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= 0001.2730.p (222 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 423 e-120 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 86 2e-18 gi|300314040|ref|YP_003778132.1| transcription regulator protein... 77 8e-16 gi|300310738|ref|YP_003774830.1| transcription regulator protein... 76 2e-15 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 71 6e-14 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 423 bits (1088), Expect = e-120, Method: Compositional matrix adjust. Identities = 205/222 (92%), Positives = 217/222 (97%) Query: 1 MDTPKTRSETLRESIEEMIAVGKLAPGQHLDETSLAEQFGVSRTPIREALIQLASMGIVE 60 MDTPKTR+E LRESIEE+IAV KL+PGQHLDETSLAE+FGVSRTPIREALIQLASMGIVE Sbjct: 1 MDTPKTRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE 60 Query: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARDS 120 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARD+ Sbjct: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARDA 120 Query: 121 SDPDAYFYLNEAFHDHIYAGSHNSFLAEQARALHRRLRPYRRLQLRVRDRLKMSFDEHQA 180 +DPDAYFYLNEAFHDHIYAGSHN FLA+QARALHRRLRPYRRLQLRVRDRLK SFDEHQA Sbjct: 121 NDPDAYFYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDRLKSSFDEHQA 180 Query: 181 AVDAIIAGDAERTVEVLRQHIMIQGQRFADLVASLHQLKSAA 222 VDAII+GDAE+TV++LR+HIMIQGQRFADLVASLHQLKSAA Sbjct: 181 VVDAIISGDAEKTVDLLREHIMIQGQRFADLVASLHQLKSAA 222 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 86.3 bits (212), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/207 (33%), Positives = 101/207 (48%), Gaps = 17/207 (8%) Query: 5 KTRSETLRESIEEMIAVGKLAPGQHLDETSLAEQFGVSRTPIREALIQLASMGIVEMRPR 64 +T SE + I+ I G++APG + E LA +G+SR P+REA+ +L ++ P Sbjct: 15 ETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPH 74 Query: 65 RGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAEL---LAAH---QACQAAR 118 GA V + + L+E+F++ E M RLAA+RM+ AE EL L H +A QA R Sbjct: 75 VGARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVLDTHEKDEAFQAGR 134 Query: 119 DSSDPDAYFYLNEA---FHDHIYAGSHNSFLAE-QARALHRRLRPYRRLQLRVRDRLKMS 174 +Y E FH I S N L L++ R YR R + + Sbjct: 135 G-------YYQQEGDYDFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHRPRQA 187 Query: 175 FDEHQAAVDAIIAGDAERTVEVLRQHI 201 F EH +DA+ GD E ++R+HI Sbjct: 188 FAEHHRILDALADGDGELADLLMRRHI 214 >gi|300314040|ref|YP_003778132.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 77.4 bits (189), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 105/229 (45%), Gaps = 19/229 (8%) Query: 1 MDTPKTRSETLRESIEEMIAVGKLAPGQHLDETSLAEQFGVSRTPIREALIQLASMGIVE 60 +D P E + +I + I G LAP + + + LAEQ GVSR PI +A L G +E Sbjct: 4 IDAPAQLIEQVYHAILDAICTGALAPNEKITQEGLAEQLGVSRQPILQAFQILKREGFIE 63 Query: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAH--------Q 112 R+G +V + PQ+L+++++V A + + R A + A L AA + Sbjct: 64 DAGRKGVMVTALDPQRLMQLYQVRAVLDGLAARSTAEQWK--SDAALRAAGERAGRALIE 121 Query: 113 ACQAARDSSDPDAYFYLNEAFHDHIYAGSHNSFLAEQARALHRRLRPYRR-----LQLRV 167 A +A D D A + FH IY N + Q ALH + RR L V Sbjct: 122 AGRALADMRDLSARILADMDFHQFIYRSCGNPMIG-QTTALH--WQHIRRAMGAILSSEV 178 Query: 168 RDRLKMSFDEHQAAVDAIIAGDAERTVEVLRQHIMIQGQRFADLVASLH 216 R L + ++EH+A + A++ G ++ RQH A ++ S H Sbjct: 179 RSHLAV-WEEHEAILQAMLEGRPALADKLARQHAESAAAHLARVLTSAH 226 >gi|300310738|ref|YP_003774830.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 76.3 bits (186), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/186 (29%), Positives = 90/186 (48%), Gaps = 14/186 (7%) Query: 23 KLAPGQHLDETSLAEQFGVSRTPIREALIQLASMGIVEMRPRRGAIVAEIGPQQLIEMFE 82 +L PG + ET +A++ GVSRTP+R+AL +L G +E+ RRG V I +L +++ Sbjct: 25 RLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRGWKVCPIDFDRLDNLYD 84 Query: 83 V-----MAEFEAMCGRLAARRMTPAEHAELLAAHQACQAARDSSDPDAYFY--LNEAFHD 135 + MA + +C + P AEL + A D+ DA L+EAFH Sbjct: 85 LRIVLEMAALDKLCSQ-------PEASAELTQLNAIWLAEPDARQTDAVKVAQLDEAFHT 137 Query: 136 HIYAGSHNSFLAEQARALHRRLRPYRRLQLRVRDRLKMSFDEHQAAVDAIIAGDAERTVE 195 ++ A + N + + ++R RRL + R+ +++EH + I A Sbjct: 138 NLVAAAGNEEMTRVHTEVTEKIRIVRRLDFLKKKRIDATYEEHGKILQLIAKRKATEAQI 197 Query: 196 VLRQHI 201 +LR HI Sbjct: 198 LLRAHI 203 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 71.2 bits (173), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 68/190 (35%), Positives = 89/190 (46%), Gaps = 6/190 (3%) Query: 15 IEEMIAVGKLAPGQHLDETSLAEQFGVSRTPIREALIQLASMGIVEMRPRRGAIVAEIGP 74 I E I +LAPG L E LA+ F VSRT +REAL L + GIV + RRG V E P Sbjct: 17 ITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGIVTVSARRGWFVIEPTP 76 Query: 75 QQLIEMFEVMAEFEAMCGRLAARRMTPAEHAEL--LAAHQAC-QAARDSSDPDAYFYLNE 131 Q E FE E G L R+ P + L H A +AA +D A YL Sbjct: 77 AQAREAFEARRVIE--LGLLRQARLRPVGDTAIGQLREHIAREEAAIAGADVGARSYLLG 134 Query: 132 AFHDHIYAGSHNSFLAEQARALHRRLRPYRRLQLRVRDRLKMSFDEHQAAVDAIIAGDAE 191 FH + NS LAE R L R L + ++ + S EH V+A+ GD E Sbjct: 135 DFHVCLAECLGNSLLAETLRDLTARTTLTAMLH-QSSEQAEDSCSEHVLIVEALERGDLE 193 Query: 192 RTVEVLRQHI 201 + +++ H+ Sbjct: 194 QAEQLMHDHL 203 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 0.322 0.133 0.372 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: 491,209 Number of extensions: 14162 Number of successful extensions: 129 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 119 Number of HSP's successfully gapped: 16 Length of query: 222 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 140 Effective length of database: 1,231,600 Effective search space: 172424000 Effective search space used: 172424000 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 (22.0 bits) S2: 129 (54.3 bits)