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= 0103.0004.p (195 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311134|ref|YP_003775226.1| transcription regulator protein... 259 1e-70 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 127 5e-31 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 122 2e-29 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 117 7e-28 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 56 2e-09 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 259 bits (662), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 125/167 (74%), Positives = 140/167 (83%) Query: 29 RASALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADRKMLSTLTTTEIGERVVY 88 R +ALDQL RVIYLGGFSKTLSANLRVG+IATS +LAR LADRK+LSTLTT EIGERV Y Sbjct: 334 RIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERVAY 393 Query: 89 KILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLSTGTATSNGMFVWADAGRDTSVLTE 148 K+LSEGHYRKH ER+R RLNG RDKV+RQLER+G+ A GMF+W D GRDT+V+TE Sbjct: 394 KVLSEGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFLWVDTGRDTNVMTE 453 Query: 149 KAMAQGFLLAPGSLFSPNQLPSTKMRINVASMTDPAIWRFLDEELGR 195 AM +GFLLAPGSLFSP QLPST MRINVASM DP IWRFL + + R Sbjct: 454 AAMQEGFLLAPGSLFSPAQLPSTYMRINVASMADPGIWRFLAQAMER 500 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 127 bits (319), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 68/169 (40%), Positives = 100/169 (59%), Gaps = 5/169 (2%) Query: 22 APAARRPRA---SALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADRKMLSTLT 78 APA R P A ++LDQL V+Y+G FSKTL A +R GFIA +P L K++S + Sbjct: 310 APAHRSPHATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRAS 369 Query: 79 TTEIGERVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLSTGTATSNGMFVWAD 138 + ER +Y++LSEG YR+H E+LR RL+ R +++ LE +G+ G+++W Sbjct: 370 NGSLAERAIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWGK 429 Query: 139 AGRDTSVL--TEKAMAQGFLLAPGSLFSPNQLPSTKMRINVASMTDPAI 185 D + + E+ +A G+L APG +FS Q + MR NVAS D A+ Sbjct: 430 LPGDLNAMEVAERMLANGYLTAPGPVFSSGQAARSYMRFNVASSDDEAL 478 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 122 bits (305), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 68/168 (40%), Positives = 98/168 (58%), Gaps = 3/168 (1%) Query: 25 ARRPRASALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADRKMLSTLTTTEIGE 84 A P +ALD L RVIY+G +SKT++ +LRVG+IA +LAR + KM+ TLT +EI E Sbjct: 302 ATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINE 361 Query: 85 RVVYKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLSTGTATSNGMFVWAD-AGRDT 143 R+V+ +L+EGH+R+H + L L + + +L VGL+ TA GMF WA G + Sbjct: 362 RLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCEL 421 Query: 144 SV--LTEKAMAQGFLLAPGSLFSPNQLPSTKMRINVASMTDPAIWRFL 189 S + ++A +G LAPG F + T R NV P ++ FL Sbjct: 422 SAREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYADVPELFDFL 469 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 117 bits (293), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 69/166 (41%), Positives = 95/166 (57%), Gaps = 6/166 (3%) Query: 28 PRASALDQLHRVIYLGGFSKTLSANLRVGFIATSPDLARHLADRKMLSTLTTTEIGERVV 87 PR + LDQL R +Y+G FSK++SA LRVGFIA DLA LAD KML ++++E ER + Sbjct: 292 PRIATLDQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERTL 351 Query: 88 YKILSEGHYRKHTERLRNRLNGVRDKVVRQLERVGLSTGTATSNGMFVWADAG--RDTSV 145 ILS+GH+ +HT RLR RL ++ QLE +G A M++WA D Sbjct: 352 DVILSDGHFSRHTARLRERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFEDAKR 411 Query: 146 LTEKAMAQGFLLAPGSLFSPNQLPSTKM-RINVASMTDPAIWRFLD 190 L ++ M + +LAPGS+F + + R NV + D RF D Sbjct: 412 LAQRLMQRQIVLAPGSIFHVDTEQTQPWSRFNVGLLADA---RFAD 454 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 56.2 bits (134), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 40/165 (24%), Positives = 73/165 (44%), Gaps = 12/165 (7%) Query: 39 VIYLGGFSKTLSANLRVGFIATSPDLARHLADRKMLSTLTTTEIGERVVYKILSEGHYRK 98 VIY+G FSK L+ +R+G++ L + K + L T ++ + VVY+ + +G + Sbjct: 232 VIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVYEAIKDGFLDQ 291 Query: 99 HTERLRNRLNGVRDKVVRQLERV--GLSTGTATSNGMFVWA------DAGRDTSVLTEKA 150 H +R ++ L++ + + GMF+W DAG ++L E Sbjct: 292 HVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPEHIDAG---ALLNEAV 348 Query: 151 MAQGFLLAPGSLFSPNQLPSTKMRINVASMTDPAIWRFLDEELGR 195 + PG+ F N +R++ ++ P R E LG+ Sbjct: 349 EQEKVAFVPGAPFYANVAQKNTLRLSFVTVP-PEQIRAGVERLGK 392 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 0.131 0.374 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: 517,138 Number of extensions: 18225 Number of successful extensions: 61 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 58 Number of HSP's successfully gapped: 6 Length of query: 195 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 115 Effective length of database: 1,241,070 Effective search space: 142723050 Effective search space used: 142723050 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)