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= 0001.1183.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... 360 e-101 gi|300312613|ref|YP_003776705.1| transcription regulator protein... 111 4e-26 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 96 4e-21 gi|300313340|ref|YP_003777432.1| transcription regulator protein... 82 4e-17 gi|300313520|ref|YP_003777612.1| transcription regulator protein... 77 9e-16 >gi|300310702|ref|YP_003774794.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 235 Score = 360 bits (923), Expect = e-101, Method: Compositional matrix adjust. Identities = 200/234 (85%), Positives = 217/234 (92%) Query: 1 MPEPIPRRKLYQEVLERLMARIHRGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERS 60 MPE I RRKLYQEVLERLM RIH+GEFP GSQLPSERDLM+QYGVGRPAVREALQAMERS Sbjct: 1 MPEQIQRRKLYQEVLERLMNRIHQGEFPAGSQLPSERDLMEQYGVGRPAVREALQAMERS 60 Query: 61 GFVEIAHGERARVLELTADRLIAQIGAGAQHLLRTKPDMLKHMKQARVFLETSTARMAAE 120 GFVEIAHGERARV++ TA+RLIAQI AGAQHLLRTKPDML+H+K+ARVFLETSTARMAA Sbjct: 61 GFVEIAHGERARVVDPTAERLIAQIAAGAQHLLRTKPDMLQHLKEARVFLETSTARMAAA 120 Query: 121 CATEEQIERLRQTIAAHRASMVNLEEFIERDMAFHREIADISGNPIFPAVVESMFRWASE 180 AT EQIERLRQT+ HRASMV+L EFIERDMAFHREIADISGNPIFP++VES+FRWASE Sbjct: 121 RATPEQIERLRQTVTVHRASMVDLGEFIERDMAFHREIADISGNPIFPSIVESLFRWASE 180 Query: 181 FYTTLVRAPGAEELTLAEHQRIVDAIAAHDGDAAAEAMQAHLMRANQLYRELGQ 234 FYT +VRAPGAEELTLAEH RIVDAIAA DGDAAAEAM+ HL+RAN+LYR LGQ Sbjct: 181 FYTPMVRAPGAEELTLAEHTRIVDAIAAGDGDAAAEAMRVHLVRANELYRRLGQ 234 >gi|300312613|ref|YP_003776705.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 111 bits (278), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 119/232 (51%), Gaps = 4/232 (1%) Query: 3 EPIPRRKLYQEVLERLMARIHRGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERSGF 62 +PI ++ + ++V +RL+ I G P QLP ER+L GVGRPAVREA++ + G Sbjct: 4 DPIVQKSISEQVAQRLLTMIRSGLLKPDQQLPPERELAAMLGVGRPAVREAIRGLALLGL 63 Query: 63 VEIAHGERARVLELTADRLIAQIGAGAQHLLRTKPDMLKHMKQARVFLETSTARMAAECA 122 + I GE V L L+ + + ++ P L+ + AR+ +ET A +AA Sbjct: 64 LRIRQGEGTFVSSLETRELLEPL----EMIIDLNPGTLESLFDARLIIETGVAALAATHI 119 Query: 123 TEEQIERLRQTIAAHRASMVNLEEFIERDMAFHREIADISGNPIFPAVVESMFRWASEFY 182 + +++RL + + + + F D+ FH I + NP ++ S++ + Sbjct: 120 EDAELDRLARNVEDEARLLSDPAAFAAADVEFHEAIIEACNNPFLQSIAGSLYMLGKKSR 179 Query: 183 TTLVRAPGAEELTLAEHQRIVDAIAAHDGDAAAEAMQAHLMRANQLYRELGQ 234 + R P E +L +H++I+DA+ A D A+EAM+ HLMR YR G+ Sbjct: 180 SITSRIPATLERSLQDHRQILDALKARDPQKASEAMRHHLMRVRDAYRSAGR 231 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 95.5 bits (236), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 81/243 (33%), Positives = 118/243 (48%), Gaps = 22/243 (9%) Query: 2 PEPI--PRRK---LYQEVLERLMARIHRGEFPPGSQLPSERDLMDQYGVGRPAVREALQA 56 P P+ PRRK L QEV+ L A I G PG +LP+E ++M GV R VREA+ Sbjct: 7 PNPLLRPRRKPQSLSQEVVAALTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISR 66 Query: 57 MERSGFVEIAHGERARVLELTADRLIAQIGAGAQ---HLLRTKPDMLKHMKQARVFLETS 113 ++ +G VE HG VLE A+ G + T D+L + + R+ LET Sbjct: 67 LQAAGLVETRHGIGTFVLE-------AKKGGNINIDPATITTMRDLLA-LLELRISLETE 118 Query: 114 TARMAAECATEEQIERLRQTIAAHRASMVNLEEFIERDMAFHREIADISGNPIFPAVVE- 172 TA +AA TEEQ++ +R+ + RA+ + + D FH IA+ +GN F ++ Sbjct: 119 TAGLAAARRTEEQLQEIREALDLFRANQQGGGDTVGPDFRFHFAIANATGNRYFIEIISH 178 Query: 173 -SMFRWASEFYTTLVRAPGAEELTLA----EHQRIVDAIAAHDGDAAAEAMQAHLMRANQ 227 M + T A + L EH+ I +AIA D +AA AM+ HL + + Sbjct: 179 LGMGVIPRKRINTAELAHDQQASYLDRVQREHEDIYEAIARGDAEAARAAMRNHLTNSRE 238 Query: 228 LYR 230 R Sbjct: 239 RLR 241 >gi|300313340|ref|YP_003777432.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 82.0 bits (201), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 62/225 (27%), Positives = 101/225 (44%), Gaps = 9/225 (4%) Query: 9 KLYQEVLERLMARIHRGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERSGFVEIAHG 68 ++ ++ + ++ I + PG LPSE +L +GV RP VREA A+ G + ++ G Sbjct: 16 RISDQIADHIVRYIAEHKLEPGQSLPSEGELTRLFGVSRPTVREATNALAGRGLIAVSSG 75 Query: 69 ERARVLELTADRLIAQIGAGAQHLLRTKPDMLKHMKQARVFLETSTARMAAECATEEQIE 128 + VL L+ AQH L T+ + + R L+ A +AAE T I+ Sbjct: 76 KSPTVLPLSK----VPFSNLAQHGLATQQITPIQILEVRHSLDLQAAVLAAEHRTPADID 131 Query: 129 RLRQTIAAHRASMVNLEEFIERDMAFHREIADISGNPIFPAVVES----MFRWASEFYTT 184 RL +A A++ N+E F D AFH + + NP+ A++ +F ++ Sbjct: 132 RLNAIVAQMPAALGNVEAFSPLDAAFHEAVGQATQNPLLSAIISGISPILFDSTRSVHSH 191 Query: 185 LVRAPGAEELTLAEHQRIVDAIAAHDGDAAAEAMQAHLMRANQLY 229 R + L HQ I AI + AA + H + A + Y Sbjct: 192 -TRNQQEWDSVLLNHQNIAAAIINGNASAARRLVDIHYVDAYKRY 235 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 77.4 bits (189), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 106/230 (46%), Gaps = 11/230 (4%) Query: 1 MPEPIPRRKLYQEVLERLMARIHRGEFPPGSQLPSERDLMDQYGVGRPAVREALQAMERS 60 M + IP + L V +L+ I G FP GS+LP+E L Q+GV R VREA+ ++ Sbjct: 1 MFQKIPAQALSDTVARQLLENIDAGAFPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHE 60 Query: 61 GFVEIAHGERARVLELTADRLIAQIGAGAQHLLRTKPDMLKHMKQARVFLETSTARMAAE 120 G VE G V E + + + + P+ + + + R +E A AA+ Sbjct: 61 GVVEPRQGSGVFVTEQAGIKPLR-----IDYTEVSSPEAVLQIVELRRAIEAEVAAQAAK 115 Query: 121 CATEEQIERLRQTIAAHRASMVNLEEFIERDMAFHREIADISGNPIFPAVVESMFRWASE 180 + E ++ + +A + + + D+AFHR +A + NP F +E + ++ E Sbjct: 116 RRSAEDLQAIEAALAQIGVDVAAGGDGVAADVAFHRALAQATRNPYFIKTLEFLSQYL-E 174 Query: 181 FYTTLVRAPGAEELTLA-----EHQRIVDAIAAHDGDAAAEAMQAHLMRA 225 T + R A + EH+ IV+AI A D AA A Q H+ A Sbjct: 175 AATAVTRGNEARYEDFSRQVREEHEAIVEAIRAGDEMAARNAAQTHMFNA 224 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 0.378 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: 669,429 Number of extensions: 25964 Number of successful extensions: 157 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 146 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)