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= 0007.0061.p (107 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 97 2e-22 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 93 5e-21 gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi... 86 5e-19 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 82 7e-18 gi|300310865|ref|YP_003774957.1| response regulator containing a... 82 1e-17 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 97.1 bits (240), Expect = 2e-22, Method: Composition-based stats. Identities = 48/98 (48%), Positives = 67/98 (68%), Gaps = 1/98 (1%) Query: 1 MNRPGDLSARYGGEEFAILLPNTDLKGAISVAEKICAGVRALNIPH-GKNPTGIVTVSVG 59 + RP DLSAR+GGEEFA++LP T L GA ++A+K+C V +L +PH G + + +TVSVG Sbjct: 243 IQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVG 302 Query: 60 VQASVPTKTCNLLDLVSAADKALYTAKARGRNQVCSAD 97 VP + L +L+ AAD+ LY AK +GRN+V D Sbjct: 303 AATLVPQEQQELRELIEAADRRLYLAKQQGRNRVVWQD 340 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 92.8 bits (229), Expect = 5e-21, Method: Composition-based stats. Identities = 42/96 (43%), Positives = 61/96 (63%) Query: 1 MNRPGDLSARYGGEEFAILLPNTDLKGAISVAEKICAGVRALNIPHGKNPTGIVTVSVGV 60 + R DL+ RYGGEEF +LL TD GA+ +A+++C + IPH +P G+++VS+GV Sbjct: 397 LQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGV 456 Query: 61 QASVPTKTCNLLDLVSAADKALYTAKARGRNQVCSA 96 + D+++AAD ALY AK GRN+VC A Sbjct: 457 ATMNRAPHQRMEDVLNAADHALYIAKREGRNRVCVA 492 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 86.3 bits (212), Expect = 5e-19, Method: Composition-based stats. Identities = 42/92 (45%), Positives = 61/92 (66%) Query: 1 MNRPGDLSARYGGEEFAILLPNTDLKGAISVAEKICAGVRALNIPHGKNPTGIVTVSVGV 60 ++R D S RYGGEEF +LL TD GA VA++I + +++L IPH ++P I+TVS+GV Sbjct: 381 VSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRIISAIQSLKIPHERSPFDILTVSIGV 440 Query: 61 QASVPTKTCNLLDLVSAADKALYTAKARGRNQ 92 + + ++ D+V AD ALY AK GRN+ Sbjct: 441 TSLLREHHSSIEDVVKDADAALYRAKQDGRNK 472 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 82.4 bits (202), Expect = 7e-18, Method: Composition-based stats. Identities = 41/91 (45%), Positives = 58/91 (63%) Query: 3 RPGDLSARYGGEEFAILLPNTDLKGAISVAEKICAGVRALNIPHGKNPTGIVTVSVGVQA 62 R D + RYGGEEF +LL TDL+GA +A+++C VR +I H +P +VT+SVGV Sbjct: 419 RHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSPLAVVTISVGVAT 478 Query: 63 SVPTKTCNLLDLVSAADKALYTAKARGRNQV 93 + D+++AAD ALY AK GR++V Sbjct: 479 LERDHHRRVEDVLNAADAALYRAKQAGRDRV 509 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 81.6 bits (200), Expect = 1e-17, Method: Composition-based stats. Identities = 43/93 (46%), Positives = 61/93 (65%), Gaps = 4/93 (4%) Query: 3 RPGDLSARYGGEEFAILLPNTDLKGAISVAEKICAGVRALNIPHGKNPTGIVTVSVGVQA 62 R GD+ ARYGGEEFA++LPN A +A ++ VR L I H ++P G+VT+SVGV A Sbjct: 424 RQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVRGLEIAHERSPMGVVTISVGV-A 482 Query: 63 SVPTKTCNLL---DLVSAADKALYTAKARGRNQ 92 S+ + L+ +L+ +AD ALY AK GR++ Sbjct: 483 SLASGKSLLIEPRELIDSADGALYRAKEEGRDR 515 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 0.315 0.133 0.388 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: 337,548 Number of extensions: 12039 Number of successful extensions: 88 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 92 Number of HSP's successfully gapped: 16 Length of query: 107 Length of database: 1,619,870 Length adjustment: 72 Effective length of query: 35 Effective length of database: 1,278,950 Effective search space: 44763250 Effective search space used: 44763250 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: 124 (52.4 bits)