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= 0001.2480.p (669 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311615|ref|YP_003775707.1| outer membrane biogenesis prote... 820 0.0 gi|300314078|ref|YP_003778170.1| uncharacterized protein involve... 382 e-107 >gi|300311615|ref|YP_003775707.1| outer membrane biogenesis protein [Herbaspirillum seropedicae SmR1] Length = 654 Score = 820 bits (2117), Expect = 0.0, Method: Compositional matrix adjust. Identities = 429/626 (68%), Positives = 499/626 (79%), Gaps = 19/626 (3%) Query: 40 DWNLLKPWLSRQFSVVLSREIRLDGPISLSWSLAPSSPQGGV--SWLPQLHLTAQDLQIG 97 DWN KPWL RQ S L R+IR+DG + LSWSLA + + G PQL L A+ L IG Sbjct: 41 DWNSAKPWLGRQLSAALGRDIRVDGNLDLSWSLAQADDEAGALARLAPQLRLRAERLFIG 100 Query: 98 NPAWAHSAAHLLRAQRLDLHFSPLPLLRWHWHVTDLRIDGLDLVMERVDEHHKNWRFSDQ 157 NP WAHS+ HL+RA LD+ FSPLPLL WHWHVTDLR++GLDLVMER D+ KNWRFS Q Sbjct: 101 NPDWAHSSDHLVRAAALDVRFSPLPLLHWHWHVTDLRVEGLDLVMERADDQRKNWRFSSQ 160 Query: 158 PRSRWSFDIHQIVFDHALIRYVDQPLDLDLRFDVRPLTSDINRAAALRDQRDQRDDGALM 217 PRSRWSFDIH+IVF HALIRYV+ PLDLDLRFD RPL + +Q+D AL+ Sbjct: 161 PRSRWSFDIHRIVFGHALIRYVELPLDLDLRFDARPLNATAT---------NQKDSAALV 211 Query: 218 LQAAVSGRYGQAPVQGQLRGGALPDLLNEGSVYPLQAEGEVGAVHTVIHGNLIEPHHLQR 277 LQAAV+GRYGQA V GQ++GGALPDLLNEGSV+PLQAEG++G V T + GNLI PH L R Sbjct: 212 LQAAVTGRYGQAEVNGQIKGGALPDLLNEGSVFPLQAEGDIGGVQTQLSGNLINPHQLSR 271 Query: 278 ADLRIRLSGDSLDRLYAATGVPLPSTQPFSTSGQLTITRVDAETRAWNWRYEHFSGKVGD 337 ADLRI L+GDSLDRLY ATGVPLP+T+ F T G LTITR+D +T+AW+WRY FSGKVG+ Sbjct: 272 ADLRIGLAGDSLDRLYPATGVPLPATRAFHTEGALTITRLDPQTKAWDWRYSGFSGKVGE 331 Query: 338 SDFAGDATYYRGPPKNHLTVQAEAALLRLSDYLPAAGTKEAGGSSKSRVLPEKPAQPQRW 397 SDFAGDA Y RGPPKNHL V+AEA LLRLSDYLP G + P KPAQP+RW Sbjct: 332 SDFAGDAQYVRGPPKNHLKVKAEAGLLRLSDYLP--------GDDADQGKPSKPAQPERW 383 Query: 398 AKLNADISLQAKRVQLRPDLEWQDASVTLRLQDQVLTAAPLRFSMAGGKGEGELSLDGRQ 457 +KL+ADI LQAKRVQ R LEWQ A+ TL L+DQVLTA PLRF+MAGG+G+G++ LDGRQ Sbjct: 384 SKLDADIDLQAKRVQWRAGLEWQQAAATLTLKDQVLTADPLRFNMAGGQGQGQVRLDGRQ 443 Query: 458 SEIGSHLQVRLHELQVRQLFPRLAKLDASFGKLDGQATLTGQGNSVTAMLASAHGEIQAD 517 +I S LQ+RL + QVR+LFPRLA L ASF K +G+ATL+ GNS A+LASA GEI+AD Sbjct: 444 PDIRSRLQIRLQDAQVRELFPRLASLKASFSKFNGEATLSATGNSAAAVLASADGEIKAD 503 Query: 518 LSQGTISQFILEAAGLNLANAVFAKFYRDQQVKLLCGAADVRIQNGLAQVRRGILNTEDA 577 L GTISQFILEAAGLNLANAVFAK YRDQQVKLLCGAADV IQ+G A +R GILNTEDA Sbjct: 504 LGPGTISQFILEAAGLNLANAVFAKLYRDQQVKLLCGAADVAIQHGQATIRHGILNTEDA 563 Query: 578 AIDISGEVDLGKQSLALNVYPRTKQMRILSLRTPLYVRGSFAKPDIGASKSGLAARTGAA 637 AID+ G+VDLG+Q+LAL+++PRTKQ+RILSLRTPL+VRGSF+ P+IGA LAAR GAA Sbjct: 564 AIDVGGQVDLGRQTLALDIHPRTKQVRILSLRTPLHVRGSFSHPEIGADSGALAARAGAA 623 Query: 638 AALALVAPMAAVIPLVTPGQAIPDDC 663 AALALVAP+AAVIPL++PGQA DDC Sbjct: 624 AALALVAPVAAVIPLISPGQAASDDC 649 >gi|300314078|ref|YP_003778170.1| uncharacterized protein involved in outer membrane biogenesis protein [Herbaspirillum seropedicae SmR1] Length = 682 Score = 382 bits (982), Expect = e-107, Method: Compositional matrix adjust. Identities = 241/668 (36%), Positives = 353/668 (52%), Gaps = 35/668 (5%) Query: 14 IVRIFTWSIAALAALLAVPILLVALLDWNLLKPWLSRQFSVVLSREIRLDGPISLSWSLA 73 + +I W A+L L+ ++ + DWN KPW++ + S + RE +DG +SL W A Sbjct: 4 LTKIILWLCASLILLITAAVIFILSFDWNRAKPWINERVSASIGREFAIDGDLSLHWQRA 63 Query: 74 PSSPQGG-----VSWLPQLHLTAQDLQIGNPAWAHSAAHLLRAQRLDLHFSPLPLLRWHW 128 + P WLP L A+ L+IGNP A + ++ +PLPLL Sbjct: 64 QTLPGAAPPGFWERWLPWPRLQAEQLRIGNPPAFSQAGQMATIGQVTFTLNPLPLLVHDI 123 Query: 129 HVTDLRIDGLDLVMERVDEHHKNWRF--SDQPRSRWSFDIHQIVFDHALIRYVDQPLDLD 186 + L I + + R + NW F S S W+ + +I L LD Sbjct: 124 ALPSLDIRDPSVSLLRNAQAVNNWTFKSSSAGPSAWNLRLGRITLRQG-------KLSLD 176 Query: 187 LRFDVRPLTSDINRAAALRDQRDQRDDGALMLQAAVSGRYGQAPVQGQLRGGALPDLLNE 246 D L ++I D D + L +SG + APV GQ + G + L N Sbjct: 177 DAVDKIKLKAEI-------DTLDPAVEKIYGLGWKLSGSFNGAPVSGQGKAGGVLSLQNV 229 Query: 247 GSVYPLQAEGEVGAVHTVIHGNLIEPHHLQRADLRIRLSGDSLDRLYAATGVPLPSTQPF 306 YPLQA+ VG +HG L P L DLR+ +SG S+ LY TGV LP T PF Sbjct: 230 QQPYPLQAQVRVGKTAIGVHGTLTRPAALAALDLRLSVSGASMGNLYPLTGVLLPETPPF 289 Query: 307 STSGQLTITRVDAETRAWNWRYEHFSGKVGDSDFAGDATYYRGP--PKNHLTVQAEAALL 364 +T G+L I ++DA W+ YE F GKVG SD G Y G ++ LT + +L Sbjct: 290 ATEGRL-IGKIDAGHSQWD--YEDFRGKVGQSDINGSLRYTTGAGAARSQLTGSLTSEVL 346 Query: 365 RLSDYLPAAGTK------EAGGSSK---SRVLPEKPAQPQRWAKLNADISLQAKRVQLRP 415 R D P G E G + +VLP K W L+AD+ L KR+ + Sbjct: 347 RFDDLAPLIGADSNAEKAERGAQERQPGDKVLPVKTFSTDAWGALDADVKLTGKRIIKQK 406 Query: 416 DLEWQDASVTLRLQDQVLTAAPLRFSMAGGKGEGELSLDGRQSEIGSHLQVRLHELQVRQ 475 +L D L L+D+VLT APL F +AGG + LDG+ + + S L + L++++ Sbjct: 407 NLPISDLQAHLILKDKVLTLAPLDFGVAGGNLRSTIRLDGQAAPMKSELILSARRLKIQK 466 Query: 476 LFPRLAKLDASFGKLDGQATLTGQGNSVTAMLASAHGEIQADLSQGTISQFILEAAGLNL 535 L+P+L SFG+++G A L+ GNSV AML S++GE++ ++QG IS+F+LEAAGLNL Sbjct: 467 LYPQLDASRTSFGEINGDARLSATGNSVAAMLGSSNGEVKTLVTQGAISKFLLEAAGLNL 526 Query: 536 ANAVFAKFYRDQQVKLLCGAADVRIQNGLAQVRRGILNTEDAAIDISGEVDLGKQSLALN 595 N V +K + D++VKL C A D+ ++ G+ R +L+TEDA I + G +D+ ++ L L+ Sbjct: 527 GNVVISKLFGDKEVKLNCLAGDLPVREGIMTARTLMLDTEDALISVDGTIDMRREKLDLH 586 Query: 596 VYPRTKQMRILSLRTPLYVRGSFAKPDIGASKSGLAARTGAAAALALVAPMAAVIPLVTP 655 V+P++K +RI+SLR+PLYV G+F +PD+G K LA R G+A AL L+AP+ A++PL+ Sbjct: 587 VHPKSKGLRIISLRSPLYVAGTFKQPDVGVDKGMLALRAGSAVALGLLAPVTAILPLINV 646 Query: 656 GQAIPDDC 663 DC Sbjct: 647 DGDEQADC 654 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.135 0.406 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 2,096,092 Number of extensions: 89424 Number of successful extensions: 289 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 283 Number of HSP's successfully gapped: 2 Length of query: 669 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 577 Effective length of database: 1,184,250 Effective search space: 683312250 Effective search space used: 683312250 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 134 (56.2 bits)