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= 0066.0134.p (204 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 129 2e-31 gi|300311281|ref|YP_003775373.1| LuxR family response regulator ... 128 3e-31 gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 115 3e-27 gi|300312077|ref|YP_003776169.1| response regulator containing a... 110 7e-26 gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula... 108 4e-25 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 129 bits (323), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 72/209 (34%), Positives = 120/209 (57%), Gaps = 7/209 (3%) Query: 1 VLAEDHAIIRDGLKLLVSTRPNLCVVADTGDGGEVERLLREHQPDLLLLDLDLPGLHGIE 60 +LA+DHA++R G+K L++ P + VV + DG EV ++ + +PDL+LLD+ + G++G+E Sbjct: 6 MLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGMNGLE 65 Query: 61 LTRRIKASLPNVRVLILTGSPGAASVRAAFEAGADGYVLKHENADELLHAISLVLSGIVY 120 RR++ P +R L+L+ V A AGA+GY+ K A EL A+ V G Y Sbjct: 66 ALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEVKHGRQY 125 Query: 121 LSKGLGS------MTDLPSPPVPA-ALTAREQQVLALIAQGASSNDIAARLHLSVLTVRK 173 L + M + P LT R++++L LIA+G ++ +IA +L++S T+ Sbjct: 126 LDSHISREALDNYMKRVAQNGTPVEVLTPRQREILQLIAEGNNTKEIAYQLNVSAKTIET 185 Query: 174 HRQNLMVKLSLHNVAEVTAYALRSNLFAP 202 HR LM +L + +V + YA+R+ + P Sbjct: 186 HRAQLMERLDIRDVPGLVRYAIRTGIATP 214 >gi|300311281|ref|YP_003775373.1| LuxR family response regulator protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 128 bits (321), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 81/204 (39%), Positives = 114/204 (55%), Gaps = 1/204 (0%) Query: 1 VLAEDHAIIRDGLKLLVSTRPNLCVVADTGDGGEVERLLREHQPDLLLLDLDLPGLHGIE 60 +L +DH ++RDGL+ + T P L VVA+ G E + DL L+D+++ G++GIE Sbjct: 15 MLIDDHPLVRDGLRARLETVPGLEVVAEAGHADEALAAAAAQEIDLTLMDINMRGINGIE 74 Query: 61 LTRRIKASLPNVRVLILTGSPGAASVRAAFEAGADGYVLKHENADELLHAISLVLSGIVY 120 LT A P + VLIL+ A V + +AGA GYVLK + +++HAI V SG +Y Sbjct: 75 LTALFHARHPEIAVLILSMHDKAEYVMQSIQAGARGYVLKDAPSQDIVHAIETVRSGGIY 134 Query: 121 LSKGLGSMTDLPSPPVPAALTAREQQVLALIAQGASSNDIAARLHLSVLTVRKHRQNLMV 180 S L P PP LT RE++VL IA G S+ IA L LSV TV HR N+ Sbjct: 135 YSAALARQLTQPLPP-RELLTQREREVLMHIANGESNKQIARELDLSVRTVETHRLNIKR 193 Query: 181 KLSLHNVAEVTAYALRSNLFAPSP 204 KL++ AE+ +A+ S +P Sbjct: 194 KLNIDGQAELIKFAVESRSAGGAP 217 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 115 bits (287), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 67/206 (32%), Positives = 114/206 (55%), Gaps = 8/206 (3%) Query: 1 VLAEDHAIIRDGLKLLVSTRPNLCVVADTGDGGEVERLLREHQPDLLLLDLDLPGLHGIE 60 ++ +DHA++R G+ +S P++ + + E RL+R D++LLD+ +P G+E Sbjct: 5 LVVDDHAVVRAGVHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVE 64 Query: 61 LTRRIKASLPNVRVLILTGSPGAASVRAAFEAGADGYVLKHENADELLHAISLVLSGIVY 120 + ++IK P + VL+L+ P + +GA GYV K A EL++AI+ +L G Y Sbjct: 65 VLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKY 124 Query: 121 LSKGLGSMTDLPSPPVPA------ALTAREQQVLALIAQGASSNDIAARLHLSVLTVRKH 174 +S G+ + L S PV + L+ RE ++ + QG IA L LSV TV + Sbjct: 125 ISYGVAEL--LTSEPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTY 182 Query: 175 RQNLMVKLSLHNVAEVTAYALRSNLF 200 R ++ K+S+ N A++ YA+++NL Sbjct: 183 RSRVLQKMSMTNNADIIYYAIKNNLI 208 >gi|300312077|ref|YP_003776169.1| response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 110 bits (276), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 72/206 (34%), Positives = 117/206 (56%), Gaps = 9/206 (4%) Query: 1 VLAEDHAIIRDGLKLLVSTRPNLCVVADTGDGGEVERLLREHQPDLLLLDLDLPGLHGIE 60 ++A+DHAI+R+GL+ + + ++ V + +G E +L RE D+LLLD+ LP +GI+ Sbjct: 12 LIADDHAIVREGLRQICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLLDIVLPDRNGID 71 Query: 61 LTRRIKASLPNVRVLILTGSPGAASVRAAFEAGADGYVLKHENADELLHAISLVLSGIVY 120 + ++I+ P + VLIL+ A +AGA G++ K ELL AI SG Y Sbjct: 72 ILKQIRKEQPELPVLILSIHREDQYAIRALKAGAAGFLNKQAAPAELLAAIRQAASGRKY 131 Query: 121 LSKGLGSMTDLPSP-------PVPAALTAREQQVLALIAQGASSNDIAARLHLSVLTVRK 173 +S L +L + P+ L+ RE Q + +IA G + +DIAA L LSV T+ Sbjct: 132 VSPSLAQ--ELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDIAAELTLSVKTISM 189 Query: 174 HRQNLMVKLSLHNVAEVTAYALRSNL 199 +R ++ K+ + + AE+T YAL++ L Sbjct: 190 YRSRVLSKMKMRHNAELTHYALKNAL 215 >gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 219 Score = 108 bits (269), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 74/216 (34%), Positives = 119/216 (55%), Gaps = 15/216 (6%) Query: 1 VLAEDHAIIRDGLKLLVSTRPNLCVVADTGDGGE-VERLLREHQPDLLLLDLDLPGLHGI 59 +L +DH + R G++LL+ P++ VV + DG + V+R L + +PD++L+DL++PGL G+ Sbjct: 6 LLVDDHTLFRSGIRLLLQRHPDIDVVGEAVDGLDGVKRAL-QLRPDVVLMDLNMPGLSGL 64 Query: 60 ELTRRIKASLPNVRVLILTGSPGAASVRAAFEAGADGYVLKHENADELLHAISLVLSG-- 117 E + I LP VL+L+ S A + A GA GY+LK+ AD L+ +I +G Sbjct: 65 EAMQLIVQDLPETAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKRAAAGEP 124 Query: 118 ----------IVYLSKGLGSMTDLPSPPVPAALTAREQQVLALIAQGASSNDIAARLHLS 167 ++ L G G+ + P LTARE+ + IA+G S+ +IA L ++ Sbjct: 125 VISESMTAKLVMQLRAGAGNPAASAAEPTD-KLTARERATMVCIARGQSNKEIARSLEVA 183 Query: 168 VLTVRKHRQNLMVKLSLHNVAEVTAYALRSNLFAPS 203 TV+ H QNL+ KL L + ++ YA+ L S Sbjct: 184 ESTVKIHVQNLLRKLQLSSRVQIAVYAVEHGLDKSS 219 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 0.319 0.136 0.377 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: 598,039 Number of extensions: 23203 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 12 Length of query: 204 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 123 Effective length of database: 1,236,335 Effective search space: 152069205 Effective search space used: 152069205 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 (21.7 bits) S2: 128 (53.9 bits)