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= 0001.3827.p (287 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 488 e-139 gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 98 7e-22 gi|300313740|ref|YP_003777832.1| LysR family transcription regul... 91 1e-19 gi|300312111|ref|YP_003776203.1| LysR family transcription regul... 90 2e-19 gi|300309859|ref|YP_003773951.1| LysR family transcription regul... 90 2e-19 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 488 bits (1257), Expect = e-139, Method: Compositional matrix adjust. Identities = 246/286 (86%), Positives = 263/286 (91%) Query: 1 MELAELEIFRTVVAEGGITRAAERLNRVQSNVTTRIKQLEESIGVPLFVRERRRLVLTAA 60 MELAELEIFRTVVAEGG+TRAAERLNRVQSNVTTRIKQLE+S+GVPLFVR+RRR+VLTAA Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 61 GEALLDYAERILDLAQEARQVVAPHSPRGRLRIGSMESAAASRLPTPLAEFHQRWPEVRL 120 GEALLDYAERILDLAQEARQ VAP SPRGRLRIGSMESAAASRLP PLAEFHQRWPEVRL Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPRGRLRIGSMESAAASRLPGPLAEFHQRWPEVRL 129 Query: 121 ELSTGPTDVLMAGVRTGKLDAALVAGPVDDPAFEATPLYKEELLLVTPRSHRRVRAPGDV 180 ELST PTDVLMA VR KLDAALVAGPV DPAF+ATPL++EELLLVTPRSHRRVRAP +V Sbjct: 130 ELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFREELLLVTPRSHRRVRAPEEV 189 Query: 181 ELDTLIVFEQGCAYRRRAEAWFASHSRGGLPLRTLELASYHAILACVAAGAGVAVVPRSV 240 LDTLIVFEQGCAYRR AEAWFA H G RTLELASYHAILACV+AGAGVAVVPRSV Sbjct: 190 MLDTLIVFEQGCAYRRHAEAWFAGHGAGRQLPRTLELASYHAILACVSAGAGVAVVPRSV 249 Query: 241 LVMQVAPHGFATHSLGREGRVVTYMISRRERGSASLLALRSLLMAS 286 + MQ+ PHGFATHSLGR+GR+ T++ISRRER SAS LALR+LLMAS Sbjct: 250 IAMQMEPHGFATHSLGRDGRITTFLISRRERYSASFLALRALLMAS 295 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 98.2 bits (243), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 79/247 (31%), Positives = 120/247 (48%), Gaps = 15/247 (6%) Query: 1 MELAELEIFRTVVAEGGITRAAERLNRVQSNVTTRIKQLEESIGVPLFVRERRRLVLTAA 60 M L +E F + ITRAAE+L+ QS +++RI LEE +GV L R ++ LT A Sbjct: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 Query: 61 GEALLDYAERILDLAQEARQVVAPHS--PRGRLRIGSMESAAASRLPTPLAEFHQRWPEV 118 G+ A ++LD+ ++ RQ + HS P LRIGS+ES S LP L E R+P+ Sbjct: 61 GQRFQRLAVKLLDMQRQIRQELGGHSAGPLA-LRIGSIESVVHSWLPAWLQEIRCRYPDF 119 Query: 119 RLELSTGPTDVLMAGVRTGKLDAALVAGPVDDPAFEATPLYKEELLLVTPRSHRRVRAPG 178 LEL+ + VL +R G D + D A + + E++ V R R+ Sbjct: 120 ALELTVETSPVLTEQIRRGAQDLVFTSTVGSDTAVRSRLMTPMEMVFVGHRERFGTRSHT 179 Query: 179 DVEL--DTLIVFEQGC----AYRRRAEAWFASHSRGGLPLRTLELASYHAILACVAAGAG 232 EL LI F++G + + W ++ R ++S A++ V G G Sbjct: 180 LEELAAHDLITFQRGSQPHQGLLQLCQEWGVANP------RIHAISSISAMVQLVEGGFG 233 Query: 233 VAVVPRS 239 VA +PR+ Sbjct: 234 VATLPRA 240 >gi|300313740|ref|YP_003777832.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 59/175 (33%), Positives = 97/175 (55%), Gaps = 6/175 (3%) Query: 1 MELAELEIFRTVVAEGGITRAAERLNRVQSNVTTRIKQLEESIGVPLFVRERRRLVLTAA 60 M+ +L+ F + EG + RAAERL + Q +T I +LEE +G PLF R R + LTA Sbjct: 1 MDFRDLKYFTVIAEEGHVGRAAERLYKTQPALTKCIDRLEEQLGAPLFERLGRGIRLTAV 60 Query: 61 GEALLDYAERI-LDLAQEARQV-VAPHSPRGRLRIGSMESAAASRLPTPLAEFHQRWPEV 118 GEALL+ A +I L + + AR++ H G +R+G + + A LP + +V Sbjct: 61 GEALLNRARQISLMMDETAREIGDYAHGREGNIRLGCVPTLAEHVLPGVCQQLLGEAQKV 120 Query: 119 RLELSTGPTDVLMAGVRTGKLDAALVAGPV--DDPAFEATPLYKEELLLVTPRSH 171 ++L D L+AG++ G+LD +V GP+ DD F + +++++++ H Sbjct: 121 TIDLKVSMNDALLAGLKAGELD--IVLGPMIQDDELFHTEEIMQDQMVVMASPQH 173 >gi|300312111|ref|YP_003776203.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 64/245 (26%), Positives = 113/245 (46%), Gaps = 8/245 (3%) Query: 1 MELAELEIFRTVVAEGGITRAAERLNRVQSNVTTRIKQLEESIGVPLFVRERRRLVLTAA 60 +L +L +F + +TR+AER+N + RIK+LE G L RE + + LT A Sbjct: 3 FDLTDLRLFILIAEHNSLTRSAERMNLSLGATSNRIKELETRFGTRLLYRESKGVQLTPA 62 Query: 61 GEALLDYAERILDLAQEARQVVAPHSP--RGRLRIGSMESAAASRLPTPLAEFHQRWPEV 118 G LL +A++ + + + + ++ +G +RI + +A +P L +F R P+V Sbjct: 63 GHTLLHHAQQFMQQVEHLKSDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLARHPQV 122 Query: 119 RLELSTGPTDVLMAGVRTGKLDAALVAGPVDDPAFEATPLYKEELLLVTPRSHRRVRAPG 178 + L ++ G++ G D +VAGPV + + L+L T H AP Sbjct: 123 NVALEERLNHDILRGIQEGTADIGIVAGPVQGEGLQILNFSTDRLVLATALEHPLADAPS 182 Query: 179 DVELDTL----IVFEQGCAYRRRAEAWFASHSRGGLPLRTLELASYHAILACVAAGAGVA 234 + TL I +G A + + L LR +++ S+ A+ + G+ Sbjct: 183 LPFIQTLEYEHIGLHEGSTLHHFLSKIVAENGQ-RLKLR-IQVRSFEAMCRMIETNVGIG 240 Query: 235 VVPRS 239 ++PRS Sbjct: 241 ILPRS 245 >gi|300309859|ref|YP_003773951.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 89.7 bits (221), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 55/135 (40%), Positives = 73/135 (54%) Query: 6 LEIFRTVVAEGGITRAAERLNRVQSNVTTRIKQLEESIGVPLFVRERRRLVLTAAGEALL 65 L+ F T + T A +L QS V+ I++LEES+G LFVR+ L LTA GE+LL Sbjct: 22 LQTFSTAASSASFTEAGRQLGLTQSTVSDHIRRLEESLGRRLFVRDTHSLALTADGESLL 81 Query: 66 DYAERILDLAQEARQVVAPHSPRGRLRIGSMESAAASRLPTPLAEFHQRWPEVRLELSTG 125 +A IL A + RGR+R G+ + A LP LA F + PEV LE++ G Sbjct: 82 VHARLILQAHARAEAQFSAPRLRGRVRFGTSDDLAMGPLPDMLAAFRSQHPEVELEITIG 141 Query: 126 PTDVLMAGVRTGKLD 140 T L A + GKLD Sbjct: 142 LTSDLYASLDQGKLD 156 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 0.382 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: 800,577 Number of extensions: 33190 Number of successful extensions: 274 Number of sequences better than 1.0e-08: 75 Number of HSP's gapped: 239 Number of HSP's successfully gapped: 75 Length of query: 287 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 203 Effective length of database: 1,222,130 Effective search space: 248092390 Effective search space used: 248092390 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: 130 (54.7 bits)