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= 0004.0008.p (225 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313680|ref|YP_003777772.1| two component response regulato... 224 6e-60 gi|300311750|ref|YP_003775842.1| transcription response regulato... 199 1e-52 gi|300309981|ref|YP_003774073.1| two component response regulato... 167 6e-43 gi|300313818|ref|YP_003777910.1| two component transcription reg... 148 4e-37 gi|300312680|ref|YP_003776772.1| two component response regulato... 138 3e-34 >gi|300313680|ref|YP_003777772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 218 Score = 224 bits (570), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 108/221 (48%), Positives = 155/221 (70%), Gaps = 9/221 (4%) Query: 1 LVEDDRMIAQAIELALKDASYAVDCVSDGRAAEVSVRAQQYGLVLLDLGLPHLDGFEVLR 60 LVEDD M+ +A+ L+ +A+D V DG++A+V++R + Y ++LLDLGLP DG VLR Sbjct: 5 LVEDDPMVGEAVRKGLRQDGFAIDWVQDGKSADVALRTEDYAMLLLDLGLPQKDGLAVLR 64 Query: 61 NIRDSEVPTPVVIITARDALEDRIRGLDAGADDYVIKPFEMGELLARMRXRGARARMRAV 120 +R+ PV+I TARDA+ DR+ GLDAGADDY+IKPF++ EL ARMRA+ Sbjct: 65 TLRERGNAIPVLITTARDAVADRVAGLDAGADDYLIKPFDLEEL---------SARMRAL 115 Query: 121 LRRNGGSGNPILTNGAIHLIPATREITFEGNTLRLSSREFSLMQSLLLRPGAILSRQDLE 180 RR G ++ + L PAT E+T G + LS+REF+L+Q+ + RPG +LSR LE Sbjct: 116 SRRQAGRAESLVQVREVILNPATHEVTVSGKPVNLSAREFTLLQAFMDRPGVVLSRAQLE 175 Query: 181 DRIYGWNEEVESNAVEYLIHSIRKKLGNQIIKNVRGLGWMV 221 +++YGW++ +ESNAVE IH++RKK+G+ IKNVRG+G++V Sbjct: 176 EKLYGWDDSIESNAVEVHIHALRKKVGSDFIKNVRGVGYLV 216 >gi|300311750|ref|YP_003775842.1| transcription response regulator protein [Herbaspirillum seropedicae SmR1] Length = 220 Score = 199 bits (507), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 120/224 (53%), Positives = 158/224 (70%), Gaps = 11/224 (4%) Query: 1 LVEDDRMIAQAIELALKDASYAVDCVSDGRAAEVSVRAQQYGLVLLDLGLPHLDGFEVLR 60 LVEDD MI + + ALKD YA D V G AA +++ QQY +LLDLGLP DG VLR Sbjct: 5 LVEDDAMIGEEVRCALKDNGYAADWVRAGDAALLALAQQQYDALLLDLGLPGADGLAVLR 64 Query: 61 NIRDSEVPTPVVIITARDALEDRIRGLDAGADDYVIKPFEMGELLARMRXRGARARMRAV 120 +R + PV++ITARD ++DRI GLDAGADDY++KPF +GE AR+RAV Sbjct: 65 QLRTHSL-LPVLVITARDGIQDRIGGLDAGADDYLLKPFAIGE---------LLARLRAV 114 Query: 121 LRRNGGSGNPILTNGAIHLIPATREITF-EGNTLRLSSREFSLMQSLLLRPGAILSRQDL 179 LRR G+ + L+NG I L A + + EG + LS+REF+L+ +L+ RPGAILSR +L Sbjct: 115 LRRRSGAASDQLSNGQITLDLAAKTACWREGPAVLLSAREFALLCALMGRPGAILSRAEL 174 Query: 180 EDRIYGWNEEVESNAVEYLIHSIRKKLGNQIIKNVRGLGWMVSK 223 E+++YGW EEVESNAVE+LIHS+R+KL + IKNVRG+GW+V + Sbjct: 175 EEKLYGWGEEVESNAVEFLIHSLRRKLDKEAIKNVRGMGWLVQR 218 >gi|300309981|ref|YP_003774073.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 167 bits (423), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 90/225 (40%), Positives = 134/225 (59%), Gaps = 11/225 (4%) Query: 1 LVEDDRMIAQAIELALKDASYAVDCVSDGRAAEVSVRAQQYGLVLLDLGLPHLDGFEVLR 60 L EDD ++A + +L+ + YA DCV +G A+ ++ Q + L++LDLGLP + G EVLR Sbjct: 5 LAEDDSVLADGLTRSLRHSGYAADCVKNGVEADSALSTQDFDLLILDLGLPKMSGLEVLR 64 Query: 61 NIRDSEVPTPVVIITARDALEDRIRGLDAGADDYVIKPFEMGELLARMRXRGARARMRAV 120 +R PV+I+TA D++E R++GLD GADDY+ KPF + EL AR+RA+ Sbjct: 65 RLRARNSRLPVLILTAADSVEQRVQGLDLGADDYMAKPFALSEL---------EARVRAL 115 Query: 121 LRRNGGSGNPILTNGAIHLIPATREITFEGNTLRLSSREFSLMQSLLLRPGAILSRQDLE 180 RR G G ++ +G + R L LS+RE L++ LL R G ++S++ L Sbjct: 116 TRRGAGGGPTVIRHGPLSYDQVGRIAYIGEQMLELSARELGLLEVLLQRTGRLVSKEQLV 175 Query: 181 DRIYGWNEEVESNAVEYLIHSIRKKL--GNQIIKNVRGLGWMVSK 223 D + W EEV +NA+E +H +RKK+ G I VRGLG+ + K Sbjct: 176 DHLCEWGEEVSNNAIEVYVHRLRKKIEVGGVRIATVRGLGYCLEK 220 >gi|300313818|ref|YP_003777910.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 224 Score = 148 bits (373), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 134/227 (59%), Gaps = 14/227 (6%) Query: 1 LVEDDRMIAQAIELALKDASYAVDCVSDGRAAEVSVRAQQYGLVLLDLGLPHLDGFEVLR 60 LVED +++ + A++DA V+C +G A+ + Q Y LV+LDL LP +DG EVL+ Sbjct: 5 LVEDHIELSRWLAKAMRDAHLTVECAHNGADADSLLLTQDYALVILDLTLPRMDGMEVLK 64 Query: 61 NIRDSEVPTPVVIITARDALEDRIRGLDAGADDYVIKPFEMGELLARMRXRGARARMRAV 120 +R TPV+I+TAR L DR+ GL+ GADDY+ KPFE+ EL AR++A+ Sbjct: 65 RMRARGNRTPVLILTARGGLADRVSGLNMGADDYLAKPFELEEL---------EARVKAL 115 Query: 121 LRRNGGSGNPILTNGAIHLIPATREITFEGNTLRLSSREFSLMQSLLLRPGAILSRQDLE 180 LRR+ + ++ GA+ +R T+ G L L+ RE +++++L++R G + ++ L Sbjct: 116 LRRSQNNEAVTVSCGALSFDTVSRTFTYGGELLALTPREHAVLEALIVRHGHTVPKEKLF 175 Query: 181 DRIYGWNEEVESNAVEYLIHSIRKKL-----GNQIIKNVRGLGWMVS 222 +++ + +A+E IH +RKKL G I +RGLG+++ Sbjct: 176 QQVFTLEDNASMDAIEIYIHRLRKKLEHEGPGRVGITTLRGLGYLLQ 222 >gi|300312680|ref|YP_003776772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 220 Score = 138 bits (348), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 132/227 (58%), Gaps = 14/227 (6%) Query: 1 LVEDDRMIAQAIELALKDASYAVDCVSDGRAAEVSVRAQQYGLVLLDLGLPHLDGFEVLR 60 LVEDD ++ + L + V V++G A +S R LVL D+GLP +DGFEVLR Sbjct: 5 LVEDDPVLTDGLSRVLNSHGFTVHTVNNGNDA-LSQRFNAAVLVL-DIGLPGIDGFEVLR 62 Query: 61 NIRDSEVPTPVVIITARDALEDRIRGLDAGADDYVIKPFEMGELLARMRXRGARARMRAV 120 +R + TPV+++TARD + DR+ GL+ GADDY++KPF EL+ AR++A+ Sbjct: 63 RMRAAGNNTPVLLLTARDTIPDRVHGLELGADDYLVKPFATPELV---------ARIKAL 113 Query: 121 LRRNGGSGNPILTNGAIHLIPATREITFEGNTLRLSSREFSLMQSLLLRPGAILSRQDLE 180 +RR+ LT G + L AT+ +G + LS RE+++++ L+ ++S+Q + Sbjct: 114 IRRSAPQPAQ-LTVGGLSLDNATKRADIDGRKIELSLREWTVLEYLMQHASRVVSKQQII 172 Query: 181 DRIYGWNEEVESNAVEYLIHSIRKKLGNQ--IIKNVRGLGWMVSKEK 225 D + W E+ NAVE + IR K+ + I+ +RG G+M+ K + Sbjct: 173 DAVLPWGEDFTINAVEVYVSRIRLKIADSGVAIRTIRGFGYMLEKSE 219 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 0.138 0.391 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: 535,851 Number of extensions: 16598 Number of successful extensions: 166 Number of sequences better than 1.0e-08: 37 Number of HSP's gapped: 149 Number of HSP's successfully gapped: 37 Length of query: 225 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 143 Effective length of database: 1,231,600 Effective search space: 176118800 Effective search space used: 176118800 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: 129 (54.3 bits)