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= 0041.0023.p (529 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 174 2e-44 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 171 2e-43 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 166 5e-42 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 165 1e-41 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 162 8e-41 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 174 bits (440), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 90/254 (35%), Positives = 147/254 (57%), Gaps = 1/254 (0%) Query: 12 MDQLFNMQVFCQIVDSGSMAQAARVLGLAPATVTMLLARTETKLGARLLDRTTRRINVTE 71 MD+L +M+VF ++V+ GS +AA +L ++ A T +A E LG RLL+R+TRR+++TE Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 72 AGRLWYEHAKRIVEQSAEAEEAIRSLAAEPRGSLRVALPLGVAMTFIYPHLHEFSIRFPK 131 AG+ + E + I+ + +AE + P G+L + G + + L +S +P+ Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 132 IDLDLQVNDQLVDLVGNRFDLAFRAGHAK-NSDLIVRRLLPYRRVTCASPKYIAQYGAPE 190 + LD+ ++++ +DLV D+ F + K ++ +IVR+L R + C SP YIA+ GAPE Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPE 180 Query: 191 HPDDLPQHQCLLYRHEPHASHWNYQINGVSRKVSVAGMYTSNESHALLAWARTGLGVTIQ 250 P+DL +H CL + HE HW+ NG V + SN L A G+G+ ++ Sbjct: 181 QPEDLSRHNCLNFSHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIVLR 240 Query: 251 PEWLVADDLRNGRL 264 P + + DDLR+GRL Sbjct: 241 PSYSLGDDLRSGRL 254 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 171 bits (432), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 91/255 (35%), Positives = 143/255 (56%), Gaps = 2/255 (0%) Query: 12 MDQLFNMQVFCQIVDSGSMAQAARVLGLAPATVTMLLARTETKLGARLLDRTTRRINVTE 71 MD+ MQVF +VD+ S +AA L L TVT L+ E+ L RLL+RTTRRI++T Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 72 AGRLWYEHAKRIVEQSAEAEEAIRSLAAEPRGSLRVALPLGVAMTFIYPHLHEFSIRFPK 131 G +YE RI+ E E++ R++ P+G LR+ +P V + P+L +F R+P Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 132 IDLDLQVNDQLVDLVGNRFDLAFRAGHAKNSDLIVRRLLPYRRVTCASPKYIAQYGAPEH 191 I+L + + D+ VDLV D R G ++S ++ RR+ ++ VTCA+P Y+ ++G P Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 192 PDDLPQHQCLLY--RHEPHASHWNYQINGVSRKVSVAGMYTSNESHALLAWARTGLGVTI 249 +DL QH+ + Y W++ + GV+R+V + G NE+ A + A G G+ Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 250 QPEWLVADDLRNGRL 264 P ++V + GRL Sbjct: 241 APLYMVTRHIDEGRL 255 >gi|300313017|ref|YP_003777109.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 166 bits (420), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 93/256 (36%), Positives = 151/256 (58%), Gaps = 4/256 (1%) Query: 12 MDQLFNMQVFCQIVDSGSMAQAARVLGLAPATVTMLLARTETKLGARLLDRTTRRINVTE 71 MD+ ++F Q+ + GS+++AA LGL+ A + LA E +LGARL++R+TRR+ ++ Sbjct: 1 MDRWSQFELFVQVAELGSLSRAAEALGLSNAAASRALAALEQRLGARLVERSTRRLGLSR 60 Query: 72 AGRLWYEHAKRIVEQSAEAEEAIRSLAAEPRGSLRVALPLGVAMTFIYPHLHEFSIRFPK 131 AG +Y H K + Q EAE+ + + +A P G+LR+ L M I P L F R+P+ Sbjct: 61 AGEDFYRHCKAALTQMKEAEQQVNAASAAPSGTLRITSSLSFCMKHISPLLPRFHQRYPE 120 Query: 132 IDLDLQVNDQLVDLVGNRFDLAFRAGHAK-NSDLIVRRLLPYRRVTCASPKYIAQYGAPE 190 + L++ ++ +DL+ + DLA R + ++++ VRRL RR+ A+P Y+A G P Sbjct: 121 VRLEVIAANRYMDLLDSDIDLAIRTREFEPDANIAVRRLATTRRILAAAPGYLAARGTPR 180 Query: 191 HPDDLPQHQCLLYRH--EPHASHWNYQINGVSRKVSVAGMYTSNESHALLAWARTGLGVT 248 DDL QH L+Y H EP+ H + + +G R + + + SN+ + A A GLG+ Sbjct: 181 TLDDLAQHDLLVYSHAKEPNRLHLSGR-DGSQRTLEIKSLMQSNDGQIIRAAALEGLGIL 239 Query: 249 IQPEWLVADDLRNGRL 264 IQP +++ DD+ GRL Sbjct: 240 IQPNYIIYDDIVAGRL 255 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 165 bits (417), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 90/257 (35%), Positives = 145/257 (56%), Gaps = 4/257 (1%) Query: 12 MDQLFNMQVFCQIVDSGSMAQAARVLGLAPATVTMLLARTETKLGARLLDRTTRRINVTE 71 M++L ++ F + D GS +AA LG++ A V+ + E +LG+RL+ RTTRR+++TE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 72 AGRLWYEHAKRIVEQSAEAEEAIRSLAAEPRGSLRVALPLGVAMTFIYPHLHEFSIRFPK 131 AG L+ E K+IV EA++ + S +A+P G LR+ PL + + P F R P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 132 IDLDLQVNDQLVDLVGNRFDLAFRAGHAKNSDLIVRRLLPYRRVTCASPKYIAQYGAPEH 191 I LD+ ++D++VD++ +D+A R +S L+ R+L CASP Y+ +G P H Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 192 PDDLPQHQCLLYRHEPHASHWNYQINGVSRKVS--VAGMYTSNESHALLAWARTGLGVTI 249 P +L QHQ + Y + W Q NG VS V+ N + + A G+G+T Sbjct: 181 PHELAQHQTISYSYNQSKDEW--QFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITR 238 Query: 250 QPEWLVADDLRNGRLXN 266 QP +++ LR+G+L + Sbjct: 239 QPTFMIDQYLRSGQLVS 255 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 162 bits (409), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 92/265 (34%), Positives = 134/265 (50%) Query: 12 MDQLFNMQVFCQIVDSGSMAQAARVLGLAPATVTMLLARTETKLGARLLDRTTRRINVTE 71 M L ++ +F +V +GS A A R L + P T++ L E +G RLL R+TR++N+T Sbjct: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 Query: 72 AGRLWYEHAKRIVEQSAEAEEAIRSLAAEPRGSLRVALPLGVAMTFIYPHLHEFSIRFPK 131 AGR ++E +E A ++ EP GSLRVA P+ F +HEF +PK Sbjct: 61 AGREFFERCAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPK 120 Query: 132 IDLDLQVNDQLVDLVGNRFDLAFRAGHAKNSDLIVRRLLPYRRVTCASPKYIAQYGAPEH 191 + L+ +ND DL+ DLAFR G +S L+ R+L+ ASP+Y+ + G P+ Sbjct: 121 VQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQS 180 Query: 192 PDDLPQHQCLLYRHEPHASHWNYQINGVSRKVSVAGMYTSNESHALLAWARTGLGVTIQP 251 DL H CL P + W + V V N + L AR GLG+ + P Sbjct: 181 LTDLTAHACLATSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQLRAARAGLGIALLP 240 Query: 252 EWLVADDLRNGRLXNASATGQKQTL 276 L ++DLRNG L N Q+ T+ Sbjct: 241 TMLASEDLRNGTLVNILPDYQRDTM 265 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 0.135 0.411 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: 1,669,096 Number of extensions: 68978 Number of successful extensions: 310 Number of sequences better than 1.0e-08: 52 Number of HSP's gapped: 285 Number of HSP's successfully gapped: 52 Length of query: 529 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 439 Effective length of database: 1,193,720 Effective search space: 524043080 Effective search space used: 524043080 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: 133 (55.8 bits)