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= 0001.3283.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 573 e-165 gi|300311165|ref|YP_003775257.1| transcription regulator protein... 158 5e-40 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 102 4e-23 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 94 2e-20 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 81 1e-16 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 573 bits (1476), Expect = e-165, Method: Compositional matrix adjust. Identities = 285/301 (94%), Positives = 291/301 (96%) Query: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA Sbjct: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 Query: 61 GQRFQRLAVKLLDMQRQIRQELGGNSAGPLLLRIGSIESVVHSWLPAWLQEIRSRYPDFA 120 GQRFQRLAVKLLDMQRQIRQELGG+SAGPL LRIGSIESVVHSWLPAWLQEIR RYPDFA Sbjct: 61 GQRFQRLAVKLLDMQRQIRQELGGHSAGPLALRIGSIESVVHSWLPAWLQEIRCRYPDFA 120 Query: 121 LELTVETSPVLTEQIRRGALDLVFTSTVGSDTAVRSRLMTPMDMVFVGHRERFGTRVHTL 180 LELTVETSPVLTEQIRRGA DLVFTSTVGSDTAVRSRLMTPM+MVFVGHRERFGTR HTL Sbjct: 121 LELTVETSPVLTEQIRRGAQDLVFTSTVGSDTAVRSRLMTPMEMVFVGHRERFGTRSHTL 180 Query: 181 DELAAHDLITFQRGSQPHQGLLQLCQEWGVLNPRVHAISSISAMVQLVEGGFGVATLPRA 240 +ELAAHDLITFQRGSQPHQGLLQLCQEWGV NPR+HAISSISAMVQLVEGGFGVATLPRA Sbjct: 181 EELAAHDLITFQRGSQPHQGLLQLCQEWGVANPRIHAISSISAMVQLVEGGFGVATLPRA 240 Query: 241 SVRDLTRRLPLRILRCEAPLAALQIHASYREDPSSSLAELVLDSALDHARRAQAKGRAAE 300 SVR LTRRLPLRILRC+A L ALQIHASYREDPSSSLAELVLDSAL+HARRAQ KGR AE Sbjct: 241 SVRQLTRRLPLRILRCQAQLPALQIHASYREDPSSSLAELVLDSALEHARRAQIKGRTAE 300 Query: 301 K 301 K Sbjct: 301 K 301 >gi|300311165|ref|YP_003775257.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 158 bits (400), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 94/284 (33%), Positives = 155/284 (54%), Gaps = 3/284 (1%) Query: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 MN+RF+E F W A L++ AE+LH TQ+ +SSRIASLE++ GV L DR ++ LT Sbjct: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 Query: 61 GQRFQRLAVKLLDMQRQIRQELGGNSAGPLLLRIGSIESVVHSWLPAWLQEIRSRYPDFA 120 G + A +++ + R++++++ ++RIG IES+VHSW P +L + +P Sbjct: 61 GSKALVHAERMVKLMREMKEDMSDREVYAGVIRIGVIESIVHSWFPDFLGRLHKTFPRLQ 120 Query: 121 LELTVETSPVLTEQIRRGALDLVFTSTVGSDTAVRSRLMTPMDMVFVGH-RERFGTRVHT 179 +E+ +T+ L EQ +G LDLV + V + + M +VG + G+ + Sbjct: 121 IEIVSDTTIHLHEQFSKGNLDLVLQAEAVIGPQVSNLALCEFPMRWVGSPKLDIGSETLS 180 Query: 180 LDELAAHDLITFQRGSQPHQGLLQLCQEWGVLNPRVH--AISSISAMVQLVEGGFGVATL 237 L +LAA +I+F R S PH + +L + +H I+S++ M++L GFG+ + Sbjct: 181 LADLAAFPIISFARNSGPHAVIERLFSDSQRSERTLHINCIASVATMIRLATDGFGITAV 240 Query: 238 PRASVRDLTRRLPLRILRCEAPLAALQIHASYREDPSSSLAELV 281 P A ++ L +LR + AL + AS+R D + L E V Sbjct: 241 PPAIIQRELNEESLHLLRVDTEFPALVLIASFRSDHENPLTETV 284 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 102 bits (254), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 78/248 (31%), Positives = 122/248 (49%), Gaps = 13/248 (5%) Query: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 M L +E F + +TRAAE+L+ QS +++RI LE+ +GV L R ++ LT A Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 61 GQRFQRLAVKLLDMQRQIRQELGGNSAGPLLLRIGSIESVVHSWLPAWLQEIRSRYPDFA 120 G+ A ++LD+ ++ RQ + S LRIGS+ES S LP L E R+P+ Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPRG-RLRIGSMESAAASRLPGPLAEFHQRWPEVR 128 Query: 121 LELTVETSPVLTEQIRRGALDLVFTSTVGSDTAVRSRLMTPMDMVFVGHRERFGTRVHTL 180 LEL+ + VL Q+R LD + SD A + + +++ V R RV Sbjct: 129 LELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFREELLLVTPRSH--RRVRAP 186 Query: 181 DELAAHDLITFQRGSQPHQGLLQLCQEW------GVLNPRVHAISSISAMVQLVEGGFGV 234 +E+ LI F++G + + W G PR ++S A++ V G GV Sbjct: 187 EEVMLDTLIVFEQGC----AYRRHAEAWFAGHGAGRQLPRTLELASYHAILACVSAGAGV 242 Query: 235 ATLPRASV 242 A +PR+ + Sbjct: 243 AVVPRSVI 250 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 93.6 bits (231), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 128/265 (48%), Gaps = 24/265 (9%) Query: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 M++R ++ F A+ ++ TRA+E+LHI Q +S +I LEEELGV LL R + RLT A Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 61 GQRFQRLAVKLLDMQRQIR---QELGGNSAGPLLLRIGSIESVVHSWLPAWLQEIRSRYP 117 G+ F A+++L+ Q++ Q++G N L IG + S ++ LP ++++R YP Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQ--TLSIGFVASTLYGGLPMLVRKLRQHYP 118 Query: 118 DFALELTVETSPVLTEQIRRGALDLVFTSTVGSDTAV--------RSRLMTPMDMVFVGH 169 + ++L TS ++ G +D+ F +D V + L P G Sbjct: 119 EVDIQLLELTSMQQFAALKSGRIDVGFGRIRSNDATVARIVLREEKLVLAIPPSFALAGS 178 Query: 170 RERFGTRVHTLDELAAHDLITFQRGSQPH--QGLLQLCQEWGVLNPRVHAISSISAMVQL 227 +R +L E+ LI + + +P +L L + + VH + I + L Sbjct: 179 NQRV-----SLKEVHGQKLIVYPKEPRPSFADHILSLLNDQDIHPAEVHEVREIQTALGL 233 Query: 228 VEGGFGVATLPRASVR---DLTRRL 249 V G+ +P AS R DL RL Sbjct: 234 VAAESGICLIP-ASARLRNDLHYRL 257 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 80.9 bits (198), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 119/253 (47%), Gaps = 8/253 (3%) Query: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 M LR ++ F+ AS S +RAAE LHI Q +S +I LEE LGV L+DR + LT+A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GQRFQRLAVKLLDMQRQIRQELGGNSAG-PLLLRIGSIESVVHSWLPAWLQEIRSRYPDF 119 G+ F +++L QI + + G IG + S ++ LP ++ R+ P+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 120 ALELTVETSPVLTEQIRRGALDLVFTSTVGSDTAVRSRLMT--PMDMVF-VGHRERFGTR 176 + + + E ++ G +D+ F SD + + P+ VF +GH + Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARNK 180 Query: 177 VHTLDELAAHDLITFQRGSQPHQG--LLQLCQEWGVLNPRVHAISSISAMVQLVEGGFGV 234 V TL +LAA I + +P +L + + V + + + LV G GV Sbjct: 181 V-TLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVGV 239 Query: 235 ATLPRASVRDLTR 247 +PR SV+ L R Sbjct: 240 TLVPR-SVQGLHR 251 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 0.134 0.383 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: 877,805 Number of extensions: 34920 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 260 Number of HSP's successfully gapped: 47 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 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 (22.0 bits) S2: 130 (54.7 bits)