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= 0001.0223.p (214 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309587|ref|YP_003773679.1| GntR family transcription regul... 381 e-107 gi|300312626|ref|YP_003776718.1| GntR family transcription regul... 146 1e-36 gi|300313520|ref|YP_003777612.1| transcription regulator protein... 81 6e-17 gi|300312613|ref|YP_003776705.1| transcription regulator protein... 66 3e-12 gi|300311570|ref|YP_003775662.1| GntR family transcription regul... 64 1e-11 >gi|300309587|ref|YP_003773679.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 381 bits (979), Expect = e-107, Method: Compositional matrix adjust. Identities = 187/209 (89%), Positives = 196/209 (93%) Query: 1 MYQPGFTSQGRLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQTVPPEL 60 MYQPGFTSQGRLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQ PP Sbjct: 34 MYQPGFTSQGRLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQAAPPGQ 93 Query: 61 HKEDATVEEMGNSLSDIMGARAIFEGAIVALVAPLAKPRDVKALRAIYDTMECECQAGRS 120 +E A +EMGNSLSDIMGARAIFEGAIVALVAPLAKPRD+KALRAIYDTME ECQAG+S Sbjct: 94 QEEPAPDKEMGNSLSDIMGARAIFEGAIVALVAPLAKPRDIKALRAIYDTMERECQAGQS 153 Query: 121 PAHADREFHIRIAQMTHNEVLVQTVARLYDERQDPISAKLLDHYEPEDSWFTALHEHREI 180 PA DR+FHIRIA+MT N+VLVQTVARLYDERQDPISAKLLDHYEPEDSW TALHEHREI Sbjct: 154 PAATDRDFHIRIARMTGNDVLVQTVARLYDERQDPISAKLLDHYEPEDSWLTALHEHREI 213 Query: 181 LEAIEARDAIQAQAAMQRHLKLSLKRTMT 209 LEAIEARDAIQAQAAMQRHLK+SLKRTM+ Sbjct: 214 LEAIEARDAIQAQAAMQRHLKMSLKRTMS 242 >gi|300312626|ref|YP_003776718.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 256 Score = 146 bits (369), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 84/201 (41%), Positives = 119/201 (59%), Gaps = 4/201 (1%) Query: 6 FTSQGRLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQTVPPELHKEDA 65 F RLP ER LA QLGVSRPS+REAL+ALE+EG +E+RMGSG+Y+ V E + D Sbjct: 28 FAVGSRLPSERDLALQLGVSRPSLREALIALEVEGHIEVRMGSGIYVCPPVQRE-RRIDL 86 Query: 66 TVEEMGNSLSDIMGARAIFEGAIVALVAPLAKPRDVKALRAIYDTMECECQAGRSPAHAD 125 + EE +++ AR + EG + A + + A+ Y M QAG P AD Sbjct: 87 SSEE---GPLELIRAREMIEGEVAYAAAQHGSKQQIAAVEEAYALMISNAQAGIDPLEAD 143 Query: 126 REFHIRIAQMTHNEVLVQTVARLYDERQDPISAKLLDHYEPEDSWFTALHEHREILEAIE 185 R FHIR+A+ T N VLV V +L+D R P+ +L H++ W A+ EH ++EA+ Sbjct: 144 RLFHIRLAEATGNSVLVGLVTQLFDARLGPLFKRLHSHFDGTRVWQEAIDEHALVMEALR 203 Query: 186 ARDAIQAQAAMQRHLKLSLKR 206 R+ QA+AAM+RH+ ++ R Sbjct: 204 QRNPEQARAAMRRHMDIAFTR 224 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 81.3 bits (199), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 63/208 (30%), Positives = 97/208 (46%), Gaps = 1/208 (0%) Query: 6 FTSQGRLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQTVPPELHKEDA 65 F +LP E LA+Q GVSR +REA+ L+ EG VE R GSGV++T+ + + D Sbjct: 27 FPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHEGVVEPRQGSGVFVTEQAGIKPLRIDY 86 Query: 66 TVEEMGNSLSDIMGARAIFEGAIVALVAPLAKPRDVKALRAIYDTMECECQAGRSPAHAD 125 T ++ I+ R E + A A D++A+ A + + AG AD Sbjct: 87 TEVSSPEAVLQIVELRRAIEAEVAAQAAKRRSAEDLQAIEAALAQIGVDVAAGGDGVAAD 146 Query: 126 REFHIRIAQMTHNEVLVQTVARLYDERQDPISAKLLDHYEPEDSWFTALHEHREILEAIE 185 FH +AQ T N ++T+ L + + + ED EH I+EAI Sbjct: 147 VAFHRALAQATRNPYFIKTLEFLSQYLEAATAVTRGNEARYEDFSRQVREEHEAIVEAIR 206 Query: 186 ARDAIQAQAAMQRHLKLSLKRTMTRKQL 213 A D + A+ A Q H+ + R +++ Q Sbjct: 207 AGDEMAARNAAQTHM-FNAARRLSQGQF 233 >gi|300312613|ref|YP_003776705.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 65.9 bits (159), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/196 (32%), Positives = 99/196 (50%), Gaps = 15/196 (7%) Query: 11 RLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQTVPPELHKEDATVEEM 70 +LPPER LA LGV RP++REA+ L L G + IR G G +++ EL + + ++ Sbjct: 33 QLPPERELAAMLGVGRPAVREAIRGLALLGLLRIRQGEGTFVSSLETRELLEPLEMIIDL 92 Query: 71 G-NSLSDIMGARAIFEGAIVALVAPLAKPRDVKALRAIYDTMECECQAGRSP---AHADR 126 +L + AR I E + AL A + ++ L +E E + P A AD Sbjct: 93 NPGTLESLFDARLIIETGVAALAATHIEDAELDRL---ARNVEDEARLLSDPAAFAAADV 149 Query: 127 EFHIRIAQMTHNEVLVQTVARLY--DERQDPISAKLLDHYEPEDSWFTALHEHREILEAI 184 EFH I + +N L LY ++ I++++ E +L +HR+IL+A+ Sbjct: 150 EFHEAIIEACNNPFLQSIAGSLYMLGKKSRSITSRIPATLE------RSLQDHRQILDAL 203 Query: 185 EARDAIQAQAAMQRHL 200 +ARD +A AM+ HL Sbjct: 204 KARDPQKASEAMRHHL 219 >gi|300311570|ref|YP_003775662.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 258 Score = 63.9 bits (154), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 88/207 (42%), Gaps = 1/207 (0%) Query: 6 FTSQGRLPPERALAEQLGVSRPSIREALVALELEGRVEIRMGSGVYLTQTVPPELHKEDA 65 T +LP E LA VSRP +R+AL L + VE GSG Y+ + + A Sbjct: 49 ITVGSKLPSENDLATLFEVSRPVVRQALDRLREDQLVESLRGSGTYVKEKPGLAPAQPGA 108 Query: 66 TVEEMGNSLSDIMGARAIFEGAIVALVAPLAKPRDVKALRAIYDTMECECQAGRSPAHAD 125 E + + + R + E A+ A +D+ + + + E + G H D Sbjct: 109 EPETRIGHIMNGLELRLVIEPECAAMAALRRNRQDLDRMERLLEGFEAANRVGGIAHHYD 168 Query: 126 REFHIRIAQMTHNEVLVQTVARL-YDERQDPISAKLLDHYEPEDSWFTALHEHREILEAI 184 FH IA T N VQ + L YD + L H P A+ EHR+I E I Sbjct: 169 FGFHEAIATATGNLRFVQVMKTLEYDVSHAVNMLRHLMHIAPWKRSQDAMDEHRQIFELI 228 Query: 185 EARDAIQAQAAMQRHLKLSLKRTMTRK 211 +DA A+ AM+ H++ + R + Sbjct: 229 RVQDAEGARRAMRGHIENARTRMFNSR 255 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 0.319 0.132 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: 645,088 Number of extensions: 25379 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 11 Length of query: 214 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 133 Effective length of database: 1,236,335 Effective search space: 164432555 Effective search space used: 164432555 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: 128 (53.9 bits)