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= 0001.1533.p (311 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... 629 0.0 gi|300312397|ref|YP_003776489.1| cys regulon transcription regul... 338 2e-94 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 84 1e-17 gi|300313689|ref|YP_003777781.1| LysR family transcription regul... 83 3e-17 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 81 1e-16 >gi|300310987|ref|YP_003775079.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 629 bits (1621), Expect = 0.0, Method: Compositional matrix adjust. Identities = 307/309 (99%), Positives = 308/309 (99%) Query: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT Sbjct: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 Query: 61 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFP 120 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFP Sbjct: 61 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFP 120 Query: 121 QVRIALQQSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLG 180 QVRIALQQSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLG Sbjct: 121 QVRIALQQSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLG 180 Query: 181 LEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSLGMGV 240 LEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSLGMGV Sbjct: 181 LEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSLGMGV 240 Query: 241 GLVASMAVDQGKHQEMVAIQASHLFKANIARLAVRRGAYLRGYAFDFIQQFAPDLKRADI 300 GLVASMAVDQGKHQEMVAI ASHLFKANIARLAVRRGAYLRGYAFDFIQQFAP+LKRADI Sbjct: 241 GLVASMAVDQGKHQEMVAINASHLFKANIARLAVRRGAYLRGYAFDFIQQFAPELKRADI 300 Query: 301 VNALNEANA 309 VNALNEANA Sbjct: 301 VNALNEANA 309 >gi|300312397|ref|YP_003776489.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 338 bits (868), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 161/304 (52%), Positives = 214/304 (70%) 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 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFP 120 EPG+ +L VE ++ E + L+R KE+A SG+ +IATTHTQARY LP+VVQAF +P Sbjct: 61 EPGRAVLRSVELIMQEVDGLKRIGKEFAAHDSGSFTIATTHTQARYALPKVVQAFTQKYP 120 Query: 121 QVRIALQQSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLG 180 +V ++L Q P+ I E V + +ADI IATE L+ + LVS PCY W HV+VVP HPLL Sbjct: 121 KVHLSLLQGNPKQITEMVRNDQADIAIATEALASGEGLVSLPCYQWEHVVVVPPDHPLLQ 180 Query: 181 LEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSLGMGV 240 + ++LE++ PLITYD F+GR ID AF ++PD+VL A+D+DVI+ YV LGMGV Sbjct: 181 SKSLTLEEIAANPLITYDSAFSGRSKIDHAFSLRQLKPDVVLEAIDADVIKTYVELGMGV 240 Query: 241 GLVASMAVDQGKHQEMVAIQASHLFKANIARLAVRRGAYLRGYAFDFIQQFAPDLKRADI 300 G++A +A D + + + AI A HLF N++R+A+++GAYLRGY + FI+ AP L R I Sbjct: 241 GIIAGIAFDAERDRGLRAIPAGHLFGTNVSRVALKQGAYLRGYVYTFIELLAPTLNRKLI 300 Query: 301 VNAL 304 + Sbjct: 301 AQVM 304 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 58/193 (30%), Positives = 92/193 (47%), Gaps = 2/193 (1%) Query: 23 ANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLTEPGKGILGIVERLLLEAENLRR 82 A L +Q V+ ++R+LE+ LGV + ER + + LTE G+ L RLL E Sbjct: 24 AGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSI-ALTEIGRDFLPQARRLLAELAGALV 82 Query: 83 ASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFPQVRIALQQSAPEHIAEWVISGK 142 +E + G +SIA T LPR++QA+ +P RI + A +AE V+ + Sbjct: 83 EIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYPHNRIKILDHASSAVAEAVLRRE 142 Query: 143 ADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLGLEQVSLEDLGTWPLITYDVGFT 202 + GI G EL+S +V++ PK HPL +++ L ++PLI + Sbjct: 143 VEFGIHIAG-EHHPELISVALTEDRYVLICPKDHPLARRRRIAWRQLQSYPLIFAGEVSS 201 Query: 203 GRGHIDEAFRQAG 215 R +D + G Sbjct: 202 NRALLDPTLKANG 214 >gi|300313689|ref|YP_003777781.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 82.8 bits (203), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 112/241 (46%), Gaps = 15/241 (6%) Query: 1 MNFQQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLT 60 M LR + R G +LT A L + VSRQI ++EEE GV +FER + + LT Sbjct: 1 MQSTSLRYFYQVGRTG-SLTAAAERLDVAVSAVSRQIAKMEEETGVPLFERRARGMV-LT 58 Query: 61 EPGKGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFP 120 G+ ++ R LLE E + + G +++A + A +LP V FR+ +P Sbjct: 59 PAGEVLMAYARRNLLEMEQVLAEVRGLHAVGQGVITLACSEGFAWDLLPNVTAQFREQYP 118 Query: 121 QVRIALQQSAPEHIAEWVISGKADIGIA-----TEGLS-QFKELVSFPCYTWSHVIVVPK 174 ++ L ++ VI G+ADI + EGL+ ++E S P + ++ + Sbjct: 119 GLQFKLHVVGAARASQMVIDGEADISVTYSLAPAEGLAVAYRE--SGPVFA-----LMKR 171 Query: 175 GHPLLGLEQVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYV 234 HPL ++L DL +PL +VG T R D A G+ V T+ + ++ Sbjct: 172 DHPLASRTLLALSDLSPYPLALPEVGTTVRQLFDIACSMRGLLFSPVFTSHSLGAVYRFT 231 Query: 235 S 235 + Sbjct: 232 T 232 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 80.9 bits (198), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 103/232 (44%), Gaps = 18/232 (7%) Query: 23 ANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLTEPGKGILGIVERLLLEAENLRR 82 A +L SQP ++RQI LE+ELG ++F+R+ KR LT GK + E +R Sbjct: 23 AELLHISQPPLTRQIAALEKELGAQLFDRS-KRAIQLTAAGKYFYRDTTEIFKALERAKR 81 Query: 83 ASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFPQVRIALQQSAPEHIAEWVISGK 142 + +SG L + + A +LP V + + A+P+V + L + P +A + K Sbjct: 82 NVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEVDMRLTEYVPNLLATDIEDEK 141 Query: 143 ADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLGLEQVSLEDLGTWPLIT------ 196 D+GI + L S Y + V+P+ H L G + +S +L I+ Sbjct: 142 IDVGIMYRP-EDCRRLDSHTIYAEPLLAVLPRDHRLAGRQSISAAELAEDAFISIPRMIA 200 Query: 197 ---YDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSLGMGVGLVAS 245 YD+ I + + G P IVL I V G+GV LV + Sbjct: 201 PVVYDL-------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 0.320 0.136 0.390 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: 875,636 Number of extensions: 35249 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 34 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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 (21.8 bits) S2: 130 (54.7 bits)