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= 0290.0071.p (303 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin1807_2 [NT] COG0840 Methyl-accepting chemotaxis protein 117 3e-26 lin1807_1 [T] COG2202 FOG: PAS/PAC domain 117 3e-26 VC1406_1 [T] COG2202 FOG: PAS/PAC domain 88 2e-17 YPO2515_1 [T] COG2202 FOG: PAS/PAC domain 81 2e-15 Cj1110c_1 [T] COG2202 FOG: PAS/PAC domain 80 4e-15 >lin1807_2 [NT] COG0840 Methyl-accepting chemotaxis protein Length = 178 Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 66/170 (38%), Positives = 106/170 (62%) Query: 127 RQTNMSNLVERMQQMADSLNQRAEQGIGRSRELLLSIDKIAGVSSENSLTLANLQSKAGD 186 R+ + + ++ MA +L + + G RS LL + I S+EN+ TL +LQ++A + Sbjct: 2 REETVHDFASGLKSMATNLKEHSSVGKTRSEALLELVKSITKESNENTDTLHDLQTEAQN 61 Query: 187 IQGVVQTIRDIASQTHXXXXXXXXXXXXXGEFGRGFDVVAKEVRKLSAMVQDSISEVRES 246 I G++ TI IASQT+ G+ GRGF VVA+EVRKLS+ V+++I EV +S Sbjct: 62 IHGIINTINGIASQTNLLALNAAIEAARAGDAGRGFSVVAEEVRKLSSRVEEAIKEVEKS 121 Query: 247 VKGITEEIGRMSTGMDQVQGTVEESQRQIEVALREFTEIAASAQQLDNQA 296 V GIT+EI +S+G ++V+ VEESQ + ++L +F++I +++ LD A Sbjct: 122 VNGITQEINTISSGTERVEAKVEESQEVLILSLEDFSQIESASTALDQNA 171 >lin1807_1 [T] COG2202 FOG: PAS/PAC domain Length = 122 Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 54/123 (43%), Positives = 79/123 (64%), Gaps = 2/123 (1%) Query: 3 NVLAQEVTDALVVKALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFP 62 NV A+ L++ L +N+A+IRF +++V Y N +FA M Y E+M + H D CFP Sbjct: 2 NVNAETEDATLLLDGLLQNVAIIRFDTNKKVTYANALFAEAMGYTEEEMLQLSHPDLCFP 61 Query: 63 AFANSPDYEIFWQDLLAGKSFQDKIERMDSEGGSVWLEATYMPIFDEADKQIIGVTKVAT 122 F + Y+ W +LLAG+ FQ+KIER ++ G VW EATY+PI E + ++GV K+AT Sbjct: 62 DFVQTASYKEMWTNLLAGQKFQNKIERKNARGERVWFEATYIPIIRE--ETVVGVAKIAT 119 Query: 123 NIT 125 +IT Sbjct: 120 DIT 122 >VC1406_1 [T] COG2202 FOG: PAS/PAC domain Length = 247 Score = 87.8 bits (216), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 44/119 (36%), Positives = 68/119 (57%), Gaps = 1/119 (0%) Query: 7 QEVTDALVVKALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFPAFAN 66 Q D+ +V AL++NLA I F ++ N +F S M Y E++ G H+ FC P N Sbjct: 21 QHNHDSDIVSALKRNLAYIEFDPQGKILDANALFLSAMGYTKEEVIGQHHKIFCDPETVN 80 Query: 67 SPDYEIFWQDLLAGKSFQDKIERMDSEGGSVWLEATYMPIFDEADKQIIGVTKVATNIT 125 S +Y FW+ L G++ + R+ +G S+W+EATYMP+ + A + V KVA ++T Sbjct: 81 SLEYAQFWKSLAQGQAQRKMFHRLKKDGSSIWIEATYMPVRNRAG-DVYKVIKVAHDVT 138 Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 36/100 (36%), Positives = 53/100 (53%), Gaps = 4/100 (4%) Query: 12 ALVVKALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFPAFAN-SPDY 70 A V +L+++ A+I+F D + NE F YR E++ G HR FC F +P+ Sbjct: 148 AAVFHSLDRSSAMIQFNPDGTIKEANENFLKATGYRLEEIVGKHHRMFCDDRFYKENPN- 206 Query: 71 EIFWQDLLAGKSFQDKIERMDSEGGSVWLEATYMPIFDEA 110 FW++L G+ R G +WLEATY PIF++A Sbjct: 207 --FWRELARGEFKSGLFHRRTRHGQDLWLEATYNPIFNDA 244 >YPO2515_1 [T] COG2202 FOG: PAS/PAC domain Length = 243 Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 36/111 (32%), Positives = 63/111 (56%), Gaps = 1/111 (0%) Query: 17 ALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFPAFANSPDYEIFWQD 76 +++ + +I F D V VN++F + M Y+ +++ G H+ FC P +A S Y WQ Sbjct: 3 SIDNAVPMIIFKPDGTVVQVNKLFLAAMGYQKDEVIGKHHKIFCDPQYAASDAYRRHWQL 62 Query: 77 LLAGKSFQDKIERMDSEGGSVWLEATYMPIFDEADKQIIGVTKVATNITNR 127 L G+ D I+R+ +G +WL+ TY P+ D +I + K+A+++T R Sbjct: 63 LNEGRPISDNIKRIRKDGNVIWLQGTYTPVVDRQGN-VIEIIKIASDVTER 112 Score = 73.9 bits (180), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 36/112 (32%), Positives = 61/112 (54%), Gaps = 1/112 (0%) Query: 14 VVKALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFPAFANSPDYEIF 73 +++AL +++ +I FT + N+ + + Y D+ H+ C P FA+S +Y Sbjct: 122 LLEALNRSMGMITFTPQGIILAANDNLLNVIGYSLADIQHKSHQILCLPEFAHSEEYHQH 181 Query: 74 WQDLLAGKSFQDKIERMDSEGGSVWLEATYMPIFDEADKQIIGVTKVATNIT 125 WQ L G+ + ER++ G VWLEA+Y PI D + ++ V K+A +IT Sbjct: 182 WQRLARGEFIIGRFERLNRRGERVWLEASYNPIMDN-EGNVLKVVKIAQDIT 232 >Cj1110c_1 [T] COG2202 FOG: PAS/PAC domain Length = 247 Score = 80.1 bits (196), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 64/121 (52%), Gaps = 1/121 (0%) Query: 14 VVKALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFPAFANSPDYEIF 73 +++++ +A+I FT D + N+ F +TMKY ++ G H FC P NS Y F Sbjct: 25 ILRSIGNTMAVIEFTTDGVILEANQNFLTTMKYSLSEIKGKHHSMFCLPEVVNSSAYSDF 84 Query: 74 WQDLLAGKSFQDKIERMDSEGGSVWLEATYMPIFDEADKQIIGVTKVATNITNRQTNMSN 133 W+DL GK+ R+ G V+LEA Y+PI D + + + K A +IT R M + Sbjct: 85 WKDLRDGKARSGLFRRIAKGGIDVYLEANYLPISDN-NGYVYKIIKFANDITQRHYEMLD 143 Query: 134 L 134 L Sbjct: 144 L 144 Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 30/93 (32%), Positives = 46/93 (49%) Query: 14 VVKALEKNLALIRFTLDRRVAYVNEVFASTMKYRSEDMYGMQHRDFCFPAFANSPDYEIF 73 + A +++A+I F D + NE F M + +++ G H FC + +S DY F Sbjct: 147 TIAAANRSMAIIEFKPDGTIITANENFLRAMDFNIDEIKGKHHSMFCDSNYRHSKDYVQF 206 Query: 74 WQDLLAGKSFQDKIERMDSEGGSVWLEATYMPI 106 W+DL GK K R V+LEA+Y P+ Sbjct: 207 WEDLREGKFQSGKYIRYGRNNKKVYLEASYNPV 239 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.316 0.130 0.349 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 18,003,051 Number of extensions: 656081 Number of successful extensions: 3269 Number of sequences better than 1.0e-05: 196 Number of HSP's gapped: 3139 Number of HSP's successfully gapped: 199 Length of query: 303 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 197 Effective length of database: 26,153,027 Effective search space: 5152146319 Effective search space used: 5152146319 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: 115 (48.9 bits)