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= 0007.0007.p (193 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 397 e-112 gi|300312077|ref|YP_003776169.1| response regulator containing a... 188 3e-49 gi|300311281|ref|YP_003775373.1| LuxR family response regulator ... 114 6e-27 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 109 1e-25 gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula... 76 1e-15 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 397 bits (1019), Expect = e-112, Method: Compositional matrix adjust. Identities = 193/193 (100%), Positives = 193/193 (100%) Query: 1 VHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPEL 60 VHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPEL Sbjct: 17 VHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPEL 76 Query: 61 PVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVAELLTSE 120 PVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVAELLTSE Sbjct: 77 PVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVAELLTSE 136 Query: 121 PVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMTNNA 180 PVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMTNNA Sbjct: 137 PVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMTNNA 196 Query: 181 DIIYYAIKNNLID 193 DIIYYAIKNNLID Sbjct: 197 DIIYYAIKNNLID 209 >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 = 188 bits (477), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 88/182 (48%), Positives = 132/182 (72%), Gaps = 1/182 (0%) Query: 13 IGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPELPVLMLSMHPESR 72 + G A+ EAI+L R + D++LLDI +PD++G+++LKQI++E+PELPVL+LS+H E + Sbjct: 36 VAGNAANGLEAIKLAREGNGDVLLLDIVLPDRNGIDILKQIRKEQPELPVLILSIHREDQ 95 Query: 73 YAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVAELLTSE-PVDSEKPLHET 131 YA++ L++GA+G++ K+A EL+ AI G KY+S +A+ L ++ D E PLHET Sbjct: 96 YAIRALKAGAAGFLNKQAAPAELLAAIRQAASGRKYVSPSLAQELANQIGFDHETPLHET 155 Query: 132 LSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMTNNADIIYYAIKNNL 191 LS REY+ + G+ V+ IA EL LSVKT+S YRSRVL KM M +NA++ +YA+KN L Sbjct: 156 LSDREYQTMVMIASGKTVSDIAAELTLSVKTISMYRSRVLSKMKMRHNAELTHYALKNAL 215 Query: 192 ID 193 ++ Sbjct: 216 VE 217 >gi|300311281|ref|YP_003775373.1| LuxR family response regulator protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 114 bits (284), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 67/182 (36%), Positives = 112/182 (61%), Gaps = 5/182 (2%) Query: 8 IPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPELPVLMLSM 67 +P +E+ EA A+EA+ Q+ D+ L+DI M +G+E+ PE+ VL+LSM Sbjct: 34 VPGLEVVAEAGHADEALAAAAAQEIDLTLMDINMRGINGIELTALFHARHPEIAVLILSM 93 Query: 68 HPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVAELLTSEPVDSEKP 127 H ++ Y +Q +++GA GYV K+A + ++V+AI T+ G Y S +A LT +P+ P Sbjct: 94 HDKAEYVMQSIQAGARGYVLKDAPSQDIVHAIETVRSGGIYYSAALARQLT-QPL----P 148 Query: 128 LHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMTNNADIIYYAI 187 E L+QRE E+ + G+ QIA EL LSV+TV T+R + +K+++ A++I +A+ Sbjct: 149 PRELLTQREREVLMHIANGESNKQIARELDLSVRTVETHRLNIKRKLNIDGQAELIKFAV 208 Query: 188 KN 189 ++ Sbjct: 209 ES 210 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 109 bits (272), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 61/194 (31%), Positives = 114/194 (58%), Gaps = 3/194 (1%) Query: 1 VHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPEL 60 + ++ +P +E+ GEAS E I ++ D+VLLDIAM +G+E L++++ E P + Sbjct: 18 IKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGMNGLEALRRLRGEYPTI 77 Query: 61 PVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVA-ELLTS 119 LMLSM+ Y +Q L +GA+GY+ K++ ATEL A+ + G +Y+ ++ E L + Sbjct: 78 RFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEVKHGRQYLDSHISREALDN 137 Query: 120 --EPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMT 177 + V E L+ R+ EI + +G +IA +L +S KT+ T+R+++++++ + Sbjct: 138 YMKRVAQNGTPVEVLTPRQREILQLIAEGNNTKEIAYQLNVSAKTIETHRAQLMERLDIR 197 Query: 178 NNADIIYYAIKNNL 191 + ++ YAI+ + Sbjct: 198 DVPGLVRYAIRTGI 211 >gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 219 Score = 76.3 bits (186), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/190 (28%), Positives = 91/190 (47%), Gaps = 7/190 (3%) Query: 9 PSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSGVEVLKQIKREKPELPVLMLSMH 68 P +++ GEA + ++ D+VL+D+ MP SG+E ++ I ++ PE VLMLS+ Sbjct: 26 PDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLSGLEAMQLIVQDLPETAVLMLSVS 85 Query: 69 PESRYAVQVLRSGASGYVQKEALATELVNAINTILRGHKYISYGVAELL-------TSEP 121 E+ L +GA GY+ K A LV +I G IS + L P Sbjct: 86 EEADDLTTALHNGARGYLLKNIEADYLVQSIKRAAAGEPVISESMTAKLVMQLRAGAGNP 145 Query: 122 VDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYRSRVLQKMSMTNNAD 181 S + L+ RE + +GQ +IA L ++ TV + +L+K+ +++ Sbjct: 146 AASAAEPTDKLTARERATMVCIARGQSNKEIARSLEVAESTVKIHVQNLLRKLQLSSRVQ 205 Query: 182 IIYYAIKNNL 191 I YA+++ L Sbjct: 206 IAVYAVEHGL 215 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 0.316 0.132 0.362 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: 523,954 Number of extensions: 18721 Number of successful extensions: 182 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 12 Length of query: 193 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 113 Effective length of database: 1,241,070 Effective search space: 140240910 Effective search space used: 140240910 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 128 (53.9 bits)