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= 0001.4620.p (460 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regu... 283 9e-78 gi|134094186|ref|YP_001099261.1| two-component system response r... 283 1e-77 gi|134096598|ref|YP_001101673.1| two-component regulatory system... 270 1e-73 gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Hermin... 262 2e-71 gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent tra... 219 2e-58 >gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regulatory protein [Herminiimonas arsenicoxydans] Length = 475 Score = 283 bits (725), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 174/377 (46%), Positives = 234/377 (62%), Gaps = 9/377 (2%) Query: 4 TTP-LLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMD 62 T+P +L+VDD+ DL LL + L G I + + EAA LA + ALV+TD+RLP Sbjct: 2 TSPRILVVDDEADLRELLEITLIKMGLDIDSAATLEAARDYLAKTEYALVLTDMRLPDGL 61 Query: 63 GLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQALSL 122 G+ L E+ ++Y P+ ++TA G+ +AV A GAF YL+KP L V AL + Sbjct: 62 GIELVQEVTAQYKNTPIAVITAFGSADNAVIALKAGAFDYLSKPVGLEQLRVMVRSALRI 121 Query: 123 SA-----PAQEAPDAAWRADIISRSQRIDELLAEARLVAASDASLLIRGESGTGKELLAR 177 S + A ++ +S + L A+ +A S A + I GESG+GKEL AR Sbjct: 122 SQGVVSDKVNQKAIAPTALRLMGQSDAMQALRAQIARLARSMAPVAISGESGSGKELAAR 181 Query: 178 AIHRASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAADGGTLFLD 237 IH S R DKPF+AVNCGAIPE L+E+E FG+ KGAFTGA + R+G FQAA+GGTL LD Sbjct: 182 DIHAQSARNDKPFVAVNCGAIPEALMEAEFFGYRKGAFTGAADDRDGFFQAANGGTLLLD 241 Query: 238 EIGDMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYY 297 E+ D+P A+QVKLLR +QE+ VR+VGA V+VR+ISATH++L + +G FRQDLYY Sbjct: 242 EVADLPLAMQVKLLRAIQERCVRKVGATVEEPVDVRIISATHQNLHDCVGKGTFRQDLYY 301 Query: 298 RLNVVALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLSLAHWPGNVRQ 357 RLNV+ L+LP L ER +DI LLA L + L+ A AL S +PGNVR+ Sbjct: 302 RLNVIELHLPPLRERLDDIGLLAQAILVRLGGGEQAALSPAALAALCSYS---FPGNVRE 358 Query: 358 LYNVVEQVCALSTAPLI 374 L N++E+ A + LI Sbjct: 359 LENILERALAFANDGLI 375 >gi|134094186|ref|YP_001099261.1| two-component system response regulator [Herminiimonas arsenicoxydans] Length = 473 Score = 283 bits (725), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 150/340 (44%), Positives = 217/340 (63%), Gaps = 13/340 (3%) Query: 44 LAISLPALVITDVRLPGMDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYL 103 L P ++++D+R+PG GL L +++++P LPVI++TA + AV A GAF YL Sbjct: 4 LKTGAPQVLVSDIRMPGETGLELLQAVKAKHPGLPVIIITAFSDLDSAVAAFQGGAFEYL 63 Query: 104 TKPFDGHVLLDKVAQAL-------SLSAPAQEAPDAAWRADIISRSQRIDELLAEARLVA 156 KPFD ++ + +AL S+ + E P+ I+ ++ + ++ ++ Sbjct: 64 AKPFDIDKAVELIRRALEESLRETSIEQVSAETPE------ILGQAPAMQDVFRAIGRLS 117 Query: 157 ASDASLLIRGESGTGKELLARAIHRASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFT 216 S+ ++LI GESG+GKEL+ARA+H+ SPRA +PFIA+N AIP+ LLESELFGH +GAFT Sbjct: 118 QSNVTVLITGESGSGKELVARALHKHSPRASQPFIALNTAAIPKDLLESELFGHERGAFT 177 Query: 217 GAVEHREGLFQAADGGTLFLDEIGDMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVIS 276 GA R G F+ ADGGTLFLDEIGDMP LQ +LLRVL + +VG ++ + NVRVI+ Sbjct: 178 GAQASRRGRFEQADGGTLFLDEIGDMPFDLQTRLLRVLSDGHFYRVGGHQPLKANVRVIA 237 Query: 277 ATHRDLEIAMMQGQFRQDLYYRLNVVALNLPSLEERREDIALLANHFLKTIAAKYPKRLT 336 ATH++LE + +G FR+DLY+RLNV+ L LPSL ERREDI +L HFL A + + Sbjct: 238 ATHQNLEQRVREGLFREDLYHRLNVIRLRLPSLRERREDIPILTRHFLAQSAKQLGVEVK 297 Query: 337 GFAPDALEVLSLAHWPGNVRQLYNVVEQVCALSTAPLIPA 376 + A++ L+ PGNVRQL N+ + ++ + A Sbjct: 298 RMSDGAMQFLTNLELPGNVRQLENLCNWITVMAPGQTVEA 337 >gi|134096598|ref|YP_001101673.1| two-component regulatory system response regulator [Herminiimonas arsenicoxydans] Length = 474 Score = 270 bits (690), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 170/448 (37%), Positives = 256/448 (57%), Gaps = 27/448 (6%) Query: 7 LLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMDGLAL 66 +L+VDD+P + L L R+ AV+S EAA L L+I D LPG G+ Sbjct: 39 ILIVDDEPGMRSFLQRTLEDRCSRVEAVDSVEAASVLLDSRHFDLIILDNSLPGKSGVEW 98 Query: 67 FAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQALSLSAPA 126 E+R+ V+L+TA + A+ A GA +L KPF + +L + + + Sbjct: 99 LHEMRALGLHNDVVLITAFADLETAIHALRAGAADFLLKPFRVNQILSAIGRCFDRTHLR 158 Query: 127 QEA--------PDAAWRAD-IISRSQRIDELLAEARLVAASDASLLIRGESGTGKELLAR 177 +E + D ++ S + + + +A +++LI GESGTGKE+ AR Sbjct: 159 RENFILRRELDSHVDFGVDGLVGNSTALQPVRETIKRLATVSSTVLITGESGTGKEIAAR 218 Query: 178 AIHRASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAADGGTLFLD 237 A+H S R+ F+ VNCGA+ ++ESELFGHVKGAF+GA REGLF A GGTLFLD Sbjct: 219 AMHYLSSRSGNHFVPVNCGAVAPDIIESELFGHVKGAFSGAASSREGLFFYAQGGTLFLD 278 Query: 238 EIGDMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYY 297 E+ ++P A+QVKLLRVL+EK +R VGA V+VRVI+AT+R++E A+ +G+FRQDLYY Sbjct: 279 EVAELPMAMQVKLLRVLEEKKIRPVGAEREIPVDVRVIAATNRNVEEAVQEGRFRQDLYY 338 Query: 298 RLNVVALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAP----DALEVLSLAH-WP 352 RLNVV +++P L ER +DI LA +F++ +A + G P +AL ++H WP Sbjct: 339 RLNVVQVHMPPLRERADDIPALAAYFVRQLAPQL-----GVPPQQPDNALLAAMVSHAWP 393 Query: 353 GNVRQLYNVVEQVCALSTAPLIPASLVQRALRVPTLDLLRYAEAK-QKFERDYLVRLLKL 411 GNVR+L N++E+ L P I A+ ++ + ++ Q E+ +++++L Sbjct: 394 GNVRELRNLIERWLILGNIPEI-------AIGSKSVAIDNGSDVSLQAIEKQHILKILGA 446 Query: 412 TDGNVSDAARLADRNRTEFYRLLQKNGL 439 DGN ++AAR +R R + G+ Sbjct: 447 ADGNKTEAARRLGLSRKTLERKCAEWGV 474 >gi|134093746|ref|YP_001098821.1| AoxR regulatory protein [Herminiimonas arsenicoxydans] Length = 454 Score = 262 bits (670), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 164/466 (35%), Positives = 255/466 (54%), Gaps = 35/466 (7%) Query: 5 TPLLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMDGL 64 T +LLV+DD + + R V+SA AAL+++ +++D+RLP + G Sbjct: 2 TSVLLVEDDAIMGESICDRFAIEKIDHEWVQSATAALSRMKQRKFDCLVSDIRLPDLSGE 61 Query: 65 ALFAEIRSR----YPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL 120 +F + YPA I +T +GT A +GA YL KP D ++ K+ Sbjct: 62 MMFERGKESGNLDYPA---IFITGYGTQQQAERLLAKGAADYLVKPLDLESMIGKIRLLT 118 Query: 121 SLSAPAQEAPDAAWRADIISRS-QRIDELLAEARLVAASDASLLIRGESGTGKELLARAI 179 + S+P A ISR QR++E++ + + S+L+ GESG+GKE LAR + Sbjct: 119 AGSSPIITASKPTLG---ISREIQRLEEMVVK---MGEQWTSVLVTGESGSGKEELARLL 172 Query: 180 HRASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAADGGTLFLDEI 239 HR++ + PFIAVNCGA+PE ++E+ELFG+ +GAFTGA + G F+ A+ GT+FLDEI Sbjct: 173 HRSAQAGNNPFIAVNCGALPEGMMEAELFGYERGAFTGAAKSHRGYFEQANNGTVFLDEI 232 Query: 240 GDMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYYRL 299 G++ PA QV+LLRVLQE T+ ++G+ + +VN R+I+ATHRD+ + G+FR+DLYYR+ Sbjct: 233 GELAPAAQVRLLRVLQEHTLTRLGSEKPIKVNFRLIAATHRDVREEVKAGRFREDLYYRI 292 Query: 300 NVVALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLSLAHWPGNVRQLY 359 N++ L +P L ER +D+A LA FL+ +P + + L W GN+R+L Sbjct: 293 NIIQLRVPPLRERLDDVAWLARLFLEQWNQAHPTSPRMLSEPTITFLCTLPWRGNIRELK 352 Query: 360 NVVEQVCALSTAPLI------------PASLVQRALRVPTL---DLLRYAEAKQKFERDY 404 + +E+ C L+ PL+ A VP + ++ AE ++ ER Y Sbjct: 353 HAIERACLLTAHPLLRPDDFEMQISEEKLGTFHPATEVPAMAQPHIIPLAEFNREQERRY 412 Query: 405 LVRLLKLTDGNVSDAARLADRNRTEFYRLLQKNGLDPRRFRGGEEP 450 LV++L G ++ A +R + +K G+ G EP Sbjct: 413 LVQVLAHYSGQMAQTAAALGISRKTLWEKTRKLGIK------GSEP 452 >gi|134093917|ref|YP_001098992.1| putative sigma-54 dependent transcriptional regulator [Herminiimonas arsenicoxydans] Length = 550 Score = 219 bits (559), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 121/252 (48%), Positives = 168/252 (66%), Gaps = 6/252 (2%) Query: 136 ADIISRSQRIDELLAEARLVAASDASLLIRGESGTGKELLARAIHRASPRADKPFIAVNC 195 A +I+RS + ++ A+ VA A++LI GESG GKE+L R IH+ S PF+ +NC Sbjct: 246 AGLITRSPIMQQITVLAQKVAKVGATVLITGESGVGKEVLTRLIHKESTHDKGPFVKINC 305 Query: 196 GAIPEQLLESELFGHVKGAFTGAVEH-REGLFQAADGGTLFLDEIGDMPPALQVKLLRVL 254 GAIP LLESELFG+ GAFTGA + G+ + AD GTLFLDEIG++P LQVKLL+VL Sbjct: 306 GAIPRDLLESELFGYEGGAFTGAQRQGKVGMIEVADKGTLFLDEIGELPLDLQVKLLQVL 365 Query: 255 QEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYYRLNVVALNLPSLEERRE 314 Q++T+ ++G+ +V+VRV++AT+RDL+ + QFR DL+YRLNVV L++P L ERRE Sbjct: 366 QDRTLTRLGSTRPIQVDVRVVAATNRDLQAMVDARQFRSDLFYRLNVVPLHVPPLRERRE 425 Query: 315 DIALLANHFLKTIAAKY--PKRLTGFAPDALEVLSLAHWPGNVRQLYNVVEQVCALSTAP 372 DI L HFL + A+Y KRL+ +L L WPGN+R+L N+VE++ + Sbjct: 426 DILPLIQHFLDELNAQYGFDKRLS---EQSLAALLDYDWPGNIRELRNMVERLVVTAPES 482 Query: 373 LIPASLVQRALR 384 LI + + LR Sbjct: 483 LIRSDSLPTPLR 494 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 0.137 0.385 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: 817,601 Number of extensions: 33600 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 24 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 24 Length of query: 460 Length of database: 1,000,347 Length adjustment: 85 Effective length of query: 375 Effective length of database: 720,272 Effective search space: 270102000 Effective search space used: 270102000 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: 130 (54.7 bits)