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= 0417.0017.p (299 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM3955 [R] COG2962 Predicted permeases 177 2e-44 PA0485 [R] COG2962 Predicted permeases 151 9e-37 Cgl2080 [R] COG2962 Predicted permeases 140 2e-33 STM2986 [R] COG2962 Predicted permeases 74 4e-13 >STM3955 [R] COG2962 Predicted permeases Length = 294 Score = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 105/285 (36%), Positives = 147/285 (51%) Query: 6 SKMNNGLLNAIIAYIMWGVLPLYWKLFDNVPAGEILSHRVVWSFVFMGILITIQRRWGDM 65 + G+L A+ AY +WG+ P Y+KL VPA EIL+HRV+WSF FM L+++ R+W + Sbjct: 4 KQTRQGVLLALAAYFIWGIAPAYFKLIYYVPADEILTHRVIWSFFFMVALLSVSRQWRQV 63 Query: 66 KRIAANRTHLQSLAASGLLIAVNWLIFIWAVNNGHVVETSXXXXXXXXXXXXXXXXXXHE 125 KR+ + LA S +L+ NWL+FIWAVNN H++E S E Sbjct: 64 KRLLKTPKKIFLLALSAVLVGGNWLLFIWAVNNHHMLEASLGYFINPLVNILLGMIFLGE 123 Query: 126 KPNRGQWXXXXXXXXXXXXXXXDYGRFPWIAISLASSFGLYGLAKKKTVQVASVGLLSET 185 + R QW +G P IA+ LA SF YGL +KK A G+L ET Sbjct: 124 RFRRMQWLAVILAVCGVLVQLWTFGSLPIIALGLAFSFAFYGLVRKKIAVEAQTGMLVET 183 Query: 186 AVVLPIALGYWIYLAAAGQSTAWTLPPSFFVELLLSGVVTXXXXXXXXXXXXXMSLSTLG 245 +LP+A Y +A + S S + L+ +GVVT + LSTLG Sbjct: 184 LWLLPVAAIYLFGIADSPTSHMGQNALSLNLLLMAAGVVTTIPLLCFTGAATRLRLSTLG 243 Query: 246 FVQYIGPTIMLLLSVFVFKETVSPVLLVGFALIWTALVVYAVSSV 290 F QYIGPT+M LL+V + E +V FA IW AL ++ + ++ Sbjct: 244 FFQYIGPTLMFLLAVTFYGEVPGADKMVTFAFIWVALAIFVMDAI 288 >PA0485 [R] COG2962 Predicted permeases Length = 298 Score = 151 bits (382), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 95/291 (32%), Positives = 150/291 (51%), Gaps = 4/291 (1%) Query: 6 SKMNNGLLNAIIAYIMWGVLPLYWKLFDNVPAGEILSHRVVWSFVFMGILITIQRRWGDM 65 + + G + + AY++WG+ PLY+KL + +PA EI+ R VWS +F +L+ + G Sbjct: 4 ANLRRGYVLGLTAYVIWGLFPLYFKLLERIPAVEIIVQRAVWSALFGAVLLLFWKHPGWW 63 Query: 66 KRIAANRTHLQSLAASGLLIAVNWLIFIWAVNNGHVVETSXXXXXXXXXXXXXXXXXXHE 125 + + N LAASGLLIA NW+ ++WAVNNGH++E S E Sbjct: 64 RELRQNPQRFVVLAASGLLIASNWMTYVWAVNNGHMLEASLGYYINPLINVMLGMLLLKE 123 Query: 126 KPNRGQWXXXXXXXXXXXXXXXDYGRFPWIAISLASSFGLYGLAKKKTVQVASVGLLSET 185 + QW G PW+++ LA +FG YGL +KK A GL+ ET Sbjct: 124 RLRPLQWLAVALASLGVAQQVWQLGSLPWVSLVLALTFGFYGLIRKKAPVAALPGLVVET 183 Query: 186 AVVLPIALGYWIYLA--AAGQSTAWTLPPSFFVELLLSGVVTXXXXXXXXXXXXXMSLST 243 ++LP+AL + ++ A ++ W+ P + +V + +G VT + +T Sbjct: 184 WLLLPLALVWLLFFADGPTSETAFWSTPEALWV--VAAGPVTLVPLVCFNAAARHLPYAT 241 Query: 244 LGFVQYIGPTIMLLLSVFVFKETVSPVLLVGFALIWTALVVYAVSSVRGTK 294 LGF+QY+ PT++LL ++ +F E + L FA IW AL VY+ + R + Sbjct: 242 LGFLQYLAPTLVLLQAILLFGEHLDSSRLTAFAFIWLALAVYSFDAWRSLR 292 >Cgl2080 [R] COG2962 Predicted permeases Length = 280 Score = 140 bits (353), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 92/277 (33%), Positives = 144/277 (51%), Gaps = 6/277 (2%) Query: 16 IIAYIMWGVLPLYWKLFDNVPAG--EILSHRVVWSFVFMGILITIQRRWGDMKRIAANRT 73 ++AY+ WG+ P ++ L +PAG EIL+HR++W+ V M I+I+ W ++K +A+R Sbjct: 5 VLAYLGWGMFPAFFPLL--LPAGPFEILAHRILWTAVLMMIIISFTSGWKELK--SADRG 60 Query: 74 HLQSLAASGLLIAVNWLIFIWAVNNGHVVETSXXXXXXXXXXXXXXXXXXHEKPNRGQWX 133 + S L IA NWLI++ AVN+G V E + E+ + Q Sbjct: 61 TWLRIILSSLFIAGNWLIYVIAVNSGQVTEAALGYFINPLLSVVLGIVFFKEQLRKLQIS 120 Query: 134 XXXXXXXXXXXXXXDYGRFPWIAISLASSFGLYGLAKKKTVQVASVGLLSETAVVLPIAL 193 + P++AI+LA +FG+YG KK+ A+ L +ET V+LPIA+ Sbjct: 121 AVVIAAAGVLVLTFLGDKPPYLAITLAFTFGIYGALKKQVKMSAASSLCAETLVLLPIAV 180 Query: 194 GYWIYLAAAGQSTAWTLPPSFFVELLLSGVVTXXXXXXXXXXXXXMSLSTLGFVQYIGPT 253 Y I L A+G ST + L+ SG+VT + LST+G +QY+ PT Sbjct: 181 IYLIGLEASGHSTFFNNGSGHMALLICSGLVTAVPLLMFALAAKAIPLSTVGMLQYLTPT 240 Query: 254 IMLLLSVFVFKETVSPVLLVGFALIWTALVVYAVSSV 290 + +L ++FV E+V P+ GF IW A+ +Y S+ Sbjct: 241 MQMLWALFVVNESVEPMRWFGFVFIWIAVTIYITDSL 277 >STM2986 [R] COG2962 Predicted permeases Length = 295 Score = 73.6 bits (179), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 64/270 (23%), Positives = 115/270 (42%), Gaps = 10/270 (3%) Query: 16 IIAYIMWGVLPLYWKLFDNVPAGEILSHRVVWSFVFMGILITIQRRWGDMKRIA---ANR 72 ++A+I+WG+ PLY++ +IL +RV WS + +L+ ++ + R ++ Sbjct: 4 VLAFILWGLTPLYYQYLSGGNLAQILIYRVFWS---IPLLLAVRLLFRQRTRFHDAWKDK 60 Query: 73 THLQSLAASGLLIAVNWLIFIWAVNNGHVVETSXXXXXXXXXXXXXXXXXXHEKPNRGQW 132 +GLL+ V+W FI+A+ + V++ S EK + Q Sbjct: 61 KSFFFCMIAGLLMIVSWSSFIYALTHHLVLDASLGYFINPLFVIALGCIFLKEKLSLFQA 120 Query: 133 XXXXXXXXXXXXXXXDYGRFPWIAISLASSFGLYGLAKKKTVQVASVGLLSETAVVLPIA 192 FP +A+++ SF LYGLA+K + ET LP++ Sbjct: 121 IAVFSGVCGLTFQIIMLRHFPALALTMGLSFALYGLARKFIHYDVMTSITIETLWALPVS 180 Query: 193 LGYWIYLAAAGQSTAWTLPPSFFVELLLSGVVTXXXXXXXXXXXXXMSLSTLGFVQYIGP 252 L +++ + G + P F +++ VT SL G QYI P Sbjct: 181 LLIFLF-SDTGPIISANTP---FFLYVMTAPVTIIPLVLFAIALNHTSLIVTGLAQYIEP 236 Query: 253 TIMLLLSVFVFKETVSPVLLVGFALIWTAL 282 ++ LL++ +F E ++ L+ F +W L Sbjct: 237 SLQFLLAIMIFGEHINYAELLCFCAVWFGL 266 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 0.325 0.138 0.432 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: 17,672,068 Number of extensions: 569042 Number of successful extensions: 1671 Number of sequences better than 1.0e-05: 6 Number of HSP's gapped: 1664 Number of HSP's successfully gapped: 8 Length of query: 299 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 193 Effective length of database: 26,153,027 Effective search space: 5047534211 Effective search space used: 5047534211 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 (21.6 bits) S2: 115 (48.9 bits)