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= 0001.4681.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 522 e-149 gi|300310159|ref|YP_003774251.1| LysR family transcription regul... 107 1e-24 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 95 8e-21 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 91 2e-19 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 89 4e-19 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 522 bits (1344), Expect = e-149, Method: Compositional matrix adjust. Identities = 259/293 (88%), Positives = 272/293 (92%) Query: 1 MDLTQLRAFISVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGLALFNRSAAGMVLTAE 60 MDLTQLRAFISVAHEGNLTRAA+KLHLTQPAVSLQIK LQESLGL LFNRSAAGMVLTAE Sbjct: 1 MDLTQLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAE 60 Query: 61 GNTLLPLAERILADVQELRRHATGLRSSENALSGSLAIGTILDPEFIRLGAFLKLLVERH 120 GN LLPLAER+LADVQELRRHA RSS LSGSLAIGTILDPEFIRLG FLKLLVERH Sbjct: 61 GNKLLPLAERVLADVQELRRHAADFRSSTGELSGSLAIGTILDPEFIRLGGFLKLLVERH 120 Query: 121 PQLSTQLSHHMSGSVLNEVRAGKLDVGFFLGDPGQGFHALTLTSFTYNVIAPAGWKNRVS 180 PQLSTQL+HHMSGSVLNE+RAGKLDVGFFLG PGQGF ++ LTSFTY VIAPAGWKNRVS Sbjct: 121 PQLSTQLAHHMSGSVLNEIRAGKLDVGFFLGAPGQGFQSMELTSFTYKVIAPAGWKNRVS 180 Query: 181 GKGWKALARLPWIWTPAESAHHRLLSRIFAQHQVKPQTVALVDQESSMLDLVKSGVGLSL 240 GKGWK L+RLPWIWTP ESAHHRLLSRIFAQHQVKP TVALVDQESSMLDLVKSGVGLSL Sbjct: 181 GKGWKELSRLPWIWTPPESAHHRLLSRIFAQHQVKPHTVALVDQESSMLDLVKSGVGLSL 240 Query: 241 ARESIALNQAHAHGLVIADAVELSTELSFISLEKRQHEDVIKAVFQLLQQVWQ 293 AR SIALNQAHAHGLVIADAVELST+LSFI LEK QH+ VI+AVF+LLQ++WQ Sbjct: 241 ARASIALNQAHAHGLVIADAVELSTQLSFICLEKWQHDPVIQAVFRLLQEIWQ 293 >gi|300310159|ref|YP_003774251.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 107 bits (267), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 93/285 (32%), Positives = 139/285 (48%), Gaps = 22/285 (7%) Query: 1 MDLTQLRAFISVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGLALFNRSAAGMVLTAE 60 M+ LR F+ V G++ AA +LH+ QPA+S QIK L+E LG ALF+RS G LTA Sbjct: 1 MEFRHLRYFLGVVEHGSVAEAARRLHIAQPALSRQIKYLEEELGAALFDRSVRGATLTAA 60 Query: 61 GNTLLPLAERILADVQELRRHATGLRSSENALSGSLAIGTILDPEF---IRLGAFLKLLV 117 G L+ A R+LAD+QE R+ R +E L G+L +G + P F R+ L+ Sbjct: 61 GQQLVIDARRMLADLQETRQRVA--RVAE-GLEGNLRMG--ITPNFGWHPRILGSLRHFH 115 Query: 118 ERHPQLSTQLSHHMSGSVLNEVRAGKLDVGF--FLGDPGQGFHA-----LTLTSFTYNVI 170 + PQ++ L +S L +R+G LD GF + P F A + + + Sbjct: 116 QAEPQIAVSLEPGLSARQLERIRSGDLDAGFLAWRYPPNDQFLAHEFGEIQVFECRLKLA 175 Query: 171 APAGWK-NRVSGKGWKALARLPWIWTPAESA--HHRLLSRIFAQHQVKPQTVALVDQESS 227 P + R + AL P IW PAE A + + L+ + P+ L S Sbjct: 176 LPRDSQLARQVPRHLAALHDEPAIWFPAEVAPGYDQFLNYQCQMVNLVPRKAQLASDVLS 235 Query: 228 MLDLVKSGVGLSLARESIALNQAHAHGLVIADAVELSTE--LSFI 270 +L LV +GVG ++ + A G+V+ D EL+ +SF+ Sbjct: 236 ILGLVAAGVGYAIVSDVSAYTC--PEGVVLVDHPELTLRHPVSFV 278 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 94.7 bits (234), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 83/252 (32%), Positives = 126/252 (50%), Gaps = 11/252 (4%) Query: 1 MDLTQLRAFISVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGLALFNRSAAGMVLTAE 60 M+L LR F++VA + + TRAAEK+ + QP +S+QIKAL+E +G ALF RS+ G+ L+ Sbjct: 1 MELRHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEV 60 Query: 61 GNTLLPLAERILADVQELRRHATGLRSSENALSGSLAIGTILDPEFIRLGAF-LKLLVER 119 G LLP A+R + ++ R A S E +G L +G F L + L+ ER Sbjct: 61 GRVLLPHAQRAVDQAEQALRAARQAASGE---TGLLRMGFTSSAVFHPLVSHALQQFRER 117 Query: 120 HPQLSTQLSHHMSGSVLNEVRAGKLDVGF--FLGDPGQGFHALTLTSFTYNVIAPAGWK- 176 H +L LS ++ +L ++ A +LD F + P + L + V P Sbjct: 118 HRKLEISLSEGITEQLLADIAASQLDAAFVRIVTTPSAALGVVELPAEKLKVALPRSHPL 177 Query: 177 NRVSGKGWKALARLPWIWTPAESAHHRLLSRIFAQHQV---KPQTVALVDQESSMLDLVK 233 R + LA +I P L IF+ Q PQ + L Q +S ++LV Sbjct: 178 ARRKSLRLQDLASENFIMVP-RGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVA 236 Query: 234 SGVGLSLARESI 245 SG+G+S+ E+I Sbjct: 237 SGLGISIVPEAI 248 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 117/249 (46%), Gaps = 13/249 (5%) Query: 1 MDLTQLRAFISVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGLALFNRSAAGMVLTAE 60 MD+ LR F + +RAA+ LH+TQ VS ++ L+E + L R + LT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 61 GNTLLPLAERILADVQELRRHATGLRSSENALSGSLAIGTILDPEFIRL--GAFLKLLVE 118 G + ++ILA +Q L HA +R ++ SG L IG P I + LK E Sbjct: 61 GRVVYEQGQQILAAMQRL--HAE-VRDTKALRSGRLEIGI---PPMINILCTPVLKAFRE 114 Query: 119 RHPQLSTQLSHHMSGSVLNEVRAGKLDVGFFL--GDPGQGFHALTLTSFTYNVIAPAG-- 174 RHP ++ L + V G+L++G + DP G L + S+ +A AG Sbjct: 115 RHPDIAVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSF 174 Query: 175 WKNRVSGKGWKALARLPWIWTPAESAHHRLLSRIFAQHQVKPQTVALVDQESSMLDLVKS 234 KNR S + + L +P + E R L +F +H +KP+ VA Q ++ + + Sbjct: 175 QKNRASLRCAQ-LDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALA 233 Query: 235 GVGLSLARE 243 G+G +L E Sbjct: 234 GMGTALLPE 242 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 84/261 (32%), Positives = 122/261 (46%), Gaps = 17/261 (6%) Query: 1 MDLTQLRAFISVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGLALFNRSAAGMVLTAE 60 M+L +L F +V EG +TRAAE+L+ Q V+ +IK L++S+G+ LF R MVLTA Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 61 GNTLLPLAERILADVQELRRHATGLRSSENALSGSLAIGTILDPEFIRLGAFLKLLVERH 120 G LL AERIL QE R+ + + G L IG++ RL L +R Sbjct: 70 GEALLDYAERILDLAQEARQAV-----APQSPRGRLRIGSMESAAASRLPGPLAEFHQRW 124 Query: 121 PQLSTQLSHHMSGSVLNEVRAGKLDVGFFLG---DPGQGFHALTLTSFTYNVIAPAGWKN 177 P++ +LS + ++ +VRA KLD G DP F A L ++ P + Sbjct: 125 PEVRLELSTAPTDVLMAQVRACKLDAALVAGPVSDP--AFDATPLFREELLLVTPRSHR- 181 Query: 178 RVSGKGWKALARLPWIWTPAESAHHRLLSRIFAQHQVK---PQTVALVDQESSMLDLVKS 234 RV L L I A+ R FA H P+T+ L ++L V + Sbjct: 182 RVRAPEEVMLDTL--IVFEQGCAYRRHAEAWFAGHGAGRQLPRTLELASYH-AILACVSA 238 Query: 235 GVGLSLARESIALNQAHAHGL 255 G G+++ S+ Q HG Sbjct: 239 GAGVAVVPRSVIAMQMEPHGF 259 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 0.320 0.133 0.381 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: 898,096 Number of extensions: 37348 Number of successful extensions: 243 Number of sequences better than 1.0e-08: 55 Number of HSP's gapped: 218 Number of HSP's successfully gapped: 55 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 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: 130 (54.7 bits)