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= 0034.0200.p (272 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313081|ref|YP_003777173.1| transcription regulator protein... 334 4e-93 gi|300313912|ref|YP_003778004.1| AraC family transcription regul... 197 6e-52 gi|300311850|ref|YP_003775942.1| AraC family transcription regul... 160 2e-40 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 117 9e-28 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 95 5e-21 >gi|300313081|ref|YP_003777173.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 330 Score = 334 bits (857), Expect = 4e-93, Method: Compositional matrix adjust. Identities = 178/319 (55%), Positives = 221/319 (69%), Gaps = 55/319 (17%) Query: 1 MRKIGFLLFLDCSLLDFTGPLTAFDVANRIREGEGKSRPYQLRVMSEQGGMLESASGTAV 60 +R+ FL+F DCS+LDFTGPL+AFD ANR+ GK+ Y+L + SE GGM+ S++G + Sbjct: 3 LRETAFLIFADCSMLDFTGPLSAFDAANRL---AGKT-LYRLTLYSEPGGMIRSSAGALI 58 Query: 61 VTHPLDRTAFDTLIVAGGAG---------------------------------------- 80 T + RT+FDTLIVAGG Sbjct: 59 HTERIGRTSFDTLIVAGGGAPREGLVSPALRRHVLRAAARSRRIAGICTGAFVLAATGLL 118 Query: 81 -----------XARLQRMHPSVQVDSDKIFIKDGDVWTSAGISAGIDLALALIEEDLGVE 129 A+LQ+MHP+V+VDSD+I+ +DG VWTSAGISAGIDLALALIE+D GVE Sbjct: 119 DGKRATTHWRMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGIDLALALIEDDHGVE 178 Query: 130 LARAVARELVVYHRRPGGQSQFSNLLEMDPPSGRIRETLSYARNHLHESLTVERLAEIAC 189 LAR+VARELVVYHRRPGGQSQFS L EMD S RIR L +AR HLH++LTV+ LAE+AC Sbjct: 179 LARSVARELVVYHRRPGGQSQFSALQEMDGGSERIRRALGFAREHLHQALTVDLLAEVAC 238 Query: 190 LSRRQFDRAFSAETGQTPAKAIEKLRAEAARPRVEAGEESLENIARAVGFDDPERMRRAF 249 LSRRQFDRAF+AETGQTPA+AIE++RAEAAR R+E +++LE+IARA GF D +RMRRA Sbjct: 239 LSRRQFDRAFAAETGQTPARAIEQMRAEAARLRIEQSQDTLESIARATGFGDADRMRRAC 298 Query: 250 LRVFGYPPQAIRRAQRRQE 268 LR+FG PPQA+RR R ++ Sbjct: 299 LRLFGQPPQAMRRLARAED 317 >gi|300313912|ref|YP_003778004.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 197 bits (502), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 100/182 (54%), Positives = 131/182 (71%) Query: 84 LQRMHPSVQVDSDKIFIKDGDVWTSAGISAGIDLALALIEEDLGVELARAVARELVVYHR 143 +Q P +QV+ D+I+I DG +WTSAG++AG+DLALA++ +DLG E AR+VAR+LV++ Sbjct: 131 MQERFPDIQVEDDRIYIVDGPLWTSAGMTAGLDLALAMVGKDLGEEAARSVARKLVMHQH 190 Query: 144 RPGGQSQFSNLLEMDPPSGRIRETLSYARNHLHESLTVERLAEIACLSRRQFDRAFSAET 203 R GGQSQ S +LE+ P + RI++ L+YAR +L +LTVE LAE A LS RQF R F++ET Sbjct: 191 RAGGQSQHSEMLELAPKTDRIQDALNYARRNLKRALTVEELAEQANLSARQFTRVFTSET 250 Query: 204 GQTPAKAIEKLRAEAARPRVEAGEESLENIARAVGFDDPERMRRAFLRVFGYPPQAIRRA 263 GQ+PAKAIE LR EAAR +E LE +AR GF D MR FLR FG PQ++RR Sbjct: 251 GQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFRDRRHMREVFLRGFGVAPQSMRRE 310 Query: 264 QR 265 R Sbjct: 311 GR 312 >gi|300311850|ref|YP_003775942.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 343 Score = 160 bits (404), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 86/179 (48%), Positives = 117/179 (65%), Gaps = 1/179 (0%) Query: 84 LQRMHPSVQVDSDKIFIKDGDVWTSAGISAGIDLALALIEEDLGVELARAVARELVVYHR 143 LQR +P++QVD+D I+I+ G +WTSAG++AGIDLALAL+E+DLG A A AR+LV++ + Sbjct: 145 LQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALALVEQDLGHASAIATARQLVMFIK 204 Query: 144 RPGGQSQFSN-LLEMDPPSGRIRETLSYARNHLHESLTVERLAEIACLSRRQFDRAFSAE 202 RPGGQSQFS L +GR E ++ HL + L VE LA A +S R F R + AE Sbjct: 205 RPGGQSQFSTPLATQSTGAGRFAELHAWIAAHLADDLHVENLAHRAGMSPRTFARLYVAE 264 Query: 203 TGQTPAKAIEKLRAEAARPRVEAGEESLENIARAVGFDDPERMRRAFLRVFGYPPQAIR 261 TG+TPA+ +E +R EAAR +E L+ IA G+ + + +RR FLR G P R Sbjct: 265 TGRTPARTVELMRLEAARRALEETRLPLKRIASQAGYGEEQNLRRVFLRQLGVSPGQYR 323 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 117 bits (294), Expect = 9e-28, Method: Compositional matrix adjust. Identities = 69/179 (38%), Positives = 100/179 (55%), Gaps = 1/179 (0%) Query: 84 LQRMHPSVQVDSDKIFIKDGDVWTSAGISAGIDLALALIEEDLGVELARAVARELVVYHR 143 LQ+ P +VD D I+ DG + TSAG++ GIDLALAL+ +DLG E+A A+AR+LV++ Sbjct: 151 LQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALALVRDDLGQEIASAIARDLVLFLH 210 Query: 144 RPGGQSQFSNLLEMDPPSGRI-RETLSYARNHLHESLTVERLAEIACLSRRQFDRAFSAE 202 RPG Q Q S L +G + L + +H E ++V LAE A +S R F R F E Sbjct: 211 RPGRQQQISATLVAQQSAGDLFSALLVWMLDHPQEDMSVNALAERAAMSPRNFARRFLRE 270 Query: 203 TGQTPAKAIEKLRAEAARPRVEAGEESLENIARAVGFDDPERMRRAFLRVFGYPPQAIR 261 G+ P + + +LR + A +E S+E IA G + + + R F + G P R Sbjct: 271 VGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLKNADTLHRVFRQHLGMTPAQYR 329 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 95.1 bits (235), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 85/327 (25%), Positives = 137/327 (41%), Gaps = 67/327 (20%) Query: 1 MRKIGFLLFLDCSLLDFTGPLTAFDVANRI-----REGEGKSRPYQLRVMSEQGGMLESA 55 ++ IG ++ L D F V +++ +G G Y ++S +GGM+ ++ Sbjct: 33 VKHIGVIVSEGVILADLAEIAEVFFVTDKMLSSMFSQGNG----YHFSLLSVRGGMITTS 88 Query: 56 SGTAVVTHPL---DRTAFDTLIVAGGAGX------------------------------- 81 S + T L D AFD++I+A G G Sbjct: 89 SSVQIGTLSLQHHDIRAFDSIIIADGRGNFADCNDPQLLNWLATAALHAPRIAALCTGVL 148 Query: 82 --------------------ARLQRMHPSVQVDSDKIFIKDGDVWTSAGISAGIDLALAL 121 RLQR P + V+ ++D +V+TSA G ++ALAL Sbjct: 149 VLAEAGLLDRKKVAAHWALRDRLQREFPDIHVEPGDTLVQDQNVFTSADSGTGAEVALAL 208 Query: 122 IEEDLGVELARAVARELVV--YHRRPGGQSQFSNLL--EMDPPSGRIRETLSYARNHLHE 177 IE+DLG A + + L V +H+ S+ S + E S RI++ L + H+ Sbjct: 209 IEDDLGSSFAHRIEQSLTVRQHHQFKHSLSRGSEIRPGEKRHRSERIQKALIWLDEHMSS 268 Query: 178 SLTVERLAEIACLSRRQFDRAFSAETGQTPAKAIEKLRAEAARPRVEAGEESLENIARAV 237 S+ + A+ +S R F R F ETG+TP + K+R EAA ++ + +E IAR Sbjct: 269 SINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIARRC 328 Query: 238 GFDDPERMRRAFLRVFGYPPQAIRRAQ 264 G E + R F + G P R+ + Sbjct: 329 GLVSGEHLARLFRKHHGVSPGEYRKKE 355 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 0.321 0.136 0.388 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: 794,366 Number of extensions: 32471 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 154 Number of HSP's successfully gapped: 7 Length of query: 272 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 188 Effective length of database: 1,222,130 Effective search space: 229760440 Effective search space used: 229760440 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)