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= 0029.0247.p (297 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311046|ref|YP_003775138.1| LysR family transcription regul... 602 e-174 gi|300313740|ref|YP_003777832.1| LysR family transcription regul... 66 3e-12 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 60 2e-10 gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 60 3e-10 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 58 9e-10 >gi|300311046|ref|YP_003775138.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 602 bits (1553), Expect = e-174, Method: Compositional matrix adjust. Identities = 294/297 (98%), Positives = 295/297 (99%) Query: 1 MLTNIFDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRA 60 MLTNIFDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRA Sbjct: 1 MLTNIFDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRA 60 Query: 61 GFRLTAKGEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVI 120 GFRLTAKGEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVI Sbjct: 61 GFRLTAKGEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVI 120 Query: 121 RRFRQRDEAVRLELLVRTPGELEEMLLNGAIQVAIGYFWRRVTALHYTPLMLERQLAYCA 180 RRFRQRDEAVRLELLVRTPGELEEMLLNGAIQVA+GYFWRRVTALHYTPLMLERQLAYCA Sbjct: 121 RRFRQRDEAVRLELLVRTPGELEEMLLNGAIQVALGYFWRRVTALHYTPLMLERQLAYCA 180 Query: 181 PPHPLFDQPGEIEPEQAAGYAWAWRDYPVPPEHLPLQQRNIMAATGNMEAMSILILSGQH 240 PPHPLFDQPGEIEPEQAA YAWAWRDYPVPPEHLPLQQRNIMA TGNMEAMSILILSGQH Sbjct: 181 PPHPLFDQPGEIEPEQAADYAWAWRDYPVPPEHLPLQQRNIMAVTGNMEAMSILILSGQH 240 Query: 241 LGYLPEEMGRQYEARGQMRALNRAKLAYDVGISVVTHRSRAREPIVAAFLDDLKHAQ 297 LGYLPEEMGRQYEARGQMRALNRAKLAYDVGISVVTHRSRAREPIVAAFLDDLKHAQ Sbjct: 241 LGYLPEEMGRQYEARGQMRALNRAKLAYDVGISVVTHRSRAREPIVAAFLDDLKHAQ 297 >gi|300313740|ref|YP_003777832.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 66.2 bits (160), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/231 (25%), Positives = 93/231 (40%), Gaps = 15/231 (6%) Query: 8 LDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRAGFRLTAK 67 +D R ++ F + + V A RL Q ++ ++ LE +LG L ER G RLTA Sbjct: 1 MDFRDLKYFTVIAEEGHVGRAAERLYKTQPALTKCIDRLEEQLGAPLFERLGRGIRLTAV 60 Query: 68 GEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVIRRFRQRD 127 GE + AR++ +DE AR + G +G P H L V ++ Sbjct: 61 GEALLNRARQISLMMDE---TAREIGDYAHGREGNIRLGCVPTLAEHVLPGVCQQLLGEA 117 Query: 128 EAVRLELLVRTPGELEEMLLNGAIQVAIGYFWRRVTALHYTPLMLERQLAYCAPPHPLFD 187 + V ++L V L L G + + +G + H +M ++ + +P HP+FD Sbjct: 118 QKVTIDLKVSMNDALLAGLKAGELDIVLGPMIQDDELFHTEEIMQDQMVVMASPQHPIFD 177 Query: 188 QPGEIEPEQAAGYAWA----------WRDYPVPPEHLPLQQRNIMAATGNM 228 + +I Y W W D HLP + I NM Sbjct: 178 K--KIRLRHLLDYQWVLPAQSVLSRQWLDNVFDRHHLPRPKVQITPTVLNM 226 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 48/175 (27%), Positives = 82/175 (46%), Gaps = 4/175 (2%) Query: 8 LDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRAGFRLTAK 67 +D+R ++ F+AV ++ + A +L++ Q +S Q+ LE LG +L R RLT Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 68 GEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVIRRFRQRD 127 G F + A ++++ LD+ + + TL+IG + T L ++R+ RQ Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVAST---LYGGLPMLVRKLRQHY 117 Query: 128 EAVRLELLVRTPGELEEMLLNGAIQVAIGYFWRRVTALHYTPLMLERQLAYCAPP 182 V ++LL T + L +G I V G R A ++ E +L PP Sbjct: 118 PEVDIQLLELTSMQQFAALKSGRIDVGFGRI-RSNDATVARIVLREEKLVLAIPP 171 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 59.7 bits (143), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 61/192 (31%), Positives = 92/192 (47%), Gaps = 8/192 (4%) Query: 4 NIFDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRAGFR 63 NI L L +RVF+ V DS AA +L QS +S + SLE +LG L + R+G+R Sbjct: 2 NIERLSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFD--RSGYR 59 Query: 64 --LTAKGEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVIR 121 LTA GE AR+++D +D ++A + + +A+ + P L ++++ Sbjct: 60 PQLTAPGEALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFFPLDC---LVDLLQ 116 Query: 122 RFRQRDEAVRLELLVRTPGELEEMLLNGAIQVAI-GYFWRRVTALHYTPLMLERQLAYCA 180 RFR AV + L V G + E +++G + I G L L R +A A Sbjct: 117 RFRAAFPAVTVRLEVEALGAVAERVIDGRAMLGILGTLPTTPPNLMRITLPSVRLVAVVA 176 Query: 181 PPHPLFDQPGEI 192 P HPL G I Sbjct: 177 PHHPLAKVKGRI 188 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 58.2 bits (139), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 70/257 (27%), Positives = 109/257 (42%), Gaps = 24/257 (9%) Query: 7 DLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRAGFRLTA 66 + DL L+ + LAV + VSAA +L++ Q +S LN L + LG L + G + T Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 67 KGEKFADAARRMM-----DALDEFGMQARNLDKRLVGTLA-IGLMGHTPAQHNHRLAEVI 120 + R ++ + L KR V L+ IG + P RL E Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLP-----RLLE-- 115 Query: 121 RRFRQRDEAVRLELLVRT--PGELEEMLLNGAIQVAIGYFWR-RVTALHYTPLMLERQLA 177 R RDEA ++ T P EL L +G + +AIGYF R L + + Sbjct: 116 ---RIRDEAPHASVVTVTMAPAELVAALESGEVDLAIGYFPDLRNRNFFQQRLFSQDFVC 172 Query: 178 YCAPPHPLFDQPGEIEPEQAAGYAWA---WRDYPVPPEHLPLQQ--RNIMAATGNMEAMS 232 HPL Q +E QAAG+ RD P+ L ++ R ++ +T + A+ Sbjct: 173 LLRAGHPLPAQKISLEHYQAAGHIVVKAEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIP 232 Query: 233 ILILSGQHLGYLPEEMG 249 +L+ + + +P G Sbjct: 233 LLVATSDLVATVPRAFG 249 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 0.324 0.137 0.407 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: 908,017 Number of extensions: 36461 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 233 Number of HSP's successfully gapped: 17 Length of query: 297 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 212 Effective length of database: 1,217,395 Effective search space: 258087740 Effective search space used: 258087740 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 130 (54.7 bits)