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= 0036.0105.p (125 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311633|ref|YP_003775725.1| LysR family transcription regul... 201 2e-53 gi|300313216|ref|YP_003777308.1| LysR family transcription regul... 84 4e-18 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 69 1e-13 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 62 1e-11 gi|300312965|ref|YP_003777057.1| LysR family transcription regul... 59 2e-10 >gi|300311633|ref|YP_003775725.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 201 bits (510), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 100/107 (93%), Positives = 103/107 (96%) Query: 1 MRLEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFIREGRRL 60 MRLEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEK L EDLFIREGRRL Sbjct: 1 MRLEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKHLGEDLFIREGRRL 60 Query: 61 TLTDTGQLVFTYADNIFGLSQELLGRLEGRSAGVTRLRVGSVATGXR 107 +L+DTGQLVFTYADNIFGLSQE+LGRLEGRSAGVTRLRVGSVAT R Sbjct: 61 SLSDTGQLVFTYADNIFGLSQEMLGRLEGRSAGVTRLRVGSVATLSR 107 >gi|300313216|ref|YP_003777308.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 83.6 bits (205), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 45/96 (46%), Positives = 58/96 (60%), Gaps = 1/96 (1%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFIREGRRLTLTDT 65 LN+ HL YFW VAK G + RA+E LH + +S Q+ E+ L LF R GRRL L D Sbjct: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLELNDE 63 Query: 66 GQLVFTYADNIFGLSQELLGRLEGRSAG-VTRLRVG 100 G++VF YA+ IF + +EL L R G +LRVG Sbjct: 64 GRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVG 99 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 68.9 bits (167), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 33/78 (42%), Positives = 48/78 (61%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFIREGRRLTLTDT 65 ++ LRYF + +RAA+ LH +QS VS +RQLE++++ L IR+GRRL LTDT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 66 GQLVFTYADNIFGLSQEL 83 G++V+ I Q L Sbjct: 61 GRVVYEQGQQILAAMQRL 78 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 62.0 bits (149), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 37/101 (36%), Positives = 57/101 (56%), Gaps = 1/101 (0%) Query: 5 QLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFIREGRRLTLTD 64 + L F V G +TRAAE L+ QS V+ +I+QLE+ + LF+R+ RR+ LT Sbjct: 9 DMELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTA 68 Query: 65 TGQLVFTYADNIFGLSQELLGRLEGRSAGVTRLRVGSVATG 105 G+ + YA+ I L+QE + +S RLR+GS+ + Sbjct: 69 AGEALLDYAERILDLAQEARQAVAPQSPR-GRLRIGSMESA 108 >gi|300312965|ref|YP_003777057.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 58.5 bits (140), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 37/102 (36%), Positives = 54/102 (52%), Gaps = 3/102 (2%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFIREGRRLTLTDT 65 + HLRYF VA+ H RAAE L + +S QI+QLE+QL+ LF+R R + LT Sbjct: 1 MELRHLRYFLTVAEELHFARAAEVLGIAPPTLSVQIQQLERQLQAQLFVRGKRAIALTSA 60 Query: 66 GQLVFTYADNIFGLSQELL--GRLEGRSAGVTRLRVGSVATG 105 G+ A + ++ + GR GR + R+ VG V + Sbjct: 61 GEDFVVQARAVLARFEQAIDAGRRAGRGE-MGRVEVGYVGSA 101 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 0.135 0.386 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: 343,120 Number of extensions: 12040 Number of successful extensions: 116 Number of sequences better than 1.0e-08: 22 Number of HSP's gapped: 118 Number of HSP's successfully gapped: 22 Length of query: 125 Length of database: 1,619,870 Length adjustment: 75 Effective length of query: 50 Effective length of database: 1,264,745 Effective search space: 63237250 Effective search space used: 63237250 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: 125 (52.8 bits)