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= 0001.4322.p (304 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... 490 e-140 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 132 4e-32 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 126 2e-30 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 125 3e-30 gi|300309871|ref|YP_003773963.1| transcription regulator protein... 121 6e-29 >gi|300310335|ref|YP_003774427.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 490 bits (1261), Expect = e-140, Method: Compositional matrix adjust. Identities = 235/302 (77%), Positives = 275/302 (91%) Query: 1 MRFNKLDLNLLVALDALLTEMSISRAAEKMNLSQSAMSNALARLRDYFDDELLVLVGRRL 60 MRFNKLDLNLLVALDALLTEMSISRAAEK++LSQSAMSNALARLR+YFDDELL+ VGRR+ Sbjct: 1 MRFNKLDLNLLVALDALLTEMSISRAAEKIHLSQSAMSNALARLREYFDDELLIQVGRRM 60 Query: 61 EPTPRAEILKDAVHDVLRRIEGSIEAKPAFVPAESHREFRISVSDFTLTVLIPHVLARAR 120 EPTPRAE+LKDAVHDVLRRI+GSI A PAFVPAES REFRISVSDFTL+VLIP VLARA Sbjct: 61 EPTPRAEVLKDAVHDVLRRIDGSIAALPAFVPAESTREFRISVSDFTLSVLIPRVLARAH 120 Query: 121 AEAPHIRFALLPQVQDPTHALDRAEVDLLVMPKDFCTPDHPSEELFTERYVCAVWRESEL 180 AE HIRFAL+PQVQDPT +LDRAEVDLLV+P++FCTPDHP+EE+F ER+VC VWR+S L Sbjct: 121 AEGKHIRFALMPQVQDPTRSLDRAEVDLLVLPQEFCTPDHPAEEVFRERHVCVVWRDSAL 180 Query: 181 AQGELSLERYMNAGHVVMVPPGPHSTSLEARMTAQLGFVRRVEVTSFNFSAMLALVQGTD 240 AQGEL+LERYM +GHVVMVPPG +++S+EA M +LGF RRVEVTSF+F++ LALVQGTD Sbjct: 181 AQGELTLERYMASGHVVMVPPGANASSVEAWMARKLGFARRVEVTSFSFASALALVQGTD 240 Query: 241 RIATIFSRLARMLASCFPVELRDSPLPLGEMHQTMQWHRYRTNDPGIEWLRALFLKSAKE 300 RIAT+ +RLA++LA +PV +++SPL LGEM Q MQWHRYR+NDPGI+WLR +FL+SA+E Sbjct: 241 RIATVHARLAQLLAPQWPVVIKESPLSLGEMRQMMQWHRYRSNDPGIQWLRRVFLESAQE 300 Query: 301 MD 302 MD Sbjct: 301 MD 302 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 132 bits (332), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 92/292 (31%), Positives = 143/292 (48%), Gaps = 5/292 (1%) Query: 5 KLDLNLLVALDALLTEMSISRAAEKMNLSQSAMSNALARLRDYFDDELLVLVGRRLEPTP 64 DLNLL A+ E S+S AA K+++SQ A+S AL +LR D L V GR ++PTP Sbjct: 3 NFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQPTP 62 Query: 65 RAEILKDAVHDVLRRIEGSIEAKPAFVPAESHREFRISVSDFTLTVLIPHVLARARAEAP 124 RA L ++L+R+ + + F PA + + F +++SD +L+P +L R R EAP Sbjct: 63 RAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDEAP 122 Query: 125 HIRFALLPQV-QDPTHALDRAEVDLLV--MPKDFCTPDHPSEELFTERYVCAVWRESELA 181 H + + AL+ EVDL + P D + + LF++ +VC + L Sbjct: 123 HASVVTVTMAPAELVAALESGEVDLAIGYFP-DLRNRNFFQQRLFSQDFVCLLRAGHPLP 181 Query: 182 QGELSLERYMNAGHVVMVPPGPHSTSLEARMTAQLGFVRRVEVTSFNFSAMLALVQGTDR 241 ++SLE Y AGH+V+ G E R + RRV +++ +F A+ LV +D Sbjct: 182 AQKISLEHYQAAGHIVVKAEGRDQPMCE-RFLLRRKIRRRVVLSTAHFMAIPLLVATSDL 240 Query: 242 IATIFSRLARMLASCFPVELRDSPLPLGEMHQTMQWHRYRTNDPGIEWLRAL 293 +AT+ + + L + + + WHR D G WLR L Sbjct: 241 VATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWLRGL 292 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 126 bits (317), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 90/301 (29%), Positives = 150/301 (49%), Gaps = 13/301 (4%) Query: 3 FNKLDLNLLVALDALLTEMSISRAAEKMNLSQSAMSNALARLRDYFDDELLVLVGRRLEP 62 FN +DLNLL A+ E S++ A +++LSQ A+S AL RLR FDD L + ++P Sbjct: 4 FNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQP 63 Query: 63 TPRAEILKDAVHDVLRRIEGSIEAKPAFVPAESHREFRISVSDFTLTVLIPHVLARARAE 122 TP A L ++ L+ ++ ++ F PA+S R FR S++D + +P + A+ Sbjct: 64 TPAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTAQ 123 Query: 123 APHIRFALLPQVQD--PTH---ALDRAEVDLLVMPKDFCTPDHPSEELFTERYVCAVWRE 177 AP +R QV+ P H AL ++D P E LF E YVC + + Sbjct: 124 APDVRL----QVEQVPPAHLEEALRTGQLDFAFGNLPALKPVTCHELLFRETYVCLMRQR 179 Query: 178 SELAQ-GELSLERYMNAGHVVMVPPGPHSTSLEARMTAQLGFVRRVEVTSFNFSAMLALV 236 L Q +L L+ ++ HV++ +E +LG RR+ ++ +F+ + ++ Sbjct: 180 DGLPQRAQLELDEFLAMSHVLVESAESSHHQVENSFQ-KLGVQRRISLSIPHFTVLPRIL 238 Query: 237 QGTDRIATIFSRLARMLASCFPVELRDSPLPLG--EMHQTMQWHRYRTNDPGIEWLRALF 294 +D +AT+ +R+AR+ S P LP+ + T+ WH+ +D G WLR + Sbjct: 239 GKSDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLRQIV 298 Query: 295 L 295 + Sbjct: 299 I 299 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 125 bits (315), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 90/305 (29%), Positives = 150/305 (49%), Gaps = 16/305 (5%) Query: 1 MRFNKLDLNLLVALDALLTEMSISRAAEKMNLSQSAMSNALARLRDYFDDELLVLVGRRL 60 M F LDLNLL DA++TE +++RAA + ++Q A+SNAL RLRD +D+L++ + Sbjct: 1 MSFLTLDLNLLRVFDAVMTEQNLTRAANLLAMTQPAVSNALRRLRDTLNDDLVIRTAHGV 60 Query: 61 EPTPRAEILKDAVHDVLRRIEGSIEAKPAFVPAESHREFRISVSDFTLTVLIPHVLARAR 120 +PTPRAE L V L +E I A +F + + FR+++ D T + +P ++ Sbjct: 61 KPTPRAEELWPTVRRALSELEAVI-APESFDISRAQNTFRMAMVDATAALWLPSLVRTIM 119 Query: 121 AEAPHIRFALLP-QVQDPTHALDRAEVDLLVM-----------PKDFCTPDHPSEELFTE 168 +AP I+ ++P +DP L R ++DL V + L+T Sbjct: 120 RDAPRIKIRMMPLTTRDPRAMLLRGDIDLAVGFFPGVTAQLADGQGMAKSQISHARLYTG 179 Query: 169 RYVCAVWRESELAQGELSLERYMNAGHVVMVPPG-PHSTSLEARMTAQLGFVRRVEVTSF 227 +YVC + + LA L+L+ Y NA H+++ G PH+ + + A + R++ +T Sbjct: 180 QYVCVMHKSHPLAGQPLTLDSYCNADHLLVSLSGKPHAVIDD--VLAGMNRERKILLTVN 237 Query: 228 NFSAMLALVQGTDRIATIFSRLARMLASCFPVELRDSPLPLGEMHQTMQWHRYRTNDPGI 287 F +V ++ I + L + +++ P E H M WH +P Sbjct: 238 QFFTAGRIVASSELITVLPRHLVAATGMAEALVVKELPFQTPEEHVDMLWHERDARNPAH 297 Query: 288 EWLRA 292 +WLRA Sbjct: 298 KWLRA 302 >gi|300309871|ref|YP_003773963.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 121 bits (304), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 96/293 (32%), Positives = 143/293 (48%), Gaps = 9/293 (3%) Query: 7 DLNLLVALDALLTEMSISRAAEKMNLSQSAMSNALARLRDYFDDELLVLVGRRLEPTPRA 66 DLNLL+ALDAL+ E S++ AA ++ LS SAMS L RLR+ D LLV GR++ TP A Sbjct: 23 DLNLLIALDALIAEASVAGAARRLGLSASAMSRTLTRLREATGDPLLVRAGRQMVLTPCA 82 Query: 67 EILKDAVHDVLRRIEGSIE-AKPAFVPAESHREFRISVSDFTLTVLIPHVLARARAEAPH 125 E L++ V +V+ + + P + R+F I +D + L ++ AEAP Sbjct: 83 EALRERVRNVVHEARSVLRPSVPELDLSRLERDFSIRANDGFIEALGAQLIEAVTAEAPL 142 Query: 126 IRFALLPQVQDPTHALDRAEVDLLVMPKDFCTPDHPSEELFTERYVCAVWRESELAQ-GE 184 +R +P+V+ L DL + P+ + LF +R+V AV LA Sbjct: 143 VRLRFVPKVERGPVPLREGSADLEIGVASEMGPEVRLQTLFRDRFVGAVRTGHPLAALRR 202 Query: 185 LSLERYMNAGHVVMVPPGPHSTSLEARMTAQLGFVRRVEVTSFNFSAMLALVQGTDRI-- 242 +S ERY HV P G + L + A+ G VRRV +F LA+V+ +D + Sbjct: 203 VSAERYCAFDHVSASPRGVAAGPLHEALAAR-GLVRRVVAVVPSFPGALAVVRTSDLVTM 261 Query: 243 --ATIFSRLA--RMLASCFPVELRDSPLPLGEMHQTMQWHRYRTNDPGIEWLR 291 + +R R S + + + PLPL + ++ WH DP WLR Sbjct: 262 VPGSFLTRAGAERKDGSAAGIHVFELPLPLEPIIVSLMWHPRVELDPAHRWLR 314 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 0.323 0.135 0.394 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: 868,486 Number of extensions: 34534 Number of successful extensions: 141 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 132 Number of HSP's successfully gapped: 8 Length of query: 304 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 219 Effective length of database: 1,217,395 Effective search space: 266609505 Effective search space used: 266609505 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)