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= 0029.0104.p (312 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310891|ref|YP_003774983.1| transcription regulator protein... 624 e-180 gi|300309907|ref|YP_003773999.1| transcription regulator protein... 93 3e-20 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 71 1e-13 gi|300310792|ref|YP_003774884.1| LysR family transcription regul... 70 3e-13 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 59 4e-10 >gi|300310891|ref|YP_003774983.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 624 bits (1609), Expect = e-180, Method: Compositional matrix adjust. Identities = 312/312 (100%), Positives = 312/312 (100%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK 60 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK Sbjct: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK 60 Query: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA 120 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA Sbjct: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA 120 Query: 121 FPEHVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADHPLAS 180 FPEHVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADHPLAS Sbjct: 121 FPEHVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADHPLAS 180 Query: 181 KDKLTRAALRGQRVITMSNRYRLRQRVELALGEDSQLDVAIDTNTSFNAIMAARAGLGVA 240 KDKLTRAALRGQRVITMSNRYRLRQRVELALGEDSQLDVAIDTNTSFNAIMAARAGLGVA Sbjct: 181 KDKLTRAALRGQRVITMSNRYRLRQRVELALGEDSQLDVAIDTNTSFNAIMAARAGLGVA 240 Query: 241 LVEPATAYGMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTERLIDAVEQAARTTLQGF 300 LVEPATAYGMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTERLIDAVEQAARTTLQGF Sbjct: 241 LVEPATAYGMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTERLIDAVEQAARTTLQGF 300 Query: 301 VKRDASLHDELL 312 VKRDASLHDELL Sbjct: 301 VKRDASLHDELL 312 >gi|300309907|ref|YP_003773999.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 93.2 bits (230), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 86/300 (28%), Positives = 140/300 (46%), Gaps = 21/300 (7%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK 60 M L +E F+A+M GS GA R L +QPA+SK + E +G+ALF R+G ++ PT + Sbjct: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE 60 Query: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA 120 A L +E++ L IR +A P+ + ATPA+A +AP A+ L A Sbjct: 61 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWC----QA 116 Query: 121 FPEHVHLRSAS-AEQVVHAVLHRTVSLGLTSLPVAHRGL--------DLHWIGEAPCVAV 171 P+ L SAS ++++++L V + LT P++H L D++ I A Sbjct: 117 HPDSECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPAQWWPQ 176 Query: 172 VRADHPLASKDKLTRAALRGQRVITMSNRYRLRQRVELAL-GEDSQLDVAIDTNTSFNAI 230 R D P+ + + GQ I++ R L V L G DV + T A Sbjct: 177 ERLDTPITPDE------IAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLAR 230 Query: 231 MAARAGLGVALVEPATAY-GMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTERLIDAV 289 A +G+A+V+ TA G + + ++R+ + +T +P L++A+ Sbjct: 231 SLVEARIGIAVVDHFTAKAGHADKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAI 290 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 70.9 bits (172), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/254 (27%), Positives = 108/254 (42%), Gaps = 9/254 (3%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK 60 M+L L+ F AV + S + A L +QP +S+ I LE LG L DR + T Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA 120 YE+ + L L I E IAR H ++ P+ + P ++ + Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTE---- 116 Query: 121 FPE-HVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADHPLA 179 PE + + V A+ + +G LP++ + I E P VAV HPL Sbjct: 117 MPEIEIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLL 176 Query: 180 SKDKLTRAALRGQRVITMSNRYR---LRQRVELALGEDSQLDVAIDTNTSFNAIMAARAG 236 +++K+T A L QR I R R Q +++ + + + N AI AG Sbjct: 177 ARNKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAG 236 Query: 237 LGVALVEPATAYGM 250 +GV LV P + G+ Sbjct: 237 VGVTLV-PRSVQGL 249 >gi|300310792|ref|YP_003774884.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 69.7 bits (169), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 79/301 (26%), Positives = 139/301 (46%), Gaps = 13/301 (4%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRV--TPT 58 ++ +L+AF AV S A L +QPA+S+ I +LE L LFDR RV TP Sbjct: 5 IETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSLTPA 64 Query: 59 AKAFLLYEE--VERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAAD 116 + FL++ + +E + ++S+ +R +A+ H V + P++A+ + P L+ A Sbjct: 65 GELFLVHAQAVMEELELAVKSVEQR---MAQRREH-VTVACVPSVANNLLPQVLKRYARS 120 Query: 117 GQHAFPEHVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADH 176 + V + SA V+ +V G+ + +D + +AV+ H Sbjct: 121 HANV---RVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHH 177 Query: 177 PLASKDKLTRAALRGQRVITMSNRYRLRQRVELALGEDSQLDV-AIDTNTSFNAIMAARA 235 PLA+ L +L G++++++S+ R ++ A Q V +TN AI A Sbjct: 178 PLAAHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAA 237 Query: 236 GLGVALVEPATAYGMPIEGMVVKRLAVEI-PFYFGVVTPYGKPVEGVTERLIDAVEQAAR 294 GLGVAL+ P +G+V + + + G++T G+ ++ L A+ A Sbjct: 238 GLGVALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAIS 297 Query: 295 T 295 T Sbjct: 298 T 298 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 59.3 bits (142), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 76/293 (25%), Positives = 128/293 (43%), Gaps = 10/293 (3%) Query: 6 LEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAKAFLLY 65 L+AF A+ A + SQ A S I +E+ G LF+R+ VT T + L + Sbjct: 10 LQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTPEGEL-F 68 Query: 66 EEVERSLVG--LRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHAFPE 123 +V R LV + + + +AR + V + A P+LA+ P L AD + +P Sbjct: 69 VQVARQLVSDIEAAFSDMSDYVARRKGR-VAIAALPSLAAGWLPPVL----ADYRQRYPG 123 Query: 124 -HVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADHPLASKD 182 V L A ++Q + + H V + LT+ D + P V R DH LASK Sbjct: 124 VTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFYLVCRKDHKLASKR 183 Query: 183 KLTRAALRGQRVITMSNRYRLRQRVELALGEDSQLDVAIDTNTSFNAIMAARAGLGVALV 242 ++ L G +I ++ +RQ ++ L + ++ +GLGV++V Sbjct: 184 RIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIESGLGVSVV 243 Query: 243 EPATAYGMPIEGMVVKRL-AVEIPFYFGVVTPYGKPVEGVTERLIDAVEQAAR 294 T + + +V L A E+ +VTP + + + L++ VE A+ Sbjct: 244 PELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGLLELVEGKAK 296 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 0.320 0.134 0.376 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: 945,293 Number of extensions: 38632 Number of successful extensions: 257 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 266 Number of HSP's successfully gapped: 19 Length of query: 312 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 227 Effective length of database: 1,217,395 Effective search space: 276348665 Effective search space used: 276348665 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: 130 (54.7 bits)