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= 0080.0004.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|300312373|ref|YP_003776465.1| LysR family transcription regul... 228 2e-61 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 70 6e-14 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 67 7e-13 gi|300313657|ref|YP_003777749.1| LysR family transcription regul... 62 1e-11 gi|300310469|ref|YP_003774561.1| LysR family transcription regul... 61 3e-11 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 228 bits (580), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 106/119 (89%), Positives = 112/119 (94%) Query: 1 MLDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEDQVGSQLFDRNNHGYSLTA 60 MLDWDNLR+FLELTRSQGLVDAAKKLGIDHSTVSRR+KRFE+QVGSQLFDRNNHGY LTA Sbjct: 1 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA 60 Query: 61 DGYRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFCXRQS 119 DGYRLVEYAE++EST+YAA EELGGHN LSGQVRLGATEGFGTFVLAPHIAHFC R Sbjct: 61 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNP 119 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 70.1 bits (170), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 39/113 (34%), Positives = 62/113 (54%), Gaps = 1/113 (0%) Query: 2 LDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEDQVGSQLFDRNNHGYSLTAD 61 L WD++R FL L+R L +A+ L ++HSTV+R + E + +LFDR G+ LT + Sbjct: 23 LQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTE 82 Query: 62 GYRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHF 114 G L + AE++E +++ N LSG+VR+ A + L P + F Sbjct: 83 GAELSKQAEQLEVEMHSLWRA-ALANTTLSGKVRVSAPPILMSDFLVPRLPAF 134 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 66.6 bits (161), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/112 (29%), Positives = 55/112 (49%) Query: 3 DWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEDQVGSQLFDRNNHGYSLTADG 62 DW++LR F + AA+ LG+ H+T+ RR+++ E + + LF R LT G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 63 YRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHF 114 ++ A ++ A L G + + G++RL T+ GT LAP + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSL 115 >gi|300313657|ref|YP_003777749.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 333 Score = 62.4 bits (150), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 36/115 (31%), Positives = 55/115 (47%) Query: 1 MLDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEDQVGSQLFDRNNHGYSLTA 60 +L +R FLE+ R + +AA L + S +SR+I R E ++ + LF+R G A Sbjct: 35 VLQETAVRYFLEVVRRGSITEAANTLNVASSAISRQIARLEAELDTPLFERVARGMRPNA 94 Query: 61 DGYRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFC 115 G L +A +++ EL L G+V+L TEGF + I FC Sbjct: 95 AGELLAAHALRMQLEAERIGNELAALKGLRRGEVKLACTEGFALEFVPATIEQFC 149 >gi|300310469|ref|YP_003774561.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 61.2 bits (147), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 41/119 (34%), Positives = 67/119 (56%), Gaps = 8/119 (6%) Query: 1 MLDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEDQVGSQLFDRNNHGYSLTA 60 ML D++++ L S L AA+ L + V+ R++R ED++G +L +R G++LT Sbjct: 1 MLQLDDMQLLRALGSSASLAGAARLLDLTPPAVTVRLQRIEDRIGVRLANRAARGFALTD 60 Query: 61 DGYRLVEYA----EKIESTVYAAAEEL--GGHNRL--LSGQVRLGATEGFGTFVLAPHI 111 +G RLV+ A E+IE+ + + E G H L +SG +R+ A GFG +AP + Sbjct: 61 EGQRLVQEATDILERIEAITASVSRESDRGEHASLANVSGSLRVVAPFGFGRRYVAPLV 119 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 0.322 0.136 0.399 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: 417,025 Number of extensions: 15718 Number of successful extensions: 115 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 117 Number of HSP's successfully gapped: 16 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: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 125 (52.8 bits)