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= 0003.0045.p (317 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 161 7e-41 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 114 1e-26 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 102 3e-23 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 100 1e-22 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 96 5e-21 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 161 bits (407), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 93/304 (30%), Positives = 159/304 (52%), Gaps = 15/304 (4%) Query: 7 NWNDLRIFLEVARGTLSGAAAKLRVXAGTLSGAAAKLRVDHSTISRRIAQLEAVLNAPVF 66 +W++LRIFLE+ R + L AA KL +DHST+SRR+ + E + + +F Sbjct: 3 DWDNLRIFLELTR-------------SQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLF 49 Query: 67 ERDHQGFHITVKGRELLEHVEAMESGALAIGESLSGTSRIPSGPVRIATMEGIASLYLSR 126 +R++ G+ +T G L+E+ E +ES A E L G + SG VR+ EG + L+ Sbjct: 50 DRNNHGYKLTADGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAP 109 Query: 127 QFVSFKERYPLIQIELVTSTQLVHVSQREADVFLSFFPSEGKGLEVEPVGAFPLHLYASE 186 F R P I ++++ + V++S+ EAD+ +S V + + L LYAS Sbjct: 110 HIAHFCARNPHITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASR 169 Query: 187 SYLARHGVPGSVGELRDHQFVSYVDDLIQLNTVRWLEEAIKNPQVVFHSSSMIAQLFSAA 246 YLA+H ++ +L H F+ Y+DDL+ +R+ + + F S+S++AQ +A Sbjct: 170 DYLAQHPPIHTMDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAAC 229 Query: 247 EGGGIVMLPAFSNAERFGLRALLVDQIDVKRTIWMTVHRERCFMPRIKAVQQFIKDI--L 304 G + +LP F + L +L QI + R+ W+ E+ + R+ A+ ++++ L Sbjct: 230 AGRALAILPCFLAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVEL 289 Query: 305 ARDF 308 RDF Sbjct: 290 NRDF 293 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/273 (28%), Positives = 132/273 (48%), Gaps = 12/273 (4%) Query: 31 VXAGTLSGAAAKLRVDHSTISRRIAQLEAVLNAPVFERDHQGFHITVKGRELLEHVEAME 90 V AG+ SGAA L V H+TI RR+ QLE L AP+F R +T G +L AM+ Sbjct: 15 VDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLGESVLAAARAMQ 74 Query: 91 SGALAIGESLSGTSRIPSGPVRIATMEGIASLYLSRQFVSFKERYPLIQIELVTSTQLVH 150 + +L+G G +R+A + + +L+L+ + S +++P + IEL Q + Sbjct: 75 DQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALDIELAMGHQTLS 134 Query: 151 VSQREADVFLSFFPSEGKGLEVEPVGAFPLHLYASESYLA--RHGVPGSVGELRDHQFVS 208 +++READ+ L F + L +G +L + +A RH GS + Sbjct: 135 LARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQ-RGSA------PVIG 187 Query: 209 YVDDLIQLNTVRWLEEAIKNPQVVFHSSSMIAQLFSAAEGGGIVMLPAFSNAERFGLRAL 268 Y D + + RWL V S+S++AQ +A G G+ +LP++ A Sbjct: 188 YDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLPSYLLAPEL---QT 244 Query: 269 LVDQIDVKRTIWMTVHRERCFMPRIKAVQQFIK 301 + + R +W HR+ +PR++AV ++++ Sbjct: 245 VESTPQLVRELWAVFHRDLKALPRLRAVLEWLQ 277 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 131/294 (44%), Gaps = 25/294 (8%) Query: 6 PNWNDLRIFLEVARGTLSGAAAKLRVXAGTLSGAAAKLRVDHSTISRRIAQLEAVLNAPV 65 PNW R FL+V + G+LS A ++ + T+ R I LE+ L + Sbjct: 6 PNWEWYRSFLKV-------------LETGSLSAAGREMGLTQPTVGRHIENLESTLGLKL 52 Query: 66 FERDHQGFHITVKGRELLEHVEAMESGALAIGESLSGTSRIPSGPVRIATMEGIASLYLS 125 F R GF T EL + A+ + + A+ + S + G VR+ E I+ L Sbjct: 53 FVRSFDGFSPTDAALELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLP 112 Query: 126 RQFVSFKERYPLIQIELVTSTQLVHVSQREADVFLSFFPSEGKGLEVEPVGAFPLHLYAS 185 + + R+P +++ELV S + + QREAD+ + F L + +G+ L L+A Sbjct: 113 PILAALRHRHPELRVELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAH 172 Query: 186 ESYLARHGVPGSVGELRDHQFV------SYVDDLIQLNTVRWLEEAIKNPQVVFHSSSMI 239 +SYL HG P SV L DH + +YV ++ L + WL A + + S + Sbjct: 173 QSYLTVHGAPKSVDALADHTLIGFDQESAYVRNV--LKQIPWLSRA----ALALRTDSDL 226 Query: 240 AQLFSAAEGGGIVMLPAFSNAERFGLRALLVDQIDVKRTIWMTVHRERCFMPRI 293 AQL + G GI + A L LL Q +K W+ +H + PR Sbjct: 227 AQLAAIRAGFGIGICQVALAARDVALVRLLPRQFALKMETWVAMHEDLRASPRC 280 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 72/298 (24%), Positives = 140/298 (46%), Gaps = 23/298 (7%) Query: 7 NWNDLRIFLEVARGTLSGAAAKLRVXAGTLSGAAAKLRVDHSTISRRIAQLEAVLNAPVF 66 W+D+R FL ++R G+LS +A L+V+HST++R + LE L +F Sbjct: 24 QWDDVRYFLTLSR-------------EGSLSASARVLKVEHSTVARHVGNLEKTLRVKLF 70 Query: 67 ERDHQGFHITVKGRELLEHVEAMESGALAIGESLSGTSRIPSGPVRIATMEGIASLYLSR 126 +R +G+ +T +G EL + E +E ++ + + + SG VR++ + S +L Sbjct: 71 DRLARGWVLTTEGAELSKQAEQLEVEMHSLWRAALANTTL-SGKVRVSAPPILMSDFLVP 129 Query: 127 QFVSFKERYPLIQIELVTSTQLVHVSQREADVFLSFFPSEGKGLEVEPVGAFPLHLYASE 186 + +F+E+YP I++E++ + V +++ EAD+ L EPV + Sbjct: 130 RLPAFQEKYPDIELEVIGEARGVDLTRGEADIALRMG---------EPVSPLLVARMLCN 180 Query: 187 SYLARHGVPGSVGELRDHQFVSYVDDLIQLNTVRWLEEAIKNPQVVFHSSSMIAQLFSAA 246 + +G+P + + +D WLE + + ++ + A +A Sbjct: 181 VSYSVYGIPAWLERPESERSFIGLDQESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAM 240 Query: 247 EGGGIVMLPAFSNAERFGLRALLVDQIDVKRTIWMTVHRERCFMPRIKAVQQFIKDIL 304 G G+ +LP F AE L A+ + + +++ +H + PRI+A F+ D++ Sbjct: 241 SGIGLALLPRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLIDLI 298 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 95.5 bits (236), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 80/294 (27%), Positives = 131/294 (44%), Gaps = 14/294 (4%) Query: 7 NWNDLRIFLEVARGTLSGAAAKLRVXAGTLSGAAAKLRVDHSTISRRIAQLEAVLNAPVF 66 +W++ RIFL + R GTL GAA L +D +T+ RR+A LE L A +F Sbjct: 2 DWDNARIFLAIYR-------------VGTLRGAAETLELDQATVGRRLAALERSLGARLF 48 Query: 67 ERDHQGFHITVKGRELLEHVEAMESGALAIGESLSGTSRIPSGPVRIATMEGIASLYLSR 126 R G+ T G + ME GA + + G G VR+A + A +L Sbjct: 49 LRTPNGYVPTPAGEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIP 108 Query: 127 QFVSFKERYPLIQIELVTSTQLVHVSQREADVFLSFFPSEGKGLEVEPVGAFPLHLYASE 186 ++ +P I++ L TSTQ+ ++++READ+ + + L + +YAS Sbjct: 109 ALHRLRQEHPHIRVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASR 168 Query: 187 SYLARHGVPGSVGELRDHQFVSYVDDLIQLNTVRWLEEAIKNPQVVFHSSSMIAQLFSAA 246 SY+ + G+P L+ H V Y + + + E+I N QV S+ + Sbjct: 169 SYVKKRGLPEPGTGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQ 228 Query: 247 EGGGIVMLPAFSNAERFGLRALLVDQIDVKRTIWMTVHRERCFMPRIKAVQQFI 300 G G+ LP + GL + Q + +W+ +H + R++AV I Sbjct: 229 AGFGLGELPTHVGDKASGL-VRVWPQRETPYDMWLVLHSDLNRTARVRAVADAI 281 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 0.322 0.136 0.394 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: 949,707 Number of extensions: 38346 Number of successful extensions: 213 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 204 Number of HSP's successfully gapped: 36 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 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: 130 (54.7 bits)