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= 0025.0015.p (309 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 133 1e-32 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 130 9e-32 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 123 2e-29 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 121 6e-29 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 118 6e-28 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 133 bits (335), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 94/295 (31%), Positives = 144/295 (48%), Gaps = 6/295 (2%) Query: 5 LDLNAVRVYAAVVDEQSFAGASRLLAMPSSNVSRHVAALERRLGTRLLERSTRHLRMTEA 64 LDLN + ++ VV SFA A R L+MP + +SR + +LE +G RLL+RSTR L MT A Sbjct: 2 LDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTAA 61 Query: 65 GRLLYERVKPLLDTLLSTQEELGAVQRELRGPLKMCMPGE-APRLLAPILAEFCSLHPGI 123 GR +ER P L+ + L Q E G L++ P + + EF L+P + Sbjct: 62 GREFFERCAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPKV 121 Query: 124 ELECDTRMTGLEALREDVDLSIVFHRGHQEDSAFITRELATLPSIVVAAPSLLAKTGIPH 183 +LE + + E +DL+ F G DS+ + R+L ++A+P L + G P Sbjct: 122 QLEFVLNDGRADLIAEGIDLA--FRGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQ 179 Query: 184 HVRELKSLPCITTLSALKGQPWQFQDATG-EIVKVPVRSRYRVNSGELAVAGARQGIGFA 242 + +L + C+ T A + W+ + G E VKV R VN+ + + AR G+G A Sbjct: 180 SLTDLTAHACLATSQAPQHTVWKLEGPHGPESVKVT--PRLCVNTAQGQLRAARAGLGIA 237 Query: 243 IVAAYPCQEDLATGRLQEVPLDLCPAPLKLLGAYSHRHSVTARVRALLELIQIRL 297 ++ EDL G L + D + Y HR + + V AL+E +L Sbjct: 238 LLPTMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKL 292 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 130 bits (328), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 89/290 (30%), Positives = 141/290 (48%), Gaps = 6/290 (2%) Query: 7 LNAVRVYAAVVDEQSFAGASRLLAMPSSNVSRHVAALERRLGTRLLERSTRHLRMTEAGR 66 A++V+ AVVD SF A+ L +P + V+ V LE L RLL R+TR + +T G Sbjct: 4 FQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTPDGA 63 Query: 67 LLYERVKPLLDTLLSTQEELGAVQRELRGPLKMCMPGEAPRL-LAPILAEFCSLHPGIEL 125 YER +L L T++ V R +G L++ +P RL L P L +F + +P IEL Sbjct: 64 AYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPDIEL 123 Query: 126 ECDTRMTGLEALREDVDLSIVFHRGHQEDSAFITRELATLPSIVVAAPSLLAKTGIPHHV 185 ++ ++E VD V G +DS+ + R + T ++ AAP+ L + G+PH + Sbjct: 124 MMGMGDRPVDLVQEAVD--CVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHTI 181 Query: 186 RELKSLPCITTLSALKGQ--PWQFQDATGEIVKVPVRSRYRVNSGELAVAGARQGIGFAI 243 +L+ + S+ G+ W F G +V + + VN + V A QG G Sbjct: 182 EDLQQHKAVHYFSSRTGRTIDWDFV-VEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 244 VAAYPCQEDLATGRLQEVPLDLCPAPLKLLGAYSHRHSVTARVRALLELI 293 Y + GRL EV PAP+ + Y H ++ +VRA ++ + Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWV 290 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 85/256 (33%), Positives = 124/256 (48%), Gaps = 3/256 (1%) Query: 7 LNAVRVYAAVVDEQSFAGASRLLAMPSSNVSRHVAALERRLGTRLLERSTRHLRMTEAGR 66 L A++ + AVV+ SF A + VSR V+ LE+ LG RLL R+TR L +T+ GR Sbjct: 4 LQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTDEGR 63 Query: 67 LLYERVKPLLDTLLSTQEELGAVQRELRGPLKMCMPGE-APRLLAPILAEFCSLHPGIEL 125 + + R K LL+T+ + E+G + G L++ P + LAP+ +F HP I L Sbjct: 64 VYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPLITL 123 Query: 126 ECDTRMTGLEALREDVDLSIVFHRGHQEDSAFITRELATLPSIVVAAPSLLAKTGIPHHV 185 ++ L E D++I DS + R LA + I AAP LA+ G P Sbjct: 124 NITLSDRTIDLLEEGFDMAIRI--SALGDSRMVARPLAPVRMIACAAPEFLARHGTPGTP 181 Query: 186 RELKSLPCITTLSALKGQPWQFQDATGEIVKVPVRSRYRVNSGELAVAGARQGIGFAIVA 245 EL+ P I+ G W F+ G+ +V VRS VN+G A A G G AI Sbjct: 182 AELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQP 241 Query: 246 AYPCQEDLATGRLQEV 261 + + G+L E+ Sbjct: 242 DFIVNAAIQAGQLVEL 257 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 121 bits (304), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 145/294 (49%), Gaps = 7/294 (2%) Query: 7 LNAVRVYAAVVDEQSFAGASRLLAMPSSNVSRHVAALERRLGTRLLERSTRHLRMTEAGR 66 L ++RV+A VV++ SF A+ LL + ++ +R +A LE LGTRLL RSTR L +TEAG+ Sbjct: 4 LQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTEAGQ 63 Query: 67 LLYERVKPLLDTLLSTQEELGAVQRELRGPLKM-CMPGEAPRLLAPILAEFCSLHPGIEL 125 ERV+ +L + + + + G L + C G L +L+ + +P + L Sbjct: 64 AYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPEVAL 123 Query: 126 ECDTRMTGLEALREDVDLSIVFHRGHQEDSAFITRELATLPSIVVAAPSLLAKTGIPHHV 185 + ++ + E +D+ F + D++ I R+L I+ +P+ +A+ G P Sbjct: 124 DISLSERSIDLVEEGIDIGF-FSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPEQP 182 Query: 186 RELKSLPCITTLSALKGQPWQFQDATGEIVKVPVRSRYRVNSGELAVAGARQGIGFAIVA 245 +L C+ W + G ++ VP+ S+ NSG L A G+G + Sbjct: 183 EDLSRHNCLNFSHEYLRHHWHV-NTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIVLRP 241 Query: 246 AYPCQEDLATGRLQEV--PLDLCPAPLKLLGAYSHRHSVTARVRALLELIQIRL 297 +Y +DL +GRL +V D+ + ++ Y R ++A+VR+ E I R Sbjct: 242 SYSLGDDLRSGRLVQVLPGFDMGQVIMSMV--YPSRRLLSAKVRSFAEFISARF 293 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 118 bits (296), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 91/288 (31%), Positives = 135/288 (46%), Gaps = 4/288 (1%) Query: 7 LNAVRVYAAVVDEQSFAGASRLLAMPSSNVSRHVAALERRLGTRLLERSTRHLRMTEAGR 66 L + + AV D SF A+ L + + VSR V LE RLG+RL++R+TR L +TEAG Sbjct: 4 LREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGA 63 Query: 67 LLYERVKPLLDTLLSTQEELGAVQRELRGPLKMCMPGEAPRL-LAPILAEFCSLHPGIEL 125 L ER K ++ L + L + + G L++ P L LAP+ F HP I L Sbjct: 64 LYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISL 123 Query: 126 ECDTRMTGLEALREDVDLSIVFHRGHQEDSAFITRELATLPSIVVAAPSLLAKTGIPHHV 185 + ++ + E D++I R DS + R+L + V A+P+ L G P H Sbjct: 124 DITLSDRIVDIIDEGYDMAIRIAR--LSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHP 181 Query: 186 RELKSLPCITTLSALKGQPWQFQDATGEIVKVPVRSRYRVNSGELAVAGARQGIGFAIVA 245 EL I+ WQF G V V V SR VN+G+ V A GIG Sbjct: 182 HELAQHQTISYSYNQSKDEWQFNGPEGP-VSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 246 AYPCQEDLATGRLQEVPLDLCPAPLKLLGAYSHRHSVTARVRALLELI 293 + + L +G+L + D L + Y R + A++RA+L+ + Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFL 288 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 0.136 0.393 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: 884,434 Number of extensions: 35506 Number of successful extensions: 292 Number of sequences better than 1.0e-08: 50 Number of HSP's gapped: 245 Number of HSP's successfully gapped: 50 Length of query: 309 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 224 Effective length of database: 1,217,395 Effective search space: 272696480 Effective search space used: 272696480 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)