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= 0225.0035.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|300314079|ref|YP_003778171.1| LysR family transcription regul... 260 2e-71 gi|300309871|ref|YP_003773963.1| transcription regulator protein... 62 1e-11 gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 61 4e-11 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 56 1e-09 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 55 2e-09 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 260 bits (665), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 124/136 (91%), Positives = 129/136 (94%) Query: 1 VMHKNHPLADKELTLDNYCAADHLLVSLSGKPHAVIDDVLAGMGRERKILLTVNQFFTAG 60 VMHK+HPLA + LTLD+YC ADHLLVSLSGKPHAVIDDVLAGM RERKILLTVNQFFTAG Sbjct: 184 VMHKSHPLAGQPLTLDSYCNADHLLVSLSGKPHAVIDDVLAGMNRERKILLTVNQFFTAG 243 Query: 61 RIVASSELITVLPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKWLRAH 120 RIVASSELITVLPRHL+AATGM E LVVKELPF+TPEEHVDMLWHERDARNPAHKWLRAH Sbjct: 244 RIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARNPAHKWLRAH 303 Query: 121 LVATTHDEFGRINMKR 136 L ATTHDEFGRINMKR Sbjct: 304 LSATTHDEFGRINMKR 319 >gi|300309871|ref|YP_003773963.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 62.4 bits (150), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 38/124 (30%), Positives = 61/124 (49%), Gaps = 7/124 (5%) Query: 2 MHKNHPLAD-KELTLDNYCAADHLLVSLSGKPHAVIDDVLAGMGRERKILLTVNQFFTAG 60 + HPLA + ++ + YCA DH+ S G + + LA G R+++ V F A Sbjct: 191 VRTGHPLAALRRVSAERYCAFDHVSASPRGVAAGPLHEALAARGLVRRVVAVVPSFPGAL 250 Query: 61 RIVASSELITVLPRHLIAATGM------TEVLVVKELPFKTPEEHVDMLWHERDARNPAH 114 +V +S+L+T++P + G + V ELP V ++WH R +PAH Sbjct: 251 AVVRTSDLVTMVPGSFLTRAGAERKDGSAAGIHVFELPLPLEPIIVSLMWHPRVELDPAH 310 Query: 115 KWLR 118 +WLR Sbjct: 311 RWLR 314 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 60.8 bits (146), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 64/131 (48%), Gaps = 4/131 (3%) Query: 1 VMHKNHPLADKELTLDNYCAADHLLVSLSGKPHAVIDDVLAGMGRERKILLTVNQFFTAG 60 ++ + HPLA LTL+N ++ + H + +DVL G +R + L + F A Sbjct: 177 MLRREHPLAQGPLTLENLLQLRYVYTVTNTTGHQLAEDVLRNAGVKRDVALRMPHFTVAP 236 Query: 61 RIVASSELITVLPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKWLRAH 120 +IV ++L LPR + + V+ +LP + P V + H R + + +WLR+ Sbjct: 237 QIVRITDLALFLPRSIAERNNLDHAFVLLDLPLEMPRIPVSIYTHTRFSGDTGIQWLRSL 296 Query: 121 LVATTHDEFGR 131 L+ + FGR Sbjct: 297 LI----EMFGR 303 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 56.2 bits (134), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 31/110 (28%), Positives = 51/110 (46%) Query: 12 ELTLDNYCAADHLLVSLSGKPHAVIDDVLAGMGRERKILLTVNQFFTAGRIVASSELITV 71 E++L + AA+HL+VS P+ I+ L G + V F IV+S+ L+ Sbjct: 191 EVSLKEFLAAEHLMVSSQESPYDRINQNLEKAGILPSVRFRVPHFTAVPYIVSSTALVVT 250 Query: 72 LPRHLIAATGMTEVLVVKELPFKTPEEHVDMLWHERDARNPAHKWLRAHL 121 +PR L + L + P + P +M WH R ++ + WLR + Sbjct: 251 VPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWLRGFI 300 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 55.1 bits (131), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 5/123 (4%) Query: 12 ELTLDNYCAADHLLVSLSGKPHAVIDDVLAGMGRERKILLTVNQFFTAGRIVASSELITV 71 +L LD + A H+LV + H +++ +G +R+I L++ F RI+ S+L+ Sbjct: 187 QLELDEFLAMSHVLVESAESSHHQVENSFQKLGVQRRISLSIPHFTVLPRILGKSDLVAT 246 Query: 72 LPRHLIAATGMTE---VLVVKELPFKTPEEHVDMLWHERDARNPAHKWLRAHLVATTHDE 128 +P IA +E V V +LP P V + WH+ + + WLR +V + Sbjct: 247 VPAR-IARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLR-QIVIDLLQQ 304 Query: 129 FGR 131 +GR Sbjct: 305 YGR 307 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 0.136 0.410 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: 446,114 Number of extensions: 17049 Number of successful extensions: 69 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 68 Number of HSP's successfully gapped: 6 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 (22.0 bits) S2: 125 (52.8 bits)