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= 0226.0006.p (233 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310375|ref|YP_003774467.1| LysR family transcription regul... 353 7e-99 gi|300313164|ref|YP_003777256.1| LysR family transcription regul... 107 8e-25 gi|300310701|ref|YP_003774793.1| LysR family transcription regul... 96 2e-21 gi|300309487|ref|YP_003773579.1| LysR family transcription regul... 90 1e-19 gi|300313740|ref|YP_003777832.1| LysR family transcription regul... 55 7e-09 >gi|300310375|ref|YP_003774467.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 353 bits (906), Expect = 7e-99, Method: Compositional matrix adjust. Identities = 170/225 (75%), Positives = 194/225 (86%) Query: 9 SPXHEDIVALKSGLSGQVDVGVILSPGMSLLPAAIARVKEHSPMLRIGVEVESSNILLAR 68 S HEDIVALKSGLSGQVDVG ILSP M+LLP AIARVKE +PMLRIGVEVESSNILL+R Sbjct: 89 SKAHEDIVALKSGLSGQVDVGGILSPAMALLPPAIARVKEQAPMLRIGVEVESSNILLSR 148 Query: 69 LLRGDLDFLVARILDEEVSHNLHYEELSDEPICAVARVGHPLHEHKNLTLKDIVDDPWIM 128 LL G+LDF++ RILD+E L YEEL+DEPICAVARVGHP H +L+L D+ + WIM Sbjct: 149 LLHGELDFIIGRILDDEARGGLLYEELADEPICAVARVGHPFHARTDLSLADLASEAWIM 208 Query: 129 APKGSILRSRVDLMFRKSGLTPPANVVDTTAILTITSLLQQTDFLYAMPTEVARYYSQAR 188 APKGSILR+R D MFR+ GL PP+NVVDTTAIL ITSLLQQTDF+YAMPTEVARYY+QAR Sbjct: 209 APKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQTDFIYAMPTEVARYYTQAR 268 Query: 189 LMDLLPIELPCKMDGFGIITRREQLLSPGAMILQQAIRDVAKTIY 233 LMD+LPIELPC+M GFGIITR++ LLSPGA ++ QAIR+VAK IY Sbjct: 269 LMDILPIELPCRMAGFGIITRQDNLLSPGANLVLQAIREVAKMIY 313 >gi|300313164|ref|YP_003777256.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 107 bits (267), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 55/208 (26%), Positives = 113/208 (54%), Gaps = 1/208 (0%) Query: 20 SGLSGQVDVGVILSPGMSLLPAAIARVKEHSPMLRIGVEVESSNILLARLLRGDLDFLVA 79 SG G++ +G I+ + A++R++E P + I + ++S L L +G +D ++ Sbjct: 116 SGRGGRLAIGTIMGAA-PFVTRALSRLREIQPEVSIEISEDTSARQLLLLDQGRIDLMIG 174 Query: 80 RILDEEVSHNLHYEELSDEPICAVARVGHPLHEHKNLTLKDIVDDPWIMAPKGSILRSRV 139 R + HYE L EP+C V+ + HPL + + L+++ + WI+ +R + Sbjct: 175 RSSVSSQPNLYHYEMLRGEPMCIVSGIDHPLATAQKVRLQELAEASWILYSSNMPMRIWI 234 Query: 140 DLMFRKSGLTPPANVVDTTAILTITSLLQQTDFLYAMPTEVARYYSQARLMDLLPIELPC 199 + F+ G+ P NV++T + +LL Q++ + MP ++A +++ +++ +LP+ L Sbjct: 235 EHEFKLEGVKVPGNVIETASPFVTITLLAQSNMVAVMPLDIAHFFAAKQMLGILPVNLKT 294 Query: 200 KMDGFGIITRREQLLSPGAMILQQAIRD 227 +++ +GI+TR+ LS A + Q +R Sbjct: 295 RIEHYGIVTRKNTTLSSLAKMFIQILRQ 322 >gi|300310701|ref|YP_003774793.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 96.3 bits (238), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 63/216 (29%), Positives = 105/216 (48%), Gaps = 1/216 (0%) Query: 13 EDIVALKSGLSGQVDVGVILSPGMSLLPAAIARVKEHSPMLRIGVEVESSNILLARLLRG 72 E++ ++SG G++ +G ++ +L+ A+ ++ P L I + ++S +L L G Sbjct: 103 EEMAQIRSGQGGRLAIGAVMGAVPALIVPAVDALQRRHPALSIEIVEDTSLHMLDLLDEG 162 Query: 73 DLDFLVARILDEEVSHNLHYEELSDEPICAVARVGHPLHEHKNLTLKDIVDDPWIMAPKG 132 LD LVAR HY+ LS+EP+ V HP K L L + WI P Sbjct: 163 HLDLLVARASVSAHPGKYHYQSLSEEPLSVVVSAEHPRPRGKELQLAALAGYRWITYPSH 222 Query: 133 SILRSRVDLMFRKSGLTPPANVVDTTAILTITSLLQQ-TDFLYAMPTEVARYYSQARLMD 191 L + ++ +GL+ PAN + T + +LLQQ D + +PT VA + Q ++ Sbjct: 223 MPLHAVLEREMDLAGLSMPANTIATASTFVTVALLQQGADMVSILPTAVAEMFVQRGMLR 282 Query: 192 LLPIELPCKMDGFGIITRREQLLSPGAMILQQAIRD 227 +LP++L GI+TR+ LS Q +R+ Sbjct: 283 ILPVKLRSMSQTIGIVTRKGGQLSGAGQAFVQLLRE 318 >gi|300309487|ref|YP_003773579.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 90.1 bits (222), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 66/226 (29%), Positives = 120/226 (53%), Gaps = 15/226 (6%) Query: 13 EDIVALKSGLSGQVDVGVILSPGMSLLPAAIARVKEHSPMLRIGVEVESSNILLARLLRG 72 E+++A+ G G++ VG I+ + LL A+ R+ E P L + + ++S LL L +G Sbjct: 94 EEMLAIMQGHGGRLAVGTIMG-AVPLLTDALTRLLEAHPALSVEIVEDTSARLLRLLDQG 152 Query: 73 DLDFLVARIL-----DEEVSHNLHYEELSDEPICAVARVGHPLHEHKNLTLKDIVDDPWI 127 LD + R D + N+H EEL+ VA V HPL + +L L D+ D W+ Sbjct: 153 RLDLAICRTSISQRPDLYDAFNIHEEELA-----VVASVQHPLADAPSLQLADLADSRWV 207 Query: 128 MAPKGSILRSRVDLMFRKSGLTPPANVVDTTAILTITSLLQQT-DFLYAMPTEVARYYSQ 186 + +R ++ F + L P ++++TT+ T SLLQ+ F+ + +VA++ ++ Sbjct: 208 VYSANMPMRLTLEREFHDADLRFPLHLMETTSAFTTLSLLQKNPHFVALLSVDVAQFCTR 267 Query: 187 ARLMDLLPIELPCKMDGFGIITRREQLLSPGAMILQQAIRDVAKTI 232 + +LP+ L + + + ++TRR +LSP A + + D A+T+ Sbjct: 268 FGMTRILPLRLHTRSEPYQLVTRRGTMLSPVARLF---LDDFARTV 310 >gi|300313740|ref|YP_003777832.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 54.7 bits (130), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 48/203 (23%), Positives = 98/203 (48%), Gaps = 9/203 (4%) Query: 21 GLSGQVDVGVILSPGMSLLPAAIARVKEHSPMLRIGVEVESSNILLARLLRGDLDFLVA- 79 G G + +G + + +LP ++ + + I ++V ++ LLA L G+LD ++ Sbjct: 88 GREGNIRLGCVPTLAEHVLPGVCQQLLGEAQKVTIDLKVSMNDALLAGLKAGELDIVLGP 147 Query: 80 RILDEEVSHNLHYEELSDEPICAVARVGHPLHEHKNLTLKDIVDDPWIMAPKGSILRSRV 139 I D+E+ H EE+ + + +A HP+ + K + L+ ++D W++ + + R + Sbjct: 148 MIQDDEL---FHTEEIMQDQMVVMASPQHPIFD-KKIRLRHLLDYQWVLPAQSVLSRQWL 203 Query: 140 DLMFRKSGLTPPANVVDTTAILTITSLLQQTDFL-YAMPTEVARYYSQARLMDLLPIELP 198 D +F + L P + T + I L+++++ L +A ++ R + L + Sbjct: 204 DNVFDRHHLPRPKVQITPTVLNMILPLIERSNLLGFASKLNLSEGRGHLREVVLKETTML 263 Query: 199 CKMDGFGIITRREQLLSPGAMIL 221 +M G+ RR+ LSP A L Sbjct: 264 RRM---GLTYRRDMYLSPAAQRL 283 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 0.138 0.396 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: 722,821 Number of extensions: 29297 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 109 Number of HSP's successfully gapped: 6 Length of query: 233 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 151 Effective length of database: 1,231,600 Effective search space: 185971600 Effective search space used: 185971600 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: 129 (54.3 bits)