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= 0037.0104.p (203 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310563|ref|YP_003774655.1| response regulator protein [Her... 260 4e-71 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 95 4e-21 gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula... 95 4e-21 gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 80 1e-16 gi|300311281|ref|YP_003775373.1| LuxR family response regulator ... 79 3e-16 >gi|300310563|ref|YP_003774655.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 204 Score = 260 bits (665), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 151/206 (73%), Positives = 172/206 (83%), Gaps = 5/206 (2%) Query: 1 MPTSRLLIIDDHALFRCGLRLVLQAALPHANIDEAASLEDAMRLEDGQP--PGMVLLDIQ 58 M T LLIIDDHALFR GLRLVLQ +LP A + EAASLE+A+ L+ + P ++L+DIQ Sbjct: 1 MSTPHLLIIDDHALFRSGLRLVLQNSLPQARLSEAASLEEALHLQGDEEDAPTLLLIDIQ 60 Query: 59 LGGLNGIDGMSVLARKWPQVPVIILSADDTDETVREATRRGAAAFVSKAATADHILRVLL 118 LGGLNGIDGM+VLAR+WP VP IILSADDTD TVR+A +RGA+AFVSKAATA+HI+ V+ Sbjct: 61 LGGLNGIDGMAVLARRWPGVPAIILSADDTDHTVRQALQRGASAFVSKAATAEHIMAVIA 120 Query: 119 EVAGGRHVLPVPDVAADA-TGKPQFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTIRGHV 177 +V GG + P ++ D K QFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTIRGHV Sbjct: 121 KVGGG--LTPCQNLRGDQPDDKAQFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTIRGHV 178 Query: 178 QAILLALDVDNRAEAAFAARRRGLVS 203 QAILLALDVDNRAEAAFAARRRGLVS Sbjct: 179 QAILLALDVDNRAEAAFAARRRGLVS 204 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 94.7 bits (234), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 59/194 (30%), Positives = 101/194 (52%), Gaps = 11/194 (5%) Query: 4 SRLLIIDDHALFRCGLRLVLQAALPHANIDEAASLEDAMRLEDGQPPGMVLLDIQLGGLN 63 +R+++ DDHAL R G++ +L A + EA+ + + + P +VLLDI + G+N Sbjct: 3 TRIMLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGMN 62 Query: 64 GIDGMSVLARKWPQVPVIILSADDTDETVREATRRGAAAFVSKAATADHILRVLLEVAGG 123 G++ + L ++P + ++LS ++E V +A GA ++ K + A + + L EV G Sbjct: 63 GLEALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEVKHG 122 Query: 124 RHVLP-----------VPDVAADATGKPQFTPRQYEVLGLLSQGLTNKAIGRRLNLSENT 172 R L + VA + T TPRQ E+L L+++G K I +LN+S T Sbjct: 123 RQYLDSHISREALDNYMKRVAQNGTPVEVLTPRQREILQLIAEGNNTKEIAYQLNVSAKT 182 Query: 173 IRGHVQAILLALDV 186 I H ++ LD+ Sbjct: 183 IETHRAQLMERLDI 196 >gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 219 Score = 94.7 bits (234), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 63/215 (29%), Positives = 113/215 (52%), Gaps = 21/215 (9%) Query: 5 RLLIIDDHALFRCGLRLVLQAALPHANID---EAASLEDAMRLEDGQPPGMVLLDIQLGG 61 R+L++DDH LFR G+RL+LQ H +ID EA D ++ P +VL+D+ + G Sbjct: 4 RILLVDDHTLFRSGIRLLLQR---HPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPG 60 Query: 62 LNGIDGMSVLARKWPQVPVIILSADDTDETVREATRRGAAAFVSKAATADHILRVLLEVA 121 L+G++ M ++ + P+ V++LS + + + A GA ++ K AD++++ + A Sbjct: 61 LSGLEAMQLIVQDLPETAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKRAA 120 Query: 122 GGRHVLPVPDVA-------------ADATGKP--QFTPRQYEVLGLLSQGLTNKAIGRRL 166 G V+ A A + +P + T R+ + +++G +NK I R L Sbjct: 121 AGEPVISESMTAKLVMQLRAGAGNPAASAAEPTDKLTARERATMVCIARGQSNKEIARSL 180 Query: 167 NLSENTIRGHVQAILLALDVDNRAEAAFAARRRGL 201 ++E+T++ HVQ +L L + +R + A A GL Sbjct: 181 EVAESTVKIHVQNLLRKLQLSSRVQIAVYAVEHGL 215 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 56/209 (26%), Positives = 103/209 (49%), Gaps = 12/209 (5%) Query: 4 SRLLIIDDHALFRCGLRLVLQAALPHANID-EAASLEDAMRLEDGQPPGMVLLDIQLGGL 62 +++L++DDHA+ R G+ + + +P I EA++ E+A+RL Q +VLLDI + Sbjct: 2 TKILVVDDHAVVRAGVHHFI-SEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDK 60 Query: 63 NGIDGMSVLARKWPQVPVIILSADDTDETVREATRRGAAAFVSKAATADHILRVLLEVAG 122 +G++ + + R+ P++PV++LS + R GA+ +V K A A ++ + + Sbjct: 61 SGVEVLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILR 120 Query: 123 GRHVLPVPDVAADATGKP---------QFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTI 173 G + VA T +P + R+YE+ L QG I L LS T+ Sbjct: 121 GHKYISY-GVAELLTSEPVDSEKPLHETLSQREYEIFYKLGQGQGVTQIADELCLSVKTV 179 Query: 174 RGHVQAILLALDVDNRAEAAFAARRRGLV 202 + +L + + N A+ + A + L+ Sbjct: 180 STYRSRVLQKMSMTNNADIIYYAIKNNLI 208 >gi|300311281|ref|YP_003775373.1| LuxR family response regulator protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 78.6 bits (192), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 62/206 (30%), Positives = 100/206 (48%), Gaps = 18/206 (8%) Query: 6 LLIIDDHALFRCGLRLVLQAALPHANIDEAASLEDAMRLEDGQPPGMVLLDIQLGGLNGI 65 +++IDDH L R GLR L+ + EA ++A+ Q + L+DI + G+NGI Sbjct: 14 IMLIDDHPLVRDGLRARLETVPGLEVVAEAGHADEALAAAAAQEIDLTLMDINMRGINGI 73 Query: 66 DGMSVLARKWPQVPVIILSADDTDETVREATRRGAAAFVSKAATADHILRVLLEVAGG-- 123 + ++ + P++ V+ILS D E V ++ + GA +V K A + I+ + V G Sbjct: 74 ELTALFHARHPEIAVLILSMHDKAEYVMQSIQAGARGYVLKDAPSQDIVHAIETVRSGGI 133 Query: 124 --------RHVLPVPDVAADATGKPQFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTIRG 175 + P+P + T R+ EVL ++ G +NK I R L+LS T+ Sbjct: 134 YYSAALARQLTQPLPP-------RELLTQREREVLMHIANGESNKQIARELDLSVRTVET 186 Query: 176 HVQAILLALDVDNRAE-AAFAARRRG 200 H I L++D +AE FA R Sbjct: 187 HRLNIKRKLNIDGQAELIKFAVESRS 212 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 0.137 0.390 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: 605,026 Number of extensions: 25393 Number of successful extensions: 165 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 161 Number of HSP's successfully gapped: 8 Length of query: 203 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 122 Effective length of database: 1,236,335 Effective search space: 150832870 Effective search space used: 150832870 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: 128 (53.9 bits)