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= 0001.3095.p (499 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134094186|ref|YP_001099261.1| two-component system response r... 758 0.0 gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regu... 285 3e-78 gi|134096598|ref|YP_001101673.1| two-component regulatory system... 278 6e-76 gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Hermin... 254 6e-69 gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent tra... 219 2e-58 >gi|134094186|ref|YP_001099261.1| two-component system response regulator [Herminiimonas arsenicoxydans] Length = 473 Score = 758 bits (1958), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/473 (80%), Positives = 409/473 (86%), Gaps = 11/473 (2%) Query: 38 MAALQNGTPQVLVSDIRMPGASGLELLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAF 97 M AL+ G PQVLVSDIRMPG +GLELLQ VKAKHPG+PVIIITAFSDLDSAV+AFQGGAF Sbjct: 1 MEALKTGAPQVLVSDIRMPGETGLELLQAVKAKHPGLPVIIITAFSDLDSAVAAFQGGAF 60 Query: 98 EYLAKPFDVDKAVELIRRALDESLRETDIEQGAAQTPEILGQAPAMQDVFRAIGRLSQSN 157 EYLAKPFD+DKAVELIRRAL+ESLRET IEQ +A+TPEILGQAPAMQDVFRAIGRLSQSN Sbjct: 61 EYLAKPFDIDKAVELIRRALEESLRETSIEQVSAETPEILGQAPAMQDVFRAIGRLSQSN 120 Query: 158 VTVLITGESGSGKELVARALHKHSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQ 217 VTVLITGESGSGKELVARALHKHSPRASQPF+ALNTAAIPKDLLESELFGHERGAFTGAQ Sbjct: 121 VTVLITGESGSGKELVARALHKHSPRASQPFIALNTAAIPKDLLESELFGHERGAFTGAQ 180 Query: 218 AMRRGRFEQAEGGTLFLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATH 277 A RRGRFEQA+GGTLFLDEIGDMP DLQTRLLRVLSDGHFYRVGGHQ LKANVRVIAATH Sbjct: 181 ASRRGRFEQADGGTLFLDEIGDMPFDLQTRLLRVLSDGHFYRVGGHQPLKANVRVIAATH 240 Query: 278 QNLEQRVREGLFREDLYHRLNVIRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLS 337 QNLEQRVREGLFREDLYHRLNVIRLRLPSLRER EDIPIL R+FLAQSA+QLGVE KR+S Sbjct: 241 QNLEQRVREGLFREDLYHRLNVIRLRLPSLRERREDIPILTRHFLAQSAKQLGVEVKRMS 300 Query: 338 PQAMQFLSQLEFPGNVRQLENLCNWITVMAPGQTVEIKDLPQDLVEERVHAPQ---PAQI 394 AMQFL+ LE PGNVRQLENLCNWITVMAPGQTVE KDLP +L E + + A Sbjct: 301 DGAMQFLTNLELPGNVRQLENLCNWITVMAPGQTVEAKDLPHELTEGQAFSASGQAGANA 360 Query: 395 V-----AAPASASALAAPLAYAEAAP---GATTAEAGSSSWISLLETEAAQMLASEQPEV 446 V P S + + + P GA +A SSSWI+LLE EAA +LA+ +PEV Sbjct: 361 VHGISYTTPESDAMTLGGMTQTSSFPNAGGAASAPLESSSWIALLEMEAASLLAAGKPEV 420 Query: 447 MDILGRQFEAALIKIALKHTHGRKNDAAVRLGIGRNTITRKIQELGIGGAEDD 499 MD LGRQFE+ LIK+ALKHTHGRKNDAAVRLGIGRNTITRKI ELGI GA+DD Sbjct: 421 MDALGRQFESTLIKMALKHTHGRKNDAAVRLGIGRNTITRKIHELGIDGAKDD 473 >gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regulatory protein [Herminiimonas arsenicoxydans] Length = 475 Score = 285 bits (730), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 196/503 (38%), Positives = 277/503 (55%), Gaps = 42/503 (8%) Query: 4 IWIVDDDESIRWVLEKALARENLATQS---FSSARDAMAALQNGTPQVLVSDIRMPGASG 60 I +VDD+ +R +LE L + L S +ARD +A + ++++D+R+P G Sbjct: 6 ILVVDDEADLRELLEITLIKMGLDIDSAATLEAARDYLAKTEYA---LVLTDMRLPDGLG 62 Query: 61 LELLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRAL--D 118 +EL+Q V A++ P+ +ITAF D+AV A + GAF+YL+KP +++ ++R AL Sbjct: 63 IELVQEVTAQYKNTPIAVITAFGSADNAVIALKAGAFDYLSKPVGLEQLRVMVRSALRIS 122 Query: 119 ESLRETDIEQGA-AQTP-EILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARA 176 + + + Q A A T ++GQ+ AMQ + I RL++S V I+GESGSGKEL AR Sbjct: 123 QGVVSDKVNQKAIAPTALRLMGQSDAMQALRAQIARLARSMAPVAISGESGSGKELAARD 182 Query: 177 LHKHSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDE 236 +H S R +PFVA+N AIP+ L+E+E FG+ +GAFTGA R G F+ A GGTL LDE Sbjct: 183 IHAQSARNDKPFVAVNCGAIPEALMEAEFFGYRKGAFTGAADDRDGFFQAANGGTLLLDE 242 Query: 237 IGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFREDLYHR 296 + D+PL +Q +LLR + + +VG +VR+I+ATHQNL V +G FR+DLY+R Sbjct: 243 VADLPLAMQVKLLRAIQERCVRKVGATVEEPVDVRIISATHQNLHDCVGKGTFRQDLYYR 302 Query: 297 LNVIRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFPGNVRQL 356 LNVI L LP LRER +DI +LA+ L R G E LSP A+ L FPGNVR+L Sbjct: 303 LNVIELHLPPLRERLDDIGLLAQAIL---VRLGGGEQAALSPAALAALCSYSFPGNVREL 359 Query: 357 ENLCNWITVMAPGQTVEIKDLPQDLVEERVHAPQPAQIVAAPASASALAAPLAYAEAAPG 416 EN+ A +E+ DL A AS S AP Sbjct: 360 ENILERALAFANDGLIEVADL------------------ALKASPSLNPAP--------- 392 Query: 417 ATTAEAGSSSWISLLETEAAQML--ASEQPEVMDILGRQFEAALIKIALKHTHGRKNDAA 474 A+T A S S +E EA L +S+ PE + + E +I+ AL T + AA Sbjct: 393 ASTPSAVSQPISSEVEAEALATLVASSDIPESLPDHLDEVEREIIRRALAKTRFNRTQAA 452 Query: 475 VRLGIGRNTITRKIQELGIGGAE 497 LGI + ++Q L I E Sbjct: 453 ELLGISFRQLRYRMQRLDINAPE 475 >gi|134096598|ref|YP_001101673.1| two-component regulatory system response regulator [Herminiimonas arsenicoxydans] Length = 474 Score = 278 bits (710), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 178/504 (35%), Positives = 271/504 (53%), Gaps = 78/504 (15%) Query: 2 KPIWIVDDDESIRWVLEKALARENLATQSFSSARDAMAALQNGTPQVLVSDIRMPGASGL 61 + I IVDD+ +R L++ L ++ S A L + +++ D +PG SG+ Sbjct: 37 QSILIVDDEPGMRSFLQRTLEDRCSRVEAVDSVEAASVLLDSRHFDLIILDNSLPGKSGV 96 Query: 62 ELLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALDES- 120 E L ++A V++ITAF+DL++A+ A + GA ++L KPF V++ + I R D + Sbjct: 97 EWLHEMRALGLHNDVVLITAFADLETAIHALRAGAADFLLKPFRVNQILSAIGRCFDRTH 156 Query: 121 --------LRETD--IEQGAAQTPEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGK 170 RE D ++ G ++G + A+Q V I RL+ + TVLITGESG+GK Sbjct: 157 LRRENFILRRELDSHVDFG---VDGLVGNSTALQPVRETIKRLATVSSTVLITGESGTGK 213 Query: 171 ELVARALHKHSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGG 230 E+ ARA+H S R+ FV +N A+ D++ESELFGH +GAF+GA + R G F A+GG Sbjct: 214 EIAARAMHYLSSRSGNHFVPVNCGAVAPDIIESELFGHVKGAFSGAASSREGLFFYAQGG 273 Query: 231 TLFLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFR 290 TLFLDE+ ++P+ +Q +LLRVL + VG + + +VRVIAAT++N+E+ V+EG FR Sbjct: 274 TLFLDEVAELPMAMQVKLLRVLEEKKIRPVGAEREIPVDVRVIAATNRNVEEAVQEGRFR 333 Query: 291 EDLYHRLNVIRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFP 350 +DLY+RLNV+++ +P LRER++DIP LA YF+ Q A QLGV ++ + + +P Sbjct: 334 QDLYYRLNVVQVHMPPLRERADDIPALAAYFVRQLAPQLGVPPQQPDNALLAAMVSHAWP 393 Query: 351 GNVRQLENLCN-WITVMAPGQTVEIKDLPQDLVEERVHAPQPAQIVAAPASASALAAPLA 409 GNVR+L NL W+ + ++P Sbjct: 394 GNVRELRNLIERWLI---------LGNIP------------------------------- 413 Query: 410 YAEAAPGATTAEAGSSSWISLLETEAAQMLASEQPEVMDILGRQFEAALIKIALKHTHGR 469 E A G+ + + S +SL A E+ ++ ILG G Sbjct: 414 --EIAIGSKSVAIDNGSDVSL--------QAIEKQHILKILGA-------------ADGN 450 Query: 470 KNDAAVRLGIGRNTITRKIQELGI 493 K +AA RLG+ R T+ RK E G+ Sbjct: 451 KTEAARRLGLSRKTLERKCAEWGV 474 >gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Herminiimonas arsenicoxydans] Length = 454 Score = 254 bits (649), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 171/509 (33%), Positives = 251/509 (49%), Gaps = 66/509 (12%) Query: 1 MKPIWIVDDDESIRWVLEKALARENLATQSFSSARDAMAALQNGTPQVLVSDIRMPGASG 60 M + +V+DD + + A E + + SA A++ ++ LVSDIR+P SG Sbjct: 1 MTSVLLVEDDAIMGESICDRFAIEKIDHEWVQSATAALSRMKQRKFDCLVSDIRLPDLSG 60 Query: 61 LELLQTVKAKHPG---IPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRAL 117 + + + K G P I IT + A GA +YL KP D++ + IR Sbjct: 61 EMMFE--RGKESGNLDYPAIFITGYGTQQQAERLLAKGAADYLVKPLDLESMIGKIRLLT 118 Query: 118 DESLRETDIEQGAAQTPEILGQAPAMQDVFRAIGRLSQSNV-------TVLITGESGSGK 170 A +P I P + + R I RL + V +VL+TGESGSGK Sbjct: 119 ------------AGSSPIITASKPTL-GISREIQRLEEMVVKMGEQWTSVLVTGESGSGK 165 Query: 171 ELVARALHKHSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGG 230 E +AR LH+ + + PF+A+N A+P+ ++E+ELFG+ERGAFTGA RG FEQA G Sbjct: 166 EELARLLHRSAQAGNNPFIAVNCGALPEGMMEAELFGYERGAFTGAAKSHRGYFEQANNG 225 Query: 231 TLFLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFR 290 T+FLDEIG++ Q RLLRVL + R+G + +K N R+IAATH+++ + V+ G FR Sbjct: 226 TVFLDEIGELAPAAQVRLLRVLQEHTLTRLGSEKPIKVNFRLIAATHRDVREEVKAGRFR 285 Query: 291 EDLYHRLNVIRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFP 350 EDLY+R+N+I+LR+P LRER +D+ LAR FL Q + + LS + FL L + Sbjct: 286 EDLYYRINIIQLRVPPLRERLDDVAWLARLFLEQWNQAHPTSPRMLSEPTITFLCTLPWR 345 Query: 351 GNVRQLENLCNWITVMAPGQTVEIKDLPQDLVEERVHAPQPAQIVAAPASASALAAPLAY 410 GN+R+L++ ++ + D + EE++ PA V PA A PLA Sbjct: 346 GNIRELKHAIERACLLTAHPLLRPDDFEMQISEEKLGTFHPATEV--PAMAQPHIIPLAE 403 Query: 411 AEAAPGATTAEAGSSSWISLLETEAAQMLASEQPEVMDILGRQFEAALIKIALKHTHGRK 470 R+ E + L H G+ Sbjct: 404 ---------------------------------------FNREQERRYLVQVLAHYSGQM 424 Query: 471 NDAAVRLGIGRNTITRKIQELGIGGAEDD 499 A LGI R T+ K ++LGI G+E + Sbjct: 425 AQTAAALGISRKTLWEKTRKLGIKGSEPE 453 >gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent transcriptional regulator [Herminiimonas arsenicoxydans] Length = 550 Score = 219 bits (558), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 131/313 (41%), Positives = 189/313 (60%), Gaps = 14/313 (4%) Query: 77 IIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVEL---IRRALDESLR-ETDIEQGAAQ 132 I++T LD QG + + D + ++L + RA ++ R E ++ Q Sbjct: 187 IMVTGIPLLDE-----QGAVRKVIINSRDTTELIQLQEELARAQEKLHRFEMEVSQLRMG 241 Query: 133 TPEILG---QAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKHSPRASQPFV 189 P I G ++P MQ + ++++ TVLITGESG GKE++ R +HK S PFV Sbjct: 242 NPAIAGLITRSPIMQQITVLAQKVAKVGATVLITGESGVGKEVLTRLIHKESTHDKGPFV 301 Query: 190 ALNTAAIPKDLLESELFGHERGAFTGAQAM-RRGRFEQAEGGTLFLDEIGDMPLDLQTRL 248 +N AIP+DLLESELFG+E GAFTGAQ + G E A+ GTLFLDEIG++PLDLQ +L Sbjct: 302 KINCGAIPRDLLESELFGYEGGAFTGAQRQGKVGMIEVADKGTLFLDEIGELPLDLQVKL 361 Query: 249 LRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFREDLYHRLNVIRLRLPSLR 308 L+VL D R+G + ++ +VRV+AAT+++L+ V FR DL++RLNV+ L +P LR Sbjct: 362 LQVLQDRTLTRLGSTRPIQVDVRVVAATNRDLQAMVDARQFRSDLFYRLNVVPLHVPPLR 421 Query: 309 ERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFPGNVRQLENLCNWITVMAP 368 ER EDI L ++FL + Q G + KRLS Q++ L ++PGN+R+L N+ + V AP Sbjct: 422 ERREDILPLIQHFLDELNAQYGFD-KRLSEQSLAALLDYDWPGNIRELRNMVERLVVTAP 480 Query: 369 GQTVEIKDLPQDL 381 + LP L Sbjct: 481 ESLIRSDSLPTPL 493 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 0.318 0.133 0.373 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: 818,913 Number of extensions: 30905 Number of successful extensions: 221 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 221 Number of HSP's successfully gapped: 19 Length of query: 499 Length of database: 1,000,347 Length adjustment: 86 Effective length of query: 413 Effective length of database: 716,977 Effective search space: 296111501 Effective search space used: 296111501 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)