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= 0057.0001.p (146 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313153|ref|YP_003777245.1| transcription regulator protein... 125 2e-30 gi|300313854|ref|YP_003777946.1| LysR family transcription regul... 117 4e-28 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 68 3e-13 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 66 9e-13 gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 59 1e-10 >gi|300313153|ref|YP_003777245.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 331 Score = 125 bits (313), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 60/119 (50%), Positives = 86/119 (72%), Gaps = 1/119 (0%) Query: 1 MDIKWIEDFLSLAATRNFSRSADHRNVTQPAFSRRIRALEAWTGAELVDRSTYPLTLTVA 60 M+ KW+EDF+SLA TR+FSRSA+ R+VTQPAFSRRI++LEAW G +L+DR++YP LT A Sbjct: 1 MESKWLEDFVSLAETRSFSRSAELRHVTQPAFSRRIQSLEAWLGTDLIDRTSYPTRLTAA 60 Query: 61 GKLFNDAASEALRLLNDARSQLRSEQ-TAHNMLRVTAGHSLALSFFPEWLDGLNGGQGA 118 G++F + A L +N+ R+ LR ++ TA + H+L+L++ P+WL L G GA Sbjct: 61 GEVFYEQAVAMLGQINNTRALLRGKRPTAQTTIDFAVPHTLSLTYMPKWLSALESGFGA 119 >gi|300313854|ref|YP_003777946.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 117 bits (293), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 63/119 (52%), Positives = 77/119 (64%), Gaps = 1/119 (0%) Query: 1 MDIKWIEDFLSLAATRNFSRSADHRNVTQPAFSRRIRALEAWTGAELVDRSTYPLTLTVA 60 M+IKW+EDFLS+ T NFSRSA RNVTQPAF RRIR+LE W GAEL DRS+YP TLT A Sbjct: 1 MEIKWVEDFLSVVETLNFSRSAKLRNVTQPAFGRRIRSLETWLGAELFDRSSYPCTLTQA 60 Query: 61 GKLFNDAASEALRLLNDARSQLRSEQT-AHNMLRVTAGHSLALSFFPEWLDGLNGGQGA 118 G+ F A E L AR LR + A + +R+ H+L L+ FP+ L + GA Sbjct: 61 GESFVPIAKEMLNQSMQARLVLRGQLAGAQSAVRLAMPHTLLLTVFPKLLSEIEKSIGA 119 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 67.8 bits (164), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 62/114 (54%), Gaps = 11/114 (9%) Query: 1 MDIKWIEDFLSLAATRNFSRSADHRNVTQPAFSRRIRALEAWTGAELVDRSTYPLTLTVA 60 M+++ ++ F ++A+T +FSR+A+ ++ QP SR+IR LE G EL+DR++ P+ LT+A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GKLFNDAASEALRLLNDARSQLRSEQTAHNMLRVTAG--HSLALSFFPEWLDGL 112 GK F + + L R EQ + G H + F P L GL Sbjct: 61 GKFFYEQTLQVLS---------RLEQIEEGTRVIARGRQHWFNIGFVPSALYGL 105 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 66.2 bits (160), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 37/111 (33%), Positives = 68/111 (61%), Gaps = 7/111 (6%) Query: 1 MDIKWIEDFLSLAATRNFSRSADHRNVTQPAFSRRIRALEAWTGAELVDRSTYPLTLTVA 60 MDI+ ++ F+++A TRNF+R+++ ++ QP SR+I+ LE G +L+ R++ PL LT A Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 61 GKLFNDAASEALRLLNDARSQLRSEQTAHNMLRVTAGHSLALSFFPEWLDG 111 G++F + +AL++LN +L + A + + +L++ F L G Sbjct: 61 GRVFYE---QALQILN----RLDQLKNATQQIGLNQRQTLSIGFVASTLYG 104 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 59.3 bits (142), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 37/116 (31%), Positives = 62/116 (53%), Gaps = 8/116 (6%) Query: 1 MDIKWIEDFLSLAATRNFSRSADHRNVTQPAFSRRIRALEAWTGAELVDRSTYPLTLTVA 60 M+++++E F A+ ++ +R+A+ ++TQ S RI +LE G L+DR LTVA Sbjct: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 Query: 61 GKLFNDAASEALRLLNDARSQLRSEQTAHNM----LRVTAGHSLALSFFPEWLDGL 112 G+ F A + L D + Q+R E H+ LR+ + S+ S+ P WL + Sbjct: 61 GQRFQRLAVKLL----DMQRQIRQELGGHSAGPLALRIGSIESVVHSWLPAWLQEI 112 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 0.319 0.130 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: 447,916 Number of extensions: 15439 Number of successful extensions: 140 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 10 Length of query: 146 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 69 Effective length of database: 1,255,275 Effective search space: 86613975 Effective search space used: 86613975 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 (21.8 bits) S2: 126 (53.1 bits)