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= 0013.0004.p (873 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM1450 [H] COG2240 Pyridoxal/pyridoxine/pyridoxamine kinase 502 e-142 STM0205 [S] COG2860 Predicted membrane protein 288 2e-77 SMc00522 [LKJ] COG0513 Superfamily II DNA and RNA helicases 58 8e-08 AGc3366 [LKJ] COG0513 Superfamily II DNA and RNA helicases 54 1e-06 SPAC9.05 [L] COG1111 ERCC4-like helicases 52 5e-06 >STM1450 [H] COG2240 Pyridoxal/pyridoxine/pyridoxamine kinase Length = 286 Score = 502 bits (1293), Expect = e-142, Method: Compositional matrix adjust. Identities = 0/609 (0%), Positives = 0/609 (0%), Gaps = 17/609 (2%) Query: 187 ELKIGDYVVHQNHGIGKYMGIGTLEVSGIHRDYMHILYAGGDKLSVPIDQIDLIQKYVGS 246 Sbjct: 249 -- 306 Query: 247 EDKEPKVYKLGGNEWTRVTSKVRSSVQDIADDLIKLYAERQSALGYGFEKDTQEQREFEE 306 Sbjct: 307 366 Query: 307 MFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGDVGYGKTEVAIRAAFKSAIEGKQVAVL 366 Sbjct: 367 426 Query: 367 VPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNETIKGVRQGTVDVVIGTHRLLS 426 Sbjct: 427 486 Query: 427 QDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNVDVLTLTATPIPRTLHMSMLGVRDLSV 486 Sbjct: 487 546 Query: 487 IETPPENRFPVQTYVVEHSQTLIREAVERELARGGQVYYLYNRVQGIQEMAAQISMLVPE 546 Sbjct: 547 606 Query: 547 ARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVDIPNVNTLIVHDADKMGLSQ 606 Sbjct: 607 666 Query: 607 LYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEFTELGSGFKIAMRDLSIRGA 666 Sbjct: 667 -- 724 Query: 667 GNLLGAEQHGFIASVGFDLYSQMLAEEIRKRKVSVLGEEDTSLKQGNTVIDLSIDA---- 722 Sbjct: 725 -------- 776 Query: 723 -YLPSEYIYDSIQKIEIYKKXXXXXXXXXXXXXXXXXXXRFGELPEAVVNLLTVARLKVY 781 Sbjct: 777 836 Query: 782 GKLYGMESM 790 Sbjct: 837 845 >STM0205 [S] COG2860 Predicted membrane protein Length = 207 Score = 288 bits (738), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 0/419 (0%), Positives = 0/419 (0%), Gaps = 16/419 (3%) Query: 281 KLYAERQSALGYGFEKDTQEQREFEEMFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGD 340 Sbjct: 338 397 Query: 341 VGYGKTEVAIRAAFKSAIEGKQVAVLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSR 400 Sbjct: 398 457 Query: 401 KEQNETIKGVRQGTVDVVIGTHRLLSQDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNV 460 Sbjct: 458 517 Query: 461 DVLTLTATPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEHSQ-TLIREAVERELAR 519 Sbjct: 518 577 Query: 520 GGQVYYLYN--------RVQGIQEMAAQISMLV-PEARVGIGHGQMSESELEKTILDFLD 570 Sbjct: 578 637 Query: 571 GEYDVLVSTSIIETGVDIPNVNTLIVHDADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRD 630 Sbjct: 638 ----- 692 Query: 631 KVLTEVAEKRLQSIKEFTELGSGFKIAMRDLSIRGAGNLLGAEQHGFIASVGFDLYSQM 689 Sbjct: 693 - 750 >SMc00522 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 499 Score = 57.8 bits (138), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 72/293 (24%), Positives = 127/293 (43%), Gaps = 25/293 (8%) Query: 365 VLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNETIKGVRQGTVDVVIGTH-R 423 +L PT LA Q E F + N+ LNI +L S EQ+ + + DV+I T R Sbjct: 78 ILEPTRELAAQVAENFDKYGKNHKLNIALLIGGVSFDEQDRKL----ERGADVLICTPGR 133 Query: 424 LLSQ----DMVFKDLGLLIVDEEQRF----GVTHKEKLKKL-KTNVDVLTLTATPIPRTL 474 LL ++ + +L++DE R + E++ KL L +AT P Sbjct: 134 LLDHCERGKLLMTGVEILVIDEADRMLDMGFIPDIERIAKLIPFTRQTLFFSATMPPEIQ 193 Query: 475 HMSMLGVRDLSVIETPPENRFPV---QTYVVEHSQTLIREAVERELARGGQ----VYYLY 527 ++ +++ +E + + Q +V H + + AV REL R + Sbjct: 194 KLADRFLQNPERLEVARRSSTAITVTQRFVAAHGKDYEKRAVLRELIRSQEDLKNAIIFC 253 Query: 528 NRVQGIQEMAAQISMLVPEARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVD 587 NR + + E+ + VG HG M + + +F DG +LV++ + G+D Sbjct: 254 NRKKDVAELFRSLDRH--GFSVGALHGDMDQRSRMAMLANFKDGNIKLLVASDVAARGLD 311 Query: 588 IPNVNTLIVHDADKMGLSQLYQLRGRVGRSNRIAYAY-FTYQRDKVLTEVAEK 639 IP+V+ + D ++++ GR GR+ R A+ +R+ ++ EK Sbjct: 312 IPDVSHVFNFDVPIHAEDYVHRI-GRTGRAGRSGAAFTIVTKRETKFSDAIEK 363 >AGc3366 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 289 Score = 53.9 bits (128), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 0/316 (0%), Positives = 0/316 (0%), Gaps = 33/316 (10%) Query: 335 RLLCG--DVGYGKTEVAIRAAFKSAIEGKQVA------VLVPTTILAQQHYETFRERFAN 386 A K G V LA E A Sbjct: 40 IAGSYTAVEVSPDDFPKFIATLKEGKPGAAVGGNATIPHKEAAYRLADHPDALAEELGAA 99 Query: 387 YPLNIQVLSRFRSRKEQNETIKGVRQGTVDVVIGTH-RLLSQ----DMVFKDLGLLIVDE 441 + ++ + + + + G + + + + D Sbjct: 100 NTIWMEEGKLHATNTDGYGFV----SNLDERHPGWDKTQRAVVFGAGGASRAVIQSLRDR 155 Query: 442 EQRF----GVTHKEKLKKL-KTNVDVLTLTATPIPRTLHMSMLGVRDLSVIETPPEN--- 493 + T + + + V + + +H + L V S+ E Sbjct: 156 DVAEIHVVNRTVERARELADRFGPRVFSHPQAALQEVMHGAGLFVNTTSLGMNGTEAPHL 215 Query: 494 RFPVQTYVVEHSQTLIREAVERELARGGQV-----YYLYNRVQGIQEMAAQISMLVPEAR 548 F + + L + L + + + Sbjct: 216 DFSHLAANAVVTDIVYVPLKTPILNMAQEQGIATVDGLGMLLHQAKPGFRRWFGR--IPE 273 Query: 549 VGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVDIPNVNTLIVHDADKMGLSQLY 608 Sbjct: 274 333 Query: 609 QLRGRVGRSNRIAYAY 624 Sbjct: 334 - 348 >SPAC9.05 [L] COG1111 ERCC4-like helicases Length = 839 Score = 51.6 bits (122), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 40/138 (28%), Positives = 62/138 (44%), Gaps = 10/138 (7%) Query: 502 VEHSQTLIREAVERELARGGQVYYLYNRVQGIQEMAAQISMLVPEARVGIGHGQ------ 555 +EH + ++ E E+E + ++ +E+ + P R I GQ Sbjct: 414 LEHLERIVTEYFEKEQTKDTRIMIFVEIRSSAEEILRFLGKFYPNVRPAIFIGQSAVRKA 473 Query: 556 --MSESELEKTILDFLDGEYDVLVSTSIIETGVDIPNVNTLIVHDADKMGLSQLYQLRGR 613 MS+ +T+ F GE + L++TSI E G+DI V+ +I +DA + L Q GR Sbjct: 474 AGMSQKLQNETVKQFQKGEVNTLIATSIGEEGLDIGEVDMIICYDASASPIRML-QRMGR 532 Query: 614 VGRSNRIAYAYFTYQRDK 631 GR R Y Y R K Sbjct: 533 TGRK-RKGYIYMLLTRGK 549 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 0.136 0.376 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: 60,050,493 Number of extensions: 2552477 Number of successful extensions: 6115 Number of sequences better than 1.0e-05: 9 Number of HSP's gapped: 6134 Number of HSP's successfully gapped: 9 Length of query: 873 Length of database: 38,378,431 Length adjustment: 115 Effective length of query: 758 Effective length of database: 25,115,021 Effective search space: 19037185918 Effective search space used: 19037185918 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)