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= 0066.0125.p (292 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312397|ref|YP_003776489.1| cys regulon transcription regul... 82 5e-17 gi|300310987|ref|YP_003775079.1| cys regulon transcription regul... 82 7e-17 gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 78 8e-16 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 78 1e-15 gi|300310617|ref|YP_003774709.1| LysR family transcription regul... 77 1e-15 >gi|300312397|ref|YP_003776489.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 82.0 bits (201), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/261 (26%), Positives = 123/261 (47%), Gaps = 14/261 (5%) Query: 6 HQVRLFLEICRCP-TLSEAANLLGMSQSSLSRTLAGLEVEVGNQLFDRNGRGIK-LTEAG 63 HQ R E R L+EAA L SQ +S+ + LE E+G +F R+G+ I+ LTE G Sbjct: 4 HQFRFVREAVRQNFNLTEAAKALYTSQPGVSKAIIELEEELGVDIFTRHGKRIRGLTEPG 63 Query: 64 IRLRDAARPAYDAIDDVVRQLRNEQGRTTGSIKVATIHTLSYYFMGNVVASFMSQRPAVN 123 + + +D + R + +GS +AT HT + Y + VV +F + P V+ Sbjct: 64 RAVLRSVELIMQEVDGLKRIGKEFAAHDSGSFTIATTHTQARYALPKVVQAFTQKYPKVH 123 Query: 124 ISVVGRSSPEVVDLVEAGKAEIGFVYDTAVATDAVDITPLFEETMVLVVQASSPLVNKAS 183 +S++ + ++ ++V +A+I + + + + P ++ V+VV PL+ S Sbjct: 124 LSLLQGNPKQITEMVRNDQADIAIATEALASGEGLVSLPCYQWEHVVVVPPDHPLLQSKS 183 Query: 184 VDLAAQEI---PLVAFPPHYALRRMLDRHGFT-----PKISAEVETVDAMLKLVSLTSAC 235 + L +EI PL+ + ++ R +D H F+ P + E D + V L Sbjct: 184 LTL--EEIAANPLITYDSAFSGRSKID-HAFSLRQLKPDVVLEAIDADVIKTYVELGMGV 240 Query: 236 CVLPDRISAELLHDYGLVRVP 256 ++ I+ + D GL +P Sbjct: 241 GIIAG-IAFDAERDRGLRAIP 260 >gi|300310987|ref|YP_003775079.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 81.6 bits (200), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 112/234 (47%), Gaps = 9/234 (3%) Query: 6 HQVRLFLEICRCP-TLSEAANLLGMSQSSLSRTLAGLEVEVGNQLFDRNGRGIK-LTEAG 63 Q+R E RC L+E AN+L SQ +SR + LE E+G ++F+RNG+ + LTE G Sbjct: 4 QQLRSIREAARCGFNLTEVANVLFTSQPGVSRQIRELEEELGVEIFERNGKRLTGLTEPG 63 Query: 64 IRLRDAARPAYDAIDDVVRQLRNEQGRTTGSIKVATIHTLSYYFMGNVVASFMSQRPAVN 123 + +++ R + G +G++ +AT HT + Y + VV +F P V Sbjct: 64 KGILGIVERLLLEAENLRRASKEYAGEQSGTLSIATTHTQARYVLPRVVQAFRDAFPQVR 123 Query: 124 ISVVGRSSPE-VVDLVEAGKAEIGFVYDTAVATDAVDITPLFEETMVLVVQASSPLVNKA 182 I++ +S+PE + + V +GKA+IG + + P + + V+VV PL+ Sbjct: 124 IALQ-QSAPEHIAEWVISGKADIGIATEGLSQFKELVSFPCYTWSHVIVVPKGHPLLGLE 182 Query: 183 SVDLA-AQEIPLVAFPPHYALRRMLD----RHGFTPKISAEVETVDAMLKLVSL 231 V L PL+ + + R +D + G P I D + + VSL Sbjct: 183 QVSLEDLGTWPLITYDVGFTGRGHIDEAFRQAGIEPDIVLTAMDSDVIQQYVSL 236 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 78.2 bits (191), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 62/255 (24%), Positives = 116/255 (45%), Gaps = 11/255 (4%) Query: 7 QVRLFLEICRCPTLSEAANLLGMSQSSLSRTLAGLEVEVGNQLFDRNGRGIKLTEAGIRL 66 Q+R F+ + L+ AA+ L ++Q ++S + GL+ +G QLF+R+ G+ LT G +L Sbjct: 5 QLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAEGNKL 64 Query: 67 RDAARPAYDAIDDVVRQ---LRNEQGRTTGSIKVATIHTLSYYFMGNVVASFMSQRPAVN 123 A + ++ R R+ G +GS+ + TI + +G + + + P ++ Sbjct: 65 LPLAERVLADVQELRRHAADFRSSTGELSGSLAIGTILDPEFIRLGGFLKLLVERHPQLS 124 Query: 124 ISVVGRSSPEVVDLVEAGKAEIGFVYDT-AVATDAVDITPLFEETMVLVVQASSPLVNKA 182 + S V++ + AGK ++GF ++++T F ++ + + K Sbjct: 125 TQLAHHMSGSVLNEIRAGKLDVGFFLGAPGQGFQSMELTS-FTYKVIAPAGWKNRVSGKG 183 Query: 183 SVDLAAQEIPLVAFPPHYALRRMLDR----HGFTPKISAEVETVDAMLKLVSLTSACCVL 238 +L+ +P + PP A R+L R H P A V+ +ML LV + Sbjct: 184 WKELS--RLPWIWTPPESAHHRLLSRIFAQHQVKPHTVALVDQESSMLDLVKSGVGLSLA 241 Query: 239 PDRISAELLHDYGLV 253 I+ H +GLV Sbjct: 242 RASIALNQAHAHGLV 256 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/275 (24%), Positives = 128/275 (46%), Gaps = 15/275 (5%) Query: 8 VRLFLEICRCPTLSEAANLLGMSQSSLSRTLAGLEVEVGNQLFDRNGRGIKLTEAGIRLR 67 +R F E R + S AA+ L ++QS++S+ + LE EV L R+GR ++LT+ G + Sbjct: 6 LRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDTGRVVY 65 Query: 68 DAARPAYDAIDDVVRQLRNEQGRTTGSIKVATIHTLSYYFMGNVVASFMSQRPAVNISVV 127 + + A+ + ++R+ + +G +++ I + V+ +F + P + + + Sbjct: 66 EQGQQILAAMQRLHAEVRDTKALRSGRLEIG-IPPMINILCTPVLKAFRERHPDIAVVLQ 124 Query: 128 GRSSPEVVDLVEAGKAEIGFVYDTAVATDAVDITPLFEETMVLVVQASSPLVNKASVDLA 187 + P++ V G+ EIG A ++ P+ M V QA S N+AS+ A Sbjct: 125 EDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRASLRCA 184 Query: 188 AQE-IPLVAFPPHYALRRML----DRHGFTPKISAEVETVDAMLKLVSLTSACCVLPD-- 240 + +PLV + L R L HG P+I A+ D ++ + +LP+ Sbjct: 185 QLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALLPEPF 244 Query: 241 --RISAELLHDYGLVRVPLAGPALKRRIVAITRKG 273 R++ + L LV P ++ ++ +TR G Sbjct: 245 IHRLATQQLQAVRLVE-----PEVQWKVAYVTRGG 274 >gi|300310617|ref|YP_003774709.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 77.4 bits (189), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 64/271 (23%), Positives = 119/271 (43%), Gaps = 7/271 (2%) Query: 9 RLFLEICRCPTLSEAANLLGMSQSSLSRTLAGLEVEVGNQLFDRNGRGIKLTEAGIRLRD 68 +LF+E +LS+ A L G +Q +SR +A LE + G +LF RNGRG+ TE G+R+ Sbjct: 7 KLFVEALELGSLSKVALLHGTTQPHISRQIAELEQQYGGRLFQRNGRGVIPTELGMRVAP 66 Query: 69 AARPAYDAIDDVVRQLRNEQGRTTGSIKVATIHTLSYYFMGNVVASFMSQRPAVNISVVG 128 R + + +++ G G +++ + + ++ + + + P + +SV Sbjct: 67 RVRAWLATTEQLTNDIQSAAGTPIGRVRMGILPSAAHPLVSTLYQQIQQRYPQIQLSVRE 126 Query: 129 RSSPEVVDLVEAGKAEIGFVYDTAVATDAVDITPLFEETMVLVVQASSPLVNKASVDLAA 188 ++ ++ G ++ ++ D+ +T LV PLV +V A+ Sbjct: 127 GQGAQLDTWLDNGYVDLALLFRHGANAKNGDLYITKTDTY-LVGAPDDPLVQGPTVPFAS 185 Query: 189 -QEIPLVAFPPHYALRRMLDR----HGFTPKISAEVETVDAMLKLVSLTSACCVLPDRIS 243 +PLV+F + R LD HG T + E +++ LV +L Sbjct: 186 LDRLPLVSFCRPNSWRDRLDHLSIEHGITLNVQIEADSLSIQEHLVENGGVYALLGPYAI 245 Query: 244 AELLHDYGLVRVPLAGPALKRRI-VAITRKG 273 A + L + P + R I +A++R G Sbjct: 246 ASAVRKNRLKAARIIAPEITRHIALAMSRHG 276 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 0.135 0.378 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: 848,910 Number of extensions: 33059 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 227 Number of HSP's successfully gapped: 45 Length of query: 292 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 208 Effective length of database: 1,222,130 Effective search space: 254203040 Effective search space used: 254203040 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)