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= 0001.2986.p (763 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095906|ref|YP_001100981.1| putative composite two componen... 264 1e-71 gi|134094526|ref|YP_001099601.1| chemotaxis protein cheA [Hermin... 185 6e-48 gi|134094187|ref|YP_001099262.1| putative chemotaxis protein Che... 182 6e-47 gi|134094525|ref|YP_001099600.1| chemotactic response regulator ... 95 2e-20 gi|134095910|ref|YP_001100985.1| twitching motility protein [Her... 85 1e-17 >gi|134095906|ref|YP_001100981.1| putative composite two component regulatory (sensor histidine kinase and response regulator hybrid) transcription regulator protein [Herminiimonas arsenicoxydans] Length = 1969 Score = 264 bits (674), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 228/807 (28%), Positives = 378/807 (46%), Gaps = 68/807 (8%) Query: 1 MSTPDLSQMSMLDLFRFEAESQIAQLNTSLLALEQKPDAAEHLEACMRAGHSLKGAARIV 60 ++ D + +L +F E + Q+ +L A +Q A ++ +R H++KG+AR+ Sbjct: 1175 LTIKDEIDIDLLPVFIEEGSDMLPQMGQALRAWQQNLGDAALPQSVLRILHTVKGSARMA 1234 Query: 61 GLDTAVKVAHVLEDCFVLAQRGQLRLEKKHIDVLLR---GADLLGRIAAPPDGDEAWADH 117 G + H +E D+L R G L ++ P D Sbjct: 1235 GAMLLGQHMHEMETRIENITHAGYPSAAAVEDLLARHDHGLQLFEQLQNP---DAIRPQA 1291 Query: 118 AGSAEVQAFLLALPAVMSGGEAAPWPVPAAVGPATPELNAEVTPAPTSSPASPLSGEAVA 177 + +A PA AA PV ++ P T + ++ +P + V Sbjct: 1292 SAAAVTDEENTPAPA------AAELPVIQSLMPVTDNRTTPIAAEAAAASRTPATATPVP 1345 Query: 178 LAAASRAVRVSADSLDRLLGLSGEALVESRRLKP-----------FSANMLRMKRGQRE- 225 L VRV AD LDRL+ +GE + +L+ S N++R++ RE Sbjct: 1346 L------VRVRADILDRLVNQAGEVSISRSKLETEVGTLRASMGELSENVIRLREQLREI 1399 Query: 226 AMQALDLLQHQL---SSNQFDELTH---ATLNELRSLMQQNQQLLGE-QLNALDAFDRRS 278 MQA + + S +FD L L EL +M ++ +G Q N D S Sbjct: 1400 EMQAESQITSHMGVSSDREFDPLEFDRFTRLQELTRMMAESVNDVGSVQQNLSRTIDSAS 1459 Query: 279 LNLSQR------LYDEALACRMRPFADGTGGFARMVRDVAHMLGKSVRLDISGNDTQIDR 332 +L+ + L + + RM FA + R+ R A + K V LDI G+ ++DR Sbjct: 1460 TDLTNQARLTRDLQQDLMRVRMVQFASISERLYRVTRQAAKEMDKRVNLDIRGSAVEVDR 1519 Query: 333 DILEKLEAPIGHLLRNALDHGIEEAATRRAAGKPEQGVIRLEARHSAGMLLIEVADDGAG 392 +LEK+ P HLLRNA+ HGIE RRAAGK E G +R+E R ++I +DDG G Sbjct: 1520 SVLEKMAGPFEHLLRNAIVHGIESREKRRAAGKSETGELRIEIRQEGNEVVIHFSDDGQG 1579 Query: 393 IDLARLRQAVVARGLSNQETVERLSESELLDFLLLPSFSLRDTVTEISGRGVGLDVVADM 452 ++L +R + GL E + LS++E+ D + P FS + +TE++GRG+G+DVV Sbjct: 1580 LNLNSIRSKALQNGLVKAE--DALSDAEVTDLIFHPGFSTAEEITELAGRGIGMDVVRSE 1637 Query: 453 LKQVRGTIRISTRAGQGSRFLLQLPLTLSVIRSLLVDIGGEPYAFPLAYVNRTLRLPAEA 512 + G + I++ G+G+ F + LPLTL+V + +++ GG+ YA P V + +L Sbjct: 1638 AASLGGRVAIASEPGKGAYFTIHLPLTLAVTQVVILSTGGKTYAIPSVLVEQVQQLKNGP 1697 Query: 513 LQTL--EGYQHFHHEGRQVGLISAHQVLHKGQWRVRDGSVCVVVIGEQERSYGVAVDAFL 570 L T EG + + + +SA + S +++ +R + VD L Sbjct: 1698 LATAYNEGAVMWQSQRVPMHYLSALLGDTDAAPVTQQYSPLMILKSGSDR-VALHVDEIL 1756 Query: 571 GERTLVVQPLDARLGKIPDILAGALMEDGAPLLILDVADLL-RTVEKLTSSGRLQTVDQE 629 G R +VV+ + +L ++ I ++ G +LIL+ L R + + RL D Sbjct: 1757 GNREVVVKNIGPQLSRMIGIAGATVLGSGEIVLILNPVPLAQRVAHENIRAPRLTPSDVP 1816 Query: 630 GSSPATV-------VARKK-----------VLVVDDSLTVRELERKLLTHRGYQVTVAVD 671 G A VAR+ V+VVDDSLTVR + ++LLT GYQV +A D Sbjct: 1817 GDMGAVAEMATFEPVARRVEPVQGLRTQHIVMVVDDSLTVRRVTQRLLTREGYQVVLAKD 1876 Query: 672 GMDGWNAVRAEHFDLVITDIDMPRMDGIELVSLIRGAPQWQSLPVMIVSYKDREEDRQRG 731 G+D +++ D+++ DI+MPRMDG +L IR + + +P+++++ + + R Sbjct: 1877 GVDALQHLQSVTPDVMLVDIEMPRMDGFDLTRNIRDDERTRDIPIIMITSRTASKHRNYA 1936 Query: 732 LAAGADHYFTKSSFHDESLLRAVTDLI 758 + G + Y K + +E+L++ + I Sbjct: 1937 MELGVNEYLGK-PYQEEALVKLIAGFI 1962 >gi|134094526|ref|YP_001099601.1| chemotaxis protein cheA [Herminiimonas arsenicoxydans] Length = 697 Score = 185 bits (470), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 128/447 (28%), Positives = 222/447 (49%), Gaps = 53/447 (11%) Query: 174 EAVALAAASRAVRVSADSLDRLLGLSGEALVESRRLKPFSANMLRMKRGQREAMQALDLL 233 + +A +A S ++RV + +D+L+ L GE ++ ++ QR Sbjct: 296 DKMAQSAESSSIRVGIEKVDQLINLVGELVITQAMIE------------QR--------- 334 Query: 234 QHQLSSNQFDELTHATLNELRSLMQQNQQLLGEQLNALDAFDRRSLNLSQRLYDEALACR 293 ++ D + H L LN++ R + +L + + ++ R Sbjct: 335 -----TDSLDPMLHERL-----------------LNSVSQLTRNTRDLQEAV----MSIR 368 Query: 294 MRPFADGTGGFARMVRDVAHMLGKSVRLDISGNDTQIDRDILEKLEAPIGHLLRNALDHG 353 M P F RMVRD+A LGK + G T++D+ ++E++ P+ HL+RN++DHG Sbjct: 369 MMPMDYVFSRFPRMVRDLAGKLGKKIEFVTQGAATELDKGLIERIVDPLTHLVRNSIDHG 428 Query: 354 IEEAATRRAAGKPEQGVIRLEARHSAGMLLIEVADDGAGIDLARLRQAVVARGLSNQETV 413 IE R AAGK G + L A H G ++IEV+DDG G++ R+ +G+ E Sbjct: 429 IEMPEARTAAGKAPAGQLSLSASHQGGNIIIEVSDDGGGLNRERILAKARQKGM---EVS 485 Query: 414 ERLSESELLDFLLLPSFSLRDTVTEISGRGVGLDVVADMLKQVRGTIRISTRAGQGSRFL 473 + + ++ + P FS + VT++SGRGVG+DVV + + G + I + G G+ Sbjct: 486 NEMPDGDVWQLIFAPGFSTAEAVTDVSGRGVGMDVVKRNITAMGGAVEIRSSKGFGTTIS 545 Query: 474 LQLPLTLSVIRSLLVDIGGEPYAFPLAYVNRTLRLPAEALQTLEGY-QHFHHEGRQVGLI 532 + LPLTL+++ + + +G E Y PL YV +L+ E ++ + G + G + LI Sbjct: 546 ISLPLTLAILDGMSIKVGEEIYILPLGYVVESLQPEPEDVKEISGQGKVVKVRGDYLPLI 605 Query: 533 SAHQVLHKGQWRVRDGSVCVVVIGEQE-RSYGVAVDAFLGERTLVVQPLDARLGKIPDIL 591 +++ + D S +VVI E E R + +D +G++ +VV+ L++ K+ I Sbjct: 606 PLYKMFDI-EPNFTDPSEGIVVILESEGRKAALFIDELVGQQQVVVKNLESNYRKVAGIS 664 Query: 592 AGALMEDGAPLLILDVADLLRTVEKLT 618 ++ DG LI+DVA LLR+ +L Sbjct: 665 GATILGDGGVSLIIDVAALLRSSRQLN 691 >gi|134094187|ref|YP_001099262.1| putative chemotaxis protein CheA [Herminiimonas arsenicoxydans] Length = 609 Score = 182 bits (461), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 119/348 (34%), Positives = 191/348 (54%), Gaps = 17/348 (4%) Query: 264 LGEQLNALDAFDRRSLNLSQRLYDEALACRMRPFADGTGGFARMVRDVAHMLGKSVRLDI 323 L E LN R+ S L L+ RM+P F R+VR++A LGK V L I Sbjct: 268 LAETLN-------RASRYSTELQRATLSTRMQPVGKLFQKFPRLVRELAKDLGKDVDLQI 320 Query: 324 SGNDTQIDRDILEKLEAPIGHLLRNALDHGIEEAATRRAAGKPEQGVIRLEARHSAGMLL 383 G +T++DR +++ L P+ H+LRN+LDHGIE+ ATR A GK + VI L+A A ++ Sbjct: 321 EGAETEVDRVVVDSLYDPLVHMLRNSLDHGIEDNATRTANGKSTKSVILLKAWQEASSVM 380 Query: 384 IEVADDGAGIDLARLRQAVVARGLSNQETVERLSESELLDFLLLPSFSLRDTVTEISGRG 443 IE++DDG G++ +LR +++GL + ++ E+L + LP FS ++ +SGRG Sbjct: 381 IEISDDGKGMNGEQLRAKAISKGLIADTAAQ--TQEEMLQLVFLPGFSTKEVANSVSGRG 438 Query: 444 VGLDVVADMLKQVRGTIRISTRAGQGSRFLLQLPLTLSVIRSLLVDIGGEPYAFPLAYVN 503 VG+DVV +++ RG I I + G G+RF ++LP+ LS++ ++LV A P+A V Sbjct: 439 VGMDVVKTAVEKHRGAITIDSTLGVGTRFSIRLPIELSIVPTMLVRSSDAALALPMAVVQ 498 Query: 504 RTLRLPAEALQTLEGYQHFHHEGRQVGLISAHQVLHKGQWRVRDGSVCVVVIGEQERSYG 563 R + LP E + + G +GR + + S L + + V +V+ Q Y Sbjct: 499 RVVELPDE-FEHVGGAPVLRDQGRPLPVRSLAGSLG---YELGVEKVGIVISAPQ--PYI 552 Query: 564 VAVDAFLGERTLVVQPLDARLGKIPDILAGALMEDGAPLLILDVADLL 611 ++V A G LV++P+ A +P I A +G +L++ ++ LL Sbjct: 553 LSVGAVEGTADLVIKPMTAI--TVPGIAGTARSAEGELVLVVGLSFLL 598 >gi|134094525|ref|YP_001099600.1| chemotactic response regulator [Herminiimonas arsenicoxydans] Length = 121 Score = 94.7 bits (234), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 48/120 (40%), Positives = 75/120 (62%), Gaps = 1/120 (0%) Query: 640 KKVLVVDDSLTVRELERKLLTHRGYQVTVAVDGMDGWNAVRAEHFDLVITDIDMPRMDGI 699 K +L VDDS ++R++ L GYQVT AVDG DG + + + FDLV+TD +MPRMDG Sbjct: 3 KTILAVDDSGSLRQMVVFSLRAAGYQVTEAVDGQDGLDKAQMQVFDLVLTDQNMPRMDGF 62 Query: 700 ELVSLIRGAPQWQSLPVMIVSYKDREEDRQRGLAAGADHYFTKSSFHDESLLRAVTDLIG 759 L+ +R P +Q +P+++++ + +E + +G AAGA+ + K F + L V +IG Sbjct: 63 SLIRALRALPTYQKVPILVLTTESSDEMKAKGRAAGANGWLVK-PFDPQRLTEVVKKVIG 121 >gi|134095910|ref|YP_001100985.1| twitching motility protein [Herminiimonas arsenicoxydans] Length = 133 Score = 85.1 bits (209), Expect = 1e-17, Method: Composition-based stats. Identities = 47/123 (38%), Positives = 70/123 (56%), Gaps = 1/123 (0%) Query: 641 KVLVVDDSLTVRELERKLLTHRGYQVTVAVDGMDGWNAVRAEHFDLVITDIDMPRMDGIE 700 K++V+DDS T+R L GY+V +A DG D + L+ DI MPR+DG + Sbjct: 11 KIMVIDDSSTIRRSAEIFLGQAGYKVVLADDGFDALAKMNDHKPALIFCDILMPRLDGYQ 70 Query: 701 LVSLIRGAPQWQSLPVMIVSYKDREEDRQRGLAAGADHYFTKSSFHDESLLRAVTDLIGE 760 +LI+ + ++ S PV+++S KD DR RG G+D Y TK F +SLL+ V + E Sbjct: 71 TCALIKKSAKFHSTPVIMLSSKDGLFDRARGAMVGSDAYLTK-PFTKDSLLKTVREYAAE 129 Query: 761 ATS 763 A + Sbjct: 130 AVA 132 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 0.319 0.135 0.378 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: 1,281,386 Number of extensions: 51401 Number of successful extensions: 260 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 252 Number of HSP's successfully gapped: 19 Length of query: 763 Length of database: 1,000,347 Length adjustment: 89 Effective length of query: 674 Effective length of database: 707,092 Effective search space: 476580008 Effective search space used: 476580008 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: 132 (55.5 bits)