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= 0001.1218.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|300310738|ref|YP_003774830.1| transcription regulator protein... 440 e-125 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 78 6e-16 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 75 5e-15 gi|300314040|ref|YP_003778132.1| transcription regulator protein... 74 1e-14 >gi|300310738|ref|YP_003774830.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 440 bits (1132), Expect = e-125, Method: Compositional matrix adjust. Identities = 213/233 (91%), Positives = 225/233 (96%) Query: 1 MTVTVANPLAEQVYHRIKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGY 60 MTVT+AN LAEQVYHR+KDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGY Sbjct: 1 MTVTLANALAEQVYHRLKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGY 60 Query: 61 LEVGFRRGWKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQQQATAALEQLNAIWLVEPEA 120 LEVGFRRGWKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQ +A+A L QLNAIWL EP+A Sbjct: 61 LEVGFRRGWKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQPEASAELTQLNAIWLAEPDA 120 Query: 121 READAVRVAELDEAFHTNLVAAAGNQEMTRVHTEVTEKIRIVRRLDFLKKKRIEATYEEH 180 R+ DAV+VA+LDEAFHTNLVAAAGN+EMTRVHTEVTEKIRIVRRLDFLKKKRI+ATYEEH Sbjct: 121 RQTDAVKVAQLDEAFHTNLVAAAGNEEMTRVHTEVTEKIRIVRRLDFLKKKRIDATYEEH 180 Query: 181 GKILQLIAKRKSTEAQILLRAHITQSKLEVRKITIWMLAEARQWQEPEAAAAR 233 GKILQLIAKRK+TEAQILLRAHITQSKLEVRKITIWMLAEARQ QEPEAA A+ Sbjct: 181 GKILQLIAKRKATEAQILLRAHITQSKLEVRKITIWMLAEARQLQEPEAALAQ 233 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 78.2 bits (191), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 60/206 (29%), Positives = 101/206 (49%), Gaps = 5/206 (2%) Query: 9 LAEQVYHRIKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRG 68 L+E V+ +I+ I + PG +E E+A+ G+SR PLR+A+ RL+ + L G Sbjct: 17 LSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPHVG 76 Query: 69 WKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQQQATAALEQLNAIWLVEPEAREADAVRV 128 +V + + L L+ +R LE A +L +Q+ + A L++L + + A R Sbjct: 77 ARVVSLTLEGLVELFQIRESLEGMAC-RLAAQRMSRAELDELRRVLDTHEKDEAFQAGRG 135 Query: 129 ---AELDEAFHTNLVAAAGNQEMTRV-HTEVTEKIRIVRRLDFLKKKRIEATYEEHGKIL 184 E D FH ++ A+GNQ +TR+ E+ + R+ R R + EH +IL Sbjct: 136 YYQQEGDYDFHYKIIQASGNQILTRILCGELYQLARMYRIQYSATPHRPRQAFAEHHRIL 195 Query: 185 QLIAKRKSTEAQILLRAHITQSKLEV 210 +A A +L+R HI S+ + Sbjct: 196 DALADGDGELADLLMRRHIGASRRNI 221 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 75.1 bits (183), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 58/195 (29%), Positives = 100/195 (51%), Gaps = 2/195 (1%) Query: 10 AEQVYHRIKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRGW 69 AE + I++ I +L PG + ET +A+ GVSRTP+R+AL +L G +E+ RRG Sbjct: 8 AEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRRGA 67 Query: 70 KVCPIDFDRLDNLYDLRIVLEMAALDKLCSQQQATAALEQLNAIWLVEPEAREA-DAVRV 128 V I +L ++++ E A +L +++ A +L A AR+A D Sbjct: 68 IVAEIGPQQLIEMFEVMAEFE-AMCGRLAARRMTPAEHAELLAAHQACQAARDANDPDAY 126 Query: 129 AELDEAFHTNLVAAAGNQEMTRVHTEVTEKIRIVRRLDFLKKKRIEATYEEHGKILQLIA 188 L+EAFH ++ A + N + + ++R RRL + R++++++EH ++ I Sbjct: 127 FYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDRLKSSFDEHQAVVDAII 186 Query: 189 KRKSTEAQILLRAHI 203 + + LLR HI Sbjct: 187 SGDAEKTVDLLREHI 201 >gi|300314040|ref|YP_003778132.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 73.6 bits (179), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 102/216 (47%), Gaps = 15/216 (6%) Query: 9 LAEQVYHRIKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRG 68 L EQVYH I D I + L P + T+ +A++ GVSR P+ A L+REG++E R+G Sbjct: 10 LIEQVYHAILDAICTGALAPNEKITQEGLAEQLGVSRQPILQAFQILKREGFIEDAGRKG 69 Query: 69 WKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQQQATAALEQLN---AIWLVE-----PEA 120 V +D RL LY +R VL+ A Q ++ AAL L+E + Sbjct: 70 VMVTALDPQRLMQLYQVRAVLDGLAARSTAEQWKSDAALRAAGERAGRALIEAGRALADM 129 Query: 121 READAVRVAELDEAFHTNLVAAAGNQEMTRVHTEVTEKIRIVRRLDFLKKKRIE---ATY 177 R+ A +A++D FH + + GN + + + IR R + + + A + Sbjct: 130 RDLSARILADMD--FHQFIYRSCGNPMIGQTTALHWQHIR--RAMGAILSSEVRSHLAVW 185 Query: 178 EEHGKILQLIAKRKSTEAQILLRAHITQSKLEVRKI 213 EEH ILQ + + + A L R H + + ++ Sbjct: 186 EEHEAILQAMLEGRPALADKLARQHAESAAAHLARV 221 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 0.134 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: 615,187 Number of extensions: 20913 Number of successful extensions: 102 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 95 Number of HSP's successfully gapped: 9 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)