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= 0001.3659.p (136 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... 72 1e-14 gi|134095910|ref|YP_001100985.1| twitching motility protein [Her... 69 1e-13 gi|134094677|ref|YP_001099752.1| putative two-component sensor k... 68 1e-13 gi|134094525|ref|YP_001099600.1| chemotactic response regulator ... 65 8e-13 gi|134094343|ref|YP_001099418.1| response regulator [Herminiimon... 57 3e-10 >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 = 72.0 bits (175), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 39/118 (33%), Positives = 64/118 (54%), Gaps = 3/118 (2%) Query: 10 VLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLRMPRMDGMEL 69 V+VV+D R + LL + G V+ A DGVDA+ +Q PD++L D+ MPRMDG +L Sbjct: 1847 VMVVDDSLTVRRVTQRLLTREGYQVVLAKDGVDALQHLQSVTPDVMLVDIEMPRMDGFDL 1906 Query: 70 ARYIKSHERYAQIPVVLISAHLPAASARIPM---IAAFLLKPCSVDHLFGTLTLLLRQ 124 R I+ ER IP+++I++ + M + +L KP + L + +++ Sbjct: 1907 TRNIRDDERTRDIPIIMITSRTASKHRNYAMELGVNEYLGKPYQEEALVKLIAGFIKK 1964 >gi|134095910|ref|YP_001100985.1| twitching motility protein [Herminiimonas arsenicoxydans] Length = 133 Score = 68.6 bits (166), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 3/121 (2%) Query: 1 VGTNNEEQTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLR 60 + ++ + ++V++D + R L + G V+ A DG DA+A M DH P L+ D+ Sbjct: 3 ISLDSTDMKIMVIDDSSTIRRSAEIFLGQAGYKVVLADDGFDALAKMNDHKPALIFCDIL 62 Query: 61 MPRMDGMELARYIKSHERYAQIPVVLISAHLPAAS-ARIPMIA--AFLLKPCSVDHLFGT 117 MPR+DG + IK ++ PV+++S+ AR M+ A+L KP + D L T Sbjct: 63 MPRLDGYQTCALIKKSAKFHSTPVIMLSSKDGLFDRARGAMVGSDAYLTKPFTKDSLLKT 122 Query: 118 L 118 + Sbjct: 123 V 123 >gi|134094677|ref|YP_001099752.1| putative two-component sensor kinase (partial) [Herminiimonas arsenicoxydans] Length = 577 Score = 68.2 bits (165), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 49/140 (35%), Positives = 69/140 (49%), Gaps = 8/140 (5%) Query: 1 VGTNNEEQTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLR 60 +G +T+LVV+D R ML +L G NV AA G + + L+QD APD +L D+ Sbjct: 362 IGHAGPARTLLVVDDQPVQRHMLTGMLIPLGFNVREAASGNECLDLLQDFAPDAILLDIG 421 Query: 61 MPRMDGMELARYIKSHERYAQIPVVLISAHL---PAASARIPMIAAFLLKPCSVDHLF-- 115 M MDG E AR +++ +A +P++ ISA L R+ AF+ KP L Sbjct: 422 MDGMDGWETARQVRA-AGHAAVPIIFISADLFENDPEKLRLAGCQAFVGKPVLESELMLA 480 Query: 116 --GTLTLLLRQRAQSHARPS 133 G L L + RPS Sbjct: 481 LQGQLGLKWVYTGLAEQRPS 500 >gi|134094525|ref|YP_001099600.1| chemotactic response regulator [Herminiimonas arsenicoxydans] Length = 121 Score = 65.5 bits (158), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 36/104 (34%), Positives = 54/104 (51%), Gaps = 3/104 (2%) Query: 8 QTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLRMPRMDGM 67 +T+L V+D R+M+ LR G V A DG D + Q DLVLTD MPRMDG Sbjct: 3 KTILAVDDSGSLRQMVVFSLRAAGYQVTEAVDGQDGLDKAQMQVFDLVLTDQNMPRMDGF 62 Query: 68 ELARYIKSHERYAQIPVVLISAHLP---AASARIPMIAAFLLKP 108 L R +++ Y ++P+++++ A R +L+KP Sbjct: 63 SLIRALRALPTYQKVPILVLTTESSDEMKAKGRAAGANGWLVKP 106 >gi|134094343|ref|YP_001099418.1| response regulator [Herminiimonas arsenicoxydans] Length = 229 Score = 57.4 bits (137), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 11/133 (8%) Query: 6 EEQTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLRMPRMD 65 E+ T+L+VED E++ L+ G NV A +A +Q P L+L D +P Sbjct: 4 EKPTILIVEDEPPIIELVTFTLKGAGWNVTAVQTAGEAWDFIQQRLPQLILLDWMLPDQS 63 Query: 66 GMELARYIKSHERYAQIPVVLISAHLPAASARIPMIAA-------FLLKPCSVDHLFGTL 118 G+ L I++ ++ ++P+++++A S IA ++ KP S L + Sbjct: 64 GLRLLSRIRADRQFNELPIIMLTAK----SMEEDKIAGLDNGADDYVTKPFSPRELTARI 119 Query: 119 TLLLRQRAQSHAR 131 LLR++ HA+ Sbjct: 120 NALLRRKTPEHAQ 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 0.324 0.136 0.389 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: 253,459 Number of extensions: 9338 Number of successful extensions: 85 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 93 Number of HSP's successfully gapped: 9 Length of query: 136 Length of database: 1,000,347 Length adjustment: 73 Effective length of query: 63 Effective length of database: 759,812 Effective search space: 47868156 Effective search space used: 47868156 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 124 (52.4 bits)