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= 0001.1456.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... 575 e-165 gi|300309907|ref|YP_003773999.1| transcription regulator protein... 92 5e-20 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 75 5e-15 gi|300310792|ref|YP_003774884.1| LysR family transcription regul... 67 2e-12 gi|300310987|ref|YP_003775079.1| cys regulon transcription regul... 61 9e-11 >gi|300310891|ref|YP_003774983.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 575 bits (1482), Expect = e-165, Method: Compositional matrix adjust. Identities = 297/312 (95%), Positives = 304/312 (97%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGELESELGYALFDRNGPRVTPTAK 60 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIG+LESELGYALFDRNGPRVTPTAK Sbjct: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK 60 Query: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLACEKDRA 120 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLA + A Sbjct: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA 120 Query: 121 FPEHIHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLELHWIGEAPCVAVVRADHPLAG 180 FPEH+HLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGL+LHWIGEAPCVAVVRADHPLA Sbjct: 121 FPEHVHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLDLHWIGEAPCVAVVRADHPLAS 180 Query: 181 RDKLTRAALRGQRVITMSNRYRLRQRVETALGEDSRLDVAIDTNTSFNAIMAARAGLGVA 240 +DKLTRAALRGQRVITMSNRYRLRQRVE ALGEDS+LDVAIDTNTSFNAIMAARAGLGVA Sbjct: 181 KDKLTRAALRGQRVITMSNRYRLRQRVELALGEDSQLDVAIDTNTSFNAIMAARAGLGVA 240 Query: 241 LVEPATAYGMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTQRLIDAVETAARHTLQGF 300 LVEPATAYGMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVT+RLIDAVE AAR TLQGF 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 = 92.0 bits (227), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 87/302 (28%), Positives = 143/302 (47%), Gaps = 21/302 (6%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGELESELGYALFDRNGPRVTPTAK 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 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLACEKDRA 120 A L +E++ L IR +A P+ + ATPA+A +AP A+ L C+ A Sbjct: 61 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALW-CQ---A 116 Query: 121 FPEHIHLRSAS-AEQVVHAVLHRTVSLGLTSLPVAHRGL--------ELHWIGEAPCVAV 171 P+ L SAS ++++++L V + LT P++H L +++ I A Sbjct: 117 HPDSECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPAQWWPQ 176 Query: 172 VRADHPLAGRDKLTRAALRGQRVITMSNRYRLRQRVETAL-GEDSRLDVAIDTNTSFNAI 230 R D P +T + GQ I++ R L V L G DV + T A Sbjct: 177 ERLDTP------ITPDEIAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLAR 230 Query: 231 MAARAGLGVALVEPATAY-GMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTQRLIDAV 289 A +G+A+V+ TA G + + ++R+ + +T +P L++A+ Sbjct: 231 SLVEARIGIAVVDHFTAKAGHADKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAI 290 Query: 290 ET 291 + Sbjct: 291 RS 292 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 75.5 bits (184), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 107/254 (42%), Gaps = 9/254 (3%) Query: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGELESELGYALFDRNGPRVTPTAK 60 M+L L+ F AV + S + A L +QP +S+ I +LE LG L DR + T Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLACEKDRA 120 YE+ + L L I E IAR H ++ P+ + P ++ E Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTE---- 116 Query: 121 FPE-HIHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLELHWIGEAPCVAVVRADHPLA 179 PE I + V A+ + +G LP++ + I E P VAV HPL Sbjct: 117 MPEIEIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLL 176 Query: 180 GRDKLTRAALRGQRVITMSNRYR---LRQRVETALGEDSRLDVAIDTNTSFNAIMAARAG 236 R+K+T A L QR I R R Q ++ R + + 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 = 67.0 bits (162), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 79/297 (26%), Positives = 135/297 (45%), Gaps = 17/297 (5%) Query: 5 QLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGELESELGYALFDRNGPRV--TPTAKAF 62 +L+AF AV S A L +QPA+S+ I LE L LFDR RV TP + F Sbjct: 9 ELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSLTPAGELF 68 Query: 63 LLYEE--VERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLACEKDRA 120 L++ + +E + ++S+ +R +A+ H V + P++A+ + P L+ A Sbjct: 69 LVHAQAVMEELELAVKSVEQR---MAQRREH-VTVACVPSVANNLLPQVLKRYARSHANV 124 Query: 121 FPEHIHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGLELHWIGEAPCVAVVRADHPLAG 180 + + SA V+ +V G+ + ++ + +AV+ HPLA Sbjct: 125 ---RVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLAA 181 Query: 181 RDKLTRAALRGQRVITMSNRYRLRQRVETALGE-DSRLDVAIDTNTSFNAIMAARAGLGV 239 L +L G++++++S+ R ++ A R + +TN AI AGLGV Sbjct: 182 HASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAAGLGV 241 Query: 240 ALVEPATAYGMPIEGMVVKRLAVEI-PFYFGVVTPYG---KPVEG-VTQRLIDAVET 291 AL+ P +G+V + + + G++T G KP + Q L DA+ T Sbjct: 242 ALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAIST 298 >gi|300310987|ref|YP_003775079.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 61.2 bits (147), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 70/252 (27%), Positives = 111/252 (44%), Gaps = 19/252 (7%) Query: 1 MDLNQLEAFAAVMTLG-SVTGAGRSLGRSQPAVSKAIGELESELGYALFDRNGPRVTP-T 58 M+ QL + G ++T L SQP VS+ I ELE ELG +F+RNG R+T T Sbjct: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 Query: 59 AKAFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLACEKD 118 + VER L+ ++R + E A E+ + + T A + P +Q +D Sbjct: 61 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAF---RD 117 Query: 119 RAFPE-HIHLRSASAEQVVHAVLHRTVSLGLTSLPVAHRGL-ELHWIGEAPC-----VAV 171 AFP+ I L+ ++ E + V+ +G +A GL + + PC V V Sbjct: 118 -AFPQVRIALQQSAPEHIAEWVISGKADIG-----IATEGLSQFKELVSFPCYTWSHVIV 171 Query: 172 VRADHPLAGRDKLTRAALRGQRVITMSNRYRLRQRVETALGEDS-RLDVAIDTNTSFNAI 230 V HPL G ++++ L +IT + R ++ A + D+ + S Sbjct: 172 VPKGHPLLGLEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQ 231 Query: 231 MAARAGLGVALV 242 G+GV LV Sbjct: 232 QYVSLGMGVGLV 243 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 0.380 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: 945,902 Number of extensions: 38741 Number of successful extensions: 257 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 263 Number of HSP's successfully gapped: 20 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)