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= 0504.0016.p (247 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D7R8.1 B1D7R8_9BACL Two component transcriptional regulator, A... 248 2e-64 A9U7S8.1 A9U7S8_PHYPA Predicted protein (Fragment) 152 2e-35 A8RPD4.1 A8RPD4_9CLOT Putative uncharacterized protein 102 3e-20 Q9KB26.1 Q9KB26_BACHD BH2109 protein 101 7e-20 B1DCZ8.1 B1DCZ8_9BACL Two component transcriptional regulator, A... 99 2e-19 >B1D7R8.1 B1D7R8_9BACL Two component transcriptional regulator, AraC family Length = 533 Score = 248 bits (634), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 123/244 (50%), Positives = 166/244 (68%) Query: 3 ALKTRYFTGLNRVLRDQAGNQETTVAVSEWXXXXXXLTEALKSLDKEQVPVLAARLLETV 62 AL+ RYF G NRV++ + Q A +E + ++ S D E++ L ++ V Sbjct: 288 ALQARYFEGSNRVIKARQATQTDAEAKAELETLQQRMLASMTSGDAEELNRLFRDYIQAV 347 Query: 63 RLLSGDSRNQAVTHVYNSILQLEQELAGFGVDAGLVDPEDQPLLEKLADAPTFDALKQLF 122 RL +RN A+T VY I+ L +E+ G+ DP++ LLE+L+ PTF+ + + Sbjct: 348 RLFVQYNRNLAITSVYGCIVYLMKEMNELGISVNKADPDNHGLLEQLSSFPTFEMMTRFV 407 Query: 123 EGVLKRLAGQLTCKLNGKEMPQLLQVKAFVEEHYAENITLESMAALVYMNPYYFSSFFKK 182 E + L Q T + + K++ QL+QV+A+++EHY ENITL+SMA+LVYMNPYYFSSFFKK Sbjct: 408 ERTVCDLRVQATERHSSKDVLQLVQVRAYIDEHYGENITLDSMASLVYMNPYYFSSFFKK 467 Query: 183 HTGQNFKNYVTETRMGHALRLLLQSDLMIYEIAERVGYNNARHFSDMFKKHFGKLPHEYK 242 H G+NFK Y+TE RM HALRLLLQS+LM+YEIAERVGY NAR FSDMFKK +GKLP EYK Sbjct: 468 HMGENFKQYLTEVRMKHALRLLLQSELMVYEIAERVGYQNARQFSDMFKKKYGKLPQEYK 527 Query: 243 QTVK 246 Q+ K Sbjct: 528 QSFK 531 >A9U7S8.1 A9U7S8_PHYPA Predicted protein (Fragment) Length = 163 Score = 152 bits (385), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 77/158 (48%), Positives = 102/158 (64%), Gaps = 2/158 (1%) Query: 89 AGFGVDAGLVDPEDQPLLEKLADAPTFDALKQLFEGVLKRLAGQLTCKLNGKEMPQLLQV 148 +G + +D D + KL +F L++ ++RL + K+ L +V Sbjct: 5 SGLSLPEASLDAHD--VQRKLEQCGSFAELRRDITETVERLFRMAGAESGNKDKALLAKV 62 Query: 149 KAFVEEHYAENITLESMAALVYMNPYYFSSFFKKHTGQNFKNYVTETRMGHALRLLLQSD 208 K ++EEHY E ITLES A + +MNP YFS FFKK TG NFK YVT RM HA+RLLL +D Sbjct: 63 KQYIEEHYPEEITLESAAGITFMNPSYFSFFFKKQTGINFKQYVTGIRMKHAVRLLLHTD 122 Query: 209 LMIYEIAERVGYNNARHFSDMFKKHFGKLPHEYKQTVK 246 LM+YEIAE VGYNNARHFSD+F+K +G LP++Y+Q K Sbjct: 123 LMVYEIAEAVGYNNARHFSDIFRKTYGSLPNDYRQDKK 160 >A8RPD4.1 A8RPD4_9CLOT Putative uncharacterized protein Length = 532 Score = 102 bits (255), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 67/207 (32%), Positives = 107/207 (51%), Gaps = 21/207 (10%) Query: 50 QVPVLAARLLETVRLLSGDSRNQAVTHVYN-----SILQLEQELAGFGVDAGLVD---PE 101 QVP+LAA L L+ ++ N+AV Y +L+ E G + D P+ Sbjct: 331 QVPLLAAGKL---VLIGEEAMNRAVEGQYRYYRLYGLLEEMLERTGLVFSDIMKDYEIPD 387 Query: 102 DQPLLEKLADAPTFDALKQLFEGVLKRLAGQLTCKL-----NGKEMPQLLQVKAFVEEHY 156 +P + +L + T + LK ++ + ++C+L +G + +K ++ EHY Sbjct: 388 AEPYIRRLENCTTLNQLKLVWADYV-----SVSCELCQRQKDGMGSRPVRMIKEYIGEHY 442 Query: 157 AENITLESMAALVYMNPYYFSSFFKKHTGQNFKNYVTETRMGHALRLLLQSDLMIYEIAE 216 +ENITL +A +V++NP Y S+ FKK TGQ Y+ + R+ A +L + I EIA Sbjct: 443 SENITLNDIADIVFLNPAYLSAMFKKETGQTLTQYLIDVRIDKAKEMLRNPERTIGEIAC 502 Query: 217 RVGYNNARHFSDMFKKHFGKLPHEYKQ 243 VGY + RHFS +F K G P EY++ Sbjct: 503 MVGYQDERHFSKLFSKMTGVKPTEYRR 529 >Q9KB26.1 Q9KB26_BACHD BH2109 protein Length = 525 Score = 101 bits (251), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 54/130 (41%), Positives = 79/130 (60%), Gaps = 2/130 (1%) Query: 114 TFDALKQLFEGVLKRLAGQLTCKLNGKEM-PQLLQVKAFVEEHYAENITLESMAALVYMN 172 TFD LKQ+F + A + +L + M + +VK ++E HY ENI+L+S+A+L YMN Sbjct: 392 TFDQLKQVFTKFVLE-AAVIIQELRKENMKSDIYKVKTYIENHYHENISLKSIASLFYMN 450 Query: 173 PYYFSSFFKKHTGQNFKNYVTETRMGHALRLLLQSDLMIYEIAERVGYNNARHFSDMFKK 232 P Y FKK G FK Y+ + RM A +LL Q+D+ +YE+AERVG+ + +F F+K Sbjct: 451 PVYMGQLFKKTFGVYFKEYLLKLRMNEAKKLLRQTDMRVYEVAERVGFGSTDYFVTQFEK 510 Query: 233 HFGKLPHEYK 242 P EY+ Sbjct: 511 INKMTPTEYR 520 >B1DCZ8.1 B1DCZ8_9BACL Two component transcriptional regulator, AraC family Length = 395 Score = 99.4 bits (246), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 41/93 (44%), Positives = 64/93 (68%) Query: 151 FVEEHYAENITLESMAALVYMNPYYFSSFFKKHTGQNFKNYVTETRMGHALRLLLQSDLM 210 ++ HY +++LE +AA+VY+NP YFS FK+ TG FK YV R+ A ++LL L Sbjct: 292 YIRTHYHADLSLEKVAAIVYLNPVYFSQLFKQKTGSGFKEYVIGLRLEQAKQMLLNPKLK 351 Query: 211 IYEIAERVGYNNARHFSDMFKKHFGKLPHEYKQ 243 + ++AER+GY + RHFS +F+K +G+ P E++Q Sbjct: 352 LADVAERIGYQDMRHFSQLFRKKYGETPSEFRQ 384 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 0.319 0.134 0.379 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: 1,342,305,585 Number of extensions: 51466798 Number of successful extensions: 151726 Number of sequences better than 1.0e-05: 4247 Number of HSP's gapped: 152119 Number of HSP's successfully gapped: 4248 Length of query: 247 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 115 Effective length of database: 1,817,122,223 Effective search space: 208969055645 Effective search space used: 208969055645 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 (21.8 bits) S2: 129 (54.3 bits)