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= 0085.0008.p (171 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 99 2e-22 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 75 2e-15 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 75 2e-15 gi|300309577|ref|YP_003773669.1| transcription regulator protein... 74 8e-15 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 65 2e-12 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 99.0 bits (245), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 50/118 (42%), Positives = 78/118 (66%), Gaps = 1/118 (0%) Query: 1 MRRFIPSTSCLIAFDTSARHLSFTKAAHELHMTQGAVSRQVAILEDYLNVKLFERINRRL 60 MRR IPS S L+AF+ +ARH SF +AA EL +T+GA+SRQ++ LE +L V LFERI R+ Sbjct: 1 MRRRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRV 60 Query: 61 ILTEPGRDYASQVSSILKQIEMATFQVMTYNSLASVLNLAILPTFGVAGMGVALMPKF 118 L G+ YAS V L++++ + +M+ + L++A+ PTF + + + +P+F Sbjct: 61 RLLPHGQRYASHVRETLERLDRDSQHLMSQPPNGASLDIAVSPTFAMRWL-IPRLPRF 117 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 75.5 bits (184), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 42/99 (42%), Positives = 63/99 (63%), Gaps = 1/99 (1%) Query: 9 SCLIAFDTSARHLSFTKAAHELHMTQGAVSRQVAILEDYLNVKLFERINRRLILTEPGRD 68 + + AF +ARH SFT AAHEL++T GA+SRQ+ LE YL + LFER R+++LTE GR Sbjct: 9 NAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERGRQ 68 Query: 69 YASQVSSILKQIEMATFQVMTYNSLASVLNLAILPTFGV 107 + + S L+ + A +VM +V+ + + P+F V Sbjct: 69 FFEEASPALEILANAARRVMRDAPTRTVV-INVRPSFAV 106 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 75.5 bits (184), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 48/114 (42%), Positives = 66/114 (57%), Gaps = 5/114 (4%) Query: 5 IPSTSCLIAFDTSARHLSFTKAAHELHMTQGAVSRQVAILEDYLNVKLFERINRRLILTE 64 +P + L AF+ +AR LSFT AA ELH+TQ AVSRQV ILE +L KLF R+ RR+ LT Sbjct: 4 LPPLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIELTR 63 Query: 65 PGRDYASQVSSILKQIEMATFQVMTYNSLASVLNLAILPTFGVAGMGVALMPKF 118 G Y Q+ ++I A Q+ L + +LP G+A + L+P+ Sbjct: 64 AGAAYFQQIRQAFERICAAGEQLHARRQ-RHTLTIGVLP--GLASLW--LVPRL 112 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 73.6 bits (179), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 41/84 (48%), Positives = 53/84 (63%) Query: 5 IPSTSCLIAFDTSARHLSFTKAAHELHMTQGAVSRQVAILEDYLNVKLFERINRRLILTE 64 +P LIAF+ + RH SFT+AA ELH+TQ A+SRQ+A LE +L KLF R R L LT Sbjct: 6 LPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALRLTV 65 Query: 65 PGRDYASQVSSILKQIEMATFQVM 88 G+ YA+ V +L AT +M Sbjct: 66 SGQRYAALVQRLLVDCAEATEDIM 89 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 65.5 bits (158), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 41/109 (37%), Positives = 60/109 (55%), Gaps = 7/109 (6%) Query: 5 IPSTSCLIAFDTSARHLSFTKAAHELHMTQGAVSRQVAILEDYLNVKLFERINRRLILTE 64 IP + L+AF+ AR SF AA ELH+T A+S QVA LE L ++LFER + + LT Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 65 PGRDYASQVSSILKQIEMATFQV-------MTYNSLASVLNLAILPTFG 106 G+ Y ++V+ L I AT + + +S S +L ++P G Sbjct: 62 AGQSYLNRVAGALGAINSATDDLRHGVENSLQIHSSPSFASLWLMPRIG 110 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 0.323 0.134 0.383 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: 467,467 Number of extensions: 16071 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 11 Length of query: 171 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 92 Effective length of database: 1,245,805 Effective search space: 114614060 Effective search space used: 114614060 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 127 (53.5 bits)