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= 0046.0004.p (296 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310987|ref|YP_003775079.1| cys regulon transcription regul... 494 e-141 gi|300312397|ref|YP_003776489.1| cys regulon transcription regul... 310 1e-85 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 84 1e-17 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 76 3e-15 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 75 8e-15 >gi|300310987|ref|YP_003775079.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 494 bits (1273), Expect = e-141, Method: Compositional matrix adjust. Identities = 240/278 (86%), Positives = 260/278 (93%), Gaps = 1/278 (0%) Query: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT Sbjct: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 Query: 61 EPGKGILHIIERLLLEAENLRQASQEYAGEQSGTLTIATTHTQARYVLPRVVQAFRAAFP 120 EPGKGIL I+ERLLLEAENLR+AS+EYAGEQSGTL+IATTHTQARYVLPRVVQAFR AFP Sbjct: 61 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFP 120 Query: 121 QVRIALQQSAPEHIAEWVMSGKADVGIATEGLSQFKDLVSFPCYTWHHVIVVPQGHPLLA 180 QVRIALQQSAPEHIAEWV+SGKAD+GIATEGLSQFK+LVSFPCYTW HVIVVP+GHPLL Sbjct: 121 QVRIALQQSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLG 180 Query: 181 LKHPITLEELAAHSLITYDVGFTGRGHIDDAFRKAGIEKDIVLTAMDSDVIQQYVALGLG 240 L+ ++LE+L LITYDVGFTGRGHID+AFR+AGIE DIVLTAMDSDVIQQYV+LG+G Sbjct: 181 LEQ-VSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSLGMG 239 Query: 241 VGIVASMAIEQGKHHGLQAIEASHLFAPNITRLAVRRG 278 VG+VASMA++QGKH + AI ASHLF NI RLAVRRG Sbjct: 240 VGLVASMAVDQGKHQEMVAINASHLFKANIARLAVRRG 277 >gi|300312397|ref|YP_003776489.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 310 bits (794), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 149/278 (53%), Positives = 200/278 (71%), Gaps = 1/278 (0%) Query: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 MN Q R +REA R FNLTE A L+TSQPGVS+ I ELEEELGV+IF R+GKR+ GLT Sbjct: 1 MNLHQFRFVREAVRQNFNLTEAAKALYTSQPGVSKAIIELEEELGVDIFTRHGKRIRGLT 60 Query: 61 EPGKGILHIIERLLLEAENLRQASQEYAGEQSGTLTIATTHTQARYVLPRVVQAFRAAFP 120 EPG+ +L +E ++ E + L++ +E+A SG+ TIATTHTQARY LP+VVQAF +P Sbjct: 61 EPGRAVLRSVELIMQEVDGLKRIGKEFAAHDSGSFTIATTHTQARYALPKVVQAFTQKYP 120 Query: 121 QVRIALQQSAPEHIAEWVMSGKADVGIATEGLSQFKDLVSFPCYTWHHVIVVPQGHPLLA 180 +V ++L Q P+ I E V + +AD+ IATE L+ + LVS PCY W HV+VVP HPLL Sbjct: 121 KVHLSLLQGNPKQITEMVRNDQADIAIATEALASGEGLVSLPCYQWEHVVVVPPDHPLLQ 180 Query: 181 LKHPITLEELAAHSLITYDVGFTGRGHIDDAFRKAGIEKDIVLTAMDSDVIQQYVALGLG 240 K +TLEE+AA+ LITYD F+GR ID AF ++ D+VL A+D+DVI+ YV LG+G Sbjct: 181 SKS-LTLEEIAANPLITYDSAFSGRSKIDHAFSLRQLKPDVVLEAIDADVIKTYVELGMG 239 Query: 241 VGIVASMAIEQGKHHGLQAIEASHLFAPNITRLAVRRG 278 VGI+A +A + + GL+AI A HLF N++R+A+++G Sbjct: 240 VGIIAGIAFDAERDRGLRAIPAGHLFGTNVSRVALKQG 277 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 109/247 (44%), Gaps = 7/247 (2%) Query: 12 AARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLTEPGKGILHIIE 71 A + + A +L +QP +SRQIR+LEE LGVE+ +R R LT GK Sbjct: 11 AVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDR-ASRPIALTMAGKFFYEQTL 69 Query: 72 RLLLEAENLRQASQEYAGEQSGTLTIATTHTQARYVLPRVVQAFRAAFPQVRIALQQSAP 131 ++L E + + ++ A + I + +LP +++ FR P++ I + Sbjct: 70 QVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEIEIGFSEIVT 129 Query: 132 EHIAEWVMSGKADVGIATEGLSQFKDLVSFPCYTWHHVIVVPQGHPLLALKHPITLEELA 191 E + SG+ DVG +S D+V V V P GHPLLA ++ +TL +LA Sbjct: 130 MEQVEALKSGRIDVGFGRLPISD-PDIVCETIVEEPLVAVFPLGHPLLA-RNKVTLAQLA 187 Query: 192 AHSLITYDV--GFTGRGHIDDAFRKAGIEKDIVLTAMDSDVIQQYVALGLGVGIVASMAI 249 A I Y + + D F + IV A + VA G+GV +V Sbjct: 188 AQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVGVTLVPRSV- 246 Query: 250 EQGKHHG 256 QG H Sbjct: 247 -QGLHRS 252 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/257 (28%), Positives = 120/257 (46%), Gaps = 20/257 (7%) Query: 23 ANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLTEPGKGILHIIERLLLEAENLRQ 82 A L +Q V+ ++R+LE+ LGV + ER + + LTE G+ L RLL E Sbjct: 24 AGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSI-ALTEIGRDFLPQARRLLAELAGALV 82 Query: 83 ASQEYAGEQSGTLTIATTHTQARYVLPRVVQAFRAAFPQVRIALQQSAPEHIAEWVMSGK 142 +E + G ++IA T LPR++QA+ A +P RI + A +AE V+ + Sbjct: 83 EIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYPHNRIKILDHASSAVAEAVLRRE 142 Query: 143 ADVGIATEGLSQFKDLVSFPCYTWHHVIVVPQGHPLLALKHPITLEELAAHSLITYDVGF 202 + GI G +L+S +V++ P+ HP LA + I +L ++ LI Sbjct: 143 VEFGIHIAG-EHHPELISVALTEDRYVLICPKDHP-LARRRRIAWRQLQSYPLIFAGEVS 200 Query: 203 TGRGHIDDAFRKAGIEKDIVLTAMDS--DVIQQYVALGLGVGIVA-----SMAIEQGKHH 255 + R +D + G A+ S +V + A+GL V +AI++G + Sbjct: 201 SNRALLDPTLKANGF-------ALRSFYEVQRSSTAVGLVAQGVGVAVVPKLAIQEGAYP 253 Query: 256 GLQAIEASHLFAPNITR 272 ++ IE L P ++R Sbjct: 254 TVRVIE---LVDPVVSR 267 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 74.7 bits (182), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 104/233 (44%), Gaps = 19/233 (8%) Query: 23 ANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLTEPGKGILHIIERLLLEAENLRQ 82 A +L SQP ++RQI LE+ELG ++F+R+ KR LT GK + E ++ Sbjct: 23 AELLHISQPPLTRQIAALEKELGAQLFDRS-KRAIQLTAAGKYFYRDTTEIFKALERAKR 81 Query: 83 ASQEYAGEQSGTLTIATTHTQARYVLPRVVQAFRAAFPQVRIALQQSAPEHIAEWVMSGK 142 + +SG L + + A +LP V + + AA+P+V + L + P +A + K Sbjct: 82 NVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEVDMRLTEYVPNLLATDIEDEK 141 Query: 143 ADVGIATEGLSQFKDLVSFPCYTWHHVIVVPQGHPLLALKHPITLEELAAHSLIT----- 197 DVGI + L S Y + V+P+ H LA + I+ ELA + I+ Sbjct: 142 IDVGIMYRP-EDCRRLDSHTIYAEPLLAVLPRDH-RLAGRQSISAAELAEDAFISIPRMI 199 Query: 198 ----YDVGFTGRGHIDDAFRKAGIEKDIVLTAMDSDVIQQYVALGLGVGIVAS 246 YD+ I + G IVL I V GLGV +V + Sbjct: 200 APVVYDL-------IQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGVALVPT 245 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 0.136 0.391 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: 810,457 Number of extensions: 32874 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 36 Length of query: 296 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 211 Effective length of database: 1,217,395 Effective search space: 256870345 Effective search space used: 256870345 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)