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= 0030.0147.p (214 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... 409 e-116 gi|300312077|ref|YP_003776169.1| response regulator containing a... 207 6e-55 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 131 3e-32 gi|300311281|ref|YP_003775373.1| LuxR family response regulator ... 131 3e-32 gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula... 93 1e-20 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 409 bits (1051), Expect = e-116, Method: Compositional matrix adjust. Identities = 196/209 (93%), Positives = 206/209 (98%) Query: 6 MTKILVVDDHAVVRAGVQHFIADIPNMEVGGEASTAEEAIRLVRTQEWDIVLLDIAMPDK 65 MTKILVVDDHAVVRAGV HFI++IP+ME+GGEASTAEEAIRLVRTQ+WDIVLLDIAMPDK Sbjct: 1 MTKILVVDDHAVVRAGVHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDK 60 Query: 66 SGVEVLKQIKREKPNLPVLMLSMHPESRYAVQVLRSGASGYVQKEALATDLVSAINTILR 125 SGVEVLKQIKREKP LPVLMLSMHPESRYAVQVLRSGASGYVQKEALAT+LV+AINTILR Sbjct: 61 SGVEVLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILR 120 Query: 126 GHKYISYGVAELLTTDPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVS 185 GHKYISYGVAELLT++PVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVS Sbjct: 121 GHKYISYGVAELLTSEPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVS 180 Query: 186 TYRSRVLQKMNMANNADIIYYAIKNNLID 214 TYRSRVLQKM+M NNADIIYYAIKNNLID Sbjct: 181 TYRSRVLQKMSMTNNADIIYYAIKNNLID 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 = 207 bits (527), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 99/213 (46%), Positives = 147/213 (69%), Gaps = 1/213 (0%) Query: 3 VKTMTKILVVDDHAVVRAGVQHFIADIPNMEVGGEASTAEEAIRLVRTQEWDIVLLDIAM 62 V K+L+ DDHA+VR G++ A ++ V G A+ EAI+L R D++LLDI + Sbjct: 5 VTAAIKVLIADDHAIVREGLRQICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLLDIVL 64 Query: 63 PDKSGVEVLKQIKREKPNLPVLMLSMHPESRYAVQVLRSGASGYVQKEALATDLVSAINT 122 PD++G+++LKQI++E+P LPVL+LS+H E +YA++ L++GA+G++ K+A +L++AI Sbjct: 65 PDRNGIDILKQIRKEQPELPVLILSIHREDQYAIRALKAGAAGFLNKQAAPAELLAAIRQ 124 Query: 123 ILRGHKYISYGVA-ELLTTDPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSV 181 G KY+S +A EL D E PLHETLS REY+ + G+ V+ IA EL LSV Sbjct: 125 AASGRKYVSPSLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDIAAELTLSV 184 Query: 182 KTVSTYRSRVLQKMNMANNADIIYYAIKNNLID 214 KT+S YRSRVL KM M +NA++ +YA+KN L++ Sbjct: 185 KTISMYRSRVLSKMKMRHNAELTHYALKNALVE 217 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 131 bits (330), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 70/211 (33%), Positives = 129/211 (61%), Gaps = 5/211 (2%) Query: 6 MTKILVVDDHAVVRAGVQHFIADIPNMEVGGEASTAEEAIRLVRTQEWDIVLLDIAMPDK 65 +T+I++ DDHA+VR+G++ + +P +EV GEAS E I ++ + D+VLLDIAM Sbjct: 2 LTRIMLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGM 61 Query: 66 SGVEVLKQIKREKPNLPVLMLSMHPESRYAVQVLRSGASGYVQKEALATDLVSAINTILR 125 +G+E L++++ E P + LMLSM+ Y +Q L +GA+GY+ K++ AT+L A+ + Sbjct: 62 NGLEALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEVKH 121 Query: 126 GHKY----ISYGVAELLTTDPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSV 181 G +Y IS + + P+ E L+ R+ EI + +G +IA +L +S Sbjct: 122 GRQYLDSHISREALDNYMKRVAQNGTPV-EVLTPRQREILQLIAEGNNTKEIAYQLNVSA 180 Query: 182 KTVSTYRSRVLQKMNMANNADIIYYAIKNNL 212 KT+ T+R+++++++++ + ++ YAI+ + Sbjct: 181 KTIETHRAQLMERLDIRDVPGLVRYAIRTGI 211 >gi|300311281|ref|YP_003775373.1| LuxR family response regulator protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 131 bits (330), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 77/202 (38%), Positives = 123/202 (60%), Gaps = 5/202 (2%) Query: 9 ILVVDDHAVVRAGVQHFIADIPNMEVGGEASTAEEAIRLVRTQEWDIVLLDIAMPDKSGV 68 I+++DDH +VR G++ + +P +EV EA A+EA+ QE D+ L+DI M +G+ Sbjct: 14 IMLIDDHPLVRDGLRARLETVPGLEVVAEAGHADEALAAAAAQEIDLTLMDINMRGINGI 73 Query: 69 EVLKQIKREKPNLPVLMLSMHPESRYAVQVLRSGASGYVQKEALATDLVSAINTILRGHK 128 E+ P + VL+LSMH ++ Y +Q +++GA GYV K+A + D+V AI T+ G Sbjct: 74 ELTALFHARHPEIAVLILSMHDKAEYVMQSIQAGARGYVLKDAPSQDIVHAIETVRSGGI 133 Query: 129 YISYGVAELLTTDPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVSTYR 188 Y S +A L T P+ P E L+QRE E+ + G+ QIA EL LSV+TV T+R Sbjct: 134 YYSAALARQL-TQPL----PPRELLTQREREVLMHIANGESNKQIARELDLSVRTVETHR 188 Query: 189 SRVLQKMNMANNADIIYYAIKN 210 + +K+N+ A++I +A+++ Sbjct: 189 LNIKRKLNIDGQAELIKFAVES 210 >gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 219 Score = 93.2 bits (230), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 62/212 (29%), Positives = 107/212 (50%), Gaps = 7/212 (3%) Query: 8 KILVVDDHAVVRAGVQHFIADIPNMEVGGEASTAEEAIRLVRTQEWDIVLLDIAMPDKSG 67 +IL+VDDH + R+G++ + P+++V GEA + ++ D+VL+D+ MP SG Sbjct: 4 RILLVDDHTLFRSGIRLLLQRHPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLSG 63 Query: 68 VEVLKQIKREKPNLPVLMLSMHPESRYAVQVLRSGASGYVQKEALATDLVSAINTILRGH 127 +E ++ I ++ P VLMLS+ E+ L +GA GY+ K A LV +I G Sbjct: 64 LEAMQLIVQDLPETAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKRAAAGE 123 Query: 128 KYISYGVAELLTT-------DPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLS 180 IS + L +P S + L+ RE + +GQ +IA L ++ Sbjct: 124 PVISESMTAKLVMQLRAGAGNPAASAAEPTDKLTARERATMVCIARGQSNKEIARSLEVA 183 Query: 181 VKTVSTYRSRVLQKMNMANNADIIYYAIKNNL 212 TV + +L+K+ +++ I YA+++ L Sbjct: 184 ESTVKIHVQNLLRKLQLSSRVQIAVYAVEHGL 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 0.317 0.133 0.366 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: 586,344 Number of extensions: 21570 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 191 Number of HSP's successfully gapped: 18 Length of query: 214 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 133 Effective length of database: 1,236,335 Effective search space: 164432555 Effective search space used: 164432555 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 (21.7 bits) S2: 128 (53.9 bits)