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= 0001.0938.p (311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310469|ref|YP_003774561.1| LysR family transcription regul... 543 e-156 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 139 3e-34 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 131 7e-32 gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 114 7e-27 gi|300313187|ref|YP_003777279.1| transcription regulator protein... 112 3e-26 >gi|300310469|ref|YP_003774561.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 543 bits (1400), Expect = e-156, Method: Compositional matrix adjust. Identities = 269/314 (85%), Positives = 289/314 (92%), Gaps = 3/314 (0%) Query: 1 MLQLDDMQLLRALGSASSLAAAARLLDLTPPAVTVRLQRIEDRIGVRVANRATRGIALTD 60 MLQLDDMQLLRALGS++SLA AARLLDLTPPAVTVRLQRIEDRIGVR+ANRA RG ALTD Sbjct: 1 MLQLDDMQLLRALGSSASLAGAARLLDLTPPAVTVRLQRIEDRIGVRLANRAARGFALTD 60 Query: 61 EGQRLVQEAMDILERIESITARVSHESDRGGQAS---VSGTLRVVAPFGFGRRYVAPLVR 117 EGQRLVQEA DILERIE+ITA VS ESDRG AS VSG+LRVVAPFGFGRRYVAPLVR Sbjct: 61 EGQRLVQEATDILERIEAITASVSRESDRGEHASLANVSGSLRVVAPFGFGRRYVAPLVR 120 Query: 118 DLHRTHPNLVISLLLAESPLAVATGADAVISIGQVKGSSWIGHFLAPNERFLCASPALAR 177 DLHR HP L ISLLLAESPLA A+GADA+ISIG+VKGSSW+GHFLAPNERFLCASPALAR Sbjct: 121 DLHRNHPRLAISLLLAESPLAAASGADAIISIGRVKGSSWVGHFLAPNERFLCASPALAR 180 Query: 178 RMSRLKHPSELTEYPYLCLRENDDDVSRLRFSPVDSTGRRQGKALTVRLSGALSSNDGTI 237 RM+R +HPSEL +YPYL LRENDDD+SRLRF+PVDS GRR GKALTV+L+GALSSNDGTI Sbjct: 181 RMNRARHPSELADYPYLSLRENDDDLSRLRFTPVDSAGRRTGKALTVKLNGALSSNDGTI 240 Query: 238 TRDWALDGLGFVARSEWDCAHLVAEGSLKRVLPGWHLEPAPIMALLPSRQGLTTRQRVFL 297 TRDWALDG GFVARSEWDCAHL+ +GSLKRVLPGW L+PAPIMALLP RQGLT RQRVFL Sbjct: 241 TRDWALDGEGFVARSEWDCAHLLTDGSLKRVLPGWQLDPAPIMALLPGRQGLTLRQRVFL 300 Query: 298 EAAKRAFQPVPWRR 311 EAAKRAFQP+PWRR Sbjct: 301 EAAKRAFQPIPWRR 314 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 139 bits (350), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 100/314 (31%), Positives = 153/314 (48%), Gaps = 17/314 (5%) Query: 1 MLQLDDMQLLRALGSASSLAAAARLLDLTPPAVTVRLQRIEDRIGVRVANRATRGIALTD 60 M Q + + + SL+AAAR + P + RL +E+R+GV++ R TR I LT+ Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 EGQRLVQEAMDILERIESITARVSHESDRGGQASVSGTLRVVAPFGFGRRYVAPLVRDLH 120 EG +++ IL +E + VS S R SG L + AP GFGR++VAPL+ Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARA-----SGQLLISAPAGFGRQHVAPLLPSFL 115 Query: 121 RTHPNLVISLLLAESPL-AVATGADAVISIGQVKGSSWIGHFLAPNERFLCASPALARRM 179 H ++ ++L L + + G D I I + S+ + LA N R + A+PA RR Sbjct: 116 AEHRDVTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRH 175 Query: 180 SRLKHPSELTEYPYLCLRENDDDVSRLRFSPVDSTGRRQGKALTVRLSGALSSNDGTITR 239 + P EL + CL + + R T R+ GK ++ G + NDG + Sbjct: 176 GTPQSPDELMRHN--CLAMSSEGSQR------GWTLRQSGKVSVYKVGGNMVCNDGEVLH 227 Query: 240 DWALDGLGFVARSEWDCAHLVAEGSLKRVLPGWHLEPAP-IMALLPSRQGLTTRQRVFLE 298 +WAL G G RS W+ + G L VL + PAP I A+ R+ L R R F++ Sbjct: 228 NWALAGRGLAWRSMWEVGAAIEAGELVTVLDKF-AAPAPSIYAVFAQRRHLPLRIRAFVD 286 Query: 299 AAKRAF-QPVPWRR 311 + A+ QP W++ Sbjct: 287 FLRHAYAQPDYWKK 300 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 131 bits (330), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 88/282 (31%), Positives = 139/282 (49%), Gaps = 14/282 (4%) Query: 4 LDDMQLLRALGSASSLAAAARLLDLTPPAVTVRLQRIEDRIGVRVANRATRGIALTDEGQ 63 L+D++L + SS A +AR + +P ++ R+ +E +GVR+ +R TR + +T+EG Sbjct: 7 LEDLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEGG 66 Query: 64 RLVQEAMDILERIESITARVSHESDRGGQASVSGTLRVVAPFGFGRRYVAPLVRDLHRTH 123 + + A IL+ +E + VS + G L++ FG GR+ V+PL+ H Sbjct: 67 NVHEWARRILDDVEQMMETVS-----SAKRVPRGLLKISTSFGLGRKVVSPLLSRFASEH 121 Query: 124 PNLVISLLLAESPL-AVATGADAVISIGQVKGSSWIGHFLAPNERFLCASPALARRMSRL 182 P L I L L + + V G D I +G + P++R LCASPA ++ Sbjct: 122 PELKIQLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLCASPAYLKKHGLP 181 Query: 183 KHPSELTEYPYLCLRENDDDVSRLRFSPVDSTGRRQGKALTVRLSGALSSNDGTITRDWA 242 + L ++ L +RE + R TV++SG L+SN G I WA Sbjct: 182 ADLAALRQHQCLVIRERNQSFGIWRMMGPKGVE-------TVKVSGMLASNHGEIIHQWA 234 Query: 243 LDGLGFVARSEWDCAHLVAEGSLKRVLPGWHLEPAPIMALLP 284 +DG G + RS WD A + G L RVLP ++ E A + A+ P Sbjct: 235 VDGHGIILRSAWDVADSLKRGRLVRVLPQYYQE-ADLCAVYP 275 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 114 bits (286), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 82/300 (27%), Positives = 145/300 (48%), Gaps = 14/300 (4%) Query: 1 MLQLDDMQLLRALGSASSLAAAARLLDLTPPAVTVRLQRIEDRIGVRVANRATRGIALTD 60 M++L+D+ + SL+AAAR D+TP + ++R+E +G R+ R+TR + LT Sbjct: 1 MIRLEDLAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 Query: 61 EGQRLVQEAMDILERIESITARVSHESDRGGQASVSGTLRVVAPFGFGRRYVAPLVRDLH 120 +G+R +Q A ++L + + V+H G+ + G L + AP FGR + + + Sbjct: 61 DGERYLQHARNVLAEVNAGRDAVAH-----GRRVIGGNLSLSAPSDFGRNLIGQWLDEFQ 115 Query: 121 RTHPNLVISLLLAESPLAVA-TGADAVISIGQVKGSSWIGHFLAP-NERFLCASPALARR 178 HP + + + +++ + D I SS + LAP N R LCASP R Sbjct: 116 AQHPAVSLQVHVSDRVADMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRVLCASPDYLAR 175 Query: 179 MSRLKHPSELTEYPYLCLRENDDDVSRLRFSPVDSTGRRQGKALTVRLSGALSSNDGTIT 238 R + P++L ++ L +D S+ F D + + V++SG + +DG + Sbjct: 176 HGRPRSPADLRQHNCLRYVLSDTLHSQWNFFKDD-------EPVQVQVSGDRTCDDGELV 228 Query: 239 RDWALDGLGFVARSEWDCAHLVAEGSLKRVLPGWHLEPAPIMALLPSRQGLTTRQRVFLE 298 R WA++G G +S D + G L+ +L + EP+P+ + R ++ R E Sbjct: 229 RRWAVNGRGIAYKSRLDVLADLRNGRLEALLEDYEGEPSPLHLVCTHRMCVSPTVRALRE 288 >gi|300313187|ref|YP_003777279.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 112 bits (281), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 92/307 (29%), Positives = 147/307 (47%), Gaps = 13/307 (4%) Query: 1 MLQLDDMQLLRALGSASSLAAAARLLDLTPPAVTVRLQRIEDRIGVRVANRATRGIALTD 60 M + ++ A A S +AAAR L LT AV + R+E +GVR+ +R+TR ++LT+ Sbjct: 1 METMTSIECFVAAAHAGSFSAAARQLGLTSAAVGKNVARLESSLGVRLFHRSTRKLSLTE 60 Query: 61 EGQRLVQEAMDILERIESITARVSHESDRGGQASVSGTLRVVAPFGFGRRYVAPLVRDLH 120 G+R +QE L+ I S A + + GGQ +GTL+V GFGR+Y+ PL+ + Sbjct: 61 AGERFLQEVGGGLQAIRSAVANL---ASAGGQP--AGTLKVSMGTGFGRQYIVPLLGEFL 115 Query: 121 RTHPNLVISLLLAESPL-AVATGADAVISIGQVKGSSWIGHFLAPNERFLCASPALARRM 179 +P + P+ ++ G DA I+ G + LAP R L ASPA Sbjct: 116 GRYPGIQPDWHFENRPVDLISEGFDAAIAGGTELSPGVVARELAPAHRVLLASPAYLDAH 175 Query: 180 SRLKHPSELTEYPYLCLRENDDDVSRLR-FSPVDSTGRRQGKALTVRLSGALSSNDGTIT 238 L P++L E+ + +R R+R FS D R G+ V L ++ +D Sbjct: 176 PPLHSPADLAEHAGILIR--SPQTGRVRPFSLRD----RSGQQAPVTLQQRMTMSDANAA 229 Query: 239 RDWALDGLGFVARSEWDCAHLVAEGSLKRVLPGWHLEPAPIMALLPSRQGLTTRQRVFLE 298 + A GLG + + G+L RVLP W+++ + + + L + RVF++ Sbjct: 230 CEVAEAGLGITLVAMPHALPYLEGGTLVRVLPDWYVDTGMLSLYFTAARLLPAKTRVFVD 289 Query: 299 AAKRAFQ 305 F+ Sbjct: 290 FVVEHFR 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 0.321 0.135 0.399 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: 940,768 Number of extensions: 40235 Number of successful extensions: 274 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 221 Number of HSP's successfully gapped: 36 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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)