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= 0001.1182.p (318 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310701|ref|YP_003774793.1| LysR family transcription regul... 543 e-155 gi|300313164|ref|YP_003777256.1| LysR family transcription regul... 272 3e-74 gi|300309487|ref|YP_003773579.1| LysR family transcription regul... 249 3e-67 gi|300310375|ref|YP_003774467.1| LysR family transcription regul... 169 3e-43 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 76 3e-15 >gi|300310701|ref|YP_003774793.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 543 bits (1398), Expect = e-155, Method: Compositional matrix adjust. Identities = 268/312 (85%), Positives = 289/312 (92%) Query: 1 MKPAPSQQSLNSLLSRLRMKQLQLLIALDDHQSLHKASSALAMTQSAASKSLAELESMLD 60 M AP QSLNSLLSRLRMKQLQLLIALD+H+SLHKASSALAMTQSAASKSLAELESMLD Sbjct: 8 MSSAPRPQSLNSLLSRLRMKQLQLLIALDEHKSLHKASSALAMTQSAASKSLAELESMLD 67 Query: 61 AQLFERTKSGLIPNQFGHCVIRYARLMATDLGSLCEEMAQLRSGRGGRLAIGAVMGALPE 120 AQLFERTKSGLI N FGHCVIRYARLMATDLGSLCEEMAQ+RSG+GGRLAIGAVMGA+P Sbjct: 68 AQLFERTKSGLIANPFGHCVIRYARLMATDLGSLCEEMAQIRSGQGGRLAIGAVMGAVPA 127 Query: 121 LVVPAVEALQRRHPELSIDIVEDTSVQLLGLLDEGHLDLLVARASVSDHPGKYHYQPLSE 180 L+VPAV+ALQRRHP LSI+IVEDTS+ +L LLDEGHLDLLVARASVS HPGKYHYQ LSE Sbjct: 128 LIVPAVDALQRRHPALSIEIVEDTSLHMLDLLDEGHLDLLVARASVSAHPGKYHYQSLSE 187 Query: 181 EPLSVVVSGEHPRPRAKHMGLAALAGYRWVTYPSHMPLHAVLEREMDLAGVPMPGNAIST 240 EPLSVVVS EHPRPR K + LAALAGYRW+TYPSHMPLHAVLEREMDLAG+ MP N I+T Sbjct: 188 EPLSVVVSAEHPRPRGKELQLAALAGYRWITYPSHMPLHAVLEREMDLAGLSMPANTIAT 247 Query: 241 ASTFVTVALLQQSSDLVSILPTAVAELFVKRGMLRILPVKLRSMSQTIGIVTRKGGQLSR 300 ASTFVTVALLQQ +D+VSILPTAVAE+FV+RGMLRILPVKLRSMSQTIGIVTRKGGQLS Sbjct: 248 ASTFVTVALLQQGADMVSILPTAVAEMFVQRGMLRILPVKLRSMSQTIGIVTRKGGQLSG 307 Query: 301 AGEMFVRMLNEG 312 AG+ FV++L EG Sbjct: 308 AGQAFVQLLREG 319 >gi|300313164|ref|YP_003777256.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 272 bits (695), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 140/303 (46%), Positives = 200/303 (66%), Gaps = 2/303 (0%) Query: 9 SLNSLLSRLRMKQLQLLIALDDHQSLHKASSALAMTQSAASKSLAELESMLDAQLFERTK 68 S+ S++SRLR +Q+ LL ALD+ SLHKA+ + MTQ AA+K+L E+E L LF+R+ Sbjct: 22 SVGSIVSRLRFRQVALLTALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSP 81 Query: 69 SGLIPNQFGHCVIRYARLMATDLGSLCEEMAQLRSGRGGRLAIGAVMGALPELVVPAVEA 128 G+ + G CVIRYARL+ +D+ +L +E+ + SGRGGRLAIG +MGA P V A+ Sbjct: 82 RGIEATELGRCVIRYARLIQSDVANLRDELQNMISGRGGRLAIGTIMGAAP-FVTRALSR 140 Query: 129 LQRRHPELSIDIVEDTSVQLLGLLDEGHLDLLVARASVSDHPGKYHYQPLSEEPLSVVVS 188 L+ PE+SI+I EDTS + L LLD+G +DL++ R+SVS P YHY+ L EP+ +V Sbjct: 141 LREIQPEVSIEISEDTSARQLLLLDQGRIDLMIGRSSVSSQPNLYHYEMLRGEPMCIVSG 200 Query: 189 GEHPRPRAKHMGLAALAGYRWVTYPSHMPLHAVLEREMDLAGVPMPGNAISTASTFVTVA 248 +HP A+ + L LA W+ Y S+MP+ +E E L GV +PGN I TAS FVT+ Sbjct: 201 IDHPLATAQKVRLQELAEASWILYSSNMPMRIWIEHEFKLEGVKVPGNVIETASPFVTIT 260 Query: 249 LLQQSSDLVSILPTAVAELFVKRGMLRILPVKLRSMSQTIGIVTRKGGQLSRAGEMFVRM 308 LL Q S++V+++P +A F + ML ILPV L++ + GIVTRK LS +MF+++ Sbjct: 261 LLAQ-SNMVAVMPLDIAHFFAAKQMLGILPVNLKTRIEHYGIVTRKNTTLSSLAKMFIQI 319 Query: 309 LNE 311 L + Sbjct: 320 LRQ 322 >gi|300309487|ref|YP_003773579.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 249 bits (635), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 144/298 (48%), Positives = 193/298 (64%), Gaps = 1/298 (0%) Query: 9 SLNSLLSRLRMKQLQLLIALDDHQSLHKASSALAMTQSAASKSLAELESMLDAQLFERTK 68 SL S+ SRL ++QL+LLIAL DH SL KA+ +A+TQ ASK+L E+ES L QLF RT Sbjct: 7 SLASITSRLHLRQLRLLIALSDHGSLLKAAEQVALTQPGASKALQEIESTLGVQLFTRTN 66 Query: 69 SGLIPNQFGHCVIRYARLMATDLGSLCEEMAQLRSGRGGRLAIGAVMGALPELVVPAVEA 128 GL P + GHCVIRYARL+ TDL L EEM + G GGRLA+G +MGA+P L+ A+ Sbjct: 67 RGLEPTELGHCVIRYARLIQTDLTHLREEMLAIMQGHGGRLAVGTIMGAVP-LLTDALTR 125 Query: 129 LQRRHPELSIDIVEDTSVQLLGLLDEGHLDLLVARASVSDHPGKYHYQPLSEEPLSVVVS 188 L HP LS++IVEDTS +LL LLD+G LDL + R S+S P Y + EE L+VV S Sbjct: 126 LLEAHPALSVEIVEDTSARLLRLLDQGRLDLAICRTSISQRPDLYDAFNIHEEELAVVAS 185 Query: 189 GEHPRPRAKHMGLAALAGYRWVTYPSHMPLHAVLEREMDLAGVPMPGNAISTASTFVTVA 248 +HP A + LA LA RWV Y ++MP+ LERE A + P + + T S F T++ Sbjct: 186 VQHPLADAPSLQLADLADSRWVVYSANMPMRLTLEREFHDADLRFPLHLMETTSAFTTLS 245 Query: 249 LLQQSSDLVSILPTAVAELFVKRGMLRILPVKLRSMSQTIGIVTRKGGQLSRAGEMFV 306 LLQ++ V++L VA+ + GM RILP++L + S+ +VTR+G LS +F+ Sbjct: 246 LLQKNPHFVALLSVDVAQFCTRFGMTRILPLRLHTRSEPYQLVTRRGTMLSPVARLFL 303 >gi|300310375|ref|YP_003774467.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 169 bits (428), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 102/302 (33%), Positives = 162/302 (53%), Gaps = 1/302 (0%) Query: 13 LLSRLRMKQLQLLIALDDHQSLHKASSALAMTQSAASKSLAELESMLDAQLFERTKSGLI 72 L +RL+ +QL LLIALDD +++H+A+S L MTQ AASK L +LE ML LFER G+ Sbjct: 10 LRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVALFERLPRGMR 69 Query: 73 PNQFGHCVIRYARLMATDLGSLCEEMAQLRSGRGGRLAIGAVMGALPELVVPAVEALQRR 132 P +G +IR+AR+ T L E++ L+SG G++ +G ++ L+ PA+ ++ + Sbjct: 70 PTIYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVGGILSPAMALLPPAIARVKEQ 129 Query: 133 HPELSIDIVEDTSVQLLGLLDEGHLDLLVARASVSDHPGKYHYQPLSEEPLSVVVSGEHP 192 P L I + ++S LL L G LD ++ R + G Y+ L++EP+ V HP Sbjct: 130 APMLRIGVEVESSNILLSRLLHGELDFIIGRILDDEARGGLLYEELADEPICAVARVGHP 189 Query: 193 RPRAKHMGLAALAGYRWVTYPSHMPLHAVLEREMDLAGVPMPGNAISTASTFVTVALLQQ 252 + LA LA W+ P L A ++ G+ P N + T + +LLQQ Sbjct: 190 FHARTDLSLADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQ 249 Query: 253 SSDLVSILPTAVAELFVKRGMLRILPVKLRSMSQTIGIVTRKGGQLSRAGEMFVRMLNEG 312 +D + +PT VA + + ++ ILP++L GI+TR+ LS + ++ + E Sbjct: 250 -TDFIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANLVLQAIREV 308 Query: 313 AS 314 A Sbjct: 309 AK 310 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/308 (24%), Positives = 142/308 (46%), Gaps = 21/308 (6%) Query: 15 SRLRMKQLQLLIALDDHQSLHKASSALAMTQSAASKSLAELESMLDAQLFERTKSGLIPN 74 + + + LQ +AL D + A+ ++QSA S + ++E+ A+LFER + Sbjct: 3 TNISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLT 62 Query: 75 QFGHCVIRYARLMATDLGSLCEEMAQLRSGRGGRLAIGAVMGALPELVVPAVEALQRRHP 134 G ++ AR + +D+ + +M+ + R GR+AI A+ + P + ++R+P Sbjct: 63 PEGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYP 122 Query: 135 ELSIDIVEDTSVQLLGLLDEGHLDLLVARASVSDHPG----KYHYQPLSEEPLSVVVSGE 190 +++++ + S Q L LL G +D+ + PG ++ +PL +P +V + Sbjct: 123 GVTVELFDAISDQCLDLLRHGKVDIALT------APGPNLLEFDTRPLCSDPFYLVCRKD 176 Query: 191 HPRPRAKHMGLAALAGYRWVTYPSHMPLHAVLEREMDLAGVPMPGNAISTA---STFVTV 247 H + + + LAG + H+ + + +D V PG I T TV Sbjct: 177 HKLASKRRIKVPQLAGCEMI----HLARSTSVRQHLD--AVLRPGGVIHTGLEVEHLATV 230 Query: 248 ALLQQSSDLVSILPTAVAELFVKRGMLRILPVKLRSMSQTIGIVTRKGGQLSRAGEMFVR 307 A L +S VS++P F ++ I P+ + + + IVT K LS A + + Sbjct: 231 AALIESGLGVSVVPELTLFQFRLPNLVAI-PLDAPELKRPLLIVTPKERSLSVAAQGLLE 289 Query: 308 MLNEGASR 315 ++ EG ++ Sbjct: 290 LV-EGKAK 296 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 0.319 0.132 0.368 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: 862,817 Number of extensions: 33470 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 27 Number of HSP's gapped: 218 Number of HSP's successfully gapped: 27 Length of query: 318 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 233 Effective length of database: 1,217,395 Effective search space: 283653035 Effective search space used: 283653035 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: 130 (54.7 bits)