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= 0029.0006.p (676 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314078|ref|YP_003778170.1| uncharacterized protein involve... 806 0.0 gi|300311615|ref|YP_003775707.1| outer membrane biogenesis prote... 358 e-100 >gi|300314078|ref|YP_003778170.1| uncharacterized protein involved in outer membrane biogenesis protein [Herbaspirillum seropedicae SmR1] Length = 682 Score = 806 bits (2083), Expect = 0.0, Method: Compositional matrix adjust. Identities = 412/679 (60%), Positives = 517/679 (76%), Gaps = 12/679 (1%) Query: 1 MSRTSKIIGFSLAGVLALIVLLVILIITFDWNRARPWINQRVSDATGRHFAIQGDLIVKW 60 M R +KII + A ++ LI VI I++FDWNRA+PWIN+RVS + GR FAI GDL + W Sbjct: 1 MPRLTKIILWLCASLILLITAAVIFILSFDWNRAKPWINERVSASIGREFAIDGDLSLHW 60 Query: 61 RKPD-----APQTSWARWIPWPQVSANDIVLGNPEWAPANSNMATVKQLNVTLNPWPLLQ 115 ++ AP W RW+PWP++ A + +GNP MAT+ Q+ TLNP PLL Sbjct: 61 QRAQTLPGAAPPGFWERWLPWPRLQAEQLRIGNPPAFSQAGQMATIGQVTFTLNPLPLLV 120 Query: 116 HKIVLPDLEAQDPYLQLLRKKDAVNNWTFKSDD-GPSTWQFRPEKIVIRKGVVELDDAIQ 174 H I LP L+ +DP + LLR AVNNWTFKS GPS W R +I +R+G + LDDA+ Sbjct: 121 HDIALPSLDIRDPSVSLLRNAQAVNNWTFKSSSAGPSAWNLRLGRITLRQGKLSLDDAVD 180 Query: 175 KAKARAEIDTLDPDKDKIYGIGWNVKGSFNKADINGEGKAGGVLSLQDESKPYPLEADVR 234 K K +AEIDTLDP +KIYG+GW + GSFN A ++G+GKAGGVLSLQ+ +PYPL+A VR Sbjct: 181 KIKLKAEIDTLDPAVEKIYGLGWKLSGSFNGAPVSGQGKAGGVLSLQNVQQPYPLQAQVR 240 Query: 235 VGKTRIAVKGTLTKPQELAALDLQLNLSGDSMAHLFPLTGVLLPETPPFSTSGHLIGKLN 294 VGKT I V GTLT+P LAALDL+L++SG SM +L+PLTGVLLPETPPF+T G LIGK++ Sbjct: 241 VGKTAIGVHGTLTRPAALAALDLRLSVSGASMGNLYPLTGVLLPETPPFATEGRLIGKID 300 Query: 295 PVGKKNGSTWTYEKFKGQVGSSDIGGTLEYQSKE--PRPLLTGEVVSNLLRFEDLGPLIG 352 S W YE F+G+VG SDI G+L Y + R LTG + S +LRF+DL PLIG Sbjct: 301 ----AGHSQWDYEDFRGKVGQSDINGSLRYTTGAGAARSQLTGSLTSEVLRFDDLAPLIG 356 Query: 353 ADSNASKEKRGAEERQPSDKVLPVKEFQTEAWGAIDADVKLTAHRVVKEKDLPVNNIQAD 412 ADSNA K +RGA+ERQP DKVLPVK F T+AWGA+DADVKLT R++K+K+LP++++QA Sbjct: 357 ADSNAEKAERGAQERQPGDKVLPVKTFSTDAWGALDADVKLTGKRIIKQKNLPISDLQAH 416 Query: 413 LHLKDKVLSLTPLNFGIAGGNLASTMHLDGRNPKMKSDVKLSARRIKIQQLFPNLDAAQT 472 L LKDKVL+L PL+FG+AGGNL ST+ LDG+ MKS++ LSARR+KIQ+L+P LDA++T Sbjct: 417 LILKDKVLTLAPLDFGVAGGNLRSTIRLDGQAAPMKSELILSARRLKIQKLYPQLDASRT 476 Query: 473 SFGEINGDAALTATGNSVAAMLGSSNGELKMLINHGAISKLLLEEMGLNIGNVVVSKLFG 532 SFGEINGDA L+ATGNSVAAMLGSSNGE+K L+ GAISK LLE GLN+GNVV+SKLFG Sbjct: 477 SFGEINGDARLSATGNSVAAMLGSSNGEVKTLVTQGAISKFLLEAAGLNLGNVVISKLFG 536 Query: 533 DKQVKLNCMAGDFTVSNGLAQARTFTLDTEDAIINISGNLNLAQEQLDLVINPRSKGLRI 592 DK+VKLNC+AGD V G+ ART LDTEDA+I++ G +++ +E+LDL ++P+SKGLRI Sbjct: 537 DKEVKLNCLAGDLPVREGIMTARTLMLDTEDALISVDGTIDMRREKLDLHVHPKSKGLRI 596 Query: 593 ISLRSPLYVTGPFKDPKVGVDKGVLALKAGGAVVLGVLAPVAAILPLINISGEQQTDCAN 652 ISLRSPLYV G FK P VGVDKG+LAL+AG AV LG+LAPV AILPLIN+ G++Q DCA+ Sbjct: 597 ISLRSPLYVAGTFKQPDVGVDKGMLALRAGSAVALGLLAPVTAILPLINVDGDEQADCAH 656 Query: 653 LLQEVQKQPVAPPPGKTRP 671 LL+E +K P AP GKT P Sbjct: 657 LLEEARKAPRAPAAGKTLP 675 >gi|300311615|ref|YP_003775707.1| outer membrane biogenesis protein [Herbaspirillum seropedicae SmR1] Length = 654 Score = 358 bits (919), Expect = e-100, Method: Compositional matrix adjust. Identities = 233/630 (36%), Positives = 345/630 (54%), Gaps = 28/630 (4%) Query: 30 DWNRARPWINQRVSDATGRHFAIQGDLIVKWR--KPDAPQTSWARWIPWPQVSANDIVLG 87 DWN A+PW+ +++S A GR + G+L + W + D + AR P ++ A + +G Sbjct: 41 DWNSAKPWLGRQLSAALGRDIRVDGNLDLSWSLAQADDEAGALARLAPQLRLRAERLFIG 100 Query: 88 NPEWAPANSNMATVKQLNVTLNPWPLLQHKIVLPDLEAQDPYLQLLRKKDAVNNWTFKSD 147 NP+WA ++ ++ L+V +P PLL + DL + L + R D NW F S Sbjct: 101 NPDWAHSSDHLVRAAALDVRFSPLPLLHWHWHVTDLRVEGLDLVMERADDQRKNWRFSSQ 160 Query: 148 DGPSTWQFRPEKIVIRKGV---VELD-DAIQKAKARAEIDTLDPDKDKI-YGIGWNVKGS 202 S W F +IV + VEL D + AR T KD + V G Sbjct: 161 P-RSRWSFDIHRIVFGHALIRYVELPLDLDLRFDARPLNATATNQKDSAALVLQAAVTGR 219 Query: 203 FNKADINGEGKAGGVLSLQDESKPYPLEADVRVGKTRIAVKGTLTKPQELAALDLQLNLS 262 + +A++NG+ K G + L +E +PL+A+ +G + + G L P +L+ DL++ L+ Sbjct: 220 YGQAEVNGQIKGGALPDLLNEGSVFPLQAEGDIGGVQTQLSGNLINPHQLSRADLRIGLA 279 Query: 263 GDSMAHLFPLTGVLLPETPPFSTSGHL-IGKLNPVGKKNGSTWTYEKFKGQVGSSDIGGT 321 GDS+ L+P TGV LP T F T G L I +L+P K W Y F G+VG SD G Sbjct: 280 GDSLDRLYPATGVPLPATRAFHTEGALTITRLDPQTK--AWDWRYSGFSGKVGESDFAGD 337 Query: 322 LEYQSKEPRPLLTGEVVSNLLRFEDLGPLIGADSNASKEKRGAEERQPSDKVLPVKEFQT 381 +Y P+ L + + LLR D P G D++ K P K Q Sbjct: 338 AQYVRGPPKNHLKVKAEAGLLRLSDYLP--GDDADQGK---------------PSKPAQP 380 Query: 382 EAWGAIDADVKLTAHRVVKEKDLPVNNIQADLHLKDKVLSLTPLNFGIAGGNLASTMHLD 441 E W +DAD+ L A RV L A L LKD+VL+ PL F +AGG + LD Sbjct: 381 ERWSKLDADIDLQAKRVQWRAGLEWQQAAATLTLKDQVLTADPLRFNMAGGQGQGQVRLD 440 Query: 442 GRNPKMKSDVKLSARRIKIQQLFPNLDAAQTSFGEINGDAALTATGNSVAAMLGSSNGEL 501 GR P ++S +++ + ++++LFP L + + SF + NG+A L+ATGNS AA+L S++GE+ Sbjct: 441 GRQPDIRSRLQIRLQDAQVRELFPRLASLKASFSKFNGEATLSATGNSAAAVLASADGEI 500 Query: 502 KMLINHGAISKLLLEEMGLNIGNVVVSKLFGDKQVKLNCMAGDFTVSNGLAQARTFTLDT 561 K + G IS+ +LE GLN+ N V +KL+ D+QVKL C A D + +G A R L+T Sbjct: 501 KADLGPGTISQFILEAAGLNLANAVFAKLYRDQQVKLLCGAADVAIQHGQATIRHGILNT 560 Query: 562 EDAIINISGNLNLAQEQLDLVINPRSKGLRIISLRSPLYVTGPFKDPKVGVDKGVLALKA 621 EDA I++ G ++L ++ L L I+PR+K +RI+SLR+PL+V G F P++G D G LA +A Sbjct: 561 EDAAIDVGGQVDLGRQTLALDIHPRTKQVRILSLRTPLHVRGSFSHPEIGADSGALAARA 620 Query: 622 GGAVVLGVLAPVAAILPLINISGEQQTDCA 651 G A L ++APVAA++PLI+ DCA Sbjct: 621 GAAAALALVAPVAAVIPLISPGQAASDDCA 650 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 0.316 0.135 0.394 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: 2,059,072 Number of extensions: 86940 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 239 Number of HSP's successfully gapped: 2 Length of query: 676 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 584 Effective length of database: 1,184,250 Effective search space: 691602000 Effective search space used: 691602000 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 (21.6 bits) S2: 134 (56.2 bits)