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= 0001.0745.p (374 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent tra... 233 1e-62 gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regu... 229 1e-61 gi|134096598|ref|YP_001101673.1| two-component regulatory system... 223 9e-60 gi|134094587|ref|YP_001099662.1| anaerobic nitric oxide reductas... 218 5e-58 gi|134095691|ref|YP_001100766.1| transcriptional regulator [Herm... 214 4e-57 >gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent transcriptional regulator [Herminiimonas arsenicoxydans] Length = 550 Score = 233 bits (593), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 121/242 (50%), Positives = 156/242 (64%), Gaps = 2/242 (0%) Query: 45 VFHDPVSVALLERVQMVAPSDANVVIIGATGTGKELIARHVHELSTRRNGPFVAVNCGAF 104 + P+ + Q VA A V+I G +G GKE++ R +H+ ST GPFV +NCGA Sbjct: 249 ITRSPIMQQITVLAQKVAKVGATVLITGESGVGKEVLTRLIHKESTHDKGPFVKINCGAI 308 Query: 105 SENLAESELFGHEKGAFTGAIAH-KAGWFEAANGGTLFLDEIGDLPLAIQVKLLRVLQER 163 +L ESELFG+E GAFTGA K G E A+ GTLFLDEIG+LPL +QVKLL+VLQ+R Sbjct: 309 PRDLLESELFGYEGGAFTGAQRQGKVGMIEVADKGTLFLDEIGELPLDLQVKLLQVLQDR 368 Query: 164 EVVRLGSRRSIPIDVRIIAATNVRLQDAVAAGHFRQDLYYRLQVVQLTIPRLRERPEDIL 223 + RLGS R I +DVR++AATN LQ V A FR DL+YRL VV L +P LRER EDIL Sbjct: 369 TLTRLGSTRPIQVDVRVVAATNRDLQAMVDARQFRSDLFYRLNVVPLHVPPLRERREDIL 428 Query: 224 PLAYHFLDEYRQRLGYGARGIDAEGERKLRSHDWPGNIRELENAIHHALLICQDEQLRAE 283 PL HFLDE + G+ R + + L +DWPGNIREL N + ++ + +R++ Sbjct: 429 PLIQHFLDELNAQYGFDKR-LSEQSLAALLDYDWPGNIRELRNMVERLVVTAPESLIRSD 487 Query: 284 HL 285 L Sbjct: 488 SL 489 >gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regulatory protein [Herminiimonas arsenicoxydans] Length = 475 Score = 229 bits (585), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 143/322 (44%), Positives = 184/322 (57%), Gaps = 12/322 (3%) Query: 53 ALLERVQMVAPSDANVVIIGATGTGKELIARHVHELSTRRNGPFVAVNCGAFSENLAESE 112 AL ++ +A S A V I G +G+GKEL AR +H S R + PFVAVNCGA E L E+E Sbjct: 151 ALRAQIARLARSMAPVAISGESGSGKELAARDIHAQSARNDKPFVAVNCGAIPEALMEAE 210 Query: 113 LFGHEKGAFTGAIAHKAGWFEAANGGTLFLDEIGDLPLAIQVKLLRVLQEREVVRLGSRR 172 FG+ KGAFTGA + G+F+AANGGTL LDE+ DLPLA+QVKLLR +QER V ++G+ Sbjct: 211 FFGYRKGAFTGAADDRDGFFQAANGGTLLLDEVADLPLAMQVKLLRAIQERCVRKVGATV 270 Query: 173 SIPIDVRIIAATNVRLQDAVAAGHFRQDLYYRLQVVQLTIPRLRERPEDILPLAYHFLDE 232 P+DVRII+AT+ L D V G FRQDLYYRL V++L +P LRER +DI LA L Sbjct: 271 EEPVDVRIISATHQNLHDCVGKGTFRQDLYYRLNVIELHLPPLRERLDDIGLLAQAIL-- 328 Query: 233 YRQRLGYGARGIDAEGERKLR-SHDWPGNIRELENAIHHALLICQDEQLRAEHLHLSHVE 291 RLG G + + S+ +PGN+RELEN + AL D + L L Sbjct: 329 --VRLGGGEQAALSPAALAALCSYSFPGNVRELENILERALAFANDGLIEVADLALKASP 386 Query: 292 RLGAAQPVVGSHADDPL------QALEQ-VLQSLFNQSQAGLFEKIEDTVFRTAFEFCER 344 L A S P+ +AL V S +S +++E + R A Sbjct: 387 SLNPAPASTPSAVSQPISSEVEAEALATLVASSDIPESLPDHLDEVEREIIRRALAKTRF 446 Query: 345 NQVQAARLLDISRNVLRARLIR 366 N+ QAA LL IS LR R+ R Sbjct: 447 NRTQAAELLGISFRQLRYRMQR 468 >gi|134096598|ref|YP_001101673.1| two-component regulatory system response regulator [Herminiimonas arsenicoxydans] Length = 474 Score = 223 bits (569), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 128/313 (40%), Positives = 185/313 (59%), Gaps = 30/313 (9%) Query: 56 ERVQMVAPSDANVVIIGATGTGKELIARHVHELSTRRNGPFVAVNCGAFSENLAESELFG 115 E ++ +A + V+I G +GTGKE+ AR +H LS+R FV VNCGA + ++ ESELFG Sbjct: 191 ETIKRLATVSSTVLITGESGTGKEIAARAMHYLSSRSGNHFVPVNCGAVAPDIIESELFG 250 Query: 116 HEKGAFTGAIAHKAGWFEAANGGTLFLDEIGDLPLAIQVKLLRVLQEREVVRLGSRRSIP 175 H KGAF+GA + + G F A GGTLFLDE+ +LP+A+QVKLLRVL+E+++ +G+ R IP Sbjct: 251 HVKGAFSGAASSREGLFFYAQGGTLFLDEVAELPMAMQVKLLRVLEEKKIRPVGAEREIP 310 Query: 176 IDVRIIAATNVRLQDAVAAGHFRQDLYYRLQVVQLTIPRLRERPEDILPLAYHFLDEYRQ 235 +DVR+IAATN +++AV G FRQDLYYRL VVQ+ +P LRER +DI LA +F+ + Sbjct: 311 VDVRVIAATNRNVEEAVQEGRFRQDLYYRLNVVQVHMPPLRERADDIPALAAYFVRQLAP 370 Query: 236 RLGYGARGIDAEGERKLRSHDWPGNIRELENAIHHALLICQDEQLRAEHLHLSHVERLGA 295 +LG + D + SH WPGN+REL N I L++ ++ +G+ Sbjct: 371 QLGVPPQQPDNALLAAMVSHAWPGNVRELRNLIERWLILGNIPEI-----------AIGS 419 Query: 296 AQPVVGSHADDPLQALEQVLQSLFNQSQAGLFEKIEDTVFRTAFEFCERNQVQAARLLDI 355 + + +D LQA+E+ Q + A + N+ +AAR L + Sbjct: 420 KSVAIDNGSDVSLQAIEK--QHILKILGA-----------------ADGNKTEAARRLGL 460 Query: 356 SRNVLRARLIRTG 368 SR L + G Sbjct: 461 SRKTLERKCAEWG 473 >gi|134094587|ref|YP_001099662.1| anaerobic nitric oxide reductase transcription regulator [Herminiimonas arsenicoxydans] Length = 507 Score = 218 bits (554), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 119/220 (54%), Positives = 150/220 (68%) Query: 54 LLERVQMVAPSDANVVIIGATGTGKELIARHVHELSTRRNGPFVAVNCGAFSENLAESEL 113 LL +++VA S+ V+++G TG GKEL A +H S R P V VNC A E+LAESEL Sbjct: 193 LLHELRVVADSELPVLLLGETGVGKELFAHRLHRHSRRHAKPLVHVNCAALPESLAESEL 252 Query: 114 FGHEKGAFTGAIAHKAGWFEAANGGTLFLDEIGDLPLAIQVKLLRVLQEREVVRLGSRRS 173 FGH KGAF+GAI+ + G FEAA GGTLFLDE+G+LPLA+Q KLLR LQ E+ RLG+ R Sbjct: 253 FGHAKGAFSGAISDRPGRFEAAEGGTLFLDEVGELPLAVQAKLLRTLQNGEIQRLGADRP 312 Query: 174 IPIDVRIIAATNVRLQDAVAAGHFRQDLYYRLQVVQLTIPRLRERPEDILPLAYHFLDEY 233 ++VR+IAATN L+D V G FR DLY+RL V L IP LRER D+L LA FL+ Sbjct: 313 RRVNVRVIAATNRNLRDLVRDGAFRADLYHRLSVYPLPIPPLRERGNDVLLLAGRFLELN 372 Query: 234 RQRLGYGARGIDAEGERKLRSHDWPGNIRELENAIHHALL 273 R RLG + + + + LR + WPGN+RELE+ I A L Sbjct: 373 RARLGLRSLRLSTDAQAALRRYRWPGNVRELEHVISRAAL 412 >gi|134095691|ref|YP_001100766.1| transcriptional regulator [Herminiimonas arsenicoxydans] Length = 319 Score = 214 bits (546), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 104/225 (46%), Positives = 150/225 (66%), Gaps = 1/225 (0%) Query: 54 LLERVQMVAPSDANVVIIGATGTGKELIARHVHELSTRRNGPFVAVNCGAFSENLAESEL 113 L + ++ VAP+ ANV+I+G +GTGKEL+AR +H++S + FVA+NCGA S L E+EL Sbjct: 4 LFQMIEKVAPTSANVLIVGESGTGKELVARVIHQMSQAEDKAFVALNCGAVSPQLIEAEL 63 Query: 114 FGHEKGAFTGAIAHKAGWFEAANGGTLFLDEIGDLPLAIQVKLLRVLQEREVVRLGSRRS 173 FG+E+G+FTG++ + G FE A+GGTLFLDE+ ++ L +QVKLLRVL+ R+G+ + Sbjct: 64 FGYERGSFTGSVRMQKGCFERADGGTLFLDEVTEMSLDMQVKLLRVLETNRFYRIGAEQE 123 Query: 174 IPIDVRIIAATNVRLQDAVAAGHFRQDLYYRLQVVQLTIPRLRERPEDILPLAYHFLDEY 233 + VR++AATN +A+A G R DL+YRL V + +P LR+R EDI LA FLDE+ Sbjct: 124 TEVKVRVVAATNRDPLEAMANGSLRSDLFYRLAVFPIHVPTLRQRGEDIRLLATLFLDEF 183 Query: 234 RQRLGYGARGIDAEGERKLRSHDWPGNIRELENAIHHALLICQDE 278 G + R L + WPGN+REL+N +H A ++ E Sbjct: 184 NAEDG-NRKYFSKASYRMLNEYRWPGNVRELKNVVHRAYILADQE 227 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.322 0.136 0.390 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 689,304 Number of extensions: 28869 Number of successful extensions: 115 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 106 Number of HSP's successfully gapped: 8 Length of query: 374 Length of database: 1,000,347 Length adjustment: 83 Effective length of query: 291 Effective length of database: 726,862 Effective search space: 211516842 Effective search space used: 211516842 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: 129 (54.3 bits)