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= 0001.1574.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... 533 e-153 gi|300313740|ref|YP_003777832.1| LysR family transcription regul... 60 3e-10 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 59 3e-10 gi|300310701|ref|YP_003774793.1| LysR family transcription regul... 59 5e-10 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 58 1e-09 >gi|300311046|ref|YP_003775138.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 533 bits (1373), Expect = e-153, Method: Compositional matrix adjust. Identities = 253/297 (85%), Positives = 275/297 (92%) Query: 1 MLNNVFDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNTLEMRLGFRLCERGRA 60 ML N+FDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLN+LE RLG+RLCERGRA Sbjct: 1 MLTNIFDLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRA 60 Query: 61 GFKLTAKGEKFADSARRMMDALTEFGMEARNLDKRLVGKLSIGLMGHTPAQHNARLAQVI 120 GF+LTAKGEKFAD+ARRMMDAL EFGM+ARNLDKRLVG L+IGLMGHTPAQHN RLA+VI Sbjct: 61 GFRLTAKGEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVI 120 Query: 121 RAFRQRDEAVRIELLVRTPGELEEMLLNGNIQIAIGYFWRHVSALQYAPLLQERQVAYCA 180 R FRQRDEAVR+ELLVRTPGELEEMLLNG IQ+A+GYFWR V+AL Y PL+ ERQ+AYCA Sbjct: 121 RRFRQRDEAVRLELLVRTPGELEEMLLNGAIQVALGYFWRRVTALHYTPLMLERQLAYCA 180 Query: 181 PPHPLFEQPGEIDPEQAVQYAWAWRDYPVPPEHLPLQPRNIMAVTGNMEAMSLLILSGQH 240 PPHPLF+QPGEI+PEQA YAWAWRDYPVPPEHLPLQ RNIMAVTGNMEAMS+LILSGQH Sbjct: 181 PPHPLFDQPGEIEPEQAADYAWAWRDYPVPPEHLPLQQRNIMAVTGNMEAMSILILSGQH 240 Query: 241 LGYLPEEMGRDYEARGQMRALNRERLSYEVGISVVTNRQSVNEPIVAAFLDDLQQMQ 297 LGYLPEEMGR YEARGQMRALNR +L+Y+VGISVVT+R EPIVAAFLDDL+ Q Sbjct: 241 LGYLPEEMGRQYEARGQMRALNRAKLAYDVGISVVTHRSRAREPIVAAFLDDLKHAQ 297 >gi|300313740|ref|YP_003777832.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 59.7 bits (143), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 58/231 (25%), Positives = 94/231 (40%), Gaps = 15/231 (6%) Query: 8 LDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNTLEMRLGFRLCERGRAGFKLTAK 67 +D R ++ F + + V A RL Q ++ ++ LE +LG L ER G +LTA Sbjct: 1 MDFRDLKYFTVIAEEGHVGRAAERLYKTQPALTKCIDRLEEQLGAPLFERLGRGIRLTAV 60 Query: 68 GEKFADSARRMMDALTEFGMEARNLDKRLVGKLSIGLMGHTPAQHNARLAQVIRAFRQRD 127 GE + AR++ + E E + G + +G + T A+H L V + Sbjct: 61 GEALLNRARQISLMMDETAREIGDYAHGREGNIRLGCVP-TLAEHV--LPGVCQQLLGEA 117 Query: 128 EAVRIELLVRTPGELEEMLLNGNIQIAIGYFWRHVSALQYAPLLQERQVAYCAPPHPLFE 187 + V I+L V L L G + I +G + ++Q++ V +P HP+F+ Sbjct: 118 QKVTIDLKVSMNDALLAGLKAGELDIVLGPMIQDDELFHTEEIMQDQMVVMASPQHPIFD 177 Query: 188 QPGEIDPEQAVQYAWA----------WRDYPVPPEHLPLQPRNIMAVTGNM 228 + +I + Y W W D HLP I NM Sbjct: 178 K--KIRLRHLLDYQWVLPAQSVLSRQWLDNVFDRHHLPRPKVQITPTVLNM 226 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 59.3 bits (142), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 46/179 (25%), Positives = 78/179 (43%), Gaps = 3/179 (1%) Query: 7 DLDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNTLEMRLGFRLCERGRAGFKLTA 66 ++ RL++ FLA+ D A R +V QS S + +E G RL ER LT Sbjct: 4 NISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTP 63 Query: 67 KGEKFADSARRMMDALTEFGMEARNLDKRLVGKLSIGLMGHTPAQHNARLAQVIRAFRQR 126 +GE F AR+++ + + + R G+++I + P+ L V+ +RQR Sbjct: 64 EGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAAL---PSLAAGWLPPVLADYRQR 120 Query: 127 DEAVRIELLVRTPGELEEMLLNGNIQIAIGYFWRHVSALQYAPLLQERQVAYCAPPHPL 185 V +EL + ++L +G + IA+ ++ PL + C H L Sbjct: 121 YPGVTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFYLVCRKDHKL 179 >gi|300310701|ref|YP_003774793.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 58.9 bits (141), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 69/295 (23%), Positives = 119/295 (40%), Gaps = 28/295 (9%) Query: 2 LNNVFD-LDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNTLEMRLGFRLCERGRA 60 LN++ L ++ +++ +A+ + + A + L + QS S L LE L +L ER ++ Sbjct: 17 LNSLLSRLRMKQLQLLIALDEHKSLHKASSALAMTQSAASKSLAELESMLDAQLFERTKS 76 Query: 61 GFKLTAKGEKFADSARRMMDALTEFGMEARNLDKRLVGKLSIG-LMGHTPAQHNARLAQV 119 G G AR M L E + G+L+IG +MG P A + Sbjct: 77 GLIANPFGHCVIRYARLMATDLGSLCEEMAQIRSGQGGRLAIGAVMGAVP----ALIVPA 132 Query: 120 IRAFRQRDEAVRIELLVRTPGELEEMLLNGNIQ--IAIGYFWRHVSALQYAPLLQERQVA 177 + A ++R A+ IE++ T + ++L G++ +A H Y L +E Sbjct: 133 VDALQRRHPALSIEIVEDTSLHMLDLLDEGHLDLLVARASVSAHPGKYHYQSLSEEPLSV 192 Query: 178 YCAPPHPLFEQPGEIDPEQAVQYAWAWRDYPVPPEHLPLQ--------------PRNIMA 223 + HP +P + + A + W Y P H+PL P N +A Sbjct: 193 VVSAEHP---RPRGKELQLAALAGYRWITY---PSHMPLHAVLEREMDLAGLSMPANTIA 246 Query: 224 VTGNMEAMSLLILSGQHLGYLPEEMGRDYEARGQMRALNRERLSYEVGISVVTNR 278 ++LL + LP + + RG +R L + S I +VT + Sbjct: 247 TASTFVTVALLQQGADMVSILPTAVAEMFVQRGMLRILPVKLRSMSQTIGIVTRK 301 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 80/175 (45%), Gaps = 4/175 (2%) Query: 8 LDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNTLEMRLGFRLCERGRAGFKLTAK 67 +D+R ++ F+AV ++ + A +L++ Q +S Q+ LE LG +L R +LT Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 68 GEKFADSARRMMDALTEFGMEARNLDKRLVGKLSIGLMGHTPAQHNARLAQVIRAFRQRD 127 G F + A ++++ L + + + LSIG + T L ++R RQ Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVAST---LYGGLPMLVRKLRQHY 117 Query: 128 EAVRIELLVRTPGELEEMLLNGNIQIAIGYFWRHVSALQYAPLLQERQVAYCAPP 182 V I+LL T + L +G I + G R A +L+E ++ PP Sbjct: 118 PEVDIQLLELTSMQQFAALKSGRIDVGFGRI-RSNDATVARIVLREEKLVLAIPP 171 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 0.137 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: 905,526 Number of extensions: 37191 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 18 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: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)