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= 0028.0005.p (134 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311884|ref|YP_003775976.1| two component response regulato... 160 4e-41 gi|300312037|ref|YP_003776129.1| sensory transduction regulatory... 86 9e-19 gi|300311809|ref|YP_003775901.1| two component response regulato... 78 3e-16 gi|300312512|ref|YP_003776604.1| sensory transduction regulatory... 64 5e-12 gi|300313267|ref|YP_003777359.1| response regulator transcriptio... 62 1e-11 >gi|300311884|ref|YP_003775976.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 151 Score = 160 bits (404), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 85/134 (63%), Positives = 101/134 (75%) Query: 1 VDDSSEVAELARFAILRMKLTEKWTWFNDPEKASDFLFRHEYTARRDLHPFLILLDLNMP 60 VDDS EVAEL R A+ KL +K TWF D E A +F F+ EY RRDLHP+LILLDLN+P Sbjct: 11 VDDSPEVAELTRLALGSRKLADKLTWFADAELAEEFFFQGEYAQRRDLHPYLILLDLNLP 70 Query: 61 RLSGHDLLRMLKGNKATSHIPVVMFSTSTDREDINKSYELGANGYLHKATDADQMMDTVV 120 +SGHD L+++K N ATSHIPVVMFS+S D+ DIN+SYELGANGY+ K+TD + M TVV Sbjct: 71 LMSGHDFLKIIKSNAATSHIPVVMFSSSDDQRDINQSYELGANGYVVKSTDPKEFMGTVV 130 Query: 121 DAVSYWTTRNLPAR 134 D YW RN PAR Sbjct: 131 DTGIYWRNRNRPAR 144 >gi|300312037|ref|YP_003776129.1| sensory transduction regulatory protein [Herbaspirillum seropedicae SmR1] Length = 140 Score = 85.9 bits (211), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 55/132 (41%), Positives = 70/132 (53%) Query: 1 VDDSSEVAELARFAILRMKLTEKWTWFNDPEKASDFLFRHEYTARRDLHPFLILLDLNMP 60 VD S E ELARF + R KL + WF D E A+ LF + A P LILL+ +P Sbjct: 9 VDPSPESVELARFGLWRNKLDCAFGWFEDAEGAAQSLFNPQARAHPADLPCLILLEPRLP 68 Query: 61 RLSGHDLLRMLKGNKATSHIPVVMFSTSTDREDINKSYELGANGYLHKATDADQMMDTVV 120 R+ G +LL ML+ + T +PVVMF+TS D D ++ GAN YL K DA M+ V Sbjct: 69 RMEGLELLHMLRAHAHTRALPVVMFATSQDDADAARARAAGANDYLVKPVDARAFMELVS 128 Query: 121 DAVSYWTTRNLP 132 V W P Sbjct: 129 QTVRRWLPGATP 140 >gi|300311809|ref|YP_003775901.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 154 Score = 77.8 bits (190), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 41/133 (30%), Positives = 70/133 (52%), Gaps = 1/133 (0%) Query: 1 VDDSSEVAELARFAILRMKLTEKWTWFNDPEKASDFLFRHEYTARRDLHPFLILLDLNMP 60 V+D A L + R L + D ++A D+LF + +R +L ++LLD+NMP Sbjct: 12 VEDDDGHAVLVEKNLRRAGLVNGFVRLRDGQEALDYLFDPQ-RSRTELQQLVVLLDVNMP 70 Query: 61 RLSGHDLLRMLKGNKATSHIPVVMFSTSTDREDINKSYELGANGYLHKATDADQMMDTVV 120 R++G ++LR LK + S IPV+M +T+ D +I + YE G N Y+ K + + ++ + Sbjct: 71 RVNGVEVLRRLKADPVLSAIPVIMLTTTDDPREIGRCYEYGCNVYITKPVEYEDFIEAIR 130 Query: 121 DAVSYWTTRNLPA 133 + LP Sbjct: 131 RLGFFLQVVKLPG 143 >gi|300312512|ref|YP_003776604.1| sensory transduction regulatory protein [Herbaspirillum seropedicae SmR1] Length = 154 Score = 63.5 bits (153), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 43/125 (34%), Positives = 60/125 (48%), Gaps = 3/125 (2%) Query: 1 VDDSSEVAELARFAILRMKLTEKWTWFNDPEKASD-FLFRHEYTARRDLHPFLILLDLNM 59 ++ + E ELARFA+ R W+++ + A D L RH R P LILLD M Sbjct: 9 IESNGEAVELARFALWRSNFHCVLQWYDEADAAIDGLLHRHRLDDAR--LPDLILLDPGM 66 Query: 60 PRLSGHDLLRMLKGNKATSHIPVVMFSTSTDREDINKSYELGANGYLHKATDADQMMDTV 119 +G D + +K + T IPVV+F S ++ E GA+ YL K A Q M V Sbjct: 67 MENNGVDFILAMKAGRDTRSIPVVVFPDSDYPPEMPDLLEAGASAYLLKPETAPQYMQAV 126 Query: 120 VDAVS 124 V+ Sbjct: 127 VECAQ 131 >gi|300313267|ref|YP_003777359.1| response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 188 Score = 62.4 bits (150), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 45/130 (34%), Positives = 62/130 (47%), Gaps = 8/130 (6%) Query: 1 VDDSSEVAELARFAILRMKLTEKWTWFNDPEKASDFLFRHEYTARRD---LHPFLILLDL 57 +D S E AELARFA+ R L + D A L + RR P LILL+ Sbjct: 21 IDPSPEAAELARFALWRAGLHCAFRACQDVATARRCLL----SGRRSGDCATPSLILLES 76 Query: 58 NMPRLSGHDLLRMLKGNKATSHIPVVMFSTSTDREDINKSYELGANGYLHKATDADQMMD 117 +M G +LLR L+ + + PVV+F S D E ++ + GA YL K D ++ Sbjct: 77 DMECGDGLELLRELRASSHLAEAPVVVF-PSHDTEGEREALDAGATAYLPKPIDGERYAR 135 Query: 118 TVVDAVSYWT 127 VV+ V W Sbjct: 136 CVVEMVERWC 145 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 0.320 0.133 0.401 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: 394,240 Number of extensions: 14178 Number of successful extensions: 110 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 117 Number of HSP's successfully gapped: 5 Length of query: 134 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 58 Effective length of database: 1,260,010 Effective search space: 73080580 Effective search space used: 73080580 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)