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= 0002.0559.p (706 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313469|ref|YP_003777561.1| fimbrial type-4 assembly signal... 660 0.0 gi|300310140|ref|YP_003774232.1| type II/III HrcC transmembrane ... 79 1e-15 >gi|300313469|ref|YP_003777561.1| fimbrial type-4 assembly signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 674 Score = 660 bits (1704), Expect = 0.0, Method: Compositional matrix adjust. Identities = 358/665 (53%), Positives = 469/665 (70%), Gaps = 21/665 (3%) Query: 37 AIDVAQRDARTEVRIKL-RTPPATSPVHFSTASPARIVIDLADTDNSADVQTPGADNNSG 95 A+D+ RD T + ++L +T P + HF P ++V+DL DT +A + A SG Sbjct: 25 ALDIEARDEATTLTLRLDQTLPLSQIHHFQLLDPPQLVLDLPDTTLAAGMARQFA--ASG 82 Query: 96 ALRGVTIASSAGRSRVVLNLRHMPPYSVRTEGDTVIATITAITTIAASAASAGNEAPPTG 155 L+ VT+AS R R++ L+ Y ++ + + V ++ + P Sbjct: 83 LLKRVTLASDGERLRLLATLKRPLHYQLQVQDEQVQVALSPL---------------PPQ 127 Query: 156 ARPSIGSIDFRRGAQGEGRIIIDLPGPETALDIRQQGRQIVADILNAGVPARAPRRLDVS 215 A ++G I F+RG+ GEGR+ IDL + +RQQG++++ DI +P + R+++V Sbjct: 128 APTALGGIGFQRGSAGEGRLDIDLGSTAPVVQVRQQGQRLIVDIGGTTLPTGSARQVEVG 187 Query: 216 DFGTPVKTIASSDRGTDVRLLIDTEALAEYHAYQKEAQLVIEVRNPADAEKRAAQRQQPY 275 DF TPV + VRL I + L Y A Q+ QL I+V P A+ + Y Sbjct: 188 DFATPVTQYQAYPYENGVRLAIHAQGLWRYQAVQRGQQLRIDVL-PVSADPHRIAPDKDY 246 Query: 276 RGDKLSLQFQNIEVRAILQVLADFTGINIIASDGVGGALTLRLKEVPWDQALDIVLQARG 335 +G +LSL FQNIEVR LQVLADFTG+NIIASD V G L+LRLK+VPW+QAL+++LQARG Sbjct: 247 QGARLSLNFQNIEVRTALQVLADFTGLNIIASDAVTGQLSLRLKDVPWEQALEMILQARG 306 Query: 336 LDMRRNGNVMWVAPREELLTRERLELEQRAQIAELEPLRAEVFQLNYQKAEAFRKIFGED 395 L ++R+G V+W+APREE+ RER ELEQ+A +A+LEPL AE FQLNYQ+A+ R+ G Sbjct: 307 LALQRSGGVLWIAPREEMAARERQELEQKALLADLEPLHAETFQLNYQRADNLRRALG-- 364 Query: 396 VAAGISTASERRPTLLSRRGSAVVDQRTNQLFVTDTPSVLDNIRKLLEKIDVASRQVLIE 455 + + + RR +LLSRRGSA++D TNQL VTDT + L N+RKL+E+ID+A+RQV+IE Sbjct: 365 LGEDGTPQANRRASLLSRRGSAMIDSHTNQLLVTDTLAALANVRKLIERIDIAARQVMIE 424 Query: 456 ARIVEADDSFSRNLGARLGFSAKANGIAAGSSYNQAGEVAGLTPAVANSYSANHAVNLPA 515 ARIVEADDSF+RNLG +LG +A+ G A G+SY GE++G TP A +Y A+ L A Sbjct: 425 ARIVEADDSFARNLGVKLGLAARTQGAALGNSYASVGELSGQTPPAAGTYLREPALGLGA 484 Query: 516 QGIGGAAAGSFALSLFNAAANRFLTLELSALEADGKGKIVSSPRVVTADQQPALIEQGEE 575 + G+A GSFA +LFNAAA RFL +ELSALEA+G+GKIVSSPR+VTADQQ ALIEQGEE Sbjct: 485 GALAGSAPGSFAFTLFNAAAQRFLNVELSALEAEGRGKIVSSPRLVTADQQAALIEQGEE 544 Query: 576 IPYQQATSSGATSTAFKKANLKLEVTPQITPDGNVILSVDINKDSRGTATPGGLAINTKH 635 IPYQQ+ SGAT+TAFKKANLKLEVTPQITPDGNVIL VD+NKDSRG+ATPGGLAINTKH Sbjct: 545 IPYQQSIGSGATATAFKKANLKLEVTPQITPDGNVILDVDVNKDSRGSATPGGLAINTKH 604 Query: 636 VKTLVQVENGGTVVIGGIYTQTESNTVSKVPLLGDIPVLGNLFRHSARIDHKTELLIFLT 695 +KT VQVE+GGTVVIGGIYTQT++ ++VPLLG+IP+LG LFR ++ KTELLIFLT Sbjct: 605 IKTKVQVEDGGTVVIGGIYTQTDNEHETRVPLLGEIPLLGALFRSRNKVRDKTELLIFLT 664 Query: 696 PKIVA 700 P+IVA Sbjct: 665 PRIVA 669 >gi|300310140|ref|YP_003774232.1| type II/III HrcC transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 693 Score = 79.0 bits (193), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 78/298 (26%), Positives = 125/298 (41%), Gaps = 46/298 (15%) Query: 420 DQRTNQLFVTDTPSVLDNIRKLLEKIDVASRQVLIEARIVEADDSFSRNLGARLGFSAKA 479 D N + + D + D L+ ++DV +QV IEA IV+ D S +G G A Sbjct: 307 DSSLNAIMIYDDIAKRDMYAALINQLDVKPQQVEIEALIVDIDRSRLAEMGVEWGARAGV 366 Query: 480 NGIAAGSSYNQAGEVAGLTPAVANSYSANHAVNLPAQGIGGAAAGSFALSLFNAAANRFL 539 + Q+ +LP G +L + A RF Sbjct: 367 VNTTVNGTTTQS-----------------SGTDLPLPGA----------TLLISDAARFY 399 Query: 540 TLELSALEADGKGKIVSSPRVVTADQQPALIEQGEEIPYQQATSSGATSTAFKKANLKLE 599 L A+E++G+ +++++P V+T D A+++ + Y + A L Sbjct: 400 A-RLKAMESNGEARVLATPTVLTLDNVAAVLDLSQSA-YVSLIGERVADMSDITAGTMLR 457 Query: 600 VTPQITPDGN---VILSVDINKDS-------------RGT-ATPGGLAINTKHVKTLVQV 642 V P+I DG V L VDI S RGT A+ ++ + T + Sbjct: 458 VIPRIIDDGGQTRVRLEVDIEDGSLNNGNNDSGSNSSRGTGASTIAASVTRSTINTQAII 517 Query: 643 ENGGTVVIGGIYTQTESNTVSKVPLLGDIPVLGNLFRHSARIDHKTELLIFLTPKIVA 700 + T++IGG ++ KVPLLGD+PV+G LFR +R + E L +TP+I + Sbjct: 518 DAQQTLMIGGYRAESLIRNKQKVPLLGDLPVVGGLFRSESRSNSTRERLFLITPRITS 575 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 0.132 0.364 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: 2,035,025 Number of extensions: 83816 Number of successful extensions: 319 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 315 Number of HSP's successfully gapped: 2 Length of query: 706 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 614 Effective length of database: 1,184,250 Effective search space: 727129500 Effective search space used: 727129500 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)