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= 0012.0029.p (206 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313791|ref|YP_003777883.1| response regulator protein [Her... 360 e-101 gi|300310669|ref|YP_003774761.1| two component response regulato... 144 4e-36 gi|300310176|ref|YP_003774268.1| C4-dicarboxylate transport tran... 127 1e-30 gi|300313031|ref|YP_003777123.1| two component response regulato... 97 7e-22 gi|300311885|ref|YP_003775977.1| LuxR family two component respo... 84 7e-18 >gi|300313791|ref|YP_003777883.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 206 Score = 360 bits (925), Expect = e-101, Method: Compositional matrix adjust. Identities = 181/206 (87%), Positives = 186/206 (90%) Query: 1 MESTVYVVDDDGMVRTALLRLLASAGLTARGFASADEFLRESLPGAPCCLLLDMKMPGSD 60 ME TV+VVDDD MVRTALLRLLASAG A GFASADEFL+ LP PCCLLLDMKMPGSD Sbjct: 1 MERTVFVVDDDNMVRTALLRLLASAGYAAHGFASADEFLQARLPAVPCCLLLDMKMPGSD 60 Query: 61 GFEVVRRLEQRGDAIPVIFISGYGTIPVTVQAMKAGAHEFLTKPIEDERLLGAVQEALAI 120 GFEVVRRLE+RGDAIPVIFISGYGTIP TVQAMKAGAHEFLTKPI+DERLLGAV+EAL I Sbjct: 61 GFEVVRRLERRGDAIPVIFISGYGTIPTTVQAMKAGAHEFLTKPIQDERLLGAVEEALQI 120 Query: 121 AGRDLHQRVEQAASTSRLEKLTPREREVLELAIGGLLNKQIATELGISEITVKVHKRRVM 180 A R L R E AA TSRLE LTPREREVLELAIGGLLNKQIATELGISEITVKVHKRRVM Sbjct: 121 AERQLQSRTEHAACTSRLETLTPREREVLELAIGGLLNKQIATELGISEITVKVHKRRVM 180 Query: 181 DKMQTKTLADLVRAAERLQIHSARQR 206 DKMQTKTLADLVRAAERLQI SARQR Sbjct: 181 DKMQTKTLADLVRAAERLQISSARQR 206 >gi|300310669|ref|YP_003774761.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 214 Score = 144 bits (364), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 79/189 (41%), Positives = 115/189 (60%) Query: 5 VYVVDDDGMVRTALLRLLASAGLTARGFASADEFLRESLPGAPCCLLLDMKMPGSDGFEV 64 VY+VDDD VRT+L LL+S + F + FL+ + CL+LD++MP GF++ Sbjct: 9 VYIVDDDEAVRTSLAWLLSSVNIRTECFEGPEAFLKAYDANSLSCLILDVRMPEISGFQL 68 Query: 65 VRRLEQRGDAIPVIFISGYGTIPVTVQAMKAGAHEFLTKPIEDERLLGAVQEALAIAGRD 124 RL++ G IPVIF+SG+G IP++V+A+ GA +FL KP +++L +Q L + Sbjct: 69 QDRLKEIGADIPVIFVSGHGDIPMSVRALHNGAVDFLEKPYNSQQMLERIQMTLKHVAGN 128 Query: 125 LHQRVEQAASTSRLEKLTPREREVLELAIGGLLNKQIATELGISEITVKVHKRRVMDKMQ 184 + R + +RL+ LT RERE+LE I G +K IA EL IS TV VH+ V DK+ Sbjct: 129 MQARTRRQQLKARLKTLTAREREILEKVIMGQSSKLIARELNISVKTVDVHRASVKDKLG 188 Query: 185 TKTLADLVR 193 ++ A LVR Sbjct: 189 CQSTATLVR 197 >gi|300310176|ref|YP_003774268.1| C4-dicarboxylate transport transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 196 Score = 127 bits (318), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 77/197 (39%), Positives = 113/197 (57%), Gaps = 13/197 (6%) Query: 5 VYVVDDDGMVRTALLRLLASAGLTARGFASADEFLRESLPGAPC------CLLLDMKMPG 58 +++VDD+ ++R +L L S + A + S L +L +P CLLLD++MPG Sbjct: 2 LHIVDDEEIIRDSLAWLARSRNIAATAYDSGPTLL-AALAASPGIDAEGECLLLDVRMPG 60 Query: 59 SDGFEVVRRLEQRG--DAIPVIFISGYGTIPVTVQAMKAGAHEFLTKPIEDERLLGAVQE 116 + G + L+ +G PVIF++G+G +P+ V +K GA +F KP D +L+ V E Sbjct: 61 TSGVALFNDLKTKGLLHRRPVIFLTGHGDVPMAVDMLKNGAFDFFEKPFNDNQLMDRVLE 120 Query: 117 ALAIAGRDLHQRVEQAASTSRLEKLTPREREVLELAIGGLLNKQIATELGISEITVKVHK 176 ALA + + A SRL L+ REREVL+L + G +NK IA ELGIS TV+VH+ Sbjct: 121 ALASS----RAGGAEDAVQSRLAALSVREREVLDLILAGKMNKVIADELGISMRTVEVHR 176 Query: 177 RRVMDKMQTKTLADLVR 193 + DKM KT +L R Sbjct: 177 AHIFDKMNVKTAVELAR 193 >gi|300313031|ref|YP_003777123.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 195 Score = 97.4 bits (241), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 70/194 (36%), Positives = 101/194 (52%), Gaps = 9/194 (4%) Query: 6 YVVDDDGMVRTALLRLLASAGLTARGFASADEFLRESLPGAPCCLLLDMKMPGSDGFEVV 65 ++V D + L RLL AG SAD+FL + P L+L + M D ++ Sbjct: 8 HIVGGDDSLGGPLGRLLEEAGFHVAHHRSADQFLEHATATGPGGLVLAVNMRNMDAPQLR 67 Query: 66 RRLEQRGDAIPVIFISGY--GTIPVTVQAMKAGAHEFLTKPIEDERLLGAVQEALAIAGR 123 L+++ + IP+I I+G G P+ G +P ++L+ A +EAL Sbjct: 68 SLLDEKKEGIPLIVITGNQPGAAPL-------GQSSAQQEPEVAQQLVAAFREALMPYDE 120 Query: 124 DLHQRVEQAASTSRLEKLTPREREVLELAIGGLLNKQIATELGISEITVKVHKRRVMDKM 183 + ++ +RL LT REREVL L + G LNKQIA ELG SE TVK H+++VM KM Sbjct: 121 SAPHQQQRRIHQARLATLTRREREVLMLLVKGRLNKQIAAELGTSERTVKAHRQQVMRKM 180 Query: 184 QTKTLADLVRAAER 197 +LA+LV A R Sbjct: 181 YAGSLAELVAAMTR 194 >gi|300311885|ref|YP_003775977.1| LuxR family two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 216 Score = 84.3 bits (207), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 68/213 (31%), Positives = 110/213 (51%), Gaps = 15/213 (7%) Query: 1 MESTVYVVDDDGMVRTALLRLL-ASAGLTARGFASADEFLRESLPG-APCCLLLDMKMPG 58 M + + + DD +VR+ + LL A G+ G AS + E +P P +LLD+ M G Sbjct: 1 MLTRIMLADDHALVRSGIKALLTAMPGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKG 60 Query: 59 SDGFEVVRRLEQRGDAIPVIFISGYGTIPVTVQAMKAGAHEFLTK---PIEDERLLGAVQ 115 +G E +RRL I + +S YG+ +QA+ AGA+ +L K E E+ L V+ Sbjct: 61 MNGLEALRRLRGEYPTIRFLMLSMYGSEEYVMQALNAGANGYLFKDSAATELEKALYEVK 120 Query: 116 EALAI--------AGRDLHQRVEQAASTSRLEKLTPREREVLELAIGGLLNKQIATELGI 167 A + +RV Q + +E LTPR+RE+L+L G K+IA +L + Sbjct: 121 HGRQYLDSHISREALDNYMKRVAQNGTP--VEVLTPRQREILQLIAEGNNTKEIAYQLNV 178 Query: 168 SEITVKVHKRRVMDKMQTKTLADLVRAAERLQI 200 S T++ H+ ++M+++ + + LVR A R I Sbjct: 179 SAKTIETHRAQLMERLDIRDVPGLVRYAIRTGI 211 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 0.320 0.135 0.370 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: 610,963 Number of extensions: 24998 Number of successful extensions: 233 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 248 Number of HSP's successfully gapped: 23 Length of query: 206 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 125 Effective length of database: 1,236,335 Effective search space: 154541875 Effective search space used: 154541875 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 (21.8 bits) S2: 128 (53.9 bits)