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= 0025.0214.p (179 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... 91 6e-20 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 83 1e-17 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 74 1e-14 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 69 2e-13 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 63 1e-11 >gi|300309871|ref|YP_003773963.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 90.9 bits (224), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 58/146 (39%), Positives = 83/146 (56%), Gaps = 11/146 (7%) Query: 42 PGMRQRVLFRERYVLVGRSGHP-KLRRKPTPAQFCALEHVIVSPDGGGFRGVTDDALAAA 100 P +R + LFR+R+V R+GHP R+ + ++CA +HV SP G G +ALAA Sbjct: 175 PEVRLQTLFRDRFVGAVRTGHPLAALRRVSAERYCAFDHVSASPRGVAA-GPLHEALAAR 233 Query: 101 GLTRRVVLSVPHFLFMMSVLANTDMVAMVPSRLMR--------GSAA-LQVVEPPFDVAG 151 GL RRVV VP F ++V+ +D+V MVP + GSAA + V E P + Sbjct: 234 GLVRRVVAVVPSFPGALAVVRTSDLVTMVPGSFLTRAGAERKDGSAAGIHVFELPLPLEP 293 Query: 152 YDMAMLWHERSHRDPAHQWLRDHLAA 177 ++++WH R DPAH+WLRD + A Sbjct: 294 IIVSLMWHPRVELDPAHRWLRDKVRA 319 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 83.2 bits (204), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 46/134 (34%), Positives = 73/134 (54%), Gaps = 4/134 (2%) Query: 49 LFRERYVLVGRSGHPKLRRKPTPAQFCALEHVIVSPDGGGFRGVTDDALAAAGLTRRVVL 108 L+ +YV V HP + T +C +H++VS G V DD LA R+++L Sbjct: 176 LYTGQYVCVMHKSHPLAGQPLTLDSYCNADHLLVSLSGKP-HAVIDDVLAGMNRERKILL 234 Query: 109 SVPHFLFMMSVLANTDMVAMVPSRLMRGSA---ALQVVEPPFDVAGYDMAMLWHERSHRD 165 +V F ++A+++++ ++P L+ + AL V E PF + MLWHER R+ Sbjct: 235 TVNQFFTAGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARN 294 Query: 166 PAHQWLRDHLAASV 179 PAH+WLR HL+A+ Sbjct: 295 PAHKWLRAHLSATT 308 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 73.6 bits (179), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/188 (27%), Positives = 88/188 (46%), Gaps = 13/188 (6%) Query: 1 MPARRQCCCRPCPDCALPR------PVRAWRWSSWRRRASPXSDDAPPGMRQRVLFRERY 54 MPA + C R P ++ +++ S A D+ + QR LFR+ Y Sbjct: 115 MPALIEACARCAPGVSISTVRAGAIDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEY 174 Query: 55 VLVGRSGH---PKLRRKPTPAQFCALEHVIVSPDGGGFRGVTDDALAAAGLTRRVVLSVP 111 V + R GH R + + +F A EH++VS + + + L AG+ V VP Sbjct: 175 VSMFRIGHALDKPGRGEVSLKEFLAAEHLMVSSQESPYDRINQN-LEKAGILPSVRFRVP 233 Query: 112 HFLFMMSVLANTDMVAMVPSRLMRGSAA---LQVVEPPFDVAGYDMAMLWHERSHRDPAH 168 HF + ++++T +V VP +L +AA L+ ++PP + M WH R ++D + Sbjct: 234 HFTAVPYIVSSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGN 293 Query: 169 QWLRDHLA 176 WLR ++ Sbjct: 294 VWLRGFIS 301 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 69.3 bits (168), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 45/144 (31%), Positives = 77/144 (53%), Gaps = 9/144 (6%) Query: 42 PGMRQRVLFRER-----YVLVGRSGHPKLRRKPTPAQFCALEHVIVSPDGGGFRGVTDDA 96 P +R R F++R +V + R+GHP +K + + A H++V +G + + + Sbjct: 153 PDLRNRNFFQQRLFSQDFVCLLRAGHPLPAQKISLEHYQAAGHIVVKAEGRD-QPMCERF 211 Query: 97 LAAAGLTRRVVLSVPHFLFMMSVLANTDMVAMVP---SRLMRGSAALQVVEPPFDVAGYD 153 L + RRVVLS HF+ + ++A +D+VA VP + A +++VEP F++ D Sbjct: 212 LLRRKIRRRVVLSTAHFMAIPLLVATSDLVATVPRAFGEFVVRFAGIRLVEPGFEMPMLD 271 Query: 154 MAMLWHERSHRDPAHQWLRDHLAA 177 + WH + H+D + WLR AA Sbjct: 272 LKQHWHRKYHKDAGNAWLRGLAAA 295 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 63.2 bits (152), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 9/133 (6%) Query: 47 RVLFRERYVLV--GRSGHPKLRRKPTPAQFCALEHVIVSPDGGGFRGVTDDALAAAGLTR 104 +LFRE YV + R G P+ R + +F A+ HV+V V +++ G+ R Sbjct: 165 ELLFRETYVCLMRQRDGLPQ-RAQLELDEFLAMSHVLVESAESSHHQV-ENSFQKLGVQR 222 Query: 105 RVVLSVPHFLFMMSVLANTDMVAMVPSRLMR-----GSAALQVVEPPFDVAGYDMAMLWH 159 R+ LS+PHF + +L +D+VA VP+R+ R + P ++ ++ + WH Sbjct: 223 RISLSIPHFTVLPRILGKSDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWH 282 Query: 160 ERSHRDPAHQWLR 172 + D + WLR Sbjct: 283 QSFDHDAGNSWLR 295 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 0.327 0.137 0.464 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: 487,554 Number of extensions: 19681 Number of successful extensions: 86 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 80 Number of HSP's successfully gapped: 6 Length of query: 179 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 100 Effective length of database: 1,245,805 Effective search space: 124580500 Effective search space used: 124580500 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 127 (53.5 bits)