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= 0186.0017.p (691 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 744 0.0 gi|300312077|ref|YP_003776169.1| response regulator containing a... 312 5e-86 gi|300310532|ref|YP_003774624.1| virulence regulator protein [He... 158 2e-39 gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 124 3e-29 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 114 2e-26 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 744 bits (1922), Expect = 0.0, Method: Compositional matrix adjust. Identities = 382/515 (74%), Positives = 434/515 (84%), Gaps = 3/515 (0%) Query: 180 IYIAREAFQQLATRRIAPTPDAYREAYEEIVGTKSDLKPEGVLSAFAQHLTQQPGDIGKL 239 + IAREAFQ+L RRIAPTPDAYR AYEEI G E VL+AFA L++QPG+ G L Sbjct: 11 VEIAREAFQRLGARRIAPTPDAYRIAYEEIQGDGPGASAESVLAAFATKLSRQPGENGLL 70 Query: 240 GLRLTMAINGSDWKDYNDELDNFVEQYFPSRNLVP---HGQLVPIDPEREFIRDSKKEKM 296 G RL A +DW ++ +L F E+ + +R L P HG+LVPID EREFIRDSKKEKM Sbjct: 71 GTRLVRARENNDWAEFERQLIEFAEENWQNRPLGPQVQHGELVPIDLEREFIRDSKKEKM 130 Query: 297 LREVLARVLIFNMASLLIEAPELANESKSIGLDLKTAFSEQAMNEVIGRLKQMSFQIELK 356 LRE+LARVL+FN+ SLL APELANES++ G +LKTAFSEQAMNE+I RLKQ+SFQIELK Sbjct: 131 LREMLARVLVFNLPSLLSTAPELANESRNSGQELKTAFSEQAMNEIIARLKQLSFQIELK 190 Query: 357 SEDIALQQELLMRLFQLLLENIHGLLEKGSWLSSQITAVQELINGPISKTSLADATKTLK 416 ++D+A QQ+LLMRLFQLLLENI+GLLE+GSWLSSQI VQ LI GP+S TSLADATK LK Sbjct: 191 TDDMAQQQDLLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPLSTTSLADATKNLK 250 Query: 417 EVIFKQGLLKNTLSEEKVTAKNMMLTFVDRLSAMVSTTDNYHKTITSFSQQISQASDISD 476 EVI+KQGLLKNTLSEEKV KNMMLTFVDRLSAMVSTTDNY +TI FSQQISQA +I+D Sbjct: 251 EVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRGFSQQISQAGNIAD 310 Query: 477 LNSVLNGIMNATKEAQDEALRSRDEMINARQEMQKAEARITALESQLVHMGELVREDQLT 536 LNSVL+ IM T++AQ+EA RSRD M +ARQE++KAE RI LE QL+ MGELVREDQLT Sbjct: 311 LNSVLSEIMTETQKAQEEATRSRDAMEDARQEVEKAEERIQTLEQQLLQMGELVREDQLT 370 Query: 537 GSLNRRGMDESLEREIINADRLGAPLCIALLDLDDFKRINDTHGHATGDEVLVHLVSVVK 596 GSLNRRGMDESL+REI NA R PLC+ALLDLDDFKRINDTHGHATGDEVLVH+V V++ Sbjct: 371 GSLNRRGMDESLDREITNALRRDTPLCVALLDLDDFKRINDTHGHATGDEVLVHMVQVIR 430 Query: 597 ETLRKLDVIARFGGEEFLVLLPETEPAEAMQIITRVQRELTKRIFMHNSQRLLITFSGGV 656 ETLRKLDVIARFGGEEFLVL+PET P +A+QIITRVQRELTKRIFMH SQRLLITFS GV Sbjct: 431 ETLRKLDVIARFGGEEFLVLMPETAPQDAVQIITRVQRELTKRIFMHESQRLLITFSAGV 490 Query: 657 AYRAPGESQADLIKRADVALYKAKNAGKNRVILAD 691 A PGESQADL+KRADVALYKAKNAGKNR++ AD Sbjct: 491 AVYHPGESQADLLKRADVALYKAKNAGKNRIVFAD 525 >gi|300312077|ref|YP_003776169.1| response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 217 Score = 312 bits (800), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 148/176 (84%), Positives = 164/176 (93%) Query: 3 ITKKNSSAIKVAIADDHAIVREGLRQICSGTKDIIVVGNAENGLETIKLTRLGNCDVLLL 62 ++KK ++AIKV IADDHAIVREGLRQIC+G+KDI+V GNA NGLE IKL R GN DVLLL Sbjct: 1 MSKKVTAAIKVLIADDHAIVREGLRQICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLL 60 Query: 63 DIILPDRTGIDVLKQIKKEIPKLPVLMLSIHREDQYAIRALKAGAAGFLNKQAAPSELIN 122 DI+LPDR GID+LKQI+KE P+LPVL+LSIHREDQYAIRALKAGAAGFLNKQAAP+EL+ Sbjct: 61 DIVLPDRNGIDILKQIRKEQPELPVLILSIHREDQYAIRALKAGAAGFLNKQAAPAELLA 120 Query: 123 AIRQVAAGRKYISPSLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDI 178 AIRQ A+GRKY+SPSLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDI Sbjct: 121 AIRQAASGRKYVSPSLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDI 176 >gi|300310532|ref|YP_003774624.1| virulence regulator protein [Herbaspirillum seropedicae SmR1] Length = 209 Score = 158 bits (399), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 75/167 (44%), Positives = 113/167 (67%), Gaps = 1/167 (0%) Query: 12 KVAIADDHAIVREGLRQICSGTKDIIVVGNAENGLETIKLTRLGNCDVLLLDIILPDRTG 71 K+ + DDHA+VR G+ S + + G A E I+L R + D++LLDI +PD++G Sbjct: 3 KILVVDDHAVVRAGVHHFISEIPSMEIGGEASTAEEAIRLVRTQDWDIVLLDIAMPDKSG 62 Query: 72 IDVLKQIKKEIPKLPVLMLSIHREDQYAIRALKAGAAGFLNKQAAPSELINAIRQVAAGR 131 ++VLKQIK+E P+LPVLMLS+H E +YA++ L++GA+G++ K+A +EL+NAI + G Sbjct: 63 VEVLKQIKREKPELPVLMLSMHPESRYAVQVLRSGASGYVQKEALATELVNAINTILRGH 122 Query: 132 KYISPSLAQELANQIGFDHETPLHETLSDREYQTMVMIASGKTVSDI 178 KYIS +A+ L ++ D E PLHETLS REY+ + G+ V+ I Sbjct: 123 KYISYGVAELLTSE-PVDSEKPLHETLSQREYEIFYKLGQGQGVTQI 168 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 70/183 (38%), Positives = 106/183 (57%), Gaps = 1/183 (0%) Query: 506 RQEMQKAEARITALESQLVHMGELVREDQLTGSLNRRGMDESLEREIINADRLGAPLCIA 565 RQ M++ + E+ + + D LTG LNRR ++++ A R G L + Sbjct: 389 RQRMRERNSLAREREALITQLQTSSNTDFLTGVLNRRAFFTHGQQQMTVAKRYGRELAVV 448 Query: 566 LLDLDDFKRINDTHGHATGDEVLVHLVSVVKETLRKLDVIARFGGEEFLVLLPETEPAEA 625 L D+D FK+IND++GH GD +L + V + LRK+DV+AR+GGEEF++LLPE+ +A Sbjct: 449 LFDIDHFKQINDSYGHQAGDAILRGVAQSVSQLLRKVDVLARYGGEEFIILLPESSLLQA 508 Query: 626 MQIITRVQRELTKRIF-MHNSQRLLITFSGGVAYRAPGESQADLIKRADVALYKAKNAGK 684 +++ L F + +R+ +T S GVA G LIK+AD+ALY+AK G+ Sbjct: 509 AAASEKLRAALAAGEFEIDGGRRIRVTASFGVAAENGGPGLEHLIKQADIALYRAKKLGR 568 Query: 685 NRV 687 NRV Sbjct: 569 NRV 571 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 114 bits (286), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 73/179 (40%), Positives = 107/179 (59%), Gaps = 6/179 (3%) Query: 512 AEARITALESQLVHMGELVREDQLTGSLNRRGMDESLEREIINADRLGAPLCIALLDLDD 571 AE R+ L +L L D+LTG NR +DE L+ EI ADR G L + LLD+D Sbjct: 148 AEQRVERLNEKLAL---LAVTDKLTGLANRMKLDEVLDNEINRADRYGKNLSLILLDIDH 204 Query: 572 FKRINDTHGHATGDEVLVHLVSVVKETLRKLDVIARFGGEEFLVLLPETEPAEAMQIITR 631 FK +ND GH+TGD VLV + +++ +R D+ R+GGEEFL++LPE + +A ++ + Sbjct: 205 FKEVNDNFGHSTGDAVLVRIAEILRANVRSSDLAGRWGGEEFLLILPECDMEDAARMAEK 264 Query: 632 VQRELTKRIFMHNSQRLLITFSGGVAYRAPGESQADLIKRADVALYKAKNAGKNRVILA 690 ++ + F+ +R T S GVA G + L+ AD+ALY+AKN G+NRV +A Sbjct: 265 LRLLIENYNFVPVGRR---TCSFGVAAYQAGHDRTTLLTLADLALYRAKNTGRNRVEIA 320 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 0.317 0.133 0.362 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: 1,832,710 Number of extensions: 72247 Number of successful extensions: 406 Number of sequences better than 1.0e-08: 49 Number of HSP's gapped: 381 Number of HSP's successfully gapped: 49 Length of query: 691 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 599 Effective length of database: 1,184,250 Effective search space: 709365750 Effective search space used: 709365750 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: 134 (56.2 bits)