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= 0011.0115.p (356 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309932|ref|YP_003774024.1| transcription regulator protein... 684 0.0 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 136 2e-33 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 133 2e-32 gi|300311924|ref|YP_003776016.1| transcription repressor for pur... 129 3e-31 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 123 2e-29 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 684 bits (1765), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/358 (98%), Positives = 354/358 (98%), Gaps = 2/358 (0%) Query: 1 VRPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 +RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS Sbjct: 1 MRPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 Query: 61 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGM 120 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGM Sbjct: 61 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGM 120 Query: 121 ILTVADASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIG 180 ILTVADASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIG Sbjct: 121 ILTVADASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIG 180 Query: 181 LGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAAIEVERHTLTAAADYQQMMAD 240 LGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMA IEVERHTLTAAADYQQMMAD Sbjct: 181 LGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAVIEVERHTLTAAADYQQMMAD 240 Query: 241 PRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSE 300 PRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSE Sbjct: 241 PRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSE 300 Query: 301 QIGEVALRVLVEAIERN--ASAAAAPDPALSASWLRHILPHAVRSGGSVALPATGVDC 356 QIGEVALRVLVEAIERN A+AAAAPD ALSASWLRHILPHAVRSGGSVALPATGVDC Sbjct: 301 QIGEVALRVLVEAIERNASAAAAAAPDLALSASWLRHILPHAVRSGGSVALPATGVDC 358 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 136 bits (343), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 98/324 (30%), Positives = 166/324 (51%), Gaps = 31/324 (9%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 +IK VA LAGVS TVS +LN+ VS++ E++ ++ EL + P+ R+LR+ + ++ Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMI-- 121 G+++P +N F++ +GIE YSV+ ++ P+++ +++L DG+I Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 122 -LTVADASANATLDLLERERIPFVL---AYNQLGTDQTAAPARASVSVDNRAAACDAVAH 177 L AD + LD IP VL A +L D VS DN A H Sbjct: 123 TLNQADLNPAGKLD------IPTVLLDRAPKELDIDL--------VSTDNAVGGSLAARH 168 Query: 178 LIGLGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAAIEVERHTLTAAADYQQM 237 L+ L R+ ++G + + + +R G+ + GLA +A ++ + YQ Sbjct: 169 LLDLRRCRVACIAGP-DGLELSDERVRGFRQTLEQGGLA-LADSDLLHADFSGIGGYQAA 226 Query: 238 M-------ADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEP 290 M AD QRP A+FC ND++A+ +R L ++VP ++SV+GFD I + + P Sbjct: 227 MRLLQGRPAD--QRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHP 284 Query: 291 VLASVVQPSEQIGEVALRVLVEAI 314 L +V Q + ++G + + L+E I Sbjct: 285 PLTTVAQNTRKLGNLTAQFLLERI 308 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 133 bits (334), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 100/320 (31%), Positives = 161/320 (50%), Gaps = 14/320 (4%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 ++ +VA LAGV+ ATVS +L + G V +T +++ ++A+LG+RP+ T R L G + T+ Sbjct: 3 TLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAPTL 62 Query: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILT 123 +VV +++N + + E AAR ++ T P+ A ++ + G DG+++ Sbjct: 63 ALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIM 122 Query: 124 VADASANATLDLL---ERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIG 180 +AN +D L E+ P VL + A P ++VD A A HL+G Sbjct: 123 ----NANLPMDELRKTEQRGAPVVLC---MWEKPDAPPELPCIAVDFFEAGAIAARHLLG 175 Query: 181 LGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAAIEVERHTLTAAADYQQMMAD 240 LGH+ L G + A +RY G+ A + AG P T + Y+ M Sbjct: 176 LGHQCFAALVGSKKSGIHA-ERYRGFASACKEAG-HPHPTQRTRYINDTVESGYRATMEL 233 Query: 241 PRQRP--TALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQP 298 R+ P TA+F SNDL A+ AM + +GM VP D+SV G I + P L +V P Sbjct: 234 LREHPQVTAIFASNDLPALGAMNAIADMGMNVPRDVSVTGITDIQWARVSRPALTTVAVP 293 Query: 299 SEQIGEVALRVLVEAIERNA 318 +E +++ +L+ IER + Sbjct: 294 TEAAARMSIELLLALIERRS 313 >gi|300311924|ref|YP_003776016.1| transcription repressor for pur regulon regulator protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 129 bits (325), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 107/340 (31%), Positives = 165/340 (48%), Gaps = 35/340 (10%) Query: 2 RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSR 61 R +IK VA AGVS TVS +LN P V+ T E + +I L F PN R+LR ++R Sbjct: 3 RLTIKDVAKAAGVSFQTVSLVLNHPEKVAPRTRELVQAAIDALNFIPNVAARSLRNISTR 62 Query: 62 TVGVVVPTLS----------NTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAV-- 109 T+ V+ S +T + +Q + AA Y+++ + E+E + V Sbjct: 63 TLACVMFNGSSYDERSERTQDTHYHNVVQTLTRAADRAGYTLL--QRNLMREDEASLVYV 120 Query: 110 -ELLLGHRVDGMILTVADASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNR 168 +L L R+DGMI V + + N + L R P V+ A PA V +R Sbjct: 121 RDLFLAGRIDGMIAMV-NRAGNPVVSELHRLGYPCVVY-------GMADPACHHVVQSDR 172 Query: 169 AAACDAVAHLIGLGHRRIQMLSG--RFNASDRAMQ---------RYYGYLDAMRAAGLAP 217 A V HL G RRI +++G + + ++ + RY+GYLD + GL P Sbjct: 173 QAGLAVVEHLYRSGCRRIALVTGPQKDHQPGKSREQGVPTSSEARYFGYLDGLEKCGLTP 232 Query: 218 MAAIEVE-RHTLTAAADYQQMMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISV 276 V +L + + +RP A+F ND +A+ A++ L LG+KVP++ISV Sbjct: 233 RPEWVVTGDWSLESGYRAAAQLCHQAERPDAIFLGNDRMALGALKALYDLGVKVPHEISV 292 Query: 277 MGFDGIPVGALMEPVLASVVQPSEQIGEVALRVLVEAIER 316 +GFD + P L SV P ++ E A+++L+E IE+ Sbjct: 293 VGFDNMRYDDFSIPSLTSVDAPMLEMCEFAVKLLLERIEQ 332 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 98/313 (31%), Positives = 145/313 (46%), Gaps = 22/313 (7%) Query: 6 KQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTVGV 65 + VA AGVS TVSR++N P VS T E++ IA +G+ PN L + +R V Sbjct: 18 EDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRIVAA 77 Query: 66 VVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILTVA 125 +VPT+S+++FA+ L+G+ Y ++ T Y E ET VE+ +G RVDG++LT Sbjct: 78 IVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLTGV 137 Query: 126 DASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGHRR 185 S T L+ IP V + D T P DN AA +L G+RR Sbjct: 138 QHSP-MTRQRLKAAGIPVVETW-----DLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRR 191 Query: 186 IQMLSGRFNASDRAMQRYYGYLDAMRAAGLA-------PMAAIEVERHTLTAAADYQQMM 238 + + G R M R G +++R G A PM A L A + + Sbjct: 192 MAFVGGD---DPRGMARVAGLRESLRHHGAAEPVHLVMPMGAF------LQAGREAIGRL 242 Query: 239 ADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQP 298 A F SND++A A + G+ VP I++ GF + + + P L +V Sbjct: 243 LTQHPEVDAAFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALTTVQIS 302 Query: 299 SEQIGEVALRVLV 311 + QIG A +L+ Sbjct: 303 AHQIGLTAAEMLL 315 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 0.320 0.132 0.371 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: 989,217 Number of extensions: 36427 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 171 Number of HSP's successfully gapped: 8 Length of query: 356 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 270 Effective length of database: 1,212,660 Effective search space: 327418200 Effective search space used: 327418200 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: 131 (55.1 bits)