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= 0007.0009.p (262 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310698|ref|YP_003774790.1| AraC family two-component hybri... 533 e-153 gi|300311949|ref|YP_003776041.1| two component response regulato... 96 2e-21 gi|300310849|ref|YP_003774941.1| two component transcription reg... 89 4e-19 gi|300313030|ref|YP_003777122.1| two component response regulato... 87 1e-18 gi|300313665|ref|YP_003777757.1| two component transcription reg... 87 2e-18 >gi|300310698|ref|YP_003774790.1| AraC family two-component hybrid sensor/regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 262 Score = 533 bits (1373), Expect = e-153, Method: Compositional matrix adjust. Identities = 262/262 (100%), Positives = 262/262 (100%) Query: 1 MIYKPLTPLPPGPLSGQRILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVR 60 MIYKPLTPLPPGPLSGQRILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVR Sbjct: 1 MIYKPLTPLPPGPLSGQRILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVR 60 Query: 61 PDLILMDIRMPGYDGLTSCRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKP 120 PDLILMDIRMPGYDGLTSCRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKP Sbjct: 61 PDLILMDIRMPGYDGLTSCRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKP 120 Query: 121 FDFEEVRLRLCIHLRSAARSNAPSASTESVEIPHGTNTFDMVLFQAARKLMLEKLDQTLS 180 FDFEEVRLRLCIHLRSAARSNAPSASTESVEIPHGTNTFDMVLFQAARKLMLEKLDQTLS Sbjct: 121 FDFEEVRLRLCIHLRSAARSNAPSASTESVEIPHGTNTFDMVLFQAARKLMLEKLDQTLS 180 Query: 181 LNGLASAVGTNARRLSSAFKNCAGVTVFDFLREERMREARRLLSETTLEIGAIALALGYS 240 LNGLASAVGTNARRLSSAFKNCAGVTVFDFLREERMREARRLLSETTLEIGAIALALGYS Sbjct: 181 LNGLASAVGTNARRLSSAFKNCAGVTVFDFLREERMREARRLLSETTLEIGAIALALGYS 240 Query: 241 NTANFSTAFRERFGMPPSQFRR 262 NTANFSTAFRERFGMPPSQFRR Sbjct: 241 NTANFSTAFRERFGMPPSQFRR 262 >gi|300311949|ref|YP_003776041.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 96.3 bits (238), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 56/161 (34%), Positives = 83/161 (51%), Gaps = 8/161 (4%) Query: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78 +L+VDD D+ +LS L G + + TDG + + PDLIL+D MPG DG + Sbjct: 11 VLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDGFET 70 Query: 79 CRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHLRSA- 137 CR +K ++PV+F++ + TE V G G +DY+TKP +EV R+ H+R+A Sbjct: 71 CRRIKQVRRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTAR 130 Query: 138 ----ARSNAPSASTESVEIPHGTNTFDMVLFQAARKLMLEK 174 AR A+ + + G N M L A + LEK Sbjct: 131 MMVQARGALEHAAHAVIVL--GGNGLPMWLTSKASQ-WLEK 168 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 88.6 bits (218), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 51/117 (43%), Positives = 73/117 (62%), Gaps = 3/117 (2%) Query: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78 ILVVDD D RTLL+ +L +G+R T+G + R + R DLI++D+ +PG DGLT Sbjct: 10 ILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGLTL 69 Query: 79 CRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHLR 135 CR L+A +S +PVI L+A +++ GL GA DY+ KPF+ E+ R+ LR Sbjct: 70 CRNLRATSS---VPVIMLTARGEPLDRILGLEMGADDYLAKPFEPRELFARIRSVLR 123 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 87.4 bits (215), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 45/117 (38%), Positives = 68/117 (58%), Gaps = 1/117 (0%) Query: 18 RILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLT 77 RIL+ DD + L++ LL+ +++ T G ++ V PDLILMD+ MPG +G Sbjct: 17 RILLCDDQPINIRLVNA-LLKGDYEIFMATSGLQAIELSERVTPDLILMDVNMPGLNGYD 75 Query: 78 SCRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHL 134 +C LK NT T IPVIFL+ + E++V G VD+I+KP + ++ R+ HL Sbjct: 76 TCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHL 132 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 86.7 bits (213), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 47/119 (39%), Positives = 70/119 (58%), Gaps = 3/119 (2%) Query: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78 +L+VDD D R LL+ +L R + GQ+ +R + R D+I++D+ MPG DGL Sbjct: 7 VLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGEDGLEL 66 Query: 79 CRLLKANTSTRNIPVIFLSAATTTEEKVTGLSTGAVDYITKPFDFEEVRLRLCIHLRSA 137 CR L+ RN P++ L+A T +++ GL GA DY+ KPFD E+ R+ + LR A Sbjct: 67 CRELRKK---RNTPLVMLTARGTLIDRIVGLEVGADDYLPKPFDPRELLARIKVILRRA 122 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 0.136 0.387 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: 637,922 Number of extensions: 21014 Number of successful extensions: 236 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 229 Number of HSP's successfully gapped: 42 Length of query: 262 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 179 Effective length of database: 1,226,865 Effective search space: 219608835 Effective search space used: 219608835 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: 129 (54.3 bits)