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= 0007.0013.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... 470 e-134 gi|300312613|ref|YP_003776705.1| transcription regulator protein... 109 2e-25 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 101 5e-23 gi|300313520|ref|YP_003777612.1| transcription regulator protein... 83 2e-17 gi|300313340|ref|YP_003777432.1| transcription regulator protein... 82 3e-17 >gi|300310702|ref|YP_003774794.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 235 Score = 470 bits (1210), Expect = e-134, Method: Compositional matrix adjust. Identities = 234/235 (99%), Positives = 234/235 (99%) Query: 1 MPEQIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERS 60 MPEQIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERS Sbjct: 1 MPEQIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERS 60 Query: 61 GFVEIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAA 120 GFVEIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAA Sbjct: 61 GFVEIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAA 120 Query: 121 RATPEQIERLRQTVTAHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASE 180 RATPEQIERLRQTVT HRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASE Sbjct: 121 RATPEQIERLRQTVTVHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASE 180 Query: 181 FYTPMVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQQ 235 FYTPMVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQQ Sbjct: 181 FYTPMVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQQ 235 >gi|300312613|ref|YP_003776705.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 109 bits (272), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 74/231 (32%), Positives = 115/231 (49%), Gaps = 4/231 (1%) Query: 5 IQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERSGFVE 64 I ++ + ++V +RL+ I G QLP ER+L GVGRPAVREA++ + G + Sbjct: 6 IVQKSISEQVAQRLLTMIRSGLLKPDQQLPPERELAAMLGVGRPAVREAIRGLALLGLLR 65 Query: 65 IAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAARATP 124 I GE V L+ + + ++ P L+ L +AR+ +ET A +AA Sbjct: 66 IRQGEGTFVSSLETRELLEPL----EMIIDLNPGTLESLFDARLIIETGVAALAATHIED 121 Query: 125 EQIERLRQTVTAHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASEFYTP 184 +++RL + V + D F D+ FH I + NP SI SL+ + + Sbjct: 122 AELDRLARNVEDEARLLSDPAAFAAADVEFHEAIIEACNNPFLQSIAGSLYMLGKKSRSI 181 Query: 185 MVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQQ 235 R P E +L +H +I+DA+ A D A+EAMR HL+R + YR G+ Sbjct: 182 TSRIPATLERSLQDHRQILDALKARDPQKASEAMRHHLMRVRDAYRSAGRN 232 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 101 bits (251), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 85/242 (35%), Positives = 117/242 (48%), Gaps = 22/242 (9%) Query: 7 RRK---LYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERSGFV 63 RRK L QEV+ L I G G +LP+E ++M+ GV R VREA+ ++ +G V Sbjct: 14 RRKPQSLSQEVVAALTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISRLQAAGLV 73 Query: 64 EIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAARAT 123 E HG V++ I A + T D+L L E R+ LET TA +AAAR T Sbjct: 74 ETRHGIGTFVLEAKKGGNINIDPA----TITTMRDLLA-LLELRISLETETAGLAAARRT 128 Query: 124 PEQIERLRQTVTAHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASEFYT 183 EQ++ +R+ + RA+ G+ + D FH IA+ +GN F I+ L Sbjct: 129 EEQLQEIREALDLFRANQQGGGDTVGPDFRFHFAIANATGNRYFIEIISHLGMG----VI 184 Query: 184 PMVRAPGAE----------ELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLG 233 P R AE + EH I +AIA GD +AA AMR HL + E RR Sbjct: 185 PRKRINTAELAHDQQASYLDRVQREHEDIYEAIARGDAEAARAAMRNHLTNSRERLRRAQ 244 Query: 234 QQ 235 Q+ Sbjct: 245 QE 246 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 82.8 bits (203), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 111/239 (46%), Gaps = 14/239 (5%) Query: 1 MPEQIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERS 60 M ++I + L V +L+ I G FP GS+LP+E L +Q+GV R VREA+ ++ Sbjct: 1 MFQKIPAQALSDTVARQLLENIDAGAFPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHE 60 Query: 61 GFVEIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAA 120 G VE G V + + + + + P+ + + E R +E A AA Sbjct: 61 GVVEPRQGSGVFVTEQAGIKPLR-----IDYTEVSSPEAVLQIVELRRAIEAEVAAQAAK 115 Query: 121 RATPEQIERLRQTVTAHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASE 180 R + E ++ + + + G+ + D+AFHR +A + NP F +E L ++ E Sbjct: 116 RRSAEDLQAIEAALAQIGVDVAAGGDGVAADVAFHRALAQATRNPYFIKTLEFLSQYL-E 174 Query: 181 FYTPMVRAPGAEELTLA-----EHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQ 234 T + R A + EH IV+AI AGD AA A + H+ A RRL Q Sbjct: 175 AATAVTRGNEARYEDFSRQVREEHEAIVEAIRAGDEMAARNAAQTHMFNAA---RRLSQ 230 >gi|300313340|ref|YP_003777432.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 82.4 bits (202), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 63/230 (27%), Positives = 107/230 (46%), Gaps = 9/230 (3%) Query: 4 QIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERSGFV 63 Q+Q+ ++ ++ + ++ I + + G LPSE +L +GV RP VREA A+ G + Sbjct: 11 QLQQVRISDQIADHIVRYIAEHKLEPGQSLPSEGELTRLFGVSRPTVREATNALAGRGLI 70 Query: 64 EIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAARAT 123 ++ G+ V+ P ++ + + AQH L T+ + E R L+ A +AA T Sbjct: 71 AVSSGKSPTVL-PLSKVPFSNL---AQHGLATQQITPIQILEVRHSLDLQAAVLAAEHRT 126 Query: 124 PEQIERLRQTVTAHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVES----LFRWAS 179 P I+RL V A++ ++ F D AFH + + NP+ +I+ LF Sbjct: 127 PADIDRLNAIVAQMPAALGNVEAFSPLDAAFHEAVGQATQNPLLSAIISGISPILFDSTR 186 Query: 180 EFYTPMVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELY 229 ++ R + L H I AI G+ AA + +H V A + Y Sbjct: 187 SVHS-HTRNQQEWDSVLLNHQNIAAAIINGNASAARRLVDIHYVDAYKRY 235 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 0.133 0.373 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: 650,196 Number of extensions: 24918 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 152 Number of HSP's successfully gapped: 15 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)