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= 0004.0142.p (191 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309577|ref|YP_003773669.1| transcription regulator protein... 289 1e-79 gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 100 5e-23 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 100 9e-23 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 99 2e-22 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 95 3e-21 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 289 bits (739), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 142/157 (90%), Positives = 146/157 (92%) Query: 1 MRISPLPPLPSLIAFEAAMRHSSFTRAAAELHLTQSAISRQIAQLERFLGKKLFIREPRA 60 MRISPLPPLPSLIAFEAAMRH SFTRAAAELHLTQSAISRQIAQLERFLGKKLF+REPRA Sbjct: 1 MRISPLPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRA 60 Query: 61 LRLTVSGQRYAEEVQRLLVGCAEVTEDIMKRKGHSELTVACSSGVAVLWLTPRLARFRAL 120 LRLTVSGQRYA VQRLLV CAE TEDIMKRKGH ELTVACS GVAVLWLTPRLARFRA Sbjct: 61 LRLTVSGQRYAALVQRLLVDCAEATEDIMKRKGHQELTVACSQGVAVLWLTPRLARFRAR 120 Query: 121 QPECHLRLIVNDSLAALSETDFDMAIYFLRDGPPSGL 157 P+CHLRL+VNDSLA LSETDFDM IYFLRDGPP+GL Sbjct: 121 HPDCHLRLVVNDSLAQLSETDFDMGIYFLRDGPPAGL 157 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 100 bits (250), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 64/146 (43%), Positives = 82/146 (56%), Gaps = 1/146 (0%) Query: 6 LPPLPSLIAFEAAMRHSSFTRAAAELHLTQSAISRQIAQLERFLGKKLFIREPRALRLTV 65 +P SL+AFEAA RH SF RAA EL LT+ AISRQI++LE FLG LF R +RL Sbjct: 5 IPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRVRLLP 64 Query: 66 SGQRYAEEVQRLLVGCAEVTEDIMKRKGH-SELTVACSSGVAVLWLTPRLARFRALQPEC 124 GQRYA V+ L ++ +M + + + L +A S A+ WL PRL RF AL P Sbjct: 65 HGQRYASHVRETLERLDRDSQHLMSQPPNGASLDIAVSPTFAMRWLIPRLPRFAALHPHI 124 Query: 125 HLRLIVNDSLAALSETDFDMAIYFLR 150 + L L + D AI+FL Sbjct: 125 TVHLSERMEPFLLPGSGLDAAIHFLH 150 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 100 bits (248), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 58/144 (40%), Positives = 81/144 (56%) Query: 3 ISPLPPLPSLIAFEAAMRHSSFTRAAAELHLTQSAISRQIAQLERFLGKKLFIREPRALR 62 ++ LPPL +L AFEA R SFT AA ELH+TQSA+SRQ+ LE L +KLF+R R + Sbjct: 1 MNKLPPLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIE 60 Query: 63 LTVSGQRYAEEVQRLLVGCAEVTEDIMKRKGHSELTVACSSGVAVLWLTPRLARFRALQP 122 LT +G Y +++++ E + R+ LT+ G+A LWL PRL F Sbjct: 61 LTRAGAAYFQQIRQAFERICAAGEQLHARRQRHTLTIGVLPGLASLWLVPRLELFWRENK 120 Query: 123 ECHLRLIVNDSLAALSETDFDMAI 146 E +R++V A T DM+I Sbjct: 121 EIDVRIVVATGAADFGRTTMDMSI 144 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 99.0 bits (245), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 59/142 (41%), Positives = 78/142 (54%), Gaps = 3/142 (2%) Query: 6 LPPLPSLIAFEAAMRHSSFTRAAAELHLTQSAISRQIAQLERFLGKKLFIREPRALRLTV 65 +PPL SL+AFEA R SF AAAELHLT SAIS Q+A+LE+ LG +LF R + + LT Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 66 SGQRYAEEVQRLLVGCAEVTEDIMKRKG-HSELTVACSSGVAVLWLTPRLARFRALQPEC 124 +GQ Y V L T+D+ R G + L + S A LWL PR+ RF P+ Sbjct: 62 AGQSYLNRVAGALGAINSATDDL--RHGVENSLQIHSSPSFASLWLMPRIGRFTQRHPDI 119 Query: 125 HLRLIVNDSLAALSETDFDMAI 146 L L + ++ D+ I Sbjct: 120 ALGLSASPEISDFEIGQVDLDI 141 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 95.1 bits (235), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 58/142 (40%), Positives = 78/142 (54%), Gaps = 5/142 (3%) Query: 6 LPPLPSLIAFEAAMRHSSFTRAAAELHLTQSAISRQIAQLERFLGKKLFIREPRALRLTV 65 LPPLP+L AFEA R SF AAAELHLT SA+S Q+A+LE +LG +LF R +R+T Sbjct: 4 LPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITT 63 Query: 66 SGQRYAEEVQRLLVGCAEVTEDIMKRKGHSE-LTVACSSGVAVLWLTPRLARFRALQPEC 124 +G+ Y +Q + + D+ R+G S L + + +A LWL RL F PE Sbjct: 64 AGEAYLARIQGAISAITAASMDV--RQGVSNTLYIHSAPSIASLWLMARLNDFARSYPEI 121 Query: 125 HLRLIVNDSLAA--LSETDFDM 144 L S + L E D D+ Sbjct: 122 TFNLSAAHSQSNFELGEVDIDI 143 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 0.135 0.414 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: 501,949 Number of extensions: 18291 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 45 Length of query: 191 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 111 Effective length of database: 1,241,070 Effective search space: 137758770 Effective search space used: 137758770 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 128 (53.9 bits)