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= 0494.0008.p (818 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM1799 [M] COG0741 Soluble lytic murein transglycosylase and re... 150 6e-36 PH0176 [R] COG1203 Predicted helicases 80 1e-14 PH1246 [R] COG1203 Predicted helicases 74 1e-12 AF0071 [R] COG1203 Predicted helicases 69 3e-11 MJ0383 [R] COG1203 Predicted helicases 67 8e-11 >STM1799 [M] COG0741 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) Length = 203 Score = 150 bits (380), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 0/488 (0%), Positives = 0/488 (0%), Gaps = 65/488 (13%) Query: 118 ILSHHSYLQDFLNPDSESNFLNRVQDKCLPE-FERAKDSFFELVMNETEFHLYVDKAVEE 176 ++ S L++ + + + + + + + Sbjct: 117 GAAYLSILENGPLAGIKDPQVMQ-YALVVSYANGAGAL-LRTFSSDRKKAI--EKINDLD 172 Query: 177 LSDYLKVDSSSTTELKLMFLTKYVFSALIDADRTNTRCFEENQPD-PSYNPQQLFSAYYT 235 ++ + + Sbjct: 173 ADEFFEHVVDN------- 225 Query: 236 KLMTKIDSFHNHKHAHSAINQLRQGMSEQCEQFAAEPSGIYTLSIPTGGGKTLASLRYXX 295 Sbjct: 226 ----------- 274 Query: 296 XXXXXXXXXXIIYVVPYTTIIEQNANEIRSILKDDEHIL----EHHSNVVEEETQDDEHE 351 Sbjct: 275 ---- 330 Query: 352 DGSLSLRQKLKLAKDNWDAPIIFTTMVQFLNVFYADGSRNIRRLHNLSESVIVFDEVQKV 411 Sbjct: 331 ------------ 378 Query: 412 PVRCVSLFNQALNFLKSYAHSSIVLCTATQPELDYVRLKLEIEPEAEMIHNLDHVIEAFR 471 Sbjct: 379 --------- 429 Query: 472 RVEIVDRATNEHFDNDTLTEFVITQMREVSSVLVILNTKSVVQALYRSLNERNLSVPIYH 531 Sbjct: 430 ------ 483 Query: 532 LSTSMCAAHRNQILDKVKALLEDKEPVICISTQLIEAGVDVSFQCVIRSLAGLDSIAQAA 591 Sbjct: 484 ------ 537 Query: 592 GRCNRHGE 599 Sbjct: 538 545 >PH0176 [R] COG1203 Predicted helicases Length = 690 Score = 80.5 bits (197), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 87/333 (26%), Positives = 141/333 (42%), Gaps = 40/333 (12%) Query: 270 AEPSGIYTLSIPTGGGKTLASLRYXXXXXXXXXXXXIIYVVPYTTIIEQNANEIRSILKD 329 + SG + L PTG GKT SL +IY +P T +E + Sbjct: 218 GKGSGYFLL--PTGDGKTETSL------LAIADSPKVIYTLPTITTVEAMRKRFEEMFGK 269 Query: 330 DEHILEHHSNVVEEETQDDEHEDGSLSLRQKLKLAKDNWDAPIIFTTMVQFLNVFYADGS 389 D H +++G LS R + A I ++ F+N F Sbjct: 270 DNVSFGHGMLFY------SLYKEGKLSERLINRYAMKGIHVSTIDQVLLAFINYF----K 319 Query: 390 RNIRRLHNLSESVIVFDEVQKVPVRCVSLFNQALNFLKSYAHSSIVLCTATQPELDYVRL 449 +R L +L S ++ DE+ +SL + L + +Y S +V+ +AT P L +R Sbjct: 320 FPLREL-SLRGSHLIVDEIHSYTPYTLSLILEGLRYAVNYLGSKVVVTSATMPSL--LRE 376 Query: 450 KLEIEPEAEMI--HNLDHVIEAFRRVEIVDRATNEHFDNDTLTEFVITQMREVSSVLVIL 507 KLE E+I + E+ RRV + R D D++ +RE VLVI Sbjct: 377 KLEEVGLKELIPFEKVKRRYESKRRVRVWFRDLPMFEDIDSI-------IREKGKVLVIT 429 Query: 508 NTKSVVQALYRSLNERNLSVPIYHLSTSMCAAHRNQILDKVKA--LLEDKEPVICISTQL 565 NT + + +Y L +R V ++H R + DK + L+ + I ++TQ+ Sbjct: 430 NTVTRAREIYEELKKRRDDVYLFH--------SRFTVRDKEEKMRLVNEISSGILVATQV 481 Query: 566 IEAGVDVSFQCVIRSLAGLDSIAQAAGRCNRHG 598 +E +D+ + + +A +DS+ Q GR NR G Sbjct: 482 VEVSLDIDYDTLYTEVAPIDSLIQRFGRVNRRG 514 >PH1246 [R] COG1203 Predicted helicases Length = 727 Score = 73.9 bits (180), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 103/388 (26%), Positives = 158/388 (40%), Gaps = 50/388 (12%) Query: 274 GIYTLSIPTGGGKTLASLRYXXX---XXXXXXXXXIIYVVPYTTIIEQNANEIRSILKDD 330 G L PTG GKT A+L + I Y++PY I + + KD Sbjct: 245 GDVILYAPTGYGKTEAALLWANKNAHRTKKGISSRIFYILPYKASINAMHRRLLEMFKDP 304 Query: 331 EHI-LEHHSNVVEEETQDDEHEDGSLSLRQKLKLAKDNWDAPIIFTTMVQFLNVFYADGS 389 + L H S+ + + E++ LSL K+ +PI TT Q + F+ G Sbjct: 305 GLVGLLHSSSGIYLYSSSLEYKR-LLSLYGKIY-------SPIKITTPFQIMKAFFGVGF 356 Query: 390 RNIRRLHNLSESVIVFDEVQKVPVRCVSLFNQALNFLKSYAHSSIVLCTATQPELDYVRL 449 I L L S+++FDE+ + + L LK ++V+ TAT P+ Sbjct: 357 FEIT-LVELINSLLIFDEIHAYESNILGIILAMLELLKEKRAKALVM-TATFPKF----- 409 Query: 450 KLEIEPEAEMIHNLDHVIEAFRRVEIVDRATNEH---FDNDTLTEFVITQMREVSSVLVI 506 LE E+I ++ + E E D+ T D D T + +L+ Sbjct: 410 -LE-----ELIKSILNPKELKTPPEEADKFTRHRVNVIDGDIRT-LDSEEFPGPRPILIA 462 Query: 507 LNTKSVVQALYRSLNERNLSVPIYHLSTSMCAAHRNQILDKVKALLEDKEPV-ICISTQL 565 NT + +Y L E +V + H R DK K L+ ++TQ+ Sbjct: 463 CNTVNTSIEVYSKLKESGANVMLIH--GRFTYGDRE---DKEKMLMNSLSDFDFVVATQV 517 Query: 566 IEAGVDVSFQCVIRSLAGLDSIAQAAGRCNRHGEDLIRQVYVI--------------DHI 611 IE +D+ F +I A LD++ Q GR NR G R VYV+ D + Sbjct: 518 IEVSLDIDFGSIITEPAPLDALIQRFGRVNRRGFGKPRDVYVLTKGSEDDKNVYRPYDVV 577 Query: 612 EENLKHLKEIKIGKEISRKILIDLSRDA 639 EE +K L+EI GKE+ ++ L +A Sbjct: 578 EETVKILREIN-GKELRESLIPYLITEA 604 >AF0071 [R] COG1203 Predicted helicases Length = 759 Score = 68.9 bits (167), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 79/332 (23%), Positives = 140/332 (42%), Gaps = 42/332 (12%) Query: 281 PTGGGKTLASLRYXXXXXXXXXXXXIIYVVPYTTIIEQNANEIRSILKDDEHILEHHSNV 340 PTG GKT ASL +IY +P T++E ++ Sbjct: 36 PTGAGKTEASLIPFIYGLNDYLPPQLIYSLPTRTLVE---------------------SI 74 Query: 341 VEEETQDDEHEDGSLSLRQKLKLAKDNWDAPIIFTTMVQFLNVFYADGSRNIRRLHNL-- 398 E + + +++ K ++ II TT+ Q + + +R N+ Sbjct: 75 GERAIKYASFKKLRVAIHHGKKATSSLFEEDIIVTTIDQTAGAYLSVPLSMPKRWGNIFV 134 Query: 399 ---SESVIVFDEVQKVPVRCVSLFNQALNFLKSYAHSSIVLCTATQPELDYVRLKLEIEP 455 + ++ VFDEV + A+ + ++ +AT P++ R+K IE Sbjct: 135 GGIASALTVFDEVHTLDPEKGLQTAAAIAMQSAKLGLPSIIMSATLPDVFIERVKERIEK 194 Query: 456 EAEMIHNLDHVIEA------FRRVEIVDRATNEHFDNDTLTEFVITQMREVSSVLVILNT 509 + +D E+ R+VE+++R +E DT V+ + ++V++NT Sbjct: 195 NGGKVEIMDVKNESEIKSRRNRKVELINRP-DEMLTADT----VLKEAENCRKLVVVVNT 249 Query: 510 KSVVQALYRSLNERNLSVPIYHLSTSMCA---AHRNQILDKVKALLEDKEPVICISTQLI 566 Q LY L ++ + PI+ L + A + + +KV K I ISTQ+I Sbjct: 250 VERAQNLYLDLRKK-IDYPIFLLHSRYLEKDRAEKEKSFEKVFGK-NGKGECIFISTQVI 307 Query: 567 EAGVDVSFQCVIRSLAGLDSIAQAAGRCNRHG 598 E G+D+S ++ +A +D++ Q AGRC R G Sbjct: 308 EVGMDISSPIILSEVAPIDALIQRAGRCARWG 339 >MJ0383 [R] COG1203 Predicted helicases Length = 614 Score = 67.4 bits (163), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 88/359 (24%), Positives = 154/359 (42%), Gaps = 40/359 (11%) Query: 271 EPSGIYTLSIPTGGGKTLASL--RYXXXXXXXXXXXXIIYVVPYTTIIEQNANEIRSILK 328 E G + IPT GGKT A++ +IYV+P +++E+ IR+ +K Sbjct: 31 ELGGRVVIEIPTAGGKTEAAIIPYLYQFISNDWKVPRLIYVLPTRSLVEKQVERIRNYIK 90 Query: 329 DDEHILEHHSNVVEEETQDDEHEDGSLSLRQKLKLAKDNWDAPIIFTTMVQFLNVFYAD- 387 I + + VEE + + L ++ TT FL A Sbjct: 91 KILEIKGYSKDKVEELAKKIVQVEYGLEETHAFL-------GFVVLTTWDTFLYGLAAHR 143 Query: 388 --GSRNIRRLHNLSESVIVFDEVQK-------VPVRCVSLFNQALNFLKSYAHSSIVLCT 438 G R +++S++VFDE+Q +P R + L + L A+ +V T Sbjct: 144 TVGDRFTFPCGAIAQSLVVFDEIQMYQDESLYMP-RLIGLVVKRL----VEANVPLVFMT 198 Query: 439 ATQP-ELDYVRLKLEIEPEAEMIHNLDHVIEAFRRVEIVDRATNEHFDNDTLTEFVITQM 497 AT P EL + L I E + N + + R +V+ E ++ L+ + + Sbjct: 199 ATLPTELKKI---LGIHDEEPITVNPEDTKKPERGEVVVE--FKEKLSDEELSNEIKKAI 253 Query: 498 REVSSVLVILNTKSVVQALYRSLNERNLSVPIYHLSTSMCAAHRNQILDKVKALLEDKEP 557 E VL+I NT + +Y + + S+ ++ T A + + +DK + Sbjct: 254 NEGKKVLIIKNTVNSAIEVYEKVKQLGNSLLLHSRFTVEDRAEKEKDIDKAE-------- 305 Query: 558 VICISTQLIEAGVDVS-FQCVIRSLAGLDSIAQAAGRCNRHGEDLIRQVYVIDHIEENL 615 I ++TQ++EAG+D++ VI LA LD++ Q GRC R + + + V+ + E + Sbjct: 306 -IIVATQVVEAGLDLTNVGLVITDLAPLDALIQRIGRCARRKGERGKVIVVLPNFNEKI 363 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 0.318 0.134 0.380 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: 56,440,116 Number of extensions: 2284171 Number of successful extensions: 7255 Number of sequences better than 1.0e-05: 9 Number of HSP's gapped: 7246 Number of HSP's successfully gapped: 9 Length of query: 818 Length of database: 38,378,431 Length adjustment: 115 Effective length of query: 703 Effective length of database: 25,115,021 Effective search space: 17655859763 Effective search space used: 17655859763 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 (21.7 bits) S2: 120 (50.8 bits)