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= 0015.0141.p (332 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310335|ref|YP_003774427.1| transcription regulator protein... 196 3e-51 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 122 6e-29 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 118 7e-28 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 105 5e-24 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 102 6e-23 >gi|300310335|ref|YP_003774427.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 196 bits (497), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 106/299 (35%), Positives = 169/299 (56%), Gaps = 1/299 (0%) Query: 1 MRFNKLDLNQLVVLDALLSTLSVSKSAERLFLSQPATSCALARLREYFEDDLLVSVGKTN 60 MRFNKLDLN LV LDALL+ +S+S++AE++ LSQ A S ALARLREYF+D+LL+ VG+ Sbjct: 1 MRFNKLDLNLLVALDALLTEMSISRAAEKIHLSQSAMSNALARLREYFDDELLIQVGRRM 60 Query: 61 ALTPLGSSLIKPVRDVLLQVQTITRARPSFDPSTSTRKFTIESSDYVINIFLSEVIRRAS 120 TP L V DVL ++ A P+F P+ STR+F I SD+ +++ + V+ RA Sbjct: 61 EPTPRAEVLKDAVHDVLRRIDGSIAALPAFVPAESTREFRISVSDFTLSVLIPRVLARAH 120 Query: 121 VLAPMMEFDLRSISPQTPNNLENGDAEILIIPHYATVQGHPKEELFEDKFSCLVCANGVF 180 + F L +L+ + ++L++P HP EE+F ++ C+V + Sbjct: 121 AEGKHIRFALMPQVQDPTRSLDRAEVDLLVLPQEFCTPDHPAEEVFRERHVCVVWRDSAL 180 Query: 181 KDKEELTTDEYFDANHISVEWGGGRRITFDTRVISASNKHRKQTIVAPSFSLVPELLVGT 240 + ELT + Y + H+ + G + + + R+ + + SF+ L+ GT Sbjct: 181 A-QGELTLERYMASGHVVMVPPGANASSVEAWMARKLGFARRVEVTSFSFASALALVQGT 239 Query: 241 NMIATLPHRLATKIAKQFSLKLLPCPADIPHFTENVQWHKFRDNDPSVLWLRQLFKETA 299 + IAT+ RLA +A Q+ + + P + + +QWH++R NDP + WLR++F E+A Sbjct: 240 DRIATVHARLAQLLAPQWPVVIKESPLSLGEMRQMMQWHRYRSNDPGIQWLRRVFLESA 298 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 86/300 (28%), Positives = 136/300 (45%), Gaps = 14/300 (4%) Query: 3 FNKLDLNQLVVLDALLSTLSVSKSAERLFLSQPATSCALARLREYFEDDLLVSVGKTNAL 62 FN +DLN L V A+ S++ + RL LSQPA S AL RLR+ F+D L + + Sbjct: 4 FNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQP 63 Query: 63 TPLGSSLIKPVRDVLLQVQTITRARPSFDPSTSTRKFTIESSDYVINIFLSEVIRRASVL 122 TP L KP+ L VQ R FDP+ STR F +D +FL ++ + Sbjct: 64 TPAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTAQ 123 Query: 123 APMMEFDLRSISP-QTPNNLENGDAEILI--IPHYATVQGHPKEELFEDKFSCLVCANGV 179 AP + + + P L G + +P V H E LF + + CL+ Sbjct: 124 APDVRLQVEQVPPAHLEEALRTGQLDFAFGNLPALKPVTCH--ELLFRETYVCLMRQRDG 181 Query: 180 FKDKEELTTDEYFDANHISVEWGGGRRITFDTRVISASNKHRKQTIVAPSFSLVPELLVG 239 + +L DE+ +H+ VE + R+ ++ P F+++P +L Sbjct: 182 LPQRAQLELDEFLAMSHVLVESAESSHHQVENS-FQKLGVQRRISLSIPHFTVLPRILGK 240 Query: 240 TNMIATLPHRLATKIAKQ-----FSLKLLPCPADIPHFTENVQWHKFRDNDPSVLWLRQL 294 ++++AT+P R+A + S +L P +IP + WH+ D+D WLRQ+ Sbjct: 241 SDLVATVPARIARLFHSEHPGVFVSYQL---PVNIPVVEVTLHWHQSFDHDAGNSWLRQI 297 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 118 bits (295), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 87/302 (28%), Positives = 141/302 (46%), Gaps = 18/302 (5%) Query: 6 LDLNQLVVLDALLSTLSVSKSAERLFLSQPATSCALARLREYFEDDLLVSVGKTNALTPL 65 +DLN LVV + +S A RL LSQPA S ALARLR FED+L V + TP Sbjct: 9 IDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQPTPF 68 Query: 66 GSSLIKPVRDVLLQVQTITRARPSFDPSTSTRKFTIESSDYVINIFLSEVIRRASVLAPM 125 L +PV L QV + F P TS R+FTI +D F+ +I + AP Sbjct: 69 AEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARCAPG 128 Query: 126 MEFD-LRSISPQTPNNLENGDAEILIIPHYATVQGHPKEELFEDKF-SCLVCANGVFK-D 182 + +R+ + + +E+G ++ I + + LF ++ S + + K Sbjct: 129 VSISTVRAGAIDLKSEMESGRVDLAIGAFDNLSEALYQRRLFRQEYVSMFRIGHALDKPG 188 Query: 183 KEELTTDEYFDANHISVEWGGGRRITFDTRVISASNKHRKQTIVAPS-------FSLVPE 235 + E++ E+ A H+ V + +D R+ N++ ++ + PS F+ VP Sbjct: 189 RGEVSLKEFLAAEHLMV---SSQESPYD-RI----NQNLEKAGILPSVRFRVPHFTAVPY 240 Query: 236 LLVGTNMIATLPHRLATKIAKQFSLKLLPCPADIPHFTENVQWHKFRDNDPSVLWLRQLF 295 ++ T ++ T+P +LA A F L+ + P +P N+ WH+ + D +WLR Sbjct: 241 IVSSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWLRGFI 300 Query: 296 KE 297 E Sbjct: 301 SE 302 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 105 bits (262), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 80/292 (27%), Positives = 137/292 (46%), Gaps = 6/292 (2%) Query: 6 LDLNQLVVLDALLSTLSVSKSAERLFLSQPATSCALARLREYFEDDLLVSVGKTNALTPL 65 DLN L + A+ SVS +A +L +SQPA S AL +LR D L V G+ TP Sbjct: 4 FDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTPR 63 Query: 66 GSSLIKPVRDVLLQVQTITRARPSFDPSTSTRKFTIESSDYVINIFLSEVIRRASVLAPM 125 SLI P R++L +V + F P+T+T++F + SD + L ++ R AP Sbjct: 64 AVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAPH 123 Query: 126 MEFDLRSISP-QTPNNLENGDAEILIIPHYATVQGHP--KEELFEDKFSCLVCANGVFKD 182 +++P + LE+G+ + L I ++ ++ ++ LF F CL+ A G Sbjct: 124 ASVVTVTMAPAELVAALESGEVD-LAIGYFPDLRNRNFFQQRLFSQDFVCLLRA-GHPLP 181 Query: 183 KEELTTDEYFDANHISVEWGGGRRITFDTRVISASNKHRKQTIVAPSFSLVPELLVGTNM 242 ++++ + Y A HI V+ GR R + R+ + F +P L+ +++ Sbjct: 182 AQKISLEHYQAAGHIVVK-AEGRDQPMCERFLLRRKIRRRVVLSTAHFMAIPLLVATSDL 240 Query: 243 IATLPHRLATKIAKQFSLKLLPCPADIPHFTENVQWHKFRDNDPSVLWLRQL 294 +AT+P + + ++L+ ++P WH+ D WLR L Sbjct: 241 VATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWLRGL 292 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 102 bits (253), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 87/325 (26%), Positives = 148/325 (45%), Gaps = 20/325 (6%) Query: 1 MRFNKLDLNQLVVLDALLSTLSVSKSAERLFLSQPATSCALARLREYFEDDLLVSVGKTN 60 M F LDLN L V DA+++ +++++A L ++QPA S AL RLR+ DDL++ Sbjct: 1 MSFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGV 60 Query: 61 ALTPLGSSLIKPVRDVLLQVQTITRARPSFDPSTSTRKFTIESSDYVINIFLSEVIRRAS 120 TP L VR L +++ + A SFD S + F + D ++L ++R Sbjct: 61 KPTPRAEELWPTVRRALSELEAVI-APESFDISRAQNTFRMAMVDATAALWLPSLVRTIM 119 Query: 121 VLAPMMEFDLRSISPQTPNN-LENGDAEIL------IIPHYATVQGHPKEE-----LFED 168 AP ++ + ++ + P L GD ++ + A QG K + L+ Sbjct: 120 RDAPRIKIRMMPLTTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTG 179 Query: 169 KFSCLVCANGVFKDKEELTTDEYFDANHISVEWGGGRRITFDTRVISASNKHRKQTIVAP 228 ++ C++ + + LT D Y +A+H+ V G D V++ N+ RK + Sbjct: 180 QYVCVMHKSHPLA-GQPLTLDSYCNADHLLVSLSGKPHAVIDD-VLAGMNRERKILLTVN 237 Query: 229 SFSLVPELLVGTNMIATLPHRL--ATKIAKQFSLKLLPCPADIPHFTENVQWHKFRDNDP 286 F ++ + +I LP L AT +A+ +K LP P ++ WH+ +P Sbjct: 238 QFFTAGRIVASSELITVLPRHLVAATGMAEALVVKELPF--QTPEEHVDMLWHERDARNP 295 Query: 287 SVLWLRQLFKETAATIIGRDINSEK 311 + WLR T GR IN ++ Sbjct: 296 AHKWLRAHLSATTHDEFGR-INMKR 319 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 0.319 0.134 0.384 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: 898,570 Number of extensions: 34115 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 125 Number of HSP's successfully gapped: 8 Length of query: 332 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 246 Effective length of database: 1,212,660 Effective search space: 298314360 Effective search space used: 298314360 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: 131 (55.1 bits)