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= 0001.2680.p (328 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134094678|ref|YP_001099753.1| putative two-component response... 226 1e-60 gi|134093341|ref|YP_001098416.1| putative two-component system r... 86 3e-18 gi|134095909|ref|YP_001100984.1| twitching motility protein. pil... 78 7e-16 gi|134095906|ref|YP_001100981.1| putative composite two componen... 78 8e-16 gi|134094343|ref|YP_001099418.1| response regulator [Herminiimon... 72 4e-14 >gi|134094678|ref|YP_001099753.1| putative two-component response regulator protein [Herminiimonas arsenicoxydans] Length = 315 Score = 226 bits (576), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 137/323 (42%), Positives = 184/323 (56%), Gaps = 25/323 (7%) Query: 1 MISTTFDRHVVLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDA 60 +I R VVL+VDD P +L +L + L+ SG+IVLVA DG AL L TPD+IL+DA Sbjct: 7 LIDNPDSRPVVLVVDDAPSSLGVLCETLESSGYIVLVACDGDTALRCLTLTTPDIILMDA 66 Query: 61 MMPGIDGFETCRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVA 120 +MPG+ GF+ CR IK H+P++FMTGLS+T HV+ GF GG+DYV KP+ EV+A Sbjct: 67 VMPGMSGFDACRHIKSDLATKHIPLIFMTGLSDTSHVLEGFACGGVDYVVKPVCAPEVLA 126 Query: 121 RIGAHIRTARLMTQTRGVLEHAAHAVIVLGGNGLPMWQTSKASQWLEKYYGPAAPTSHKL 180 R+ H+ AR+ ++ + V++L G W + A Q L ++ L Sbjct: 127 RLHTHLGNARVARFALDAIDMSGLGVVMLNQQGAISWCSPCARQLLMQF----GIKQDAL 182 Query: 181 PAPLQVWLNEQLVRQRQGGSLDHVPPLIVRHQQDALHITLSGPGQGHGVSLVLEEKTASA 240 P Q W ++ GS + I D+L + G + L+LE + Sbjct: 183 ALP-QSWWDD--------GSNMVLVASIAEPAGDSLLVRNMGSAGMDEIMLLLELSSN-- 231 Query: 241 ALRTDEGMSLPPT--LESCRLTPRESDVLLWLGKGKTNRDIAEILGMSPRTVNKHLEHIF 298 + PT L S LTPRE++VL WL KGKTNRDI +IL +SPRTV+KHLEHIF Sbjct: 232 --------RMLPTGRLASAALTPRETEVLSWLAKGKTNRDIGDILQLSPRTVSKHLEHIF 283 Query: 299 VKLGVETRSAAAVLASAMASAPA 321 KLGVETRSAA +ASA +A A Sbjct: 284 EKLGVETRSAAVAMASAQDNAGA 306 >gi|134093341|ref|YP_001098416.1| putative two-component system regulatory protein [Herminiimonas arsenicoxydans] Length = 227 Score = 85.9 bits (211), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 46/119 (38%), Positives = 73/119 (61%), Gaps = 1/119 (0%) Query: 12 LIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDGFETC 71 LI++D PD +A L L+ G+ + VA GQA ++R D+I+LD +PG+DG E C Sbjct: 4 LIIEDNPDIVANLYGFLEPLGYTLDVALTGQAGVKRATSAHYDVIVLDLELPGLDGIEVC 63 Query: 72 RRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIRTAR 130 R++++ +R+A P++ +T + + GFEVG DY+ KP E+ AR+ A +R AR Sbjct: 64 RQLRKEQRLA-TPILMLTARDTVKDKLAGFEVGADDYLVKPFSLVELEARLKALVRRAR 121 >gi|134095909|ref|YP_001100984.1| twitching motility protein. pilH ortholog [Herminiimonas arsenicoxydans] Length = 121 Score = 77.8 bits (190), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 62/114 (54%) Query: 11 VLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDGFET 70 +LIVDD P L+D L + G V A +G+ AL ++ P LIL+D +MPG +GF+ Sbjct: 6 ILIVDDSPTERYFLTDILVKKGFSVSTAENGEEALLKIKADKPQLILMDIVMPGQNGFQI 65 Query: 71 CRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGA 124 R I + VP++ T + + G G DY+ KP+ P E++++I A Sbjct: 66 TRAITRDPETQDVPIIICTSKGQETDRIWGLRQGARDYIVKPVDPAELLSKIAA 119 >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 = 77.8 bits (190), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 38/120 (31%), Positives = 69/120 (57%) Query: 8 RHVVLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGIDG 67 +H+V++VDD + L G+ V++A DG AL+ L +TPD++L+D MP +DG Sbjct: 1844 QHIVMVVDDSLTVRRVTQRLLTREGYQVVLAKDGVDALQHLQSVTPDVMLVDIEMPRMDG 1903 Query: 68 FETCRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHIR 127 F+ R I+ +R +P++ +T + ++H E+G +Y+ KP + + +V I I+ Sbjct: 1904 FDLTRNIRDDERTRDIPIIMITSRTASKHRNYAMELGVNEYLGKPYQEEALVKLIAGFIK 1963 >gi|134094343|ref|YP_001099418.1| response regulator [Herminiimonas arsenicoxydans] Length = 229 Score = 72.0 bits (175), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 39/121 (32%), Positives = 63/121 (52%) Query: 7 DRHVVLIVDDMPDNLAMLSDALDESGHIVLVATDGQAALERLDHITPDLILLDAMMPGID 66 ++ +LIV+D P + +++ L +G V A + + P LILLD M+P Sbjct: 4 EKPTILIVEDEPPIIELVTFTLKGAGWNVTAVQTAGEAWDFIQQRLPQLILLDWMLPDQS 63 Query: 67 GFETCRRIKQVKRVAHVPVVFMTGLSETEHVVRGFEVGGIDYVTKPIRPQEVVARIGAHI 126 G RI+ ++ +P++ +T S E + G + G DYVTKP P+E+ ARI A + Sbjct: 64 GLRLLSRIRADRQFNELPIIMLTAKSMEEDKIAGLDNGADDYVTKPFSPRELTARINALL 123 Query: 127 R 127 R Sbjct: 124 R 124 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 0.134 0.395 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: 647,864 Number of extensions: 27561 Number of successful extensions: 150 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 150 Number of HSP's successfully gapped: 23 Length of query: 328 Length of database: 1,000,347 Length adjustment: 82 Effective length of query: 246 Effective length of database: 730,157 Effective search space: 179618622 Effective search space used: 179618622 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: 129 (54.3 bits)