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= 0001.2293.p (325 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134096598|ref|YP_001101673.1| two-component regulatory system... 229 1e-61 gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent tra... 215 3e-57 gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Hermin... 206 2e-54 gi|134094186|ref|YP_001099261.1| two-component system response r... 202 2e-53 gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regu... 197 8e-52 >gi|134096598|ref|YP_001101673.1| two-component regulatory system response regulator [Herminiimonas arsenicoxydans] Length = 474 Score = 229 bits (584), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 119/312 (38%), Positives = 185/312 (59%), Gaps = 10/312 (3%) Query: 3 DFRRLHMIGSSPQMERVDAQLRKMASVEATVLIEGETGTGKELAARAIHYLGPRRDKPFI 62 DF ++G+S ++ V ++++A+V +TVLI GE+GTGKE+AARA+HYL R F+ Sbjct: 173 DFGVDGLVGNSTALQPVRETIKRLATVSSTVLITGESGTGKEIAARAMHYLSSRSGNHFV 232 Query: 63 PINCGALPEQLIESELFGHERGAFTDAKSAAPGLVADADGGTLFLDEVDALNYKAQTAIL 122 P+NCGA+ +IESELFGH +GAF+ A S+ GL A GGTLFLDEV L Q +L Sbjct: 233 PVNCGAVAPDIIESELFGHVKGAFSGAASSREGLFFYAQGGTLFLDEVAELPMAMQVKLL 292 Query: 123 RFLQDHTYRRVGSGVTRKANVRIVAATNNRLNALVETGRFRRDLMYRLNVLSINLPPLRE 182 R L++ R VG+ +VR++AATN + V+ GRFR+DL YRLNV+ +++PPLRE Sbjct: 293 RVLEEKKIRPVGAEREIPVDVRVIAATNRNVEEAVQEGRFRQDLYYRLNVVQVHMPPLRE 352 Query: 183 RGNDAVEMAQAFLSRFAHQYRMPDRRLHASALDFIAQYDWPGNIRELENMMHREFLMSDT 242 R +D +A F+ + A Q +P ++ + L + + WPGN+REL N++ R ++ + Sbjct: 353 RADDIPALAAYFVRQLAPQLGVPPQQPDNALLAAMVSHAWPGNVRELRNLIERWLILGNI 412 Query: 243 TDIYLGTQRPVQGSADEDVVQFKPMKEKMIHDFERRYVRDVLTRVDGNLTRAAKLAGQER 302 +I +G++ V + + E++++ +L DGN T AA+ G R Sbjct: 413 PEIAIGSKS----------VAIDNGSDVSLQAIEKQHILKILGAADGNKTEAARRLGLSR 462 Query: 303 SAFGKLARKHGL 314 + + G+ Sbjct: 463 KTLERKCAEWGV 474 >gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent transcriptional regulator [Herminiimonas arsenicoxydans] Length = 550 Score = 215 bits (547), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 128/295 (43%), Positives = 174/295 (58%), Gaps = 18/295 (6%) Query: 9 MIGSSPQMERVDAQLRKMASVEATVLIEGETGTGKELAARAIHYLGPRRDKPFIPINCGA 68 +I SP M+++ +K+A V ATVLI GE+G GKE+ R IH PF+ INCGA Sbjct: 248 LITRSPIMQQITVLAQKVAKVGATVLITGESGVGKEVLTRLIHKESTHDKGPFVKINCGA 307 Query: 69 LPEQLIESELFGHERGAFTDA-KSAAPGLVADADGGTLFLDEVDALNYKAQTAILRFLQD 127 +P L+ESELFG+E GAFT A + G++ AD GTLFLDE+ L Q +L+ LQD Sbjct: 308 IPRDLLESELFGYEGGAFTGAQRQGKVGMIEVADKGTLFLDEIGELPLDLQVKLLQVLQD 367 Query: 128 HTYRRVGSGVTRKANVRIVAATNNRLNALVETGRFRRDLMYRLNVLSINLPPLRERGNDA 187 T R+GS + +VR+VAATN L A+V+ +FR DL YRLNV+ +++PPLRER D Sbjct: 368 RTLTRLGSTRPIQVDVRVVAATNRDLQAMVDARQFRSDLFYRLNVVPLHVPPLRERREDI 427 Query: 188 VEMAQAFLSRFAHQYRMPDRRLHASALDFIAQYDWPGNIRELENMMHR-------EFLMS 240 + + Q FL QY D+RL +L + YDWPGNIREL NM+ R + S Sbjct: 428 LPLIQHFLDELNAQYGF-DKRLSEQSLAALLDYDWPGNIRELRNMVERLVVTAPESLIRS 486 Query: 241 DTTDIYLGTQRPVQGSADEDVVQFKPMKEKMIHDFERRYVRDVLTRVDGNLTRAA 295 D+ L RPV+ +D + +K + H FER+ V++ + R TRAA Sbjct: 487 DSLPTPL---RPVELQSD---LAHLDIKVRSAH-FERKIVQEAVERYGS--TRAA 532 >gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Herminiimonas arsenicoxydans] Length = 454 Score = 206 bits (523), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 116/320 (36%), Positives = 173/320 (54%), Gaps = 13/320 (4%) Query: 10 IGSSPQMERVDAQLRKMASVEATVLIEGETGTGKELAARAIHYLGPRRDKPFIPINCGAL 69 +G S +++R++ + KM +VL+ GE+G+GKE AR +H + PFI +NCGAL Sbjct: 132 LGISREIQRLEEMVVKMGEQWTSVLVTGESGSGKEELARLLHRSAQAGNNPFIAVNCGAL 191 Query: 70 PEQLIESELFGHERGAFTDAKSAAPGLVADADGGTLFLDEVDALNYKAQTAILRFLQDHT 129 PE ++E+ELFG+ERGAFT A + G A+ GT+FLDE+ L AQ +LR LQ+HT Sbjct: 192 PEGMMEAELFGYERGAFTGAAKSHRGYFEQANNGTVFLDEIGELAPAAQVRLLRVLQEHT 251 Query: 130 YRRVGSGVTRKANVRIVAATNNRLNALVETGRFRRDLMYRLNVLSINLPPLRERGNDAVE 189 R+GS K N R++AAT+ + V+ GRFR DL YR+N++ + +PPLRER +D Sbjct: 252 LTRLGSEKPIKVNFRLIAATHRDVREEVKAGRFREDLYYRINIIQLRVPPLRERLDDVAW 311 Query: 190 MAQAFLSRFAHQYRMPDRRLHASALDFIAQYDWPGNIRELENMMHREFLMS--------- 240 +A+ FL ++ + R L + F+ W GNIREL++ + R L++ Sbjct: 312 LARLFLEQWNQAHPTSPRMLSEPTITFLCTLPWRGNIRELKHAIERACLLTAHPLLRPDD 371 Query: 241 ---DTTDIYLGTQRPVQGSADEDVVQFKPMKEKMIHDFERRYVRDVLTRVDGNLTRAAKL 297 ++ LGT P P+ E + ERRY+ VL G + + A Sbjct: 372 FEMQISEEKLGTFHPATEVPAMAQPHIIPLAE-FNREQERRYLVQVLAHYSGQMAQTAAA 430 Query: 298 AGQERSAFGKLARKHGLSPS 317 G R + RK G+ S Sbjct: 431 LGISRKTLWEKTRKLGIKGS 450 >gi|134094186|ref|YP_001099261.1| two-component system response regulator [Herminiimonas arsenicoxydans] Length = 473 Score = 202 bits (514), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 103/232 (44%), Positives = 149/232 (64%) Query: 9 MIGSSPQMERVDAQLRKMASVEATVLIEGETGTGKELAARAIHYLGPRRDKPFIPINCGA 68 ++G +P M+ V + +++ TVLI GE+G+GKEL ARA+H PR +PFI +N A Sbjct: 99 ILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKHSPRASQPFIALNTAA 158 Query: 69 LPEQLIESELFGHERGAFTDAKSAAPGLVADADGGTLFLDEVDALNYKAQTAILRFLQDH 128 +P+ L+ESELFGHERGAFT A+++ G ADGGTLFLDE+ + + QT +LR L D Sbjct: 159 IPKDLLESELFGHERGAFTGAQASRRGRFEQADGGTLFLDEIGDMPFDLQTRLLRVLSDG 218 Query: 129 TYRRVGSGVTRKANVRIVAATNNRLNALVETGRFRRDLMYRLNVLSINLPPLRERGNDAV 188 + RVG KANVR++AAT+ L V G FR DL +RLNV+ + LP LRER D Sbjct: 219 HFYRVGGHQPLKANVRVIAATHQNLEQRVREGLFREDLYHRLNVIRLRLPSLRERREDIP 278 Query: 189 EMAQAFLSRFAHQYRMPDRRLHASALDFIAQYDWPGNIRELENMMHREFLMS 240 + + FL++ A Q + +R+ A+ F+ + PGN+R+LEN+ + +M+ Sbjct: 279 ILTRHFLAQSAKQLGVEVKRMSDGAMQFLTNLELPGNVRQLENLCNWITVMA 330 >gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regulatory protein [Herminiimonas arsenicoxydans] Length = 475 Score = 197 bits (500), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 120/320 (37%), Positives = 176/320 (55%), Gaps = 30/320 (9%) Query: 7 LHMIGSSPQMERVDAQLRKMASVEATVLIEGETGTGKELAARAIHYLGPRRDKPFIPINC 66 L ++G S M+ + AQ+ ++A A V I GE+G+GKELAAR IH R DKPF+ +NC Sbjct: 140 LRLMGQSDAMQALRAQIARLARSMAPVAISGESGSGKELAARDIHAQSARNDKPFVAVNC 199 Query: 67 GALPEQLIESELFGHERGAFTDAKSAAPGLVADADGGTLFLDEVDALNYKAQTAILRFLQ 126 GA+PE L+E+E FG+ +GAFT A G A+GGTL LDEV L Q +LR +Q Sbjct: 200 GAIPEALMEAEFFGYRKGAFTGAADDRDGFFQAANGGTLLLDEVADLPLAMQVKLLRAIQ 259 Query: 127 DHTYRRVGSGVTRKANVRIVAATNNRLNALVETGRFRRDLMYRLNVLSINLPPLRERGND 186 + R+VG+ V +VRI++AT+ L+ V G FR+DL YRLNV+ ++LPPLRER +D Sbjct: 260 ERCVRKVGATVEEPVDVRIISATHQNLHDCVGKGTFRQDLYYRLNVIELHLPPLRERLDD 319 Query: 187 AVEMAQAFLSRFAHQYRMPDRRLHASALDFIAQYDWPGNIRELENMMHREFLMS-----D 241 +AQA L R + L +AL + Y +PGN+RELEN++ R + + Sbjct: 320 IGLLAQAILVRLGGGEQA---ALSPAALAALCSYSFPGNVRELENILERALAFANDGLIE 376 Query: 242 TTDIYL---------------GTQRPVQGSADED----VVQFKPMKEKM---IHDFERRY 279 D+ L +P+ + + +V + E + + + ER Sbjct: 377 VADLALKASPSLNPAPASTPSAVSQPISSEVEAEALATLVASSDIPESLPDHLDEVEREI 436 Query: 280 VRDVLTRVDGNLTRAAKLAG 299 +R L + N T+AA+L G Sbjct: 437 IRRALAKTRFNRTQAAELLG 456 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 0.321 0.136 0.391 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: 604,585 Number of extensions: 24748 Number of successful extensions: 85 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 78 Number of HSP's successfully gapped: 8 Length of query: 325 Length of database: 1,000,347 Length adjustment: 82 Effective length of query: 243 Effective length of database: 730,157 Effective search space: 177428151 Effective search space used: 177428151 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)