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= 0001.4324.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310617|ref|YP_003774709.1| LysR family transcription regul... 201 9e-53 gi|300311571|ref|YP_003775663.1| LysR family transcription regul... 100 1e-22 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 69 4e-13 gi|300312482|ref|YP_003776574.1| LysR family transcription regul... 69 4e-13 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 69 6e-13 >gi|300310617|ref|YP_003774709.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 201 bits (510), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 111/289 (38%), Positives = 168/289 (58%), Gaps = 1/289 (0%) Query: 9 ARWLLFAKVAELGSLTQAANAVNGPQSVISRQIGQLEKQCGAKLFRRTGRGVVLTEFGEI 68 A W LF + ELGSL++ A Q ISRQI +LE+Q G +LF+R GRGV+ TE G Sbjct: 4 AAWKLFVEALELGSLSKVALLHGTTQPHISRQIAELEQQYGGRLFQRNGRGVIPTELGMR 63 Query: 69 VYSRIRPLMEVADRLADDILTSNNIPIGEVHVGLLPTTVPMFAGRLFKAVQEQFPRVRLH 128 V R+R + ++L +DI ++ PIG V +G+LP+ L++ +Q+++P+++L Sbjct: 64 VAPRVRAWLATTEQLTNDIQSAAGTPIGRVRMGILPSAAHPLVSTLYQQIQQRYPQIQLS 123 Query: 129 LVEGSSAQLEEWLDCGRLDMALLLREGMVDSKDEPCLLTTALDLIGWRDAPLLTSGRICF 188 + EG AQL+ WLD G +D+ALL R G + + T L+G D PL+ + F Sbjct: 124 VREGQGAQLDTWLDNGYVDLALLFRHGANAKNGDLYITKTDTYLVGAPDDPLVQGPTVPF 183 Query: 189 DSLQDVSLILPAEPHVLRRRLDILARERGVRLNVSVEADTIQLQREIAAAGIGYAIVAAV 248 SL + L+ P+ R RLD L+ E G+ LNV +EAD++ +Q + G YA++ Sbjct: 184 ASLDRLPLVSFCRPNSWRDRLDHLSIEHGITLNVQIEADSLSIQEHLVENGGVYALLGPY 243 Query: 249 SGADD-QDDRLGKARIVEPELMRSIVLGTTRHRPYTLATRSLHQLIRAL 296 + A + +RL ARI+ PE+ R I L +RH TLA R++ QLI+ L Sbjct: 244 AIASAVRKNRLKAARIIAPEITRHIALAMSRHGELTLACRTVMQLIKEL 292 >gi|300311571|ref|YP_003775663.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 74/283 (26%), Positives = 139/283 (49%), Gaps = 3/283 (1%) Query: 14 FAKVAELGSLTQAANAVNGPQSVISRQIGQLEKQCGAKLFRRTGRGVVLTEFGEIVYSRI 73 F + + GSL++AA A++ Q +++QI QLE + A+L R+ +GV+ T+ G++ Y Sbjct: 9 FVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDAGKVFYEHA 68 Query: 74 RPLMEVADRLADDILTSNNIPIGEVHVGLLPTTVPMFAGRLFKAVQEQFPRVRLHLVEGS 133 +++ + S + P G V +G+ + A L AV+ +P + L L E Sbjct: 69 LAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEITLQLTEEL 128 Query: 134 SAQLEEWLDCGRLDMALLLREGMVDSKDEPCLLTTALDLIGWRDAPLLTSGRICFDSLQD 193 + L L GR+++A+L +G + S ++ + I + +GR + Sbjct: 129 TGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVAGRKSVPLARA 188 Query: 194 VS--LILPAEPHVLRRRLDILARERGVRLNVSVEADTIQLQREIAAAGIGYAIV-AAVSG 250 + LILP H +R R++ L R +G+ L+ +E +++ + + A IG I+ A Sbjct: 189 IQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIGATILPVAPLL 248 Query: 251 ADDQDDRLGKARIVEPELMRSIVLGTTRHRPYTLATRSLHQLI 293 AD + + RI + R++ L +R+ P T A ++ QL+ Sbjct: 249 ADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLV 291 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 69.3 bits (168), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 63/270 (23%), Positives = 123/270 (45%), Gaps = 14/270 (5%) Query: 14 FAKVAELGSLTQAANAVNGPQSVISRQIGQLEKQCGAKLFRRTGRGVVLTEFGEIVYSRI 73 F + S ++AA+A++ QS +S+ + QLE++ A L R GR + LT+ G +VY + Sbjct: 9 FTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDTGRVVYEQG 68 Query: 74 RPLMEVADRLADDILTSNNIPIGEVHVGLLPTTVPMFAGRLFKAVQEQFPRVRLHLVEGS 133 + ++ RL ++ + + G + +G +P + + + KA +E+ P + + L E + Sbjct: 69 QQILAAMQRLHAEVRDTKALRSGRLEIG-IPPMINILCTPVLKAFRERHPDIAVVLQEDT 127 Query: 134 SAQLEEWLDCGRLDMALLLREGMVDSKDEPCLLTTALDLIGWRDAPLLTSGRICFD---- 189 Q+E+ + G L++ GM +P L L + + + +G + Sbjct: 128 GPQIEQRVANGELEI------GMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRASL 181 Query: 190 ---SLQDVSLILPAEPHVLRRRLDILARERGVRLNVSVEADTIQLQREIAAAGIGYAIVA 246 L + L+L L R L + RE G++ + ++ +A AG+G A++ Sbjct: 182 RCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALLP 241 Query: 247 AVSGADDQDDRLGKARIVEPELMRSIVLGT 276 +L R+VEPE+ + T Sbjct: 242 EPFIHRLATQQLQAVRLVEPEVQWKVAYVT 271 >gi|300312482|ref|YP_003776574.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 69.3 bits (168), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 98/229 (42%), Gaps = 12/229 (5%) Query: 8 DARWLLFAKVAELGSLTQAANAVNGPQSVISRQIGQLEKQCGAKLFRRTGRGVVLTEFGE 67 D F +V GS+++A+ +N S ISRQI LE+ LF R RG+VL+ GE Sbjct: 8 DTALRYFLEVVRCGSISEASQRLNVASSAISRQISSLEQILDTVLFERRPRGMVLSAGGE 67 Query: 68 IVYSRIRPLMEVADRLADDILTSNNIPIGEVHVGLLPTTVPMFAGRLFKAVQEQFPRVRL 127 ++ + R + ADR+ D+ + G V + F RL A Q+++P Sbjct: 68 MLAAHARKMALEADRVVADLQALKGLRSGRVRLSASEGFAIDFLPRLINAFQKKYPGFVF 127 Query: 128 HLVEGSSAQLEEWLDCGRLDMALLLRE------GMVDSKDEPCLLTTALDLIGWRDAPLL 181 L G+ A + + G D+ L +V + P + LI +D PL Sbjct: 128 QLFVGAPALVSRQVREGNADIGLTFARLPEPEIKVVHRQPGP------IALIMRKDHPLA 181 Query: 182 TSGRICFDSLQDVSLILPAEPHVLRRRLDILARERGVRLNVSVEADTIQ 230 +I L+ + LP LR+ DI + V + + ++ IQ Sbjct: 182 RFRQISVGQLKPYPMALPDPTTTLRQLFDIACSRQQVVIEPVMTSNYIQ 230 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 68.6 bits (166), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 80/296 (27%), Positives = 133/296 (44%), Gaps = 30/296 (10%) Query: 14 FAKVAELGSLTQAANAVNGPQSVISRQIGQLEKQCGAKLFRRTGRGVVLTEFGEIVYSRI 73 F +A+ GS AA A++ Q+ ++ ++ +LE G L RT R + LTE G + Sbjct: 11 FVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALTEIGRDFLPQA 70 Query: 74 RPLM-EVADRLADDILTSNNIPIGEVHVGLLPTTVPMFAGRLFKAVQEQFPRVRLHLVEG 132 R L+ E+A L +I + G+V + +PT + R+ +A ++P R+ +++ Sbjct: 71 RRLLAELAGALV-EIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYPHNRIKILDH 129 Query: 133 SSAQLEEWLDCGRLDMALLLRE---GM-VDSKDEPCLLTTALD-----LIGWRDAPLLTS 183 +S+ + E A+L RE G+ + + P L++ AL LI +D PL Sbjct: 130 ASSAVAE---------AVLRREVEFGIHIAGEHHPELISVALTEDRYVLICPKDHPLARR 180 Query: 184 GRICFDSLQDVSLILPAEPHVLRRRLDILARERGVRLNVSVEADTIQLQREIAAAGIGYA 243 RI + LQ LI E R LD + G L E +QR A G+ Sbjct: 181 RRIAWRQLQSYPLIFAGEVSSNRALLDPTLKANGFALRSFYE-----VQRSSTAVGLVAQ 235 Query: 244 IVAAVSGAD--DQDDRLGKARIVE---PELMRSIVLGTTRHRPYTLATRSLHQLIR 294 V Q+ R++E P + RS+VL T + + A ++L+ +IR Sbjct: 236 GVGVAVVPKLAIQEGAYPTVRVIELVDPVVSRSLVLITRKAAHLSPAAQALYDMIR 291 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 0.323 0.138 0.400 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: 858,438 Number of extensions: 33073 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 192 Number of HSP's successfully gapped: 34 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)