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= 0027.0180.p (151 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 289 7e-80 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 115 2e-27 gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 108 2e-25 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 102 1e-23 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 100 5e-23 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 289 bits (740), Expect = 7e-80, Method: Compositional matrix adjust. Identities = 142/148 (95%), Positives = 148/148 (100%) Query: 1 VARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGE 60 VARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGE Sbjct: 222 VARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGE 281 Query: 61 EFVVLLTHATRDDAARIAERIRAGICSRGVMIEGSRDPLRISASIGAASLSPPDRSRPAA 120 EFVVLLTHATR+DAARIAERIRAG+CSRGVMIEGSRDPL+I+ASIGAA+L+PPDRSRPAA Sbjct: 282 EFVVLLTHATREDAARIAERIRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAA 341 Query: 121 EVKQAMLKAADQALYQAKEAGRNRVMLA 148 EVKQAMLKAADQALYQAKEAGRNRVMLA Sbjct: 342 EVKQAMLKAADQALYQAKEAGRNRVMLA 369 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 115 bits (287), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 71/149 (47%), Positives = 95/149 (63%), Gaps = 10/149 (6%) Query: 3 RSQRDRSA-LSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKEL-RLSDALGRFGGE 60 RSQR +A S LFID+D+FKR ND +GH+ GD VL+ VAA +++ L R +D GR+GGE Sbjct: 351 RSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGE 410 Query: 61 EFVVLLTHATRDDAARIAERIRAGICSRGVMIEGSRDPL-RISASIGAASLSPPDRSRPA 119 EFVVLL A R+A+++ I +RG+ GS PL IS SIG A++ +R Sbjct: 411 EFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGS--PLGVISVSIGVATM-----NRAP 463 Query: 120 AEVKQAMLKAADQALYQAKEAGRNRVMLA 148 + + +L AAD ALY AK GRNRV +A Sbjct: 464 HQRMEDVLNAADHALYIAKREGRNRVCVA 492 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 108 bits (269), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 59/137 (43%), Positives = 88/137 (64%), Gaps = 8/137 (5%) Query: 11 LSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHAT 70 L+ + DIDHFK++ND +GHQ+GD +LR VA + + LR D L R+GGEEF++LL ++ Sbjct: 445 LAVVLFDIDHFKQINDSYGHQAGDAILRGVAQSVSQLLRKVDVLARYGGEEFIILLPESS 504 Query: 71 RDDAARIAERIRAGICSRGVMIEGSRDPLRISASIGAASLSPPDRSRPAAEVKQAMLKAA 130 AA +E++RA + + I+G R +R++AS G A+ + P E ++K A Sbjct: 505 LLQAAAASEKLRAALAAGEFEIDGGRR-IRVTASFGVAA----ENGGPGLE---HLIKQA 556 Query: 131 DQALYQAKEAGRNRVML 147 D ALY+AK+ GRNRV L Sbjct: 557 DIALYRAKKLGRNRVEL 573 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 102 bits (254), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 67/149 (44%), Positives = 90/149 (60%), Gaps = 10/149 (6%) Query: 3 RSQRDRSA-LSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKEL-RLSDALGRFGGE 60 R QR+ A S LFID+D+FK ND +GH+ GD VL+EVAA + L R +D GR+GGE Sbjct: 371 RCQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGE 430 Query: 61 EFVVLLTHATRDDAARIAERIRAGICSRGVMIEGSRDPLR-ISASIGAASLSPPDRSRPA 119 EFVVLL A +A+R+ + R I + PL ++ S+G A+L D R Sbjct: 431 EFVVLLEQTDLQGAQMMAQRLCDAVRER--HIAHTSSPLAVVTISVGVATLE-RDHHRRV 487 Query: 120 AEVKQAMLKAADQALYQAKEAGRNRVMLA 148 +V L AAD ALY+AK+AGR+RV L+ Sbjct: 488 EDV----LNAADAALYRAKQAGRDRVHLS 512 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 100 bits (249), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 57/148 (38%), Positives = 82/148 (55%), Gaps = 9/148 (6%) Query: 1 VARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGE 60 + + R + L +D+D FKR+ND GH +GD+VL + I++ LR D + RFGGE Sbjct: 386 ITNALRRDTPLCVALLDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFGGE 445 Query: 61 EFVVLLTHATRDDAARIAERIRAGICSRGVMIEGSRDPLRISASIGAASLSPPDRSRPAA 120 EF+VL+ DA +I R++ + R M E R L I+ S G A P Sbjct: 446 EFLVLMPETAPQDAVQIITRVQRELTKRIFMHESQR--LLITFSAGVAVYHP-------G 496 Query: 121 EVKQAMLKAADQALYQAKEAGRNRVMLA 148 E + +LK AD ALY+AK AG+NR++ A Sbjct: 497 ESQADLLKRADVALYKAKNAGKNRIVFA 524 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 0.321 0.134 0.371 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: 412,135 Number of extensions: 14134 Number of successful extensions: 150 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 107 Number of HSP's successfully gapped: 39 Length of query: 151 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 74 Effective length of database: 1,255,275 Effective search space: 92890350 Effective search space used: 92890350 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 126 (53.1 bits)