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= 0001.0330.p (378 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095951|ref|YP_001101026.1| type 4 fimbrial biogenesis prot... 500 e-143 gi|134095151|ref|YP_001100226.1| general secretion pathway prote... 311 4e-86 gi|134094005|ref|YP_001099080.1| putative secretion pathway ATPa... 303 6e-84 gi|134093570|ref|YP_001098645.1| twitching mobility protein [Her... 116 2e-27 gi|134093569|ref|YP_001098644.1| twitching motility protein PilU... 109 2e-25 >gi|134095951|ref|YP_001101026.1| type 4 fimbrial biogenesis protein [Herminiimonas arsenicoxydans] Length = 576 Score = 500 bits (1288), Expect = e-143, Method: Compositional matrix adjust. Identities = 233/386 (60%), Positives = 307/386 (79%), Gaps = 18/386 (4%) Query: 11 DDVPVVRLLHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATR 70 DD PVV+ LHK+L DA+ GASDLHFEPFE +R+R RVDGVL ++AQPPL+++EKLA+R Sbjct: 189 DDAPVVKFLHKILIDAINLGASDLHFEPFEKFYRIRFRVDGVLRDIAQPPLAIKEKLASR 248 Query: 71 LKILARLDIAEKRLPQDGKMRLALAE-RSVDFRVSTLPTQFGEKIVLRILDTAQATLSIA 129 +K++++LDI+EKR+PQDG+M+L +++ RS+DFRVSTLPT FGEKIV+RILD +QA + I Sbjct: 249 IKVISKLDISEKRVPQDGRMKLVMSKTRSIDFRVSTLPTLFGEKIVMRILDGSQAQMGIE 308 Query: 130 ELGYEPAQQQALLHAITKPHGLVLMTGPTGSGKTVSLYACLQRLNQPGVNIATAEDPVEI 189 LGY+P Q++ LL+AI +P+G+VL+TGPTGSGKTVSLY CL LN+PG+NI+TAEDP EI Sbjct: 309 ALGYDPDQKETLLNAIQRPYGMVLVTGPTGSGKTVSLYTCLNILNKPGINISTAEDPAEI 368 Query: 190 NLPGVNQVSINERTGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLST 249 NLPGVNQV++N+R GL F +AL+AFLRQDPD++MVGEIRDLETADIA+KA+QTGH+V ST Sbjct: 369 NLPGVNQVNVNDRAGLTFPVALKAFLRQDPDIIMVGEIRDLETADIAIKAAQTGHMVFST 428 Query: 250 LHTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRKLCHCRR----------PAG--- 296 LHTNDAPATLTRL+NMGV +NIA+SV LI AQRLVR+LC C++ AG Sbjct: 429 LHTNDAPATLTRLMNMGVAPFNIASSVILITAQRLVRRLCTCKQTTVIPDEALLEAGFTE 488 Query: 297 ----GRPATFVAQGCPACNHTGFRGRTGIYQVMPVSPAMQSLILAQAGTLELARQAQAEG 352 G + GC C+ +G++GR G+YQ+MP+S ++ +IL +LE+ QA+ +G Sbjct: 489 DDLDGTWLPYKPVGCERCSGSGYKGRLGVYQIMPISEEIEHIILNHGTSLEIETQAKKDG 548 Query: 353 IIDLRRAGLLKVLRGETSVGEILACT 378 + LR +GL+KV +G TS+ EIL CT Sbjct: 549 VRSLRESGLVKVKQGLTSLEEILGCT 574 >gi|134095151|ref|YP_001100226.1| general secretion pathway protein E [Herminiimonas arsenicoxydans] Length = 567 Score = 311 bits (796), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 167/387 (43%), Positives = 239/387 (61%), Gaps = 20/387 (5%) Query: 11 DDVPVVRLLHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATR 70 ++ P+V+LL + DA ASD+H EP E ++R R+DGVLH + + + LA R Sbjct: 177 EEAPIVKLLQSVFDDATQVRASDIHIEPQEGRLQIRFRIDGVLHLQTEADIRIAASLALR 236 Query: 71 LKILARLDIAEKRLPQDGKMRLALAERSVDFRVSTLPTQFGEKIVLRILDTAQATLSIAE 130 LK+++ LDI+EKRLPQDG+ + + +++D R+ST+PTQ+GE +V+R+L+ + TL + Sbjct: 237 LKLMSELDISEKRLPQDGRFAIKVRHQNIDVRISTMPTQYGESVVMRLLNQSGGTLMLDS 296 Query: 131 LGYEPAQQQALLHAITKPHGLVLMTGPTGSGKTVSLYACLQRLNQPGVNIATAEDPVEIN 190 +G + I +P+GLVL+TGPTGSGKT +LY L LN + T EDPVE Sbjct: 297 IGMPVEMMKRFRQIIRRPNGLVLVTGPTGSGKTTTLYGALAELNSLERKLITVEDPVEYR 356 Query: 191 LPGVNQVSINERTGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLSTL 250 LPG+NQV +N++ L FA LR+ LRQDPDV++VGE+RD ETA I ++A+ TGHLVLSTL Sbjct: 357 LPGINQVQVNDKIDLSFARVLRSALRQDPDVILVGEMRDQETAHIGMRAALTGHLVLSTL 416 Query: 251 HTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRKLCHC---------------RRPA 295 HTNDA +T RLL+MGVP Y +A S+ +++AQRLVR +C + Sbjct: 417 HTNDAISTPIRLLDMGVPRYMVATSLQVVLAQRLVRVICESCATDYELLPAEREWLKSEL 476 Query: 296 GGRPATFVAQ---GCPACNHTGFRGRTGIYQVMPVSPAMQSLILAQA-GTLELARQAQAE 351 G T Q GC CN TG+RGRTG+Y+++ ++ A+ + A +AQ Sbjct: 477 GEAINTHRYQHGRGCSHCNGTGYRGRTGVYEMLEMTEAVAHAANSHDPNHFIKAAEAQMA 536 Query: 352 GIIDLRRAGLLKVLRGETSVGEILACT 378 G LRR + V G+T+V E + T Sbjct: 537 GET-LRRHAVSLVAAGKTTVSEAMRIT 562 >gi|134094005|ref|YP_001099080.1| putative secretion pathway ATPase [Herminiimonas arsenicoxydans] Length = 603 Score = 303 bits (777), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 159/387 (41%), Positives = 241/387 (62%), Gaps = 19/387 (4%) Query: 11 DDVPVVRLLHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATR 70 +D ++ ++ L A + ASD+H EP + +R R+DGVLH++ Q P + + R Sbjct: 213 NDQHIINIVDWLWQYAFDQRASDIHLEPKRDLCAIRFRIDGVLHQVYQVPPIVMIAMTAR 272 Query: 71 LKILARLDIAEKRLPQDGKMRLALAE-RSVDFRVSTLPTQFGEKIVLRILDTAQATLSIA 129 +K+L R+D+ EKR PQDG+++ + V+ R+ST+PT FGEK+V+RI D S+ Sbjct: 273 IKLLGRMDVIEKRRPQDGRIKTRTNNGQEVELRLSTMPTAFGEKLVMRIFDPDVVVKSLP 332 Query: 130 ELGYEPAQQQALLHAITKPHGLVLMTGPTGSGKTVSLYACLQRLNQPGVNIATAEDPVEI 189 ELG+ P +PHG++L+TGPTGSGKT +LY L+ L VN+ T EDP+E+ Sbjct: 333 ELGFPPDDAARWDKLTARPHGIILVTGPTGSGKTTTLYTTLKALATSEVNVCTVEDPIEM 392 Query: 190 NLPGVNQVSINERTGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLST 249 NQ+ + L FA +R+ +RQDPD++M+GEIRDLETA++A++A+ TGHLVLST Sbjct: 393 VEGSFNQMQVQHGIDLSFADGVRSLMRQDPDIIMIGEIRDLETAEMAIQAALTGHLVLST 452 Query: 250 LHTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRKLC-HCRRPAGG----------- 297 LHTNDAP+ + RLL +GVP Y + +++ I+AQRL R LC HC+ P G Sbjct: 453 LHTNDAPSAVMRLLELGVPYYLLESTLIGIMAQRLTRTLCNHCKSPDGEMLDDVWQSLAE 512 Query: 298 -----RPAT-FVAQGCPACNHTGFRGRTGIYQVMPVSPAMQSLILAQAGTLELARQAQAE 351 +P+ + GCP C TG+RGRTG+Y+++ ++ +I A+ +L +Q+ ++ Sbjct: 513 GWDIPKPSVIYRPVGCPECRQTGYRGRTGLYELLTITQTFSKMIKAETDIHQLKQQSISD 572 Query: 352 GIIDLRRAGLLKVLRGETSVGEILACT 378 G+ LR AG LK++ G T+ E+L T Sbjct: 573 GMKPLRLAGALKIIEGVTTAEEVLKVT 599 >gi|134093570|ref|YP_001098645.1| twitching mobility protein [Herminiimonas arsenicoxydans] Length = 347 Score = 116 bits (291), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 90/254 (35%), Positives = 136/254 (53%), Gaps = 20/254 (7%) Query: 19 LHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATRLKIL--AR 76 + +LLA +V ASDLH + +RV G + + PPL ++ I+ + Sbjct: 3 ISELLAFSVKNKASDLHLS---AGLPPMIRVHGDVRRINLPPLEHKDVHGMIYDIMNDGQ 59 Query: 77 LDIAEKRLPQDGKMRLALAERSVDFRVSTLPTQFGEKIVLRILDTAQATLSIAELGYEPA 136 + E+RL D + R FRV+ G VLR + + LS+ +L + P Sbjct: 60 RKVYEERLEIDFSFAIPGLAR---FRVNAFNQDRGAAAVLRTIPSK--ILSLEDL-HAP- 112 Query: 137 QQQALLHAITKPHGLVLMTGPTGSGKTVSLYACLQRLNQ-PGVNIATAEDPVEINLPG-- 193 + KP GLVL+TGPTGSGK+ +L A + +N+ +I T EDP+E Sbjct: 113 --KIFAELSLKPRGLVLVTGPTGSGKSTTLAAMVNHVNENEYAHILTIEDPIEFVHDSKK 170 Query: 194 --VNQVSINERTGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLSTLH 251 +NQ + T F ALR+ LR+DPDV++VGE+RDLET +A+ A++TGHLV TLH Sbjct: 171 CLINQREVGPHTH-SFENALRSALREDPDVVLVGELRDLETIRLALSAAETGHLVFGTLH 229 Query: 252 TNDAPATLTRLLNM 265 T+ A T+ R++++ Sbjct: 230 TSSAAKTIDRIIDV 243 >gi|134093569|ref|YP_001098644.1| twitching motility protein PilU [Herminiimonas arsenicoxydans] Length = 378 Score = 109 bits (273), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 108/372 (29%), Positives = 171/372 (45%), Gaps = 41/372 (11%) Query: 17 RLLHKLLADAVGRGASDLHFEPFESVFRVRLRVDGVLHELAQPPLSLREKLATRLKILAR 76 + ++ LL + + SDL + F ++DG + +++ PL+ AT LAR Sbjct: 8 KFMYDLLRLMLSKNGSDLFIT---ADFPPAFKIDGKMTQVSNQPLN-----ATHTIELAR 59 Query: 77 LDIAEKRLPQ---DGKMRLALAERSVD-FRVSTLPTQFGEKIVLRILDTAQATLSIAELG 132 +++K+ + + A++ + FRVS Q +VLR + TA I +LG Sbjct: 60 AIMSDKQAAEFEATKECNFAISPGGIGRFRVSAFIQQGRVGMVLRTITTAIP--KIEDLG 117 Query: 133 YEPAQQQALLHAITKPHGLVLMTGPTGSGKTVSLYACLQRLNQPGV-NIATAEDPVEINL 191 + L + GLV+M G TGSGK+ +L A L N+ +I T EDPVE Sbjct: 118 V----PETLKEVVMTKRGLVIMVGATGSGKSTTLAAMLGYRNEHSHGHIITIEDPVEYVH 173 Query: 192 PGVNQVSINERTGLD---FALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLS 248 P N V G+D + +AL+ LRQ PDV+ +GEIRD ET D A+ ++TGHL L+ Sbjct: 174 PHKNCVITQREIGVDTESWGIALKNTLRQAPDVIFIGEIRDRETMDYAIAFAETGHLCLA 233 Query: 249 TLHTNDAPATLTRLLNMGVPA---YNIAASVSLIVAQRLVRKLCHCRRPAGGRPATFVAQ 305 T+H N + L R++N P + +SL + + ++L + G A V Sbjct: 234 TMHANSSNQALDRIVNF-FPEERRQQLLMDLSLNLKGMISQRLIPLKDTKGRCVAVEVML 292 Query: 306 GCPACNHTGFRGRTGIYQVMPVSPAMQSLILAQAGTLELARQAQAEGIIDLRRAGLLKV- 364 P + F+G V + M+ + EL Q + + DL AG + Sbjct: 293 NSPLISDLIFKG-----DVHEIKEIMKK-------SRELGMQTFDQALFDLYEAGKISYE 340 Query: 365 --LRGETSVGEI 374 LR SV ++ Sbjct: 341 DALRNADSVNDL 352 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 0.388 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: 643,871 Number of extensions: 25180 Number of successful extensions: 122 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 6 Length of query: 378 Length of database: 1,000,347 Length adjustment: 83 Effective length of query: 295 Effective length of database: 726,862 Effective search space: 214424290 Effective search space used: 214424290 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)