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= 0001.0687.p (302 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 484 e-138 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 129 2e-31 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 114 1e-26 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 105 6e-24 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 102 5e-23 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 484 bits (1247), Expect = e-138, Method: Compositional matrix adjust. Identities = 239/283 (84%), Positives = 255/283 (90%) Query: 20 LQADWESLRSFAAFIDAGSFSGAARALGVTHATIGRRLQQLETALQAPLFIRRADEVELT 79 + ADWESLRSFAAF+DAGSFSGAAR LGVTHATIGRRLQQLE L APLFIRRAD++ELT Sbjct: 1 MHADWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELT 60 Query: 80 RLGESVLNAAHAMQEQTRQLARTLAGEDLRLEGKLRLACTDAIGTLFLAPRLPALLEQWP 139 RLGESVL AA AMQ+QTRQLARTLAGEDLR+EGKLRLACTDA+GTLFLAPRLP+LL+QWP Sbjct: 61 RLGESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWP 120 Query: 140 ALDVEFALAHQTVSLARREADLALRFGKPQDGELIARALGAVRFYLCGTSANVAAWRRSR 199 ALD+E A+ HQT+SLARREADLALRF +PQDGELIAR LG VRFYLCGT+ VAAWR R Sbjct: 121 ALDIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQR 180 Query: 200 KSAPFVAYDDGVPDIPETRWIATHAAGNPVRFRSTSLVAQCMAARAGVGLALLPSYLLAP 259 SAP + YDD VPDIPETRW+A HA GNPVR RS SLVAQCMAARAGVGLALLPSYLLAP Sbjct: 181 GSAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLPSYLLAP 240 Query: 260 ELQTVESTPQLERELWAVFHRDLKALPRLRAVLGWLQDCCAEL 302 ELQTVESTPQL RELWAVFHRDLKALPRLRAVL WLQ CC EL Sbjct: 241 ELQTVESTPQLVRELWAVFHRDLKALPRLRAVLEWLQACCGEL 283 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 129 bits (325), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 89/278 (32%), Positives = 136/278 (48%), Gaps = 10/278 (3%) Query: 24 WESLRSFAAFIDAGSFSGAARALGVTHATIGRRLQQLETALQAPLFIRRADEVELTRLGE 83 W+ +R F GS S +AR L V H+T+ R + LE L+ LF R A LT G Sbjct: 25 WDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTEGA 84 Query: 84 SVLNAAHAMQEQTRQLARTLAGEDLRLEGKLRLACTDAIGTLFLAPRLPALLEQWPALDV 143 + A ++ + L R A + L GK+R++ + + FL PRLPA E++P +++ Sbjct: 85 ELSKQAEQLEVEMHSLWRA-ALANTTLSGKVRVSAPPILMSDFLVPRLPAFQEKYPDIEL 143 Query: 144 EFALAHQTVSLARREADLALRFGKPQDGELIARALGAVRFYLCGTSANVAAW-RRSRKSA 202 E + V L R EAD+ALR G+P L+AR L V + + G + AW R Sbjct: 144 EVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYG----IPAWLERPESER 199 Query: 203 PFVAYDDGVPDIPETRWIATHAAGNPVRFRSTSLVAQCMAARAGVGLALLPSYLLAPELQ 262 F+ D P + W+ + R+ + A C AA +G+GLALLP +++A + + Sbjct: 200 SFIGLDQESP-CRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALLPRFMVAEDTR 258 Query: 263 TV---ESTPQLERELWAVFHRDLKALPRLRAVLGWLQD 297 V L+ V H D++ PR+RA +L D Sbjct: 259 LVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLID 296 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/285 (27%), Positives = 131/285 (45%), Gaps = 8/285 (2%) Query: 23 DWESLRSFAAFIDAGSFSGAARALGVTHATIGRRLQQLETALQAPLFIRRADEVELTRLG 82 DW++LR F + AA+ LG+ H+T+ RR+++ E + + LF R +LT G Sbjct: 3 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 62 Query: 83 ESVLNAAHAMQEQTRQLARTLAGEDLRLEGKLRLACTDAIGTLFLAPRLPALLEQWPALD 142 ++ A ++ L G + +L G++RL T+ GT LAP + + P + Sbjct: 63 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 122 Query: 143 VEFALAHQTVSLARREADLALRFGKPQDGELIARALGAVRFYLCGTSANVAAW-----RR 197 V+ + V+L++ EAD+++ +P G + L L + +A Sbjct: 123 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTMD 182 Query: 198 SRKSAPFVAYDDGVPDIPETRWIATHAAGNPVRFRSTSLVAQCMAARAGVGLALLPSYLL 257 F+ Y D + E R+ T A FRSTS+VAQ AA AG LA+LP +L Sbjct: 183 DLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFLA 242 Query: 258 APELQTVESTPQ---LERELWAVFHRDLKALPRLRAVLGWLQDCC 299 + PQ + R W V + + + R+ A+ +L++C Sbjct: 243 QQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECV 287 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 105 bits (261), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 81/277 (29%), Positives = 132/277 (47%), Gaps = 10/277 (3%) Query: 20 LQADWESLRSFAAFIDAGSFSGAARALGVTHATIGRRLQQLETALQAPLFIRRADEVELT 79 ++ +WE RSF ++ GS S A R +G+T T+GR ++ LE+ L LF+R D T Sbjct: 4 IEPNWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPT 63 Query: 80 RLGESVLNAAHAMQEQTRQLARTLAGEDLRLEGKLRLACTDAIGTLFLAPRLPALLEQWP 139 + A A+ + L R + + + G +RL ++ I L P L AL + P Sbjct: 64 DAALELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHP 123 Query: 140 ALDVEFALAHQTVSLARREADLALRFGKPQDGELIARALGAVRFYLCGTSANVAAWRRSR 199 L VE L+++ L +READ+A+R +P L+A+ LG++ L + + + Sbjct: 124 ELRVELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTV-HGAP 182 Query: 200 KSAPFVAYDDGVPDIPETRWIATHAAGNP------VRFRSTSLVAQCMAARAGVGLALLP 253 KS +A + E+ ++ P + R+ S +AQ A RAG G+ + Sbjct: 183 KSVDALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQ 242 Query: 254 SYLLAPELQTVESTPQ---LERELWAVFHRDLKALPR 287 L A ++ V P+ L+ E W H DL+A PR Sbjct: 243 VALAARDVALVRLLPRQFALKMETWVAMHEDLRASPR 279 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 102 bits (253), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 126/276 (45%), Gaps = 7/276 (2%) Query: 23 DWESLRSFAAFIDAGSFSGAARALGVTHATIGRRLQQLETALQAPLFIRRADEVELTRLG 82 DW++ R F A G+ GAA L + AT+GRRL LE +L A LF+R + T G Sbjct: 2 DWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAG 61 Query: 83 ESVLNAAHAMQEQTRQLARTLAGEDLRLEGKLRLACTDAIGTLFLAPRLPALLEQWPALD 142 E AA M++ QL R + G D RL G +RLA TD FL P L L ++ P + Sbjct: 62 EMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHIR 121 Query: 143 VEFALAHQTVSLARREADLALRFGKPQDGELIARALGAVRFYLCGTSANVAAW-----RR 197 V + + Q +L +READ+A+R +P +LIAR L + + + + V Sbjct: 122 VVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPGT 181 Query: 198 SRKSAPFVAYDDGVPDIPETRWIATHAAGNPVRFRSTSLVAQCMAARAGVGLALLPSYLL 257 K V Y V + V ++ + +AG GL LP+++ Sbjct: 182 GLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHVG 241 Query: 258 APELQTVESTPQLER--ELWAVFHRDLKALPRLRAV 291 V PQ E ++W V H DL R+RAV Sbjct: 242 DKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAV 277 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 0.134 0.402 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: 996,007 Number of extensions: 42076 Number of successful extensions: 310 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 293 Number of HSP's successfully gapped: 45 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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 (22.0 bits) S2: 130 (54.7 bits)