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= 0586.0046.p (255 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value YPO1820a [NU] COG1987 Flagellar biosynthesis pathway, component ... 181 1e-45 YPO1820 [NU] COG1338 Flagellar biosynthesis pathway, component FliP 181 1e-45 YPO0709 [NU] COG1338 Flagellar biosynthesis pathway, component FliP 162 5e-40 HP0685 [NU] COG1338 Flagellar biosynthesis pathway, component FliP 129 6e-30 STM1419 [U] COG4790 Type III secretory pathway, component EscR 117 2e-26 >YPO1820a [NU] COG1987 Flagellar biosynthesis pathway, component FliQ Length = 246 Score = 181 bits (458), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 95/195 (48%), Positives = 130/195 (66%), Gaps = 5/195 (2%) Query: 62 PAFLVLMTSFTRIVIVLGFVRTSLGTQSMPPNQVLVGLALFLTLFIMSPTLAKVNETALQ 121 PA L++MTSFTRI+IVLG +R ++GT S PPNQV++GLALFLT FIMSP KV + A Sbjct: 56 PAALLMMTSFTRIIIVLGLLRNAMGTPSAPPNQVMLGLALFLTFFIMSPVFDKVYQEAYL 115 Query: 122 PYMKGTITQTEALNKAADPMKEFMFKQTSTKDLLLFMNYTGNKASVKPATYSD-IPLTVM 180 P+ + I+ AL+K + P++EFM +QT DL L+ A++ P + +P+ ++ Sbjct: 116 PFSQDKISMDVALDKGSQPLREFMLRQTRESDLALY----ARLANLPPLEGPEMVPMRIL 171 Query: 181 VPAFAIGEMKKAFTMGFMIFIPFLIIDIVVASTXXXXXXXXXXXXXISLPFKIMLFVLVD 240 +PA+ E+K AF +GF +FIPFLIID+VVAS ISLPFK+MLFVLVD Sbjct: 172 LPAYVTSELKTAFQIGFTVFIPFLIIDLVVASVLMALGMMMVPPASISLPFKLMLFVLVD 231 Query: 241 GWYLVVKSLLLSFNT 255 GW L++ SL SF + Sbjct: 232 GWQLLLGSLAQSFYS 246 >YPO1820 [NU] COG1338 Flagellar biosynthesis pathway, component FliP Length = 211 Score = 181 bits (458), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 0/195 (0%), Positives = 0/195 (0%), Gaps = 5/195 (2%) Query: 62 PAFLVLMTSFTRIVIVLGFVRTSLGTQSMPPNQVLVGLALFLTLFIMSPTLAKVNETALQ 121 P V + ++G + ++ + L + AL Sbjct: 56 PVANTPAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALP 115 Query: 122 PYMKGTITQTEALNKAADPMKEFMFKQTSTKDLLLFMNYTGNKASVKPATYSD-IPLTVM 180 + T + K + + Sbjct: 116 GVGRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFA----PGKNVEQVEEKLLKVVPAEF 171 Query: 181 VPAFAIGEMKKAFTMGFMIFIPFLIIDIVVASTXXXXXXXXXXXXXISLPFKIMLFVLVD 240 Sbjct: 172 231 Query: 241 GWYLVVKSLLLSFNT 255 Sbjct: 232 246 >YPO0709 [NU] COG1338 Flagellar biosynthesis pathway, component FliP Length = 211 Score = 162 bits (410), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 0/193 (0%), Positives = 0/193 (0%), Gaps = 5/193 (2%) Query: 62 PAFLVLMTSFTRIVIVLGFVRTSLGTQSMPPNQVLVGLALFLTLFIMSPTLAKVNETALQ 121 + T I + + T + Q + P + + + Sbjct: 67 LGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVL 126 Query: 122 PYMKGTITQTEALNKAADPMKEFMFKQTSTKDLLLFMNYTGNKASVKPATYSDIPLTVMV 181 G T + + + + + + + +++ Sbjct: 127 NTAFGWPTIAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKV--VPAEFKVDCH---HWLIL 181 Query: 182 PAFAIGEMKKAFTMGFMIFIPFLIIDIVVASTXXXXXXXXXXXXXISLPFKIMLFVLVDG 241 Sbjct: 182 241 Query: 242 WYLVVKSLLLSFN 254 Sbjct: 242 254 >HP0685 [NU] COG1338 Flagellar biosynthesis pathway, component FliP Length = 153 Score = 129 bits (323), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 67/152 (44%), Positives = 97/152 (63%), Gaps = 3/152 (1%) Query: 103 LTLFIMSPTLAKVNETALQPYMKGTITQTEALNKAADPMKEFMFKQTSTKDLLLFMNYTG 162 LT FIM P+L K +T ++PYM I+ TEA K+A P KEFM K T KDL LF Sbjct: 3 LTFFIMEPSLKKAYDTGIKPYMDKKISYTEAFEKSALPFKEFMLKNTREKDLALFFRI-- 60 Query: 163 NKASVKPATYSDIPLTVMVPAFAIGEMKKAFTMGFMIFIPFLIIDIVVASTXXXXXXXXX 222 + P T ++ L+V++PAF I E+K AF +GF++++PFL+ID+V++S Sbjct: 61 -RNLPNPKTPDEVSLSVLIPAFMISELKTAFQIGFLLYLPFLVIDMVISSILMAMGMMML 119 Query: 223 XXXXISLPFKIMLFVLVDGWYLVVKSLLLSFN 254 ISLPFKI++F+LVDG+ L+ ++L+ SF Sbjct: 120 PPVMISLPFKILVFILVDGFNLLTENLVASFK 151 >STM1419 [U] COG4790 Type III secretory pathway, component EscR Length = 215 Score = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 68/200 (34%), Positives = 110/200 (55%), Gaps = 12/200 (6%) Query: 62 PAFLVLMTSFTRIVIVLGFVRTSLGTQSMPPNQVLVGLALFLTLFIMSPTLAKVNETALQ 121 P +V+ TSF ++ +V +R +LG Q +PPN L GLAL L+LFIM PTL V E Sbjct: 21 PLIIVMGTSFLKLAVVFSILRNALGIQQVPPNIALYGLALVLSLFIMGPTLLAVKERWHP 80 Query: 122 PYMKGT-ITQTEALNKAADPMKEFMFKQTSTKDLLLFMNYTGN------KASVKPATYSD 174 + G +E +KA P ++F+ K + K+ F N K +KP + Sbjct: 81 VQVAGAPFWTSEWDSKALAPYRQFLQKNSEEKEANYFRNLIKRTWPEDIKRKIKPDS--- 137 Query: 175 IPLTVMVPAFAIGEMKKAFTMGFMIFIPFLIIDIVVASTXXXXXXXXXXXXXISLPFKIM 234 L +++PAF + ++ +AF +G +I++PFL ID+++++ ISLPFK++ Sbjct: 138 --LLILIPAFTVSQLTQAFRIGLLIYLPFLAIDLLISNILLAMGMMMVSPMTISLPFKLL 195 Query: 235 LFVLVDGWYLVVKSLLLSFN 254 +F+L GW L + L+ SF+ Sbjct: 196 IFLLAGGWDLTLAQLVQSFS 215 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 0.326 0.138 0.399 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: 12,024,987 Number of extensions: 362518 Number of successful extensions: 868 Number of sequences better than 1.0e-05: 12 Number of HSP's gapped: 854 Number of HSP's successfully gapped: 12 Length of query: 255 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 151 Effective length of database: 26,383,695 Effective search space: 3983937945 Effective search space used: 3983937945 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 114 (48.5 bits)