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= 0001.2396.p (701 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310140|ref|YP_003774232.1| type II/III HrcC transmembrane ... 786 0.0 gi|300313469|ref|YP_003777561.1| fimbrial type-4 assembly signal... 88 2e-18 >gi|300310140|ref|YP_003774232.1| type II/III HrcC transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 693 Score = 786 bits (2029), Expect = 0.0, Method: Compositional matrix adjust. Identities = 454/719 (63%), Positives = 535/719 (74%), Gaps = 44/719 (6%) Query: 1 MNIRELIKSWGMGVLLAALLLWGTTLHAAVPAAWKDSGFSINANGMTLNGVLEDFSRTYG 60 MN RE+IKSWGMG+LLA LLLWGTTLHAAVP AWKD GFSI+ANGMT+ GVLE+FSRTYG Sbjct: 1 MNAREIIKSWGMGLLLAGLLLWGTTLHAAVPPAWKDGGFSISANGMTVRGVLEEFSRTYG 60 Query: 61 VRLSMSGEGERLVKGRLKADNGIEFLNRLGATYKFRWFVYNNTLYVASASDNTSERLEVG 120 VRL++S +G ++VKGRLKADNG+EFLNRL ++ RWFVYN+TLYV A+DNTS R++VG Sbjct: 61 VRLNLSADGAQIVKGRLKADNGVEFLNRLTGAHRMRWFVYNDTLYVTPAADNTSSRMQVG 120 Query: 121 EDAVQDAKAALVGLGLYDERFGWGELPDEGVVIISGPRSYVDLARNVLLPASEKKAARKG 180 EDAV DAKAALVGLGL+DERFGWGELPDEGVVI+SGPR YVDLAR VL+P +K+ R G Sbjct: 121 EDAVMDAKAALVGLGLFDERFGWGELPDEGVVIVSGPRVYVDLAREVLMPVGKKEKLR-G 179 Query: 181 RQIMIFRLKYATAMDRVITSRGKTETIPGIKTILSNLLFGPSSGEKLTGAAPRFDAASNK 240 RQIM+FRLKYA+A DRVI SRGK ETIPGIKTIL+NLL G GEK+TG RFDA S K Sbjct: 180 RQIMLFRLKYASANDRVINSRGKAETIPGIKTILTNLLMGAHGGEKVTGNN-RFDADSRK 238 Query: 241 RSRLPKNERG----PIGENTGEGLAPLFSAPMGNGTNLMMPGGGMDGGRGGGSFTADSGR 296 RSR + R E++G+ PLFS P GNG N +M G G D G G+ A Sbjct: 239 RSRTGRIARADGDEAAAESSGQRFTPLFSPPGGNGRNQLMAGAGNDNA-GAGASAAQEAE 297 Query: 297 GNEEEGRPRIEADPSLNAIMIYDNINKRDMYASLIAELDVQPQQIEIEALIVDIDRSKLS 356 G + PRIEAD SLNAIMIYD+I KRDMYA+LI +LDV+PQQ+EIEALIVDIDRS+L+ Sbjct: 298 GKQP---PRIEADSSLNAIMIYDDIAKRDMYAALINQLDVKPQQVEIEALIVDIDRSRLA 354 Query: 357 DMGVEWGVRAGAVNSTINATTAASQGLNLPLPGATLLISNAARFYARLKAMESNGDAHVL 416 +MGVEWG RAG VN+T+N TT S G +LPLPGATLLIS+AARFYARLKAMESNG+A VL Sbjct: 355 EMGVEWGARAGVVNTTVNGTTTQSSGTDLPLPGATLLISDAARFYARLKAMESNGEARVL 414 Query: 417 ATPTVLTLDNVAAVLDLSRSAYVSLVGERVADLADITAGTKLRVIPRIIHDGGQTRVRLE 476 ATPTVLTLDNVAAVLDLS+SAYVSL+GERVAD++DITAGT LRVIPRII DGGQTRVRLE Sbjct: 415 ATPTVLTLDNVAAVLDLSQSAYVSLIGERVADMSDITAGTMLRVIPRIIDDGGQTRVRLE 474 Query: 477 VDIEDGSLDSNDNGNSG----NSNNNTVSTSVTRSTISTQAIIDSQQTLMIGGYRAEALS 532 VDIEDGSL++ +N + + +T++ SVTRSTI+TQAIID+QQTLMIGGYRAE+L Sbjct: 475 VDIEDGSLNNGNNDSGSNSSRGTGASTIAASVTRSTINTQAIIDAQQTLMIGGYRAESLI 534 Query: 533 KNKQKVPVLGDLPVLGGLFRSESQSTSTKERLFLITPRITGTDGLDVATSRALKEKSPDQ 592 +NKQKVP+LGDLPV+GGLFRSES+S ST+ERLFLITPRIT DG +A++ A + Sbjct: 535 RNKQKVPLLGDLPVVGGLFRSESRSNSTRERLFLITPRITSFDGTRLASNAAAARPNSAS 594 Query: 593 PPGSGAPAAVPATPATPAAPMPPLPPGIPGTTTGPVLPVGPPAHATGATD---------T 643 +GA A P P P P P+P P T+ P+ PA A AT Sbjct: 595 AGAAGASTAAPLPPNAPGMPSAPVPA--PNQTSLPL-----PAPAGAATSGGAPPVMLPL 647 Query: 644 TVAAATPTTTAGTDSSASPPGVVPTAAAVGPMSPIGNGLRIPTR-VRTQCKRPAGVGMM 701 V AATP ++A G + G+R+P R +C RP VGM+ Sbjct: 648 PVGAATPRAEEPATAAAPSGGSL-------------MGVRMPLRKTANRCARPGSVGML 693 >gi|300313469|ref|YP_003777561.1| fimbrial type-4 assembly signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 674 Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 81/294 (27%), Positives = 130/294 (44%), Gaps = 42/294 (14%) Query: 309 DPSLNAIMIYDNINKRDMYASLIAELDVQPQQIEIEALIVDIDRSKLSDMGVEWGVRA-- 366 D N +++ D + LI +D+ +Q+ IEA IV+ D S ++GV+ G+ A Sbjct: 389 DSHTNQLLVTDTLAALANVRKLIERIDIAARQVMIEARIVEADDSFARNLGVKLGLAART 448 Query: 367 -GAVNSTINATTAASQGLNLPLPGA------------------------TLLISNAARFY 401 GA A+ G P G TL + A RF Sbjct: 449 QGAALGNSYASVGELSGQTPPAAGTYLREPALGLGAGALAGSAPGSFAFTLFNAAAQRFL 508 Query: 402 -ARLKAMESNGDAHVLATPTVLTLDNVAAVLDLSRSA-YVSLVGERVADLADITAGTKLR 459 L A+E+ G ++++P ++T D AA+++ Y +G A A KL Sbjct: 509 NVELSALEAEGRGKIVSSPRLVTADQQAALIEQGEEIPYQQSIGSGATATAFKKANLKLE 568 Query: 460 VIPRIIHDGGQTRVRLEVDIEDGSLDSNDNGNSGNSNNNTVSTSVTRSTISTQAIIDSQQ 519 V P+I DG V L+VD+ DS + G NT I T+ ++ Sbjct: 569 VTPQITPDGN---VILDVDVNK---DSRGSATPGGLAINT-------KHIKTKVQVEDGG 615 Query: 520 TLMIGGYRAEALSKNKQKVPVLGDLPVLGGLFRSESQSTSTKERLFLITPRITG 573 T++IGG + ++++ +VP+LG++P+LG LFRS ++ E L +TPRI Sbjct: 616 TVVIGGIYTQTDNEHETRVPLLGEIPLLGALFRSRNKVRDKTELLIFLTPRIVA 669 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 0.314 0.132 0.378 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: 1,725,336 Number of extensions: 65321 Number of successful extensions: 192 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 186 Number of HSP's successfully gapped: 2 Length of query: 701 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 609 Effective length of database: 1,184,250 Effective search space: 721208250 Effective search space used: 721208250 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 134 (56.2 bits)