ +LF V + R + +T ++++D+L Sbjct: 140 DYVRRLSDGELDLVIANWDAPPAHLHLSKLFDDPIVCLMRADCAYARRTAREAMSVEDYL 199 Query: 61 AAQHLVVSSLESPYD-RINQNLEKAGIRANVNFRVPHFTAVPYIVSTTDLIVTVGKNW 117 + H S + Y I+ LEK +R NV HF +PY+V+ TDL++T G+ + Sbjct: 200 SLPHAAPSQILPGYHGSIDSFLEKQNLRRNVVVESAHFRMLPYMVAQTDLVLTAGQQF 257 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 0.132 0.397 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: 472,424 Number of extensions: 16666 Number of successful extensions: 47 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 45 Number of HSP's successfully gapped: 5 Length of query: 178 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 99 Effective length of database: 1,245,805 Effective search space: 123334695 Effective search space used: 123334695 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: 127 (53.5 bits)