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= 0216.0028.p (308 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312870|ref|YP_003776962.1| transcription regulator protein... 236 2e-63 gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 107 8e-25 gi|300313810|ref|YP_003777902.1| LysR family transcription regul... 82 8e-17 gi|300313839|ref|YP_003777931.1| MetE/MetH family transcription ... 70 3e-13 gi|300313602|ref|YP_003777694.1| LysR family transcription regul... 65 7e-12 >gi|300312870|ref|YP_003776962.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 236 bits (601), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 130/306 (42%), Positives = 191/306 (62%), Gaps = 4/306 (1%) Query: 2 FRISLDALLILDAIDRRGSFSAAGLELHRVPSTISYTVSKLEQDLGVQVFERQGPKVVLT 61 ++L++LLILD IDR+GSF+AA + L RVPS ++Y+V KLE DL V +F+R+G + LT Sbjct: 1 MNLTLESLLILDMIDRKGSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLT 60 Query: 62 RAGEELLKEGRYLLKAAEDLEHRVRRVASGWETEFTIGLDSLFSAASLEPDIVAFYQVAD 121 AG +LL+EGR+LL AA DLE RV+R A+G ETE I L+SL + P I AF + Sbjct: 61 PAGLQLLQEGRHLLLAANDLEQRVKRTATGRETELHIVLNSLIPFDKMLPIIAAFDREQS 120 Query: 122 RTRLRIARESLAGTWEALLDRRVDLLIAAPGEGP----AGGGYVAEQIGTVKFVFVVAPH 177 TRLR L G WE L++ R +L+I +GP G + +++G V +VFVVAP Sbjct: 121 GTRLRFTPGVLTGAWEKLIEGRANLVIGVTLDGPEVVRTSGRFQMQELGAVDWVFVVAPQ 180 Query: 178 HPLAKMDKVLSKADLHPYRAISVADSARKMAPRTVGLLFGQDTLTVPDMRSKYALQLAGV 237 HPLA +++ LS + +RAI+V D+++ + T+GLL GQ+TLTV + K QLAG+ Sbjct: 181 HPLAGVEEPLSAELVRSHRAIAVGDNSQSLPTLTMGLLSGQETLTVATVADKLQAQLAGL 240 Query: 238 GFGFLPEPCVQKSIASGALVVKEVEQPRAEETFSLAWRVGEDGAALTWWLKRMRETGVLN 297 G G LP + +ASGALV K+ + + F +AW E G +L W+++ + + V Sbjct: 241 GCGHLPRIWAEPYLASGALVEKQTLAAKPNDNFMVAWPKAEQGKSLKWFIQHLAQPHVRQ 300 Query: 298 RMLSQI 303 ++ + Sbjct: 301 SLIGPV 306 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 107 bits (268), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 90/301 (29%), Positives = 146/301 (48%), Gaps = 10/301 (3%) Query: 3 RISLDALLILDAIDRRGSFSAAGLELHRVPSTISYTVSKLEQDLGVQVFERQGPKVVLTR 62 R+SLD L + + GSF AA +L R S +SY ++ LE+ LG+ +F+R G + LT Sbjct: 5 RLSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFDRSGYRPQLTA 64 Query: 63 AGEELLKEGRYLLKAAEDLEHRVRRVASGWETEFTIGLDSLFSAASLEPDIVAFYQVADR 122 GE LL + R +L + L+ R A G E E + +D F L + F Sbjct: 65 PGEALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFFPLDCLVDLLQRFRAAFPA 124 Query: 123 TRLRIARESLAGTWEALLDRRVDLLI--AAPGEGPAGGGYVAEQIGTVKFVFVVAPHHPL 180 +R+ E+L E ++D R L I P P + + +V+ V VVAPHHPL Sbjct: 125 VTVRLEVEALGAVAERVIDGRAMLGILGTLPTTPP---NLMRITLPSVRLVAVVAPHHPL 181 Query: 181 AKMDKVLSKADLHPYRAISVADSARKMAPRTVGLLFGQDTLTVPDMRSKYALQLAGVGFG 240 AK+ +++ L + ++D + ++ R + + T + D+ +K+AL AG+G+G Sbjct: 182 AKVKGRIAEKMLLQQTQLVLSDRS-ELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWG 240 Query: 241 FLPEPCVQKSIASGALV-VKEVEQPRAEETFSLAWRVGED---GAALTWWLKRMRETGVL 296 +P V++ +A+G LV + + P + D G AL+WWL + G L Sbjct: 241 NMPLHVVKEDLAAGRLVSISTIHHPPQGAELPIQCVYKPDHRAGPALSWWLDALANLGSL 300 Query: 297 N 297 Sbjct: 301 E 301 >gi|300313810|ref|YP_003777902.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 81.6 bits (200), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 76/264 (28%), Positives = 117/264 (44%), Gaps = 10/264 (3%) Query: 4 ISLDALLILDAIDRRGSFSAAGLELHRVPSTISYTVSKLEQDLGVQVFERQGPKVVLTRA 63 S D + + A+ GSFSAA EL RVPS++S T+S+LE +L +Q+F+R T Sbjct: 3 FSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTDM 62 Query: 64 GEELLKEGRYLLKAAEDLEHRVRRVASGWETEFTIGL-DSLFSAASLEPDIVAFYQVADR 122 L + R L L+ + G E + T+ + L SA +P + Q Sbjct: 63 ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKP-LAVLAQEFPS 121 Query: 123 TRLRIARESLAGTWEALLDRRVDLLIAAPGEGPAGGGYVA-EQIGTVKFVFVVAPHHP-L 180 + + A L D L + E PAG A ++ + V V+AP HP L Sbjct: 122 LEVEVLSSPQADAMRMLYDDTAQLALV--FERPAGNDREAFQEFSSEMLVAVIAPDHPAL 179 Query: 181 AKMDKVLSKADLHPYRAISVAD-SARKMAPRTVGLLFGQDTLTVPDMRSKYALQLAGVGF 239 + + L DL+ R I+VA AR PR + + + +L G+G+ Sbjct: 180 RRKKRKLRYEDLYDIRQIAVASRDARVSDPR---FFLARQIWRTDNHLATLSLVREGLGW 236 Query: 240 GFLPEPCVQKSIASGALVVKEVEQ 263 +LP+ VQ I +GAL V + + Sbjct: 237 AYLPQSLVQAQIEAGALTVIDFDN 260 >gi|300313839|ref|YP_003777931.1| MetE/MetH family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 69.7 bits (169), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 55/179 (30%), Positives = 87/179 (48%), Gaps = 4/179 (2%) Query: 9 LLILDAIDRRGSFSAAGLELHRVPSTISYTVSKLEQDLGVQVFERQGPKVVLTRAGEELL 68 L I+ ++R+GS +AA LH S +S+++ KLEQ LG ++ R+G + LT+AG+ LL Sbjct: 7 LSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQAGQYLL 66 Query: 69 KEGRYLLKAAEDLEHRVRRVASGWETEFTIGLDSLFSAASLEPDIVAFYQVADRTRLRIA 128 +L E R+R+ A G IG++ L + + + + Sbjct: 67 AVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPDVDVDVK 126 Query: 129 RESLAGTWEALLDRRVDLLIAA-PGEGPAGGGYVAEQIGTVKFVFVVAPHHPLAKMDKV 186 ++ G AL +DLL+ P + P G V E + + V VVA HPLA +D V Sbjct: 127 QKFQFGGIGALFGYEIDLLVTPDPLDKP---GLVFEPVFDYEQVLVVASDHPLADVDYV 182 >gi|300313602|ref|YP_003777694.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 65.1 bits (157), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 56/182 (30%), Positives = 91/182 (50%), Gaps = 6/182 (3%) Query: 2 FRISLDALLILDAIDRRGSFSAAGLELHRVPSTISYTVSKLEQDLGVQVFERQGPKVVLT 61 +I+L L I A+ + GS +AA + S S +++LE LGVQ+F+R G ++VL Sbjct: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 Query: 62 RAGEELLKEGRYLLKAAEDLEHRVRRVASGWETEFTIGLDSLFSAASLEPDIVAFYQVAD 121 +G +LL + R++L AA+ +E + +G +E IG + + L I A+ + Sbjct: 61 DSGRQLLPQARHMLDAAQTIERQFSDPEAG--SELHIGASTTIGSYMLPAMIAAYRKDHA 118 Query: 122 RTRLRIARESLAGTWEALLDRRVDLLIAAPGEGPAGGGYV-AEQIGTVKFVFVVAPHHPL 180 R+R + A +A+++ VD A EGP V E + + V AP HPL Sbjct: 119 GARVRALVANTADIVDAVVNFEVD---AGLIEGPCHADDVEVEPWMMDELIVVAAPRHPL 175 Query: 181 AK 182 K Sbjct: 176 VK 177 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 0.321 0.137 0.396 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: 852,884 Number of extensions: 33353 Number of successful extensions: 216 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 213 Number of HSP's successfully gapped: 14 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 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: 130 (54.7 bits)