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= 0001.1176.p (309 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312785|ref|YP_003776877.1| transcription regulator protein... 311 6e-86 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 141 6e-35 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 123 2e-29 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 110 2e-25 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 101 7e-23 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 311 bits (796), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 163/289 (56%), Positives = 207/289 (71%) Query: 5 DWTLYRSFLHVMREGSLSGAARVLDLAQPTLGRQIQALEASLKTRLFTRSQTGLQPTDAA 64 +W YRSFL V+ GSLS A R + L QPT+GR I+ LE++L +LF RS G PTDAA Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 65 QALLPHAQAMESIAAAAQRTAADHSKEISGTVRLTASEVMGMEVLPPILKSLRQRYPELR 124 L P+A A+ + +AA +R A+ KE+ GTVRLTASEV+ +EVLPPIL +LR R+PELR Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 125 VELVLSNDVQDLLHRQADIAVRMVSPHQERLIARRIGTVDCGLHAARDYLKRYGLPRCMD 184 VELVLSN DLL R+ADIAVRM P Q+ L+A+R+G+++ GLHA + YL +G P+ +D Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 185 DLRRHTVIGPDRMSPALRTLVQRWPQLDPAHLALRTDSDLAQLSLIRAGAGIGICQAPLA 244 L HT+IG D+ S +R ++++ P L A LALRTDSDLAQL+ IRAG GIGICQ LA Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQVALA 246 Query: 245 ARTPPLTRLLAQEFNLPLETWVVMHEDLRHHLRCSKVFEALVHGLGEYL 293 AR L RLL ++F L +ETWV MHEDLR RC+ F ALV GLG Y+ Sbjct: 247 ARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAALVAGLGAYI 295 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 141 bits (356), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 100/283 (35%), Positives = 146/283 (51%), Gaps = 3/283 (1%) Query: 5 DWTLYRSFLHVMREGSLSGAARVLDLAQPTLGRQIQALEASLKTRLFTRSQTGLQPTDAA 64 DW R FL + R G+L GAA L+L Q T+GR++ ALE SL RLF R+ G PT A Sbjct: 2 DWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAG 61 Query: 65 QALLPHAQAMESIAAAAQRTAADHSKEISGTVRLTASEVMGMEVLPPILKSLRQRYPELR 124 + AQ ME A QR + + G VRL A++V L P L LRQ +P +R Sbjct: 62 EMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHIR 121 Query: 125 VELVLSNDVQDLLHRQADIAVRMVSPHQERLIARRIGTVDCGLHAARDYLKRYGLPRCMD 184 V L S + +L R+ADIAVR + P LIAR + + ++A+R Y+K+ GLP Sbjct: 122 VVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPGT 181 Query: 185 DLRRHTVIGPDR-MSPALRTLVQRWPQLDPAHLALRTDSDLAQLSLIRAGAGIGICQAPL 243 L+ H V+ R +SPA + ++ A +A+ + L ++AG G+G + Sbjct: 182 GLKGHDVVIYQRSVSPAKSEQICGESIIN-AQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 244 AARTPPLTRLLAQEFNLPLETWVVMHEDLRHHLRCSKVFEALV 286 + L R+ Q P + W+V+H DL R V +A++ Sbjct: 241 GDKASGLVRVWPQR-ETPYDMWLVLHSDLNRTARVRAVADAII 282 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 98/296 (33%), Positives = 137/296 (46%), Gaps = 22/296 (7%) Query: 3 NTDWTLYRSFLHVMREGSLSGAARVLDLAQPTLGRQIQALEASLKTRLFTRSQTGLQPTD 62 + DW RSF + GS SGAARVL + T+GR++Q LE +L LF R ++ T Sbjct: 2 HADWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTR 61 Query: 63 AAQALLPHAQAMESIAAAAQRTAADHSKEISGTVRLTASEVMGMEVLPPILKSLRQRYPE 122 +++L A+AM+ RT A + G +RL ++ MG L P L SL Q++P Sbjct: 62 LGESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPA 121 Query: 123 LRVELVLSNDVQDLLHRQADIAVRMVSPHQERLIARRIGTVDCGLHAARDYLKRYGLPRC 182 L +EL + + L R+AD+A+R P LIARR+G V L D + + Sbjct: 122 LDIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAW----- 176 Query: 183 MDDLRRHT-----VIGPDRMSPALRTLVQRW--PQLDPAHLALRTDSDLAQLSLIRAGAG 235 RH VIG D P + RW D + LR+ S +AQ RAG G Sbjct: 177 -----RHQRGSAPVIGYDDSVPDIPE--TRWLAAHADGNPVRLRSASLVAQCMAARAGVG 229 Query: 236 IGICQAPLAARTPPLTRLLAQEFNLPLETWVVMHEDLRHHLRCSKVFEALVHGLGE 291 + + + L A P + + L E W V H DL+ R V E L GE Sbjct: 230 LALLPSYLLA---PELQTVESTPQLVRELWAVFHRDLKALPRLRAVLEWLQACCGE 282 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 83/284 (29%), Positives = 133/284 (46%), Gaps = 6/284 (2%) Query: 5 DWTLYRSFLHVMREGSLSGAARVLDLAQPTLGRQIQALEASLKTRLFTRSQTGLQPTDAA 64 DW R FL + R L AA+ L + T+ R+++ E + ++LF R+ G + T Sbjct: 3 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 62 Query: 65 QALLPHAQAMESIAAAAQRTAADHSKEISGTVRLTASEVMGMEVLPPILKSLRQRYPELR 124 L+ +A+ +ES AA H+ ++SG VRL A+E G VL P + R P + Sbjct: 63 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 122 Query: 125 VELVLSNDVQDLLHRQADIAVRMVSPHQERLIARRIGTVDCGLHAARDYLKRYGLPRCMD 184 V+++ +L +ADI+V + P + ++ L+A+RDYL ++ MD Sbjct: 123 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTMD 182 Query: 185 DLRRHTVIGPDR---MSPALRTLVQRWPQLDPAHLALRTDSDLAQLSLIRAGAGIGICQA 241 DL +H IG S LR P A A R+ S +AQ + AG + I Sbjct: 183 DLAQHHFIGYIDDLVFSEELRYKDTVAPD---AFRAFRSTSVVAQYTAACAGRALAILPC 239 Query: 242 PLAARTPPLTRLLAQEFNLPLETWVVMHEDLRHHLRCSKVFEAL 285 LA ++ L +L Q+ + W+V + RH R S ++ L Sbjct: 240 FLAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYL 283 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 101 bits (252), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 136/288 (47%), Gaps = 14/288 (4%) Query: 1 MDNTDWTLYRSFLHVMREGSLSGAARVLDLAQPTLGRQIQALEASLKTRLFTRSQTGLQP 60 M+ W R FL + REGSLS +ARVL + T+ R + LE +L+ +LF R G Sbjct: 20 MNTLQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVL 79 Query: 61 TDAAQALLPHAQAMESIAAAAQRTAADHSKEISGTVRLTASEVMGMEVLPPILKSLRQRY 120 T L A+ +E + R A ++ +SG VR++A ++ + L P L + +++Y Sbjct: 80 TTEGAELSKQAEQLEVEMHSLWRAALANTT-LSGKVRVSAPPILMSDFLVPRLPAFQEKY 138 Query: 121 PELRVELVLSNDVQDLLHRQADIAVRMVSPHQERLIARRIGTVDCGLHAARDYLKRYGLP 180 P++ +E++ DL +ADIA+RM P L+AR + V ++ +L+R Sbjct: 139 PDIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLERPESE 198 Query: 181 RCMDDLRRHTVIGPDRMSPALRTLVQRW--PQLDPAHLALRTDSDLAQLSLIRAGAGIGI 238 R + IG D+ SP + + W Q+D ALRT+ A +G G+ + Sbjct: 199 R--------SFIGLDQESPCRQ---KAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLAL 247 Query: 239 CQAPLAARTPPLTRLLAQEFNLPLETWVVMHEDLRHHLRCSKVFEALV 286 + A L + E P ++VMH D+R R + L+ Sbjct: 248 LPRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLI 295 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 0.395 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: 928,784 Number of extensions: 37838 Number of successful extensions: 258 Number of sequences better than 1.0e-08: 55 Number of HSP's gapped: 249 Number of HSP's successfully gapped: 55 Length of query: 309 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 224 Effective length of database: 1,217,395 Effective search space: 272696480 Effective search space used: 272696480 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)