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= 0003.0049.p (212 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311281|ref|YP_003775373.1| LuxR family response regulator ... 249 1e-67 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 136 1e-33 gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 127 5e-31 gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula... 107 1e-24 gi|300312077|ref|YP_003776169.1| response regulator containing a... 97 8e-22 >gi|300311281|ref|YP_003775373.1| LuxR family response regulator protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 249 bits (635), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 133/197 (67%), Positives = 159/197 (80%) Query: 10 VMIVDDHPMIRDGLRARLESMPGVRVVAETGTADEALRHAAHQSINLVLMDINLQGSSGI 69 +M++DDHP++RDGLRARLE++PG+ VVAE G ADEAL AA Q I+L LMDIN++G +GI Sbjct: 14 IMLIDDHPLVRDGLRARLETVPGLEVVAEAGHADEALAAAAAQEIDLTLMDINMRGINGI 73 Query: 70 ELTAKFQLNFPDIAVLILSMHNKAEYVLQSIRAGARGYVLKDAPGSDIVRAIGAVLNGGV 129 ELTA F P+IAVLILSMH+KAEYV+QSI+AGARGYVLKDAP DIV AI V +GG+ Sbjct: 74 ELTALFHARHPEIAVLILSMHDKAEYVMQSIQAGARGYVLKDAPSQDIVHAIETVRSGGI 133 Query: 130 YYSAALMPIIAQPRLKEETLTVRERQVLEQIARGASNKSIAETLDLSVRTVETHCLNIKR 189 YYSAAL + QP E LT RER+VL IA G SNK IA LDLSVRTVETH LNIKR Sbjct: 134 YYSAALARQLTQPLPPRELLTQREREVLMHIANGESNKQIARELDLSVRTVETHRLNIKR 193 Query: 190 KLDIEGRSELIKFALEN 206 KL+I+G++ELIKFA+E+ Sbjct: 194 KLNIDGQAELIKFAVES 210 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 136 bits (342), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 72/206 (34%), Positives = 121/206 (58%), Gaps = 8/206 (3%) Query: 7 ITNVMIVDDHPMIRDGLRARLESMPGVRVVAETGTADEALRHAAHQSINLVLMDINLQGS 66 +T +M+ DDH ++R G++A L +MPGV VV E E + +LVL+DI ++G Sbjct: 2 LTRIMLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGM 61 Query: 67 SGIELTAKFQLNFPDIAVLILSMHNKAEYVLQSIRAGARGYVLKDAPGSDIVRAIGAVLN 126 +G+E + + +P I L+LSM+ EYV+Q++ AGA GY+ KD+ +++ +A+ V + Sbjct: 62 NGLEALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEVKH 121 Query: 127 GGVYYSAAL--------MPIIAQPRLKEETLTVRERQVLEQIARGASNKSIAETLDLSVR 178 G Y + + M +AQ E LT R+R++L+ IA G + K IA L++S + Sbjct: 122 GRQYLDSHISREALDNYMKRVAQNGTPVEVLTPRQREILQLIAEGNNTKEIAYQLNVSAK 181 Query: 179 TVETHCLNIKRKLDIEGRSELIKFAL 204 T+ETH + +LDI L+++A+ Sbjct: 182 TIETHRAQLMERLDIRDVPGLVRYAI 207 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 127 bits (320), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 67/205 (32%), Positives = 125/205 (60%), Gaps = 5/205 (2%) Query: 7 ITNVMIVDDHPMIRDGLRARLESMPGVRVVAETGTADEALRHAAHQSINLVLMDINLQGS 66 +T +++VDDH ++R G+ + +P + + E TA+EA+R Q ++VL+DI + Sbjct: 1 MTKILVVDDHAVVRAGVHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDK 60 Query: 67 SGIELTAKFQLNFPDIAVLILSMHNKAEYVLQSIRAGARGYVLKDAPGSDIVRAIGAVLN 126 SG+E+ + + P++ VL+LSMH ++ Y +Q +R+GA GYV K+A +++V AI +L Sbjct: 61 SGVEVLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILR 120 Query: 127 GGVYYSAALMPII-AQPRLKE----ETLTVRERQVLEQIARGASNKSIAETLDLSVRTVE 181 G Y S + ++ ++P E ETL+ RE ++ ++ +G IA+ L LSV+TV Sbjct: 121 GHKYISYGVAELLTSEPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTVS 180 Query: 182 THCLNIKRKLDIEGRSELIKFALEN 206 T+ + +K+ + +++I +A++N Sbjct: 181 TYRSRVLQKMSMTNNADIIYYAIKN 205 >gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 219 Score = 107 bits (266), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 67/209 (32%), Positives = 114/209 (54%), Gaps = 12/209 (5%) Query: 10 VMIVDDHPMIRDGLRARLESMPGVRVVAETGTADEALRHAAHQSINLVLMDINLQGSSGI 69 +++VDDH + R G+R L+ P + VV E + ++ A ++VLMD+N+ G SG+ Sbjct: 5 ILLVDDHTLFRSGIRLLLQRHPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLSGL 64 Query: 70 ELTAKFQLNFPDIAVLILSMHNKAEYVLQSIRAGARGYVLKDAPGSDIVRAIGAVLNGGV 129 E + P+ AVL+LS+ +A+ + ++ GARGY+LK+ +V++I G Sbjct: 65 EAMQLIVQDLPETAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKRAAAGEP 124 Query: 130 YYSAALMP-IIAQPRL-----------KEETLTVRERQVLEQIARGASNKSIAETLDLSV 177 S ++ ++ Q R + LT RER + IARG SNK IA +L+++ Sbjct: 125 VISESMTAKLVMQLRAGAGNPAASAAEPTDKLTARERATMVCIARGQSNKEIARSLEVAE 184 Query: 178 RTVETHCLNIKRKLDIEGRSELIKFALEN 206 TV+ H N+ RKL + R ++ +A+E+ Sbjct: 185 STVKIHVQNLLRKLQLSSRVQIAVYAVEH 213 >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 = 97.4 bits (241), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 65/216 (30%), Positives = 113/216 (52%), Gaps = 14/216 (6%) Query: 5 TPITNVMIVDDHPMIRDGLRARLESMPGVRVVAETGTADEALRHAAHQSINLVLMDINLQ 64 T V+I DDH ++R+GLR + V EA++ A + +++L+DI L Sbjct: 6 TAAIKVLIADDHAIVREGLRQICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLLDIVLP 65 Query: 65 GSSGIELTAKFQLNFPDIAVLILSMHNKAEYVLQSIRAGARGYVLKDAPGSDIVRAIGAV 124 +GI++ + + P++ VLILS+H + +Y +++++AGA G++ K A ++++ AI Sbjct: 66 DRNGIDILKQIRKEQPELPVLILSIHREDQYAIRALKAGAAGFLNKQAAPAELLAAIRQA 125 Query: 125 LNGGVYYSAALMPIIAQPRLKE----------ETLTVRERQVLEQIARGASNKSIAETLD 174 +G Y S P +AQ + ETL+ RE Q + IA G + IA L Sbjct: 126 ASGRKYVS----PSLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDIAAELT 181 Query: 175 LSVRTVETHCLNIKRKLDIEGRSELIKFALENLRTE 210 LSV+T+ + + K+ + +EL +AL+N E Sbjct: 182 LSVKTISMYRSRVLSKMKMRHNAELTHYALKNALVE 217 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 0.318 0.135 0.367 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: 586,896 Number of extensions: 22187 Number of successful extensions: 161 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 11 Length of query: 212 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 131 Effective length of database: 1,236,335 Effective search space: 161959885 Effective search space used: 161959885 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)