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= 0034.0022.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|300309386|ref|YP_003773478.1| LysR family transcription regul... 613 e-177 gi|300311571|ref|YP_003775663.1| LysR family transcription regul... 102 4e-23 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 99 4e-22 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 91 1e-19 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 90 2e-19 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 613 bits (1580), Expect = e-177, Method: Compositional matrix adjust. Identities = 300/301 (99%), Positives = 300/301 (99%) Query: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMINILCTPVLKAFRERHPDIA 120 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMINILCTPVLKAFRERHPDIA Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMINILCTPVLKAFRERHPDIA 120 Query: 121 VVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRAS 180 VVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRAS Sbjct: 121 VVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRAS 180 Query: 181 LRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALL 240 LRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALL Sbjct: 181 LRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALL 240 Query: 241 PEPFIHRLATQQLQAVRLVEPEVQWKVAYVTRGGYLSHAAHAWMAVSAQLFAGGKLRKST 300 PEPFIHRLATQQLQAVRLVEPEVQWKVAYVTRGGYLSHAAHAWMAVSAQLFAGGKLRKS Sbjct: 241 PEPFIHRLATQQLQAVRLVEPEVQWKVAYVTRGGYLSHAAHAWMAVSAQLFAGGKLRKSA 300 Query: 301 S 301 S Sbjct: 301 S 301 >gi|300311571|ref|YP_003775663.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 102 bits (254), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 77/245 (31%), Positives = 120/245 (48%), Gaps = 6/245 (2%) Query: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 M++R LRYF V H S SRAA ALH+ Q +++ +RQLE+E+ A LL R + + TD Sbjct: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 Query: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMI-NILCTPVLKAFRERHPDI 119 G+V YE IL +Q V + SG + +GIP + N L P+L A R +P+I Sbjct: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 Query: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLPADPEL-GLETLPVASYPMWAVAQAGSFQ--K 176 + L E+ + ++ +G I + VL D +L P+ M + +A S Sbjct: 121 TLQLTEELTGNLITQLKSG--RINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVA 178 Query: 177 NRASLRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMG 236 R S+ A+ PL+L G+ + + R G+ + V + L + LA +G Sbjct: 179 GRKSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIG 238 Query: 237 TALLP 241 +LP Sbjct: 239 ATILP 243 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 99.0 bits (245), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 118/245 (48%), Gaps = 6/245 (2%) Query: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 M++R L+YF SFSRAA+ LH+ Q +S+ +RQLEE + L+ R R + LT Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIG-IPPMINILCTPVLKAFRERHPDI 119 G+ YEQ Q+L+ ++++ R R IG +P + L ++K FR P+I Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLP-ADPELGLETLPVASYPMWAVAQAGSFQKNR 178 + E + + + +G +++G LP +DP++ ET + P+ AV G R Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCET--IVEEPLVAVFPLGHPLLAR 178 Query: 179 ASLRCAQLDGMPLVLL--NNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMG 236 + AQL +L + +F ++P IV ++ + + + AG+G Sbjct: 179 NKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVG 238 Query: 237 TALLP 241 L+P Sbjct: 239 VTLVP 243 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 90.5 bits (223), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 120/248 (48%), Gaps = 8/248 (3%) Query: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 +++R LRYF F RAA LH+TQ +S+ + LEE + PL R R + LT Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIG-IPPMINILCTPVLKAFRERHPDI 119 G + + Q++L L VR + SG L + I + P+L+ FR +P + Sbjct: 67 GAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 Query: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLPADPELG---LETLPVASYPMWAVAQAGSFQK 176 + L+E T + + G+++ G+ +LP PE LE PV S P+ A G+ +K Sbjct: 127 QIELREATTDVQLEDLLQGKIDAGL-LLPPLPEKAAALLEVRPVLSEPLIAALPEGAVRK 185 Query: 177 NRASLRCAQLDGMPLVLLNNEF--GLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAG 234 R + L +PL++ ++ FR+ G+ P I ++ Q +V + AG Sbjct: 186 -RGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAG 244 Query: 235 MGTALLPE 242 MG AL+P+ Sbjct: 245 MGMALVPQ 252 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 68/272 (25%), Positives = 128/272 (47%), Gaps = 3/272 (1%) Query: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 + R L+ F F AA HV+QS S M++++E A L RD R + LT Sbjct: 5 ISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTPE 64 Query: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIG-IPPMINILCTPVLKAFRERHPDI 119 G + + +Q+++ ++ +++ D A R GR+ I +P + PVL +R+R+P + Sbjct: 65 GELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGV 124 Query: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRA 179 V L + Q + +G+++I +T P L +T P+ S P + V + ++ Sbjct: 125 TVELFDAISDQCLDLLRHGKVDIALTA-PGPNLLEFDTRPLCSDPFYLVCRKDHKLASKR 183 Query: 180 SLRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTAL 239 ++ QL G ++ L + + L V R G+ + + A+ +G+G ++ Sbjct: 184 RIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVI-HTGLEVEHLATVAALIESGLGVSV 242 Query: 240 LPEPFIHRLATQQLQAVRLVEPEVQWKVAYVT 271 +PE + + L A+ L PE++ + VT Sbjct: 243 VPELTLFQFRLPNLVAIPLDAPELKRPLLIVT 274 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 0.134 0.393 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: 910,625 Number of extensions: 36463 Number of successful extensions: 271 Number of sequences better than 1.0e-08: 65 Number of HSP's gapped: 238 Number of HSP's successfully gapped: 65 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)