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= 0002.0222.p (214 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309871|ref|YP_003773963.1| transcription regulator protein... 347 4e-97 gi|300310335|ref|YP_003774427.1| transcription regulator protein... 85 4e-18 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 75 4e-15 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 74 1e-14 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 69 3e-13 >gi|300309871|ref|YP_003773963.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 347 bits (890), Expect = 4e-97, Method: Compositional matrix adjust. Identities = 181/209 (86%), Positives = 192/209 (91%), Gaps = 4/209 (1%) Query: 1 MPDTDLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLRQATGDQLLVRAGRQMVL 60 M TDLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLR+ATGD LLVRAGRQMVL Sbjct: 19 MTGTDLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLREATGDPLLVRAGRQMVL 78 Query: 61 TPCAEALQERVRNVVHEARSVLRPSVPELDVARLERDFTIRANEGFIEACGAALISAVTS 120 TPCAEAL+ERVRNVVHEARSVLRPSVPELD++RLERDF+IRAN+GFIEA GA LI AVT+ Sbjct: 79 TPCAEALRERVRNVVHEARSVLRPSVPELDLSRLERDFSIRANDGFIEALGAQLIEAVTA 138 Query: 121 EAPLVRLRFAPKVERSPLPLREGSADIEIGVASEMGPEVRLQTLFRDRFVGAVRVGHPLA 180 EAPLVRLRF PKVER P+PLREGSAD+EIGVASEMGPEVRLQTLFRDRFVGAVR GHPLA Sbjct: 139 EAPLVRLRFVPKVERGPVPLREGSADLEIGVASEMGPEVRLQTLFRDRFVGAVRTGHPLA 198 Query: 181 ALRRVSAERYCAYEHVSAG----TPAPLH 205 ALRRVSAERYCA++HVSA PLH Sbjct: 199 ALRRVSAERYCAFDHVSASPRGVAAGPLH 227 >gi|300310335|ref|YP_003774427.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 85.1 bits (209), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 62/192 (32%), Positives = 99/192 (51%), Gaps = 2/192 (1%) Query: 5 DLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLRQATGDQLLVRAGRQMVLTPCA 64 DLNLL+ALDAL+ E S++ AA ++ LS SAMS L RLR+ D+LL++ GR+M TP A Sbjct: 7 DLNLLVALDALLTEMSISRAAEKIHLSQSAMSNALARLREYFDDELLIQVGRRMEPTPRA 66 Query: 65 EALQERVRNVVHEARSVLRPSVPELDVARLERDFTIRANEGFIEACGAALISAVTSEAPL 124 E L++ V +V+ + ++P A R+F I ++ + +++ +E Sbjct: 67 EVLKDAVHDVLRRIDGSI-AALPAFVPAESTREFRISVSDFTLSVLIPRVLARAHAEGKH 125 Query: 125 VRLRFAPKVERSPLPLREGSADIEIGVASEMGPEVRLQTLFRDRFVGAVRVGHPLAALRR 184 +R P+V+ L D+ + P+ + +FR+R V V LA Sbjct: 126 IRFALMPQVQDPTRSLDRAEVDLLVLPQEFCTPDHPAEEVFRERHVCVVWRDSALAQ-GE 184 Query: 185 VSAERYCAYEHV 196 ++ ERY A HV Sbjct: 185 LTLERYMASGHV 196 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 75.1 bits (183), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/209 (31%), Positives = 93/209 (44%), Gaps = 28/209 (13%) Query: 3 DTDLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLRQATGDQLLVRAGRQMVLTP 62 D DLNLL+ + E ++ ARRLGLS A+S L RLR++ D+L VR + M TP Sbjct: 8 DIDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQPTP 67 Query: 63 CAEALQERVRNVVHE---ARSVLRPSVPELDVARLERDFTIRANE--------GFIEACG 111 AE L E V + + A ++ P+ R FTI + IEAC Sbjct: 68 FAEQLAEPVAAALQQVARALNLQEGFAPQTSA----RRFTIAMTDVGEVYFMPALIEACA 123 Query: 112 --AALISAVTSEAPLVRLRFAPKVERSPLPLREGSADIEIGVASEMGPEVRLQTLFRDRF 169 A +S T A + L+ + G D+ IG + + + LFR + Sbjct: 124 RCAPGVSISTVRAGAIDLK---------SEMESGRVDLAIGAFDNLSEALYQRRLFRQEY 174 Query: 170 VGAVRVGHPLAALRR--VSAERYCAYEHV 196 V R+GH L R VS + + A EH+ Sbjct: 175 VSMFRIGHALDKPGRGEVSLKEFLAAEHL 203 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 73.9 bits (180), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/204 (26%), Positives = 96/204 (47%), Gaps = 15/204 (7%) Query: 5 DLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLRQATGDQLLVRAGRQMVLTPCA 64 DLNLL DA++ E ++ AA L ++ A+S L RLR D L++R + TP A Sbjct: 7 DLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGVKPTPRA 66 Query: 65 EALQERVRNVVHEARSVLRPSVPELDVARLERDFTIRANEGFIEACGAALISAVTSEAPL 124 E L VR + E +V+ P D++R + F + + +L+ + +AP Sbjct: 67 EELWPTVRRALSELEAVIAPE--SFDISRAQNTFRMAMVDATAALWLPSLVRTIMRDAPR 124 Query: 125 VRLRFAPKVERSPLP-LREGSADIEI----GVASEMG-------PEVRLQTLFRDRFVGA 172 +++R P R P L G D+ + GV +++ ++ L+ ++V Sbjct: 125 IKIRMMPLTTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTGQYVCV 184 Query: 173 VRVGHPLAALRRVSAERYCAYEHV 196 + HPLA + ++ + YC +H+ Sbjct: 185 MHKSHPLAG-QPLTLDSYCNADHL 207 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 68.9 bits (167), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/204 (31%), Positives = 98/204 (48%), Gaps = 16/204 (7%) Query: 1 MPDTDLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLRQATGDQLLVRAGRQMVL 60 M + DLNLL A+ E SV+ AAR+L +S A+S L +LR A GD L V+ GR M Sbjct: 1 MANFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQP 60 Query: 61 TPCAEALQERVRNVVHEARSVLRPSVPELDVARLERDFTIRANEGFIEACGAALISAVTS 120 TP A +L R ++ + + S + A + F + ++ L+ + Sbjct: 61 TPRAVSLIGPTREILQRVHAEVLSS-DQFTPATTTKRFVLALSDIGELMLLPRLLERIRD 119 Query: 121 EAP---LVRLRFAPKVERSPLPLREGSADIEIGVASEMGPEVRLQTLFRDR-----FVGA 172 EAP +V + AP + L G D+ IG P++R + F+ R FV Sbjct: 120 EAPHASVVTVTMAPAELVA--ALESGEVDLAIGYF----PDLRNRNFFQQRLFSQDFVCL 173 Query: 173 VRVGHPLAALRRVSAERYCAYEHV 196 +R GHPL A +++S E Y A H+ Sbjct: 174 LRAGHPLPA-QKISLEHYQAAGHI 196 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 0.134 0.380 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: 600,361 Number of extensions: 23768 Number of successful extensions: 145 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 147 Number of HSP's successfully gapped: 9 Length of query: 214 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 133 Effective length of database: 1,236,335 Effective search space: 164432555 Effective search space used: 164432555 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)