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= 0007.0103.p (235 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310702|ref|YP_003774794.1| transcription regulator protein... 353 5e-99 gi|300312613|ref|YP_003776705.1| transcription regulator protein... 124 5e-30 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 96 3e-21 gi|300313340|ref|YP_003777432.1| transcription regulator protein... 90 2e-19 gi|300312626|ref|YP_003776718.1| GntR family transcription regul... 79 2e-16 >gi|300310702|ref|YP_003774794.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 235 Score = 353 bits (907), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 198/235 (84%), Positives = 211/235 (89%) Query: 1 MPEPIQRRKLYQEVLERLMARIHQGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERS 60 MPE IQRRKLYQEVLERLM RIHQGEFP GSQLPSERDLM+QYGVGRPAVREALQAMERS Sbjct: 1 MPEQIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERS 60 Query: 61 GFVEIAHGERARVLDLTARSLIAQIAGGAQHLLRTKPDMLGHLKEARVLLETHTARLAAE 120 GFVEIAHGERARV+D TA LIAQIA GAQHLLRTKPDML HLKEARV LET TAR+AA Sbjct: 61 GFVEIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAA 120 Query: 121 RATDAQIDRLREIIAAHRASMVNLDQFIERDMAFHREIADISGNPIFPSIVESMFCWAGE 180 RAT QI+RLR+ + HRASMV+L +FIERDMAFHREIADISGNPIFPSIVES+F WA E Sbjct: 121 RATPEQIERLRQTVTVHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASE 180 Query: 181 FYTNLVRAPGAEELTLAEHQRIVDAIAAHDGDAAADAMRAHLMRANDLYRELGQQ 235 FYT +VRAPGAEELTLAEH RIVDAIAA DGDAAA+AMR HL+RAN+LYR LGQQ Sbjct: 181 FYTPMVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQQ 235 >gi|300312613|ref|YP_003776705.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 124 bits (312), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 122/233 (52%), Gaps = 4/233 (1%) Query: 3 EPIQRRKLYQEVLERLMARIHQGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERSGF 62 +PI ++ + ++V +RL+ I G P QLP ER+L GVGRPAVREA++ + G Sbjct: 4 DPIVQKSISEQVAQRLLTMIRSGLLKPDQQLPPERELAAMLGVGRPAVREAIRGLALLGL 63 Query: 63 VEIAHGERARVLDLTARSLIAQIAGGAQHLLRTKPDMLGHLKEARVLLETHTARLAAERA 122 + I GE V L R L+ + + ++ P L L +AR+++ET A LAA Sbjct: 64 LRIRQGEGTFVSSLETRELLEPL----EMIIDLNPGTLESLFDARLIIETGVAALAATHI 119 Query: 123 TDAQIDRLREIIAAHRASMVNLDQFIERDMAFHREIADISGNPIFPSIVESMFCWAGEFY 182 DA++DRL + + + F D+ FH I + NP SI S++ + Sbjct: 120 EDAELDRLARNVEDEARLLSDPAAFAAADVEFHEAIIEACNNPFLQSIAGSLYMLGKKSR 179 Query: 183 TNLVRAPGAEELTLAEHQRIVDAIAAHDGDAAADAMRAHLMRANDLYRELGQQ 235 + R P E +L +H++I+DA+ A D A++AMR HLMR D YR G+ Sbjct: 180 SITSRIPATLERSLQDHRQILDALKARDPQKASEAMRHHLMRVRDAYRSAGRN 232 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 95.5 bits (236), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 83/253 (32%), Positives = 117/253 (46%), Gaps = 32/253 (12%) Query: 2 PEPIQR-----RKLYQEVLERLMARIHQGEFPPGSQLPSERDLMDQYGVGRPAVREALQA 56 P P+ R + L QEV+ L A I G PG +LP+E ++M GV R VREA+ Sbjct: 7 PNPLLRPRRKPQSLSQEVVAALTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISR 66 Query: 57 MERSGFVEIAHGERARVLDLTARSLIAQIAGGAQHL----LRTKPDMLGHLKEARVLLET 112 ++ +G VE HG VL+ GG ++ + T D+L L E R+ LET Sbjct: 67 LQAAGLVETRHGIGTFVLEAK--------KGGNINIDPATITTMRDLLA-LLELRISLET 117 Query: 113 HTARLAAERATDAQIDRLREIIAAHRASMVNLDQFIERDMAFHREIADISGNPIFPSIVE 172 TA LAA R T+ Q+ +RE + RA+ + D FH IA+ +GN F I+ Sbjct: 118 ETAGLAAARRTEEQLQEIREALDLFRANQQGGGDTVGPDFRFHFAIANATGNRYFIEIIS 177 Query: 173 SMFCWAGEFYTNLVRAPGAE----------ELTLAEHQRIVDAIAAHDGDAAADAMRAHL 222 + G R AE + EH+ I +AIA D +AA AMR HL Sbjct: 178 HL----GMGVIPRKRINTAELAHDQQASYLDRVQREHEDIYEAIARGDAEAARAAMRNHL 233 Query: 223 MRANDLYRELGQQ 235 + + R Q+ Sbjct: 234 TNSRERLRRAQQE 246 >gi|300313340|ref|YP_003777432.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 89.7 bits (221), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 67/229 (29%), Positives = 108/229 (47%), Gaps = 9/229 (3%) Query: 5 IQRRKLYQEVLERLMARIHQGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERSGFVE 64 +Q+ ++ ++ + ++ I + + PG LPSE +L +GV RP VREA A+ G + Sbjct: 12 LQQVRISDQIADHIVRYIAEHKLEPGQSLPSEGELTRLFGVSRPTVREATNALAGRGLIA 71 Query: 65 IAHGERARVLDLTARSLIAQIAGGAQHLLRTKPDMLGHLKEARVLLETHTARLAAERATD 124 ++ G+ VL L+ + AQH L T+ + E R L+ A LAAE T Sbjct: 72 VSSGKSPTVLPLSK----VPFSNLAQHGLATQQITPIQILEVRHSLDLQAAVLAAEHRTP 127 Query: 125 AQIDRLREIIAAHRASMVNLDQFIERDMAFHREIADISGNPIFPSIVES----MFCWAGE 180 A IDRL I+A A++ N++ F D AFH + + NP+ +I+ +F Sbjct: 128 ADIDRLNAIVAQMPAALGNVEAFSPLDAAFHEAVGQATQNPLLSAIISGISPILFDSTRS 187 Query: 181 FYTNLVRAPGAEELTLAEHQRIVDAIAAHDGDAAADAMRAHLMRANDLY 229 +++ R + L HQ I AI + AA + H + A Y Sbjct: 188 VHSH-TRNQQEWDSVLLNHQNIAAAIINGNASAARRLVDIHYVDAYKRY 235 >gi|300312626|ref|YP_003776718.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 256 Score = 79.3 bits (194), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/252 (29%), Positives = 120/252 (47%), Gaps = 37/252 (14%) Query: 1 MP-EPIQRRKLYQEVLERLMARIHQGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMER 59 MP E I+ ++LY+++ ++L I +GEF GS+LPSERDL Q GV RP++REAL A+E Sbjct: 1 MPIEAIEPQRLYRQISDQLRKLIVEGEFAVGSRLPSERDLALQLGVSRPSLREALIALEV 60 Query: 60 SGFVEIAHG---------ERARVLDLTARSLIAQIAGGAQHLLRTKPDMLGHLKEARVLL 110 G +E+ G +R R +DL++ G L+R AR ++ Sbjct: 61 EGHIEVRMGSGIYVCPPVQRERRIDLSSEE-------GPLELIR-----------AREMI 102 Query: 111 ETHTARLAAERATDAQIDRLREIIAAHRASMVNLDQFIERDMAFHREIADISGNPIFPSI 170 E A AA+ + QI + E A ++ +E D FH +A+ +GN + + Sbjct: 103 EGEVAYAAAQHGSKQQIAAVEEAYALMISNAQAGIDPLEADRLFHIRLAEATGNSVLVGL 162 Query: 171 VESMF-CWAGEFYTNL---VRAPGAEELTLAEHQRIVDAIAAHDGDAAADAMRAHL---- 222 V +F G + L + + EH +++A+ + + A AMR H+ Sbjct: 163 VTQLFDARLGPLFKRLHSHFDGTRVWQEAIDEHALVMEALRQRNPEQARAAMRRHMDIAF 222 Query: 223 -MRANDLYRELG 233 + +L RE G Sbjct: 223 TRYSANLIREYG 234 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 0.135 0.387 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: 678,715 Number of extensions: 26786 Number of successful extensions: 154 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 145 Number of HSP's successfully gapped: 14 Length of query: 235 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 153 Effective length of database: 1,231,600 Effective search space: 188434800 Effective search space used: 188434800 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)