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= 0001.4402.p (300 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 362 e-101 gi|300313807|ref|YP_003777899.1| AraC family transcription regul... 141 6e-35 gi|300313159|ref|YP_003777251.1| AraC family transcription regul... 59 6e-10 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 58 1e-09 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 362 bits (928), Expect = e-101, Method: Compositional matrix adjust. Identities = 189/290 (65%), Positives = 224/290 (77%), Gaps = 10/290 (3%) Query: 19 QPLPSRGMKRLHLQDDITLVRAAQGV--ASEQAPVIDIPEDDAFSIIVQLQDFRHHKLWR 76 Q PSR MK + LQ + LV AAQ A APVI+IP DA+S+IVQLQDFR HKLWR Sbjct: 2 QDSPSRFMKLIPLQHGMALVHAAQAQPQARVPAPVIEIPGADAWSVIVQLQDFREHKLWR 61 Query: 77 GRQLVHAGGHRRGEMAITDLREQWRCQHLSGYDNVRLHLPRSAIEQLSQDSGRRISGLQP 136 G++LVHAG HRRGE+A+TDLREQWRCQHLSGY+NVRL +PR+A+E+L ++ R + L+P Sbjct: 62 GQRLVHAGAHRRGEVAVTDLREQWRCQHLSGYENVRLLVPRTAMEELGEEIARPVGELRP 121 Query: 137 GQALQDPVVWHLVHALLPVLGEAANDS------DTVFIDTVTLALHTHLAQRYGGQAAPR 190 Q DPV++HL A+LP A +T+F+D++ LAL THL QRYG Q++ Sbjct: 122 VQGAADPVLFHLAQAMLPAARTAGAAGAASVASETLFLDSMMLALTTHLWQRYGQQSSRP 181 Query: 191 SS--GRLAGWQQVRVRDYMLAHLGQRLSLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQ 248 +S GRLAGWQ+ RVRD+ML+HL QRLSLAE+AAQ GLSRAHFSRAFK SFGL PHAWLQ Sbjct: 182 ASAAGRLAGWQEARVRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQ 241 Query: 249 RQRIALACGLLREGGKSMTAIALECGFSDQSHFSRVFKQVMGMGPMVWVR 298 +QRIALAC LL EGGKSMT IALECGFSDQSHFSRVFKQV GMGP W+R Sbjct: 242 QQRIALACRLLHEGGKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAWLR 291 >gi|300313807|ref|YP_003777899.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 141 bits (356), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 93/254 (36%), Positives = 131/254 (51%), Gaps = 5/254 (1%) Query: 47 EQAPVIDIPEDDAFSIIVQLQDFRHHKLWRGRQLVHAGGHRRGEMAITDLREQWRCQHLS 106 E A V+ D F + + L R ++RGRQ G + D E +R + Sbjct: 46 EIAQVVTPASDRGFLLGISLAPHRR-SIFRGRQGAKFE-FAPGAIYTRDFSEDYRADLQA 103 Query: 107 GYDNVRLHLPRSAIEQLSQD-SGRRISGLQPGQALQDPVVWHLVHALLPVLGEAANDSDT 165 +D + + +P S S + RR++GL DPV+ HL +AL P L DS Sbjct: 104 PFDFLLVEMPLSWFAAASDELRRRRVAGLATVTGQHDPVLQHLAYALTPALANPDPDS-R 162 Query: 166 VFIDTVTLALHTHLAQRYGGQAAPR-SSGRLAGWQQVRVRDYMLAHLGQRLSLAELAAQC 224 +FID + +AL THL QRYGG AP + L+ + R + +L + +S+ E+A +C Sbjct: 163 LFIDQLGVALGTHLLQRYGGAPAPTLRTAPLSRLHEERAKMMLLEKVKGNVSIPEIAREC 222 Query: 225 GLSRAHFSRAFKLSFGLPPHAWLQRQRIALACGLLREGGKSMTAIALECGFSDQSHFSRV 284 +S ++F RAFK S G PH WL QR+ +A LR ++ IAL C F DQSHFSRV Sbjct: 223 NMSASYFLRAFKASTGHTPHQWLMVQRVEMAQQYLRSTQLTLAEIALACDFYDQSHFSRV 282 Query: 285 FKQVMGMGPMVWVR 298 F QV+G P W R Sbjct: 283 FSQVVGSTPGAWRR 296 >gi|300313159|ref|YP_003777251.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 280 Score = 58.5 bits (140), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 34/97 (35%), Positives = 51/97 (52%), Gaps = 1/97 (1%) Query: 202 RVRDYMLAHLGQRLSLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQRQRIALACGLLRE 261 R ++ H + +SL ELA G+ R R F+ +G+ PHA +I A LL++ Sbjct: 184 RAYAHLQQHCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQ 243 Query: 262 GGKSMTAIALECGFSDQSHFSRVFKQVMGMGPMVWVR 298 G + A A + GF+DQSHF R FK + P+ + R Sbjct: 244 GASAADA-AYDTGFADQSHFHRAFKSRVAATPLQYTR 279 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 43/84 (51%) Query: 210 HLGQRLSLAELAAQCGLSRAHFSRAFKLSFGLPPHAWLQRQRIALACGLLREGGKSMTAI 269 H+ ++++E A +S +F R FK G PH +L + RI AC L+E + I Sbjct: 265 HMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKI 324 Query: 270 ALECGFSDQSHFSRVFKQVMGMGP 293 A CG H +R+F++ G+ P Sbjct: 325 ARRCGLVSGEHLARLFRKHHGVSP 348 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 0.326 0.138 0.433 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: 1,033,257 Number of extensions: 44466 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 236 Number of HSP's successfully gapped: 5 Length of query: 300 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,217,395 Effective search space: 261739925 Effective search space used: 261739925 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 130 (54.7 bits)