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= 0001.3647.p (211 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313031|ref|YP_003777123.1| two component response regulato... 263 1e-71 gi|300313791|ref|YP_003777883.1| response regulator protein [Her... 102 2e-23 gi|300310669|ref|YP_003774761.1| two component response regulato... 74 9e-15 gi|300310176|ref|YP_003774268.1| C4-dicarboxylate transport tran... 57 1e-09 >gi|300313031|ref|YP_003777123.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 195 Score = 263 bits (671), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 144/211 (68%), Positives = 160/211 (75%), Gaps = 16/211 (7%) Query: 1 MTTAHLAHIVGGEDSLGGPLVRLLEAAGFHVAHHPSADQFLQQATGGTPRGLVLEVHMQD 60 MT AHLAHIVGG+DSLGGPL RLLE AGFHVAHH SADQFL+ AT P GLVL V+M++ Sbjct: 1 MTNAHLAHIVGGDDSLGGPLGRLLEEAGFHVAHHRSADQFLEHATATGPGGLVLAVNMRN 60 Query: 61 VDAPQLRSLLDQRETGRPLIVITGEPSAMMQQEARSNALSTGQHSDMDAGTGKHEQPMLR 120 +DAPQLRSLLD+++ G PLIVITG + A GQ S ++P + Sbjct: 61 MDAPQLRSLLDEKKEGIPLIVITGN---------QPGAAPLGQSS-------AQQEPEVA 104 Query: 121 EQLVAAFRGALMPFDESGPQMQQRQEHHQRLKTLTRREREVLERLVKGRLNKQIAAELGT 180 +QLVAAFR ALMP+DES P QQR+ H RL TLTRREREVL LVKGRLNKQIAAELGT Sbjct: 105 QQLVAAFREALMPYDESAPHQQQRRIHQARLATLTRREREVLMLLVKGRLNKQIAAELGT 164 Query: 181 SERTVKAHRQQVMRKMNAGSLAALVAAMTRY 211 SERTVKAHRQQVMRKM AGSLA LVAAMTRY Sbjct: 165 SERTVKAHRQQVMRKMYAGSLAELVAAMTRY 195 >gi|300313791|ref|YP_003777883.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 206 Score = 102 bits (254), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 77/209 (36%), Positives = 110/209 (52%), Gaps = 23/209 (11%) Query: 8 HIVGGEDSLGGPLVRLLEAAGFHVAHHPSADQFLQQATGGTPRGLVLEVHMQDVDAPQLR 67 +V ++ + L+RLL +AG+ SAD+FLQ P L+L++ M D ++ Sbjct: 6 FVVDDDNMVRTALLRLLASAGYAAHGFASADEFLQARLPAVPCCLLLDMKMPGSDGFEVV 65 Query: 68 SLLDQRETGRPLIVITGE---PSAMMQQEARSNALSTGQHSDMDAGTGKHEQPMLREQLV 124 L++R P+I I+G P+ + A+ G H + +P+ E+L+ Sbjct: 66 RRLERRGDAIPVIFISGYGTIPTTV-------QAMKAGAHEFLT-------KPIQDERLL 111 Query: 125 AAFRGALMPFDESGPQMQQRQEH---HQRLKTLTRREREVLERLVKGRLNKQIAAELGTS 181 A AL + Q+Q R EH RL+TLT REREVLE + G LNKQIA ELG S Sbjct: 112 GAVEEALQIAER---QLQSRTEHAACTSRLETLTPREREVLELAIGGLLNKQIATELGIS 168 Query: 182 ERTVKAHRQQVMRKMNAGSLAALVAAMTR 210 E TVK H+++VM KM +LA LV A R Sbjct: 169 EITVKVHKRRVMDKMQTKTLADLVRAAER 197 >gi|300310669|ref|YP_003774761.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 214 Score = 73.9 bits (180), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 92/207 (44%), Gaps = 17/207 (8%) Query: 2 TTAHLAHIVGGEDSLGGPLVRLLEAAGFHVAHHPSADQFLQQATGGTPRGLVLEVHMQDV 61 T + +IV ++++ L LL + + FL+ + L+L+V M ++ Sbjct: 4 TNPPVVYIVDDDEAVRTSLAWLLSSVNIRTECFEGPEAFLKAYDANSLSCLILDVRMPEI 63 Query: 62 DAPQLRSLLDQRETGRPLIVITGEPSAMMQQEARSNALSTGQHSDMDAGTGKHEQPMLRE 121 QL+ L + P+I ++G M A N E+P + Sbjct: 64 SGFQLQDRLKEIGADIPVIFVSGHGDIPMSVRALHNG-----------AVDFLEKPYNSQ 112 Query: 122 QLVAAFRGALMPFDESGPQMQ---QRQEHHQRLKTLTRREREVLERLVKGRLNKQIAAEL 178 Q++ + M MQ +RQ+ RLKTLT RERE+LE+++ G+ +K IA EL Sbjct: 113 QMLERIQ---MTLKHVAGNMQARTRRQQLKARLKTLTAREREILEKVIMGQSSKLIAREL 169 Query: 179 GTSERTVKAHRQQVMRKMNAGSLAALV 205 S +TV HR V K+ S A LV Sbjct: 170 NISVKTVDVHRASVKDKLGCQSTATLV 196 >gi|300310176|ref|YP_003774268.1| C4-dicarboxylate transport transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 196 Score = 57.0 bits (136), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 40/121 (33%), Positives = 54/121 (44%), Gaps = 15/121 (12%) Query: 77 RPLIVITGEPSAMMQQEARSNALSTGQHSDMDAGTGKHEQPMLREQLVAAFRGALMPFDE 136 RP+I +TG M + N E+P QL+ AL Sbjct: 79 RPVIFLTGHGDVPMAVDMLKNG-----------AFDFFEKPFNDNQLMDRVLEALASSRA 127 Query: 137 SGPQMQQRQEHHQRLKTLTRREREVLERLVKGRLNKQIAAELGTSERTVKAHRQQVMRKM 196 G + RL L+ REREVL+ ++ G++NK IA ELG S RTV+ HR + KM Sbjct: 128 GGAE----DAVQSRLAALSVREREVLDLILAGKMNKVIADELGISMRTVEVHRAHIFDKM 183 Query: 197 N 197 N Sbjct: 184 N 184 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 0.130 0.364 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: 629,204 Number of extensions: 25753 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 132 Number of HSP's successfully gapped: 4 Length of query: 211 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 130 Effective length of database: 1,236,335 Effective search space: 160723550 Effective search space used: 160723550 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)