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= 0001.3641.p (320 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134093444|ref|YP_001098519.1| putative chemotaxis signal tran... 340 7e-95 gi|134095906|ref|YP_001100981.1| putative composite two componen... 63 2e-11 gi|134094525|ref|YP_001099600.1| chemotactic response regulator ... 58 5e-10 gi|134094391|ref|YP_001099466.1| putative two component system [... 56 3e-09 >gi|134093444|ref|YP_001098519.1| putative chemotaxis signal transduction protein [Herminiimonas arsenicoxydans] Length = 322 Score = 340 bits (871), Expect = 7e-95, Method: Compositional matrix adjust. Identities = 177/319 (55%), Positives = 228/319 (71%), Gaps = 3/319 (0%) Query: 1 MDAFQKEIDERTNLTSSNKFELLLFRLGTPDGSTDKPGELYGINVFKIREIVPMMDITAA 60 MDA EI+ER+ LT++NKFEL+LFRLG S + E+YGINVFK+RE++ M + + Sbjct: 1 MDATHNEINERSALTANNKFELMLFRLGVSPHS--EQSEIYGINVFKLRELMAMPAVNSI 58 Query: 61 AGMRSPMLGMVNIRGQVMSVVDLPAVAGCKPGNGMNILLITEFARHTQAFAVESVEEIVR 120 A MLGM NIRGQ++ V+DLPA GCKP G+NIL++TEF R Q FAVE V+EIVR Sbjct: 59 ANSPPHMLGMANIRGQLIPVIDLPAALGCKPATGLNILMVTEFGRTVQGFAVEEVDEIVR 118 Query: 121 LDWSQVLPADSNASGS-VVTSIARLDSAQDGGRLVQVLDVEQILNMVSPVKEQLQSPPPG 179 L+WSQV A+ A+G +TSIA+LD+ + RL QVLDVEQIL V P P Sbjct: 119 LNWSQVRAAEGAAAGRGTITSIAQLDADLNNTRLAQVLDVEQILRTVMPSGTADIDPDAI 178 Query: 180 STELKLKPGSVVLAADDSRMARALIEQCLKDLNLPYMMTTDGLQAWKKLQELARQAEQEG 239 L PG+++LAADDS AR LI CL +NLPY+MT GL+AW+KL+EL+ A++EG Sbjct: 179 DNSPILPPGTLILAADDSASARMLIGGCLDAMNLPYVMTKTGLEAWQKLEELSAAAQREG 238 Query: 240 KPLTDKVAMVLTDLEMPEMDGFTLTRKIKASDQYKQLPVVIHSSLTGSANEDHVRSVGAN 299 + ++DKVA+VLTDLEMPEMDGFTLT+KIK+ ++ ++PVVIHSSL+G++NE HV GA+ Sbjct: 239 QDVSDKVALVLTDLEMPEMDGFTLTKKIKSDPRFTKIPVVIHSSLSGASNEVHVHGAGAD 298 Query: 300 GYVAKFSPPELAAMLRKVL 318 Y AKF ELA LR VL Sbjct: 299 AYAAKFKAEELAVTLRDVL 317 >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 = 63.2 bits (152), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 37/140 (26%), Positives = 69/140 (49%), Gaps = 18/140 (12%) Query: 185 LKPGSVVLAADDSRMARALIEQCLKDLNLPYMMTTDGLQAWKKLQELARQAEQEGKPLTD 244 L+ +V+ DDS R + ++ L ++ DG+ A + LQ + Sbjct: 1841 LRTQHIVMVVDDSLTVRRVTQRLLTREGYQVVLAKDGVDALQHLQSVTPD---------- 1890 Query: 245 KVAMVLTDLEMPEMDGFTLTRKIKASDQYKQLPVVIHSSLTGSANEDHVRSVGANGYVAK 304 ++L D+EMP MDGF LTR I+ ++ + +P+++ +S T S + ++ +G N Y+ K Sbjct: 1891 ---VMLVDIEMPRMDGFDLTRNIRDDERTRDIPIIMITSRTASKHRNYAMELGVNEYLGK 1947 Query: 305 FSPPE-----LAAMLRKVLP 319 E +A ++K +P Sbjct: 1948 PYQEEALVKLIAGFIKKEMP 1967 >gi|134094525|ref|YP_001099600.1| chemotactic response regulator [Herminiimonas arsenicoxydans] Length = 121 Score = 58.2 bits (139), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 37/129 (28%), Positives = 62/129 (48%), Gaps = 14/129 (10%) Query: 191 VLAADDSRMARALIEQCLKDLNLPYMMTTDGLQAWKKLQELARQAEQEGKPLTDKVAMVL 250 +LA DDS R ++ L+ DG K Q +VL Sbjct: 5 ILAVDDSGSLRQMVVFSLRAAGYQVTEAVDGQDGLDKAQ-------------MQVFDLVL 51 Query: 251 TDLEMPEMDGFTLTRKIKASDQYKQLPVVIHSSLTGSANEDHVRSVGANGYVAK-FSPPE 309 TD MP MDGF+L R ++A Y+++P+++ ++ + + R+ GANG++ K F P Sbjct: 52 TDQNMPRMDGFSLIRALRALPTYQKVPILVLTTESSDEMKAKGRAAGANGWLVKPFDPQR 111 Query: 310 LAAMLRKVL 318 L +++KV+ Sbjct: 112 LTEVVKKVI 120 >gi|134094391|ref|YP_001099466.1| putative two component system [Herminiimonas arsenicoxydans] Length = 392 Score = 55.8 bits (133), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 38/126 (30%), Positives = 67/126 (53%), Gaps = 19/126 (15%) Query: 182 ELKLKPGSVVLAADDSRMARALIEQCLKDLNLPYMMTTDGLQAWKKLQELARQAEQEGKP 241 ++ LKP +L ADDSR+ RA + + ++ + + DG QAW+ L Sbjct: 8 DISLKPR--ILIADDSRIVRATLIKHIEGM-FEFREALDGEQAWEML------------- 51 Query: 242 LTD-KVAMVLTDLEMPEMDGFTLTRKIKASD--QYKQLPVVIHSSLTGSANEDHVRSVGA 298 L D + +V++DL MP++DG+ L ++I++S + + +PVV+ S A D ++ GA Sbjct: 52 LIDPSIRVVISDLTMPKLDGYGLLKRIRSSKIGRIRTMPVVVVSGSDEQAERDRAKAAGA 111 Query: 299 NGYVAK 304 + K Sbjct: 112 TDLITK 117 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 0.316 0.132 0.371 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: 586,418 Number of extensions: 23501 Number of successful extensions: 107 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 109 Number of HSP's successfully gapped: 4 Length of query: 320 Length of database: 1,000,347 Length adjustment: 82 Effective length of query: 238 Effective length of database: 730,157 Effective search space: 173777366 Effective search space used: 173777366 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 129 (54.3 bits)