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= 0029.0058.p (286 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311935|ref|YP_003776027.1| LysR family transcription regul... 545 e-156 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 97 2e-21 gi|300312397|ref|YP_003776489.1| cys regulon transcription regul... 80 2e-16 gi|300310987|ref|YP_003775079.1| cys regulon transcription regul... 80 2e-16 gi|300313602|ref|YP_003777694.1| LysR family transcription regul... 76 3e-15 >gi|300311935|ref|YP_003776027.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 286 Score = 545 bits (1404), Expect = e-156, Method: Compositional matrix adjust. Identities = 266/286 (93%), Positives = 280/286 (97%) Query: 1 MTPSQLRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSET 60 MTPSQLRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSET Sbjct: 1 MTPSQLRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSET 60 Query: 61 AQRLLPIAQNIAELELDALNLLVNSGALHVGHLRIGAVGPFHVIEMVDAYRARYPKVELS 120 AQRLLPIAQNIAELELDALNLLVNSGALHVGHLRIGAVGPFHVIEMVDAYRARYP+VELS Sbjct: 61 AQRLLPIAQNIAELELDALNLLVNSGALHVGHLRIGAVGPFHVIEMVDAYRARYPRVELS 120 Query: 121 IKLGNSAQSLADLANYVTDVAVLASFNDDARFHSVPYADHAVVLFAHRSHPFYQREAVSL 180 I+LGNSAQ+LADL NYVTDVAVLASF DDARFH++PYADHAVVLFAHRSHPFYQR++V+L Sbjct: 121 IRLGNSAQTLADLENYVTDVAVLASFTDDARFHALPYADHAVVLFAHRSHPFYQRDSVTL 180 Query: 181 AELDQQPLIMREQGSTTRLALEQALQQAGAQPQVVMEIGSREALREAVARGLGLGAVSEA 240 AELDQQP++MREQGSTTRLALE+ALQQAG + QVVMEIGSREALREAVARGLGLGAVSEA Sbjct: 181 AELDQQPMLMREQGSTTRLALEKALQQAGVKVQVVMEIGSREALREAVARGLGLGAVSEA 240 Query: 241 EFIPDERFRMVRIAGDPVSTHTYVYCLAERREGRLVGSFMKIAQRA 286 EF+PDERFRMVRI GDPVSTHTYVYCLAERREGRLVGSFMKIA R+ Sbjct: 241 EFVPDERFRMVRIEGDPVSTHTYVYCLAERREGRLVGSFMKIAARS 286 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/249 (34%), Positives = 123/249 (49%), Gaps = 21/249 (8%) Query: 6 LRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSETAQRLL 65 LR FLAVA R F+ AA +G+ QP L+ Q+++LE E LF R + V+LSE + LL Sbjct: 6 LRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEVGRVLL 65 Query: 66 PIAQNIAELELDALNLLVNSGALHVGHLRIG--AVGPFH--VIEMVDAYRARYPKVELSI 121 P AQ + AL + + G LR+G + FH V + +R R+ K+E+S+ Sbjct: 66 PHAQRAVDQAEQALRAARQAASGETGLLRMGFTSSAVFHPLVSHALQQFRERHRKLEISL 125 Query: 122 KLGNSAQSLADLANYVTDVAVLASFNDDARFHSVPYADHAVV--------LFAHRSHPFY 173 G + Q LAD+A D A + R + P A VV + RSHP Sbjct: 126 SEGITEQLLADIAASQLDAAFV-------RIVTTPSAALGVVELPAEKLKVALPRSHPLA 178 Query: 174 QREAVSLAELDQQPLIM--REQGSTTRLALEQALQQAGAQPQVVMEIGSREALREAVARG 231 +R+++ L +L + IM R +GS ++ A Q AG PQV+ + VA G Sbjct: 179 RRKSLRLQDLASENFIMVPRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVASG 238 Query: 232 LGLGAVSEA 240 LG+ V EA Sbjct: 239 LGISIVPEA 247 >gi|300312397|ref|YP_003776489.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 79.7 bits (195), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 113/238 (47%), Gaps = 7/238 (2%) Query: 11 AVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRV-DLSETAQRLLPIAQ 69 AV ++ + AA+AL SQP ++ + LE E V++F R G+R+ L+E + +L + Sbjct: 12 AVRQNFNLTEAAKALYTSQPGVSKAIIELEEELGVDIFTRHGKRIRGLTEPGRAVLRSVE 71 Query: 70 NIAELELDALNLLVNSGALH-VGHLRIGAV---GPFHVIEMVDAYRARYPKVELSIKLGN 125 I + E+D L + A H G I + + ++V A+ +YPKV LS+ GN Sbjct: 72 LIMQ-EVDGLKRIGKEFAAHDSGSFTIATTHTQARYALPKVVQAFTQKYPKVHLSLLQGN 130 Query: 126 SAQSLADLANYVTDVAVLA-SFNDDARFHSVPYADHAVVLFAHRSHPFYQREAVSLAELD 184 Q + N D+A+ + S+P V+ HP Q ++++L E+ Sbjct: 131 PKQITEMVRNDQADIAIATEALASGEGLVSLPCYQWEHVVVVPPDHPLLQSKSLTLEEIA 190 Query: 185 QQPLIMREQGSTTRLALEQALQQAGAQPQVVMEIGSREALREAVARGLGLGAVSEAEF 242 PLI + + R ++ A +P VV+E + ++ V G+G+G ++ F Sbjct: 191 ANPLITYDSAFSGRSKIDHAFSLRQLKPDVVLEAIDADVIKTYVELGMGVGIIAGIAF 248 >gi|300310987|ref|YP_003775079.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 79.7 bits (195), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 125/255 (49%), Gaps = 28/255 (10%) Query: 1 MTPSQLRAFLAVARHRGF--SAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVD-L 57 M QLR+ AR GF + A L SQP ++ Q++ LE E VE+F R G+R+ L Sbjct: 1 MNFQQLRSIREAARC-GFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGL 59 Query: 58 SETAQRLLPIAQNIAELELDALNLL--------VNSGALHVG--HLRIGAVGPFHVIEMV 107 +E + +L I + L L+A NL SG L + H + V P +V Sbjct: 60 TEPGKGILGI---VERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLP----RVV 112 Query: 108 DAYRARYPKVELSIKLGNSAQSLADLANYVTDVAV----LASFNDDARFHSVPYADHAVV 163 A+R +P+V ++++ + + D+ + L+ F + F ++ H +V Sbjct: 113 QAFRDAFPQVRIALQQSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWS-HVIV 171 Query: 164 LFAHRSHPFYQREAVSLAELDQQPLIMREQGSTTRLALEQALQQAGAQPQVVMEIGSREA 223 + + HP E VSL +L PLI + G T R +++A +QAG +P +V+ + Sbjct: 172 V--PKGHPLLGLEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDV 229 Query: 224 LREAVARGLGLGAVS 238 +++ V+ G+G+G V+ Sbjct: 230 IQQYVSLGMGVGLVA 244 >gi|300313602|ref|YP_003777694.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 121/248 (48%), Gaps = 14/248 (5%) Query: 1 MTPSQLRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSET 60 +T QL+ FLAVA+ +AAA + +SQ + + LE V+LF R G+R+ L+++ Sbjct: 3 ITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLNDS 62 Query: 61 AQRLLPIAQNIAELELDALNLLVN--SGALHVGHLRIGA---VGPFHVIEMVDAYRARYP 115 ++LLP A+++ LDA + S L IGA +G + + M+ AYR + Sbjct: 63 GRQLLPQARHM----LDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHA 118 Query: 116 KVELSIKLGNSAQSLADLANYVTDVAVL--ASFNDDARFHSVPYADHAVVLFAHRSHPFY 173 + + N+A + + N+ D ++ DD P+ +++ A HP Sbjct: 119 GARVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVE--PWMMDELIVVAAPRHPLV 176 Query: 174 QR-EAVSLAELDQQPLIMREQGSTTRLALEQALQQAGAQPQVVMEIGSREALREAVARGL 232 + ++L L + ++RE GS TR A+E AL E G+ EA++ A A GL Sbjct: 177 KSGRKITLKRLREAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGL 236 Query: 233 GLGAVSEA 240 G+ +S A Sbjct: 237 GISCLSRA 244 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 0.134 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: 787,940 Number of extensions: 29335 Number of successful extensions: 245 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 240 Number of HSP's successfully gapped: 35 Length of query: 286 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 202 Effective length of database: 1,222,130 Effective search space: 246870260 Effective search space used: 246870260 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)