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= 0596.0022.p (304 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C4IHE3.1 C4IHE3_CLOBU Msm operon regulatory protein 239 3e-61 B8D1C2.1 B8D1C2_HALOH Transcriptional regulator, AraC family 231 5e-59 C4IMA5.1 C4IMA5_CLOBU Transcriptional regulator, AraC family 229 2e-58 B1QZF1.1 B1QZF1_CLOBU Transcriptional regulator, AraC family 229 2e-58 Q0SVP8.1 Q0SVP8_CLOPS Transcriptional regulator, AraC family 227 1e-57 >C4IHE3.1 C4IHE3_CLOBU Msm operon regulatory protein Length = 285 Score = 239 bits (610), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 117/274 (42%), Positives = 171/274 (62%), Gaps = 4/274 (1%) Query: 8 SKQHAELHLTQFGIEECIPGHFFGPAVRNHYLLHYVLSGEGVFEVGGSRYRLRKGQGFLI 67 +++ +L + Q G EEC P H FGPA+R+H+L+HY++ G G F V G Y+L K QGF+I Sbjct: 14 NRESRDLLVYQCGREECTPSHSFGPAIRDHFLIHYIIEGSGTFLVNGKLYKLHKNQGFII 73 Query: 68 FPDVVTYYQADTANPWSYCWVGFNGASAELLLKQAGLTKSSPIFLYDRDDMIYQYLQLMN 127 FPD +TYY+AD PW Y WVGF G AE L+ AGLTK +PIF Y D + + M Sbjct: 74 FPDDITYYEADNHTPWIYKWVGFKGIKAEYYLQCAGLTKENPIFEYSNDKFLEECFDNMI 133 Query: 128 ESRGFHKARETRXXXXXXXXXXXXVEFGPVASPELKGTRTEIYVEEVKDFIEMNYPQKIT 187 ++ A E + +E + S + ++Y+++ ++IEMNY +K+ Sbjct: 134 KASKLKYASELKLQGLLSIFLSELIELSSIDSSSDYYYK-DVYIKKCLNYIEMNYSRKLL 192 Query: 188 IEDIAQFIGLNRSYLCSLFKQRKQISIQDYLIRYRINKACEMMGNAELSIADISRSVGYN 247 I +IA +GLN Y +FK+ ++ Q Y+I +R+NKACE+M N +LSI DISRSVGY+ Sbjct: 193 ISEIAALLGLNTKYFSLIFKESIGVTPQQYIISFRVNKACELMKNFKLSICDISRSVGYD 252 Query: 248 DALLFSKMFKKVKGSAPKHYRAEIQAQMQNDSQN 281 D+L FSK+FKK KG +PK YR + + ++S+N Sbjct: 253 DSLAFSKIFKKQKGMSPKKYREQF---INSNSKN 283 >B8D1C2.1 B8D1C2_HALOH Transcriptional regulator, AraC family Length = 276 Score = 231 bits (590), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 117/262 (44%), Positives = 164/262 (62%), Gaps = 5/262 (1%) Query: 12 AELHLTQFGIEECIPGHFFGPAVRNHYLLHYVLSGEGVFEVGGSRYRLRKGQGFLIFPDV 71 ++ + Q G E+C PGH +GPAVR+HYL+H++ +G G+F+VG + Y L GQGFLI PD+ Sbjct: 16 TDIDIYQCGQEKCKPGHSYGPAVRDHYLIHFIYNGRGIFQVGENTYHLEAGQGFLICPDI 75 Query: 72 VTYYQADTANPWSYCWVGFNGASAELLLKQAGLTKSSPIFLYDRDDMIYQYL-QLMNESR 130 VTYYQAD NPW Y W+GF+G A+ L +A L+ ++P+F D D +++ + M +R Sbjct: 76 VTYYQADRHNPWEYAWIGFHGLKAKDYLNRANLSLANPVF-SDTDGSPLRFIFEEMTAAR 134 Query: 131 GFHKARETRXXXXXXXXXXXXVEFGPVASPELKGTRTEIYVEEVKDFIEMNYPQKITIED 190 ++RE + +E V+ E Y+++ ++IE NY + I + D Sbjct: 135 KLKRSREIKLIGLIYVFLSHLIELN-VSGSTPDNNSKENYIKKAIEYIEKNYSRHIKVID 193 Query: 191 IAQFIGLNRSYLCSLFKQRKQISIQDYLIRYRINKACEMMG--NAELSIADISRSVGYND 248 IA +GL+RSYL S+F + S Q YLI YRINKACE+M N LSI DISRSVGY D Sbjct: 194 IANHVGLDRSYLWSIFNEFLNTSPQQYLINYRINKACELMKNRNLNLSIGDISRSVGYKD 253 Query: 249 ALLFSKMFKKVKGSAPKHYRAE 270 L FSK FKK KG +P HY+ + Sbjct: 254 PLTFSKTFKKTKGISPLHYQKQ 275 >C4IMA5.1 C4IMA5_CLOBU Transcriptional regulator, AraC family Length = 288 Score = 229 bits (585), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 108/260 (41%), Positives = 155/260 (59%) Query: 9 KQHAELHLTQFGIEECIPGHFFGPAVRNHYLLHYVLSGEGVFEVGGSRYRLRKGQGFLIF 68 KQ +L L +G E C P H FGP VR+ YL+HY+L GEG + V ++L K QGFLI Sbjct: 19 KQSVDLFLCYYGTENCSPNHSFGPGVRSQYLIHYILDGEGTYTVNNKTFKLGKNQGFLIC 78 Query: 69 PDVVTYYQADTANPWSYCWVGFNGASAELLLKQAGLTKSSPIFLYDRDDMIYQYLQLMNE 128 PD + +Y+AD PW+Y W+ FNG AE L A L K++ IF Y +DD + Y M Sbjct: 79 PDTLIHYEADAEKPWNYIWIAFNGLKAETYLNYANLNKNNVIFEYSKDDCLKDYFNEMLS 138 Query: 129 SRGFHKARETRXXXXXXXXXXXXVEFGPVASPELKGTRTEIYVEEVKDFIEMNYPQKITI 188 + + E + + K T++Y+E+ DFI+ NY I I Sbjct: 139 VTELNYSTELKLEGLLYLFMSKLASSENSLNYSKKCKTTDLYLEKSIDFIKDNYSTNIKI 198 Query: 189 EDIAQFIGLNRSYLCSLFKQRKQISIQDYLIRYRINKACEMMGNAELSIADISRSVGYND 248 DIA +IG+NRSYL ++FK +S Q++L+ +RI+KACE++ ++ SI ++ SVGY+D Sbjct: 199 NDIANYIGINRSYLTNIFKNNIHVSPQEFLVDFRIDKACELLKSSNSSIKSVANSVGYSD 258 Query: 249 ALLFSKMFKKVKGSAPKHYR 268 L FSK+FKK+KG +PK+YR Sbjct: 259 PLTFSKIFKKLKGESPKNYR 278 >B1QZF1.1 B1QZF1_CLOBU Transcriptional regulator, AraC family Length = 288 Score = 229 bits (585), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 108/260 (41%), Positives = 155/260 (59%) Query: 9 KQHAELHLTQFGIEECIPGHFFGPAVRNHYLLHYVLSGEGVFEVGGSRYRLRKGQGFLIF 68 KQ +L L +G E C P H FGP VR+ YL+HY+L GEG + V ++L K QGFLI Sbjct: 19 KQSVDLFLCYYGTENCSPNHSFGPGVRSQYLIHYILDGEGTYTVNNKTFKLGKNQGFLIC 78 Query: 69 PDVVTYYQADTANPWSYCWVGFNGASAELLLKQAGLTKSSPIFLYDRDDMIYQYLQLMNE 128 PD + +Y+AD PW+Y W+ FNG AE L A L K++ IF Y +DD + Y M Sbjct: 79 PDTLIHYEADAEKPWNYIWIAFNGLKAETYLNYANLNKNNVIFEYSKDDCLKDYFNEMLS 138 Query: 129 SRGFHKARETRXXXXXXXXXXXXVEFGPVASPELKGTRTEIYVEEVKDFIEMNYPQKITI 188 + + E + + K T++Y+E+ DFI+ NY I I Sbjct: 139 VTELNYSTELKLEGLLYLFMSKLASSENSLNYSKKCKTTDLYLEKSIDFIKDNYSTNIKI 198 Query: 189 EDIAQFIGLNRSYLCSLFKQRKQISIQDYLIRYRINKACEMMGNAELSIADISRSVGYND 248 DIA +IG+NRSYL ++FK +S Q++L+ +RI+KACE++ ++ SI ++ SVGY+D Sbjct: 199 NDIANYIGINRSYLTNIFKNNIHVSPQEFLVDFRIDKACELLKSSNSSIKSVANSVGYSD 258 Query: 249 ALLFSKMFKKVKGSAPKHYR 268 L FSK+FKK+KG +PK+YR Sbjct: 259 PLTFSKIFKKLKGESPKNYR 278 >Q0SVP8.1 Q0SVP8_CLOPS Transcriptional regulator, AraC family Length = 284 Score = 227 bits (578), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 111/263 (42%), Positives = 160/263 (60%), Gaps = 2/263 (0%) Query: 7 RSKQHAELHLTQFGIEECIPGHFFGPAVRNHYLLHYVLSGEGVFEVGGSRYRLRKGQGFL 66 + K +L+L G+E+C+P H +GPAVRN+YL+HY++ GEG + V G YRLRK QGFL Sbjct: 18 KEKNSLDLYLGYCGMEKCLPSHSYGPAVRNNYLIHYIIDGEGTYYVNGQSYRLRKNQGFL 77 Query: 67 IFPDVVTYYQADTANPWSYCWVGFNGASAELLLKQAGLTKSSPIFLYDRDDMIYQYLQLM 126 I P+ +TYY+A NPW+Y W+ FNG A+ L A L + + IF Y DD + Y+ M Sbjct: 78 ICPNTLTYYKASKDNPWTYMWIAFNGIKAKKYLNYANLNEDNLIFEYTEDDSLEIYINRM 137 Query: 127 NESRGFHKARETRXXXXXXXXXXXXVEFGPVASPELKGTRTEIYVEEVKDFIEMNYPQ-K 185 E + + E + + ++ YVE+ +F++ NY Sbjct: 138 FELNRMNYSNELE-IQGLLYLFLSKLAMSKNENSLKSNNISDFYVEKAIEFMQNNYLNPD 196 Query: 186 ITIEDIAQFIGLNRSYLCSLFKQRKQISIQDYLIRYRINKACEMMGNAELSIADISRSVG 245 + I D+A F+GLNRSYL LFK+ ++S Q++L+ YRIN+A ++ N LS+ IS+S+G Sbjct: 197 LKITDVANFVGLNRSYLTHLFKKSLKLSPQEFLLNYRINEATSLLKNTNLSVGTISKSIG 256 Query: 246 YNDALLFSKMFKKVKGSAPKHYR 268 YND L FSK+FKKVKG +PK YR Sbjct: 257 YNDQLTFSKVFKKVKGISPKTYR 279 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.322 0.138 0.414 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,719,741,061 Number of extensions: 67426559 Number of successful extensions: 176874 Number of sequences better than 1.0e-05: 3311 Number of HSP's gapped: 177481 Number of HSP's successfully gapped: 3384 Length of query: 304 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 169 Effective length of database: 1,788,859,178 Effective search space: 302317201082 Effective search space used: 302317201082 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: 131 (55.1 bits)