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= 0017.0029.p (256 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 328 3e-91 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 107 7e-25 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 96 2e-21 gi|300311924|ref|YP_003776016.1| transcription repressor for pur... 96 2e-21 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 94 1e-20 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 328 bits (840), Expect = 3e-91, Method: Compositional matrix adjust. Identities = 165/254 (64%), Positives = 194/254 (76%), Gaps = 3/254 (1%) Query: 1 VARGIEDSCYQAGYSVILCNSDDDPAKQRDYLNVLLTKRCDGLIVATLAQTDGELLRKMK 60 +ARGIED CY AGYSVILCNSDDDP KQRDYL VL TK CDGLI+ATL Q D K+ Sbjct: 77 LARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIATLNQADLNPAGKLD 136 Query: 61 VPTVLLDRAPKDMAIDLVAVDNAAGGVLAAEHLLALGRRRIACIGGPESLDISAERIAGL 120 +PTVLLDRAPK++ IDLV+ DNA GG LAA HLL L R R+ACI GP+ L++S ER+ G Sbjct: 137 IPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVACIAGPDGLELSDERVRGF 196 Query: 121 RRKLQTAGVAIAPGLLAYADFTSAGGYAAARALLS---VAQPPDAIFCCNDLMAIGALRA 177 R+ L+ G+A+A L +ADF+ GGY AA LL Q PDAIFCCND+MAIG LRA Sbjct: 197 RQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQRPDAIFCCNDMMAIGVLRA 256 Query: 178 AAERGIDVPDALSVIGFDDIDLASFVHPPLTSVSQNTRTLGQLTAQCLLERIADPTRPVQ 237 A E I+VP LSV+GFDDI+LA FVHPPLT+V+QNTR LG LTAQ LLERIADP+ P + Sbjct: 257 AGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGNLTAQFLLERIADPSLPAR 316 Query: 238 RKTITPQLHVRGST 251 R+T+ PQL +RGST Sbjct: 317 RETVAPQLQLRGST 330 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 107 bits (268), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 87/253 (34%), Positives = 120/253 (47%), Gaps = 9/253 (3%) Query: 6 EDSCYQAGYSVILCNSDDDPAKQRDYLNVLLTKRCDGLIVATLAQTDGELLRKMK---VP 62 E + G +I+CN++DDP R YL+ + DG+++ A + LRK + P Sbjct: 82 ERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIMN-ANLPMDELRKTEQRGAP 140 Query: 63 TVLLDRAPKDMAIDL--VAVDNAAGGVLAAEHLLALGRRRIACIGGPESLDISAERIAGL 120 VL D +L +AVD G +AA HLL LG + A + G + I AER G Sbjct: 141 VVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLGLGHQCFAALVGSKKSGIHAERYRGF 200 Query: 121 RRKLQTAGVAIAPGLLAYADFTSAGGYAAARALLSVAQPPDAIFCCNDLMAIGALRAAAE 180 + AG Y + T GY A LL AIF NDL A+GA+ A A+ Sbjct: 201 ASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHPQVTAIFASNDLPALGAMNAIAD 260 Query: 181 RGIDVPDALSVIGFDDIDLASFVHPPLTSVSQNTRTLGQLTAQCLLERIA--DPTRPVQR 238 G++VP +SV G DI A P LT+V+ T +++ + LL I P+ PV Sbjct: 261 MGMNVPRDVSVTGITDIQWARVSRPALTTVAVPTEAAARMSIELLLALIERRSPS-PVMH 319 Query: 239 KTITPQLHVRGST 251 T PQL R ST Sbjct: 320 VTAAPQLVERAST 332 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 96.3 bits (238), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 121/240 (50%), Gaps = 18/240 (7%) Query: 3 RGIEDSCYQAGYSVILCNSDDDPAKQRDYLNVLLTKRCDGLIVATL---AQTDGELLRKM 59 +GIE + YSV+ ++ P ++ + +LL R DG+I+ A +LL + Sbjct: 80 QGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILTVADASANATLDLLERE 139 Query: 60 KVPTVLLDRAPKDMAIDL--------VAVDNAAGGVLAAEHLLALGRRRIACIGGP-ESL 110 ++P VL A + D V+VDN A A HL+ LG RRI + G + Sbjct: 140 RIPFVL---AYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGHRRIQMLSGRFNAS 196 Query: 111 DISAERIAGLRRKLQTAGVA-IAPGLLAYADFTSAGGYAAARALLSVAQPPDAIFCCNDL 169 D + +R G ++ AG+A +A + T+A Y + + Q P A+FC NDL Sbjct: 197 DRAMQRYYGYLDAMRAAGLAPMAVIEVERHTLTAAADYQ--QMMADPRQRPTALFCSNDL 254 Query: 170 MAIGALRAAAERGIDVPDALSVIGFDDIDLASFVHPPLTSVSQNTRTLGQLTAQCLLERI 229 +A+ A+R G+ VP+ +SV+GFD I + + + P L SV Q + +G++ + L+E I Sbjct: 255 LAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSEQIGEVALRVLVEAI 314 >gi|300311924|ref|YP_003776016.1| transcription repressor for pur regulon regulator protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 96.3 bits (238), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 110/234 (47%), Gaps = 17/234 (7%) Query: 11 QAGYSVILCN-SDDDPAKQRDYLNVLLTKRCDGLI--VATLAQTDGELLRKMKVPTVLLD 67 +AGY+++ N +D A ++ L R DG+I V L ++ P V+ Sbjct: 99 RAGYTLLQRNLMREDEASLVYVRDLFLAGRIDGMIAMVNRAGNPVVSELHRLGYPCVVYG 158 Query: 68 RAPKDMAIDLVAVDNAAGGVLAAEHLLALGRRRIACIGGPES-----------LDISAE- 115 A D A V + G+ EHL G RRIA + GP+ + S+E Sbjct: 159 MA--DPACHHVVQSDRQAGLAVVEHLYRSGCRRIALVTGPQKDHQPGKSREQGVPTSSEA 216 Query: 116 RIAGLRRKLQTAGVAIAPGLLAYADFTSAGGYAAARALLSVAQPPDAIFCCNDLMAIGAL 175 R G L+ G+ P + D++ GY AA L A+ PDAIF ND MA+GAL Sbjct: 217 RYFGYLDGLEKCGLTPRPEWVVTGDWSLESGYRAAAQLCHQAERPDAIFLGNDRMALGAL 276 Query: 176 RAAAERGIDVPDALSVIGFDDIDLASFVHPPLTSVSQNTRTLGQLTAQCLLERI 229 +A + G+ VP +SV+GFD++ F P LTSV + + + LLERI Sbjct: 277 KALYDLGVKVPHEISVVGFDNMRYDDFSIPSLTSVDAPMLEMCEFAVKLLLERI 330 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 93.6 bits (231), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 116/237 (48%), Gaps = 13/237 (5%) Query: 3 RGIEDSCYQAGYSVILCNSDDDPAKQRDYLNVLLTKRCDGLIVATLAQT--DGELLRKMK 60 RG+ + GY ++L ++ + + V + +R DGL++ + + + L+ Sbjct: 92 RGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLTGVQHSPMTRQRLKAAG 151 Query: 61 VPTVL---LDRAPKDMAIDLVAVDNAAGGVLAAEHLLALGRRRIACIGGPESLDISAERI 117 +P V L P DM L DN A G ++L G RR+A +GG + ++ R+ Sbjct: 152 IPVVETWDLTDTPIDM---LAGFDNHAAGRAMGDYLYQKGYRRMAFVGGDDPRGMA--RV 206 Query: 118 AGLRRKLQTAGVAIAPGL-LAYADFTSAGGYAAARALLSVAQPPDAIFCCNDLMAIGALR 176 AGLR L+ G A L + F AG A R LL+ DA F ND++A GA Sbjct: 207 AGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGR-LLTQHPEVDAAFFSNDVIAAGAAL 265 Query: 177 AAAERGIDVPDALSVIGFDDIDLASFVHPPLTSVSQNTRTLGQLTAQCLLERI-ADP 232 A RGI VP +++ GF ++++A+ V P LT+V + +G A+ LL R DP Sbjct: 266 ECARRGIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAAEMLLTRFDGDP 322 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 0.137 0.396 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: 822,268 Number of extensions: 34273 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 8 Length of query: 256 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 173 Effective length of database: 1,226,865 Effective search space: 212247645 Effective search space used: 212247645 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)