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= 0013.0171.p (308 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 300 1e-82 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 120 2e-28 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 108 5e-25 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 100 1e-22 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 96 4e-21 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 300 bits (767), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 140/305 (45%), Positives = 208/305 (68%), Gaps = 1/305 (0%) Query: 4 FDWDDFRVFLAAARTQSGLEASHLLKMSQSTVSRRLGKLEKDVGSKLFDRSAQGLRLTTA 63 DWD+ R+FL R+Q ++A+ L + STVSRR+ + E+ VGS+LFDR+ G +LT Sbjct: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 Query: 64 GHHLFEHAEKLESTLSAIESQVSQGDRMELSGEIRIGATEAFGTFFLMPHLSHFCQRHQA 123 G+ L E+AE++ESTL A ++ G +LSG++R+GATE FGTF L PH++HFC R+ Sbjct: 62 GYRLVEYAEQVESTLYAATEELG-GHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 120 Query: 124 VSMDVLPLPRSLNISKREVDTSVALDRPRTNSFVTRKLGEYRLLPYATPEYLERHPPIRR 183 +++D+LP+PR +N+SK E D SV+++RP + ++V KL +Y L YA+ +YL +HPPI Sbjct: 121 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHT 180 Query: 184 VEDFQDHRWIDFVDDLLFSPQQFHLHKWSSSLQRCLRSTSVVAQAQAVKAGLGIAIIPCF 243 ++D H +I ++DDL+FS + + + R RSTSVVAQ A AG +AI+PCF Sbjct: 181 MDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCF 240 Query: 244 LGSVTDNLVPILPDKVDITRSLWLVAPPERRELARIRALWDYVRDIAELNADYLDGKTTE 303 L ++ L P+LP ++ ITRS WLVA E+R +AR+ ALW Y+R+ ELN D+L G++ Sbjct: 241 LAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVELNRDFLMGQSRR 300 Query: 304 MSWLK 308 M WL+ Sbjct: 301 MRWLE 305 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 120 bits (300), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 142/294 (48%), Gaps = 11/294 (3%) Query: 1 VSNFDWDDFRVFLAAARTQSGLEASHLLKMSQSTVSRRLGKLEKDVGSKLFDRSAQGLRL 60 ++ WDD R FL +R S ++ +LK+ STV+R +G LEK + KLFDR A+G L Sbjct: 20 MNTLQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVL 79 Query: 61 TTAGHHLFEHAEKLESTLSAIESQVSQGDRMELSGEIRIGATEAFGTFFLMPHLSHFCQR 120 TT G L + AE+LE + ++ LSG++R+ A + FL+P L F ++ Sbjct: 80 TTEGAELSKQAEQLEVEMHSLWRAALANT--TLSGKVRVSAPPILMSDFLVPRLPAFQEK 137 Query: 121 HQAVSMDVLPLPRSLNISKREVDTSVALDRPRTNSFVTRKLGEYRLLPYATPEYLERHPP 180 + + ++V+ R +++++ E D ++ + P + V R L Y P +LER Sbjct: 138 YPDIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLERP-- 195 Query: 181 IRRVEDFQDHRWIDFVDDLLFSPQQFHLHKWSSSLQRCLRSTSVVAQAQAVKAGLGIAII 240 + R +D Q+ L + LR+ + A A +G+G+A++ Sbjct: 196 -------ESERSFIGLDQESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALL 248 Query: 241 PCFLGSVTDNLVPILPDKVDITRSLWLVAPPERRELARIRALWDYVRDIAELNA 294 P F+ + LV I + L+LV + R RIRA D++ D+ + A Sbjct: 249 PRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLIDLIQSQA 302 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 108 bits (270), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 80/293 (27%), Positives = 144/293 (49%), Gaps = 29/293 (9%) Query: 5 DWDDFRVFLAAARTQSGLEASHLLKMSQSTVSRRLGKLEKDVGSKLFDRSAQGLRLTTAG 64 DW+ R F A S A+ +L ++ +T+ RRL +LE+ + + LF R A + LT G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 65 HHLFEHAEKLESTLSAIESQVSQGDRMELSGEIRIGATEAFGTFFLMPHLSHFCQRHQAV 124 + A ++ + ++ G+ + + G++R+ T+A GT FL P L Q+ A+ Sbjct: 64 ESVLAAARAMQDQTRQLARTLA-GEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPAL 122 Query: 125 SMDVLPLPRSLNISKREVDTSVALDRPRTNSFVTRKLGEYRLLPYATPEYLE--RH---- 178 +++ ++L++++RE D ++ RP+ + R+LG R T + + RH Sbjct: 123 DIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRGS 182 Query: 179 -PPIR---RVEDFQDHRWIDFVDDLLFSPQQFHLHKWSSSLQRCLRSTSVVAQAQAVKAG 234 P I V D + RW+ D +P + LRS S+VAQ A +AG Sbjct: 183 APVIGYDDSVPDIPETRWLAAHAD--GNPVR-------------LRSASLVAQCMAARAG 227 Query: 235 LGIAIIPCFLGSVTDNLVPILPDKVDITRSLWLVAPPERRELARIRALWDYVR 287 +G+A++P +L + V P + R LW V + + L R+RA+ ++++ Sbjct: 228 VGLALLPSYLLAPELQTVESTP---QLVRELWAVFHRDLKALPRLRAVLEWLQ 277 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 76/264 (28%), Positives = 125/264 (47%), Gaps = 3/264 (1%) Query: 5 DWDDFRVFLAAARTQSGLEASHLLKMSQSTVSRRLGKLEKDVGSKLFDRSAQGLRLTTAG 64 +W+ +R FL T S A + ++Q TV R + LE +G KLF RS G T A Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 65 HHLFEHAEKLESTLSAIE-SQVSQGDRMELSGEIRIGATEAFGTFFLMPHLSHFCQRHQA 123 L +A + + +A+ + SQG E+ G +R+ A+E L P L+ RH Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGK--EVRGTVRLTASEVISVEVLPPILAALRHRHPE 124 Query: 124 VSMDVLPLPRSLNISKREVDTSVALDRPRTNSFVTRKLGEYRLLPYATPEYLERHPPIRR 183 + ++++ ++ ++ +RE D +V + RP ++ V ++LG L +A YL H + Sbjct: 125 LRVELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKS 184 Query: 184 VEDFQDHRWIDFVDDLLFSPQQFHLHKWSSSLQRCLRSTSVVAQAQAVKAGLGIAIIPCF 243 V+ DH I F + + W S LR+ S +AQ A++AG GI I Sbjct: 185 VDALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQVA 244 Query: 244 LGSVTDNLVPILPDKVDITRSLWL 267 L + LV +LP + + W+ Sbjct: 245 LAARDVALVRLLPRQFALKMETWV 268 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 95.9 bits (237), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 73/283 (25%), Positives = 132/283 (46%), Gaps = 2/283 (0%) Query: 4 FDWDDFRVFLAAARTQSGLEASHLLKMSQSTVSRRLGKLEKDVGSKLFDRSAQGLRLTTA 63 DWD+ R+FLA R + A+ L++ Q+TV RRL LE+ +G++LF R+ G T A Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 64 GHHLFEHAEKLESTLSAIESQVSQGDRMELSGEIRIGATEAFGTFFLMPHLSHFCQRHQA 123 G A+++E ++ Q+ QG L G +R+ AT+ FL+P L Q H Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQM-QGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPH 119 Query: 124 VSMDVLPLPRSLNISKREVDTSVALDRPRTNSFVTRKLGEYRLLPYATPEYLERHPPIRR 183 + + + + N++KRE D +V RP + R L YA+ Y+++ Sbjct: 120 IRVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEP 179 Query: 184 VEDFQDHRWIDFVDDLLFSPQQFHLHKWSSSLQRCLRSTSVVAQAQAVKAGLGIAIIPCF 243 + H + + + + + + + Q + ++ + ++AG G+ +P Sbjct: 180 GTGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTH 239 Query: 244 LGSVTDNLVPILPDKVDITRSLWLVAPPERRELARIRALWDYV 286 +G LV + P + + +WLV + AR+RA+ D + Sbjct: 240 VGDKASGLVRVWPQR-ETPYDMWLVLHSDLNRTARVRAVADAI 281 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 0.135 0.405 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: 944,189 Number of extensions: 36449 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 48 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 48 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 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)