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= 0001.2542.p (529 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134094587|ref|YP_001099662.1| anaerobic nitric oxide reductas... 476 e-136 gi|134094186|ref|YP_001099261.1| two-component system response r... 239 3e-64 gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Hermin... 233 2e-62 gi|134096598|ref|YP_001101673.1| two-component regulatory system... 226 2e-60 gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent tra... 220 1e-58 >gi|134094587|ref|YP_001099662.1| anaerobic nitric oxide reductase transcription regulator [Herminiimonas arsenicoxydans] Length = 507 Score = 476 bits (1226), Expect = e-136, Method: Compositional matrix adjust. Identities = 277/521 (53%), Positives = 360/521 (69%), Gaps = 23/521 (4%) Query: 13 LVADLSRDIDDRERYRRLLHSLRALFPCDAAALLRLEGDLLVPLAIDGLSSDTLGRRFRI 72 +ADL ++ R +RL+ +LR F C A ALL+LE + L P+A+DGL D LGRRF + Sbjct: 5 FLADLVANLAPAIRMQRLVSTLRTHFRCGAVALLQLEAEHLRPIAVDGLVRDALGRRFAV 64 Query: 73 ADHPRFGVLLTNAAPTRFPADSPLPDPYDGLVDGLNDAHSGE-LEVHDCMGCALSINGRP 131 + HPR +LT TRF DS LPDPYDGL+D H GE L VHDCMG +L + G+P Sbjct: 65 SQHPRLAAILTRRDVTRFHHDSTLPDPYDGLID----EHIGEPLPVHDCMGISLHVEGQP 120 Query: 132 WGLMTLDALGPGRFDGVDMASLQAFAALAAATVNVAERINALSQAGEQARQRAEAYRLGL 191 WG++TLDAL G FD + LQ + + A++ + R+ A +A R A + Sbjct: 121 WGVLTLDALQIGTFDDIAQTELQQLSMVIEASIRIT-RLEAEIRALRLTRGDAP-----V 174 Query: 192 EESQGKRELIGQSPAQRQLLEEIRMAAPSDMTVLVTGETGTGKELVAHALHAASPRAAKP 251 + S+ + E+IGQS A QLL E+R+ A S++ VL+ GETG GKEL AH LH S R AKP Sbjct: 175 DSSKQESEIIGQSEAIGQLLHELRVVADSELPVLLLGETGVGKELFAHRLHRHSRRHAKP 234 Query: 252 MISLNCAALPDTLVESELFGHVRGAFSGAVADRRGKFEMADGGTLFLDEVGELPLAVQAK 311 ++ +NCAALP++L ESELFGH +GAFSGA++DR G+FE A+GGTLFLDEVGELPLAVQAK Sbjct: 235 LVHVNCAALPESLAESELFGHAKGAFSGAISDRPGRFEAAEGGTLFLDEVGELPLAVQAK 294 Query: 312 LLRVLQSGQLQRVGSDREHRVDVRLIAATNRDLAEEVKRGHFRADFYHRLSVFPIRVPPL 371 LLR LQ+G++QR+G+DR RV+VR+IAATNR+L + V+ G FRAD YHRLSV+P+ +PPL Sbjct: 295 LLRTLQNGEIQRLGADRPRRVNVRVIAATNRNLRDLVRDGAFRADLYHRLSVYPLPIPPL 354 Query: 372 RERGRDVLLLAGYFLEQNRARLGLSSLRLSADAQHSLLAYPWPGNIRELEHLIGRSALRA 431 RERG DVLLLAG FLE NRARLGL SLRLS DAQ +L Y WPGN+RELEH+I R+AL+ Sbjct: 355 RERGNDVLLLAGRFLELNRARLGLRSLRLSTDAQAALRRYRWPGNVRELEHVISRAALKT 414 Query: 432 LAAHPTRPAILTLDAQALELHATDPGP---VASAAPVAALAEPSSDDAPAPDSLRQAVER 488 L+ R I+TL+A+ L+L A + P +A P L A SLR AV Sbjct: 415 LSRGVNRNDIITLEAELLDLDALELPPALTTQTALPGITL---------AVSSLRDAVAT 465 Query: 489 YERQLVRQSLERNAGNLAAAARELGLDRANLSRLARRLGLR 529 ER ++Q+L+ + G+ A AAR+L +D +NL +LARRLGL+ Sbjct: 466 CERHSIQQALDASGGSWAQAARQLDVDASNLHKLARRLGLK 506 >gi|134094186|ref|YP_001099261.1| two-component system response regulator [Herminiimonas arsenicoxydans] Length = 473 Score = 239 bits (609), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 140/370 (37%), Positives = 209/370 (56%), Gaps = 40/370 (10%) Query: 199 ELIGQSPAQRQLLEEIRMAAPSDMTVLVTGETGTGKELVAHALHAASPRAAKPMISLNCA 258 E++GQ+PA + + I + S++TVL+TGE+G+GKELVA ALH SPRA++P I+LN A Sbjct: 98 EILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKHSPRASQPFIALNTA 157 Query: 259 ALPDTLVESELFGHVRGAFSGAVADRRGKFEMADGGTLFLDEVGELPLAVQAKLLRVLQS 318 A+P L+ESELFGH RGAF+GA A RRG+FE ADGGTLFLDE+G++P +Q +LLRVL Sbjct: 158 AIPKDLLESELFGHERGAFTGAQASRRGRFEQADGGTLFLDEIGDMPFDLQTRLLRVLSD 217 Query: 319 GQLQRVGSDREHRVDVRLIAATNRDLAEEVKRGHFRADFYHRLSVFPIRVPPLRERGRDV 378 G RVG + + +VR+IAAT+++L + V+ G FR D YHRL+V +R+P LRER D+ Sbjct: 218 GHFYRVGGHQPLKANVRVIAATHQNLEQRVREGLFREDLYHRLNVIRLRLPSLRERREDI 277 Query: 379 LLLAGYFLEQNRARLGLSSLRLSADAQHSLLAYPWPGNIRELEHLI-------------- 424 +L +FL Q+ +LG+ R+S A L PGN+R+LE+L Sbjct: 278 PILTRHFLAQSAKQLGVEVKRMSDGAMQFLTNLELPGNVRQLENLCNWITVMAPGQTVEA 337 Query: 425 -------------------GRSALRALAAHPTRPAILTLDAQALELHATDPG-----PVA 460 G +A+ ++ +TL + G P+ Sbjct: 338 KDLPHELTEGQAFSASGQAGANAVHGISYTTPESDAMTLGGMTQTSSFPNAGGAASAPLE 397 Query: 461 SAAPVAALAEPSSD--DAPAPDSLRQAVERYERQLVRQSLERNAGNLAAAARELGLDRAN 518 S++ +A L ++ A P+ + ++E L++ +L+ G AA LG+ R Sbjct: 398 SSSWIALLEMEAASLLAAGKPEVMDALGRQFESTLIKMALKHTHGRKNDAAVRLGIGRNT 457 Query: 519 LSRLARRLGL 528 ++R LG+ Sbjct: 458 ITRKIHELGI 467 >gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Herminiimonas arsenicoxydans] Length = 454 Score = 233 bits (594), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 141/322 (43%), Positives = 190/322 (59%), Gaps = 13/322 (4%) Query: 209 QLLEEIRMAAPSDMT-VLVTGETGTGKELVAHALHAASPRAAKPMISLNCAALPDTLVES 267 Q LEE+ + T VLVTGE+G+GKE +A LH ++ P I++NC ALP+ ++E+ Sbjct: 139 QRLEEMVVKMGEQWTSVLVTGESGSGKEELARLLHRSAQAGNNPFIAVNCGALPEGMMEA 198 Query: 268 ELFGHVRGAFSGAVADRRGKFEMADGGTLFLDEVGELPLAVQAKLLRVLQSGQLQRVGSD 327 ELFG+ RGAF+GA RG FE A+ GT+FLDE+GEL A Q +LLRVLQ L R+GS+ Sbjct: 199 ELFGYERGAFTGAAKSHRGYFEQANNGTVFLDEIGELAPAAQVRLLRVLQEHTLTRLGSE 258 Query: 328 REHRVDVRLIAATNRDLAEEVKRGHFRADFYHRLSVFPIRVPPLRERGRDVLLLAGYFLE 387 + +V+ RLIAAT+RD+ EEVK G FR D Y+R+++ +RVPPLRER DV LA FLE Sbjct: 259 KPIKVNFRLIAATHRDVREEVKAGRFREDLYYRINIIQLRVPPLRERLDDVAWLARLFLE 318 Query: 388 QNRARLGLSSLRLSADAQHSLLAYPWPGNIRELEHLIGRSALRALAAHPTRPAILTLDAQ 447 Q S LS L PW GNIREL+H I R+ L L AHP +L D Sbjct: 319 QWNQAHPTSPRMLSEPTITFLCTLPWRGNIRELKHAIERACL--LTAHP----LLRPDDF 372 Query: 448 ALELHATDPGPVASAAPVAALAEPSSDDAPAPDSLRQAVERYERQLVRQSLERNAGNLAA 507 +++ G A V A+A+P P + R+ ER+ + Q L +G +A Sbjct: 373 EMQISEEKLGTFHPATEVPAMAQPHI--IPLAEFNREQ----ERRYLVQVLAHYSGQMAQ 426 Query: 508 AARELGLDRANLSRLARRLGLR 529 A LG+ R L R+LG++ Sbjct: 427 TAAALGISRKTLWEKTRKLGIK 448 >gi|134096598|ref|YP_001101673.1| two-component regulatory system response regulator [Herminiimonas arsenicoxydans] Length = 474 Score = 226 bits (576), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 133/329 (40%), Positives = 184/329 (55%), Gaps = 33/329 (10%) Query: 200 LIGQSPAQRQLLEEIRMAAPSDMTVLVTGETGTGKELVAHALHAASPRAAKPMISLNCAA 259 L+G S A + + E I+ A TVL+TGE+GTGKE+ A A+H S R+ + +NC A Sbjct: 179 LVGNSTALQPVRETIKRLATVSSTVLITGESGTGKEIAARAMHYLSSRSGNHFVPVNCGA 238 Query: 260 LPDTLVESELFGHVRGAFSGAVADRRGKFEMADGGTLFLDEVGELPLAVQAKLLRVLQSG 319 + ++ESELFGHV+GAFSGA + R G F A GGTLFLDEV ELP+A+Q KLLRVL+ Sbjct: 239 VAPDIIESELFGHVKGAFSGAASSREGLFFYAQGGTLFLDEVAELPMAMQVKLLRVLEEK 298 Query: 320 QLQRVGSDREHRVDVRLIAATNRDLAEEVKRGHFRADFYHRLSVFPIRVPPLRERGRDVL 379 +++ VG++RE VDVR+IAATNR++ E V+ G FR D Y+RL+V + +PPLRER D+ Sbjct: 299 KIRPVGAEREIPVDVRVIAATNRNVEEAVQEGRFRQDLYYRLNVVQVHMPPLRERADDIP 358 Query: 380 LLAGYFLEQNRARLGLSSLRLSADAQHSLLAYPWPGNIRELEHLIGRSALRALAAHPTRP 439 LA YF+ Q +LG+ + +++++ WPGN+REL +LI R Sbjct: 359 ALAAYFVRQLAPQLGVPPQQPDNALLAAMVSHAWPGNVRELRNLIERWL----------- 407 Query: 440 AILTLDAQALELHATDPGPVASAAPVAALAEPSSDDAPAPDSLRQAVERYERQLVRQSLE 499 + P A+ S D QA+ E+Q + + L Sbjct: 408 -------------------ILGNIPEIAIGSKSVAIDNGSDVSLQAI---EKQHILKILG 445 Query: 500 RNAGNLAAAARELGLDRANLSRLARRLGL 528 GN AAR LGL R L R G+ Sbjct: 446 AADGNKTEAARRLGLSRKTLERKCAEWGV 474 >gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent transcriptional regulator [Herminiimonas arsenicoxydans] Length = 550 Score = 220 bits (560), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 145/373 (38%), Positives = 212/373 (56%), Gaps = 36/373 (9%) Query: 158 ALAAATVNVAERINALSQAGEQARQRAEAYRLGLEESQGKRE------LIGQSPAQRQLL 211 A+ +N + + E AR + + +R +E SQ + LI +SP +Q+ Sbjct: 200 AVRKVIINSRDTTELIQLQEELARAQEKLHRFEMEVSQLRMGNPAIAGLITRSPIMQQIT 259 Query: 212 EEIRMAAPSDMTVLVTGETGTGKELVAHALHAASPRAAKPMISLNCAALPDTLVESELFG 271 + A TVL+TGE+G GKE++ +H S P + +NC A+P L+ESELFG Sbjct: 260 VLAQKVAKVGATVLITGESGVGKEVLTRLIHKESTHDKGPFVKINCGAIPRDLLESELFG 319 Query: 272 HVRGAFSGAVADRRGK---FEMADGGTLFLDEVGELPLAVQAKLLRVLQSGQLQRVGSDR 328 + GAF+GA R+GK E+AD GTLFLDE+GELPL +Q KLL+VLQ L R+GS R Sbjct: 320 YEGGAFTGA--QRQGKVGMIEVADKGTLFLDEIGELPLDLQVKLLQVLQDRTLTRLGSTR 377 Query: 329 EHRVDVRLIAATNRDLAEEVKRGHFRADFYHRLSVFPIRVPPLRERGRDVLLLAGYFLEQ 388 +VDVR++AATNRDL V FR+D ++RL+V P+ VPPLRER D+L L +FL++ Sbjct: 378 PIQVDVRVVAATNRDLQAMVDARQFRSDLFYRLNVVPLHVPPLRERREDILPLIQHFLDE 437 Query: 389 NRARLGLSSLRLSADAQHSLLAYPWPGNIRELEHLIGRSALRALAAHPTRPAILTLDAQA 448 A+ G RLS + +LL Y WPGNIREL +++ R + A ++ Sbjct: 438 LNAQYGFDK-RLSEQSLAALLDYDWPGNIRELRNMVERLVVTA--------------PES 482 Query: 449 LELHATDPGPVASAAPVAALAEPSSDDAPAPDSLRQAVERYERQLVRQSLERNAGNLAAA 508 L + P P+ PV E SD A +R A +ER++V++++ER G+ AA Sbjct: 483 LIRSDSLPTPL---RPV----ELQSDLAHLDIKVRSA--HFERKIVQEAVER-YGSTRAA 532 Query: 509 ARELGLDRANLSR 521 A+ L + ++ + R Sbjct: 533 AKHLQISQSTVVR 545 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 0.320 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: 863,672 Number of extensions: 33492 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 141 Number of HSP's successfully gapped: 8 Length of query: 529 Length of database: 1,000,347 Length adjustment: 86 Effective length of query: 443 Effective length of database: 716,977 Effective search space: 317620811 Effective search space used: 317620811 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: 131 (55.1 bits)