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= 0005.0148.p (541 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782... 652 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 138 1e-33 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 137 2e-33 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 135 9e-33 gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein... 130 3e-31 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 652 bits (1682), Expect = 0.0, Method: Compositional matrix adjust. Identities = 343/544 (63%), Positives = 420/544 (77%), Gaps = 8/544 (1%) Query: 1 MNFKRFFNSLVTRLVLFGTLVVFASAVARFHVLTNFLHDDLSEVAADQQSTIASYLAQDI 60 M KRF SLVTRLVLFG +++ SAV R+H+L FL + ++VAADQQS IASYLAQDI Sbjct: 41 MKIKRFDCSLVTRLVLFGLMLIGISAVLRYHILIGFLEKEQAQVAADQQSIIASYLAQDI 100 Query: 61 NYRIVERRXGRFLEQLARMLPTELLDQPEKLRAWLRERQELQPLFSTGLFVADANGEVIV 120 YR+ ER R+LE+LA LP + L+ ++AWLRE QELQPLF+ G+FVA ANG+++V Sbjct: 101 GYRVQERV--RYLERLALHLPADRLEDGHAMQAWLREHQELQPLFAQGMFVAAANGQILV 158 Query: 121 DYPAAAGRRNLSLAIFPDFHLVREGKFIIGEPILSRTEQYPILPMLAPVRDAGGKFVAVL 180 DYP GRR LSLA +PDF V +G +I P+LS PI+ +L PVRDA G+ V +L Sbjct: 159 DYPTLNGRRALSLADYPDFKRVLQGATVICPPLLSPATGRPIMAVLTPVRDAHGRVVGIL 218 Query: 181 GGSTALAATGFLDHLQQARLGESGSFLLVSPARRLILASSQKELIFKSLPEVGVDPMLDK 240 GGST L A GFLDHLQ+A+LG +GSFLL+SP +R+I+ASS + L++ LP G D ++D+ Sbjct: 219 GGSTELTAAGFLDHLQRAQLGPTGSFLLISPEQRMIVASSDEALVYTRLPATGQDLLMDQ 278 Query: 241 AVDGYRGSGVG--ANGDIDEIKAIADVPSTGWFVVARLPVKAALPTVDRVQAFIVRGGAM 298 A+ G+RG+GVG ANG ++EIKA A VP T W V A LP+ AALPTV+R +A I RGG + Sbjct: 279 ALQGFRGNGVGLAANG-VNEIKAFAPVPGTSWLVAATLPLAAALPTVERTRALIARGGLI 337 Query: 299 QAAVIFLLIILVIIWFFRPLRRAADQAERMTRGELPLTPLPVYRNDEVGHLTMAFNRLLS 358 QAA++ LL++L +WFFRPLRRAA A+RMTRGELPL+PLPV R DEVG LTMAFN LL+ Sbjct: 338 QAAMVVLLVVLAYLWFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLA 397 Query: 359 RLKTHQSELQHQAHHDILTGLPNRVMLAERMQQAIAQTQR---GVALLFLDLDGFKPIND 415 RLK HQ+ELQHQAHHD+LTGLPNR+MLAERMQ A+ R GV LLFLDLDGFKPIND Sbjct: 398 RLKLHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPIND 457 Query: 416 TLGHKAGDQVLQEITQRLQKVARHSDTLARVGGDEFVLLATDLGAPLENGARALAEKCIR 475 TLGHKAGDQVLQEIT+RL++VARH DTLARVGGDEFVLL TDL P E GA+ALAEKCI+ Sbjct: 458 TLGHKAGDQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIK 517 Query: 476 VVADPLQIGHGEYKIGVSIGIAVCETYCDPDILLQAADKAMYDAKNKGRGCYVIAPVTEA 535 V++P+ + +Y++GVS+GIAVC+ CD D LLQAAD+AMY AK GRGCYVIAP A Sbjct: 518 TVSEPICLDQRQYRLGVSVGIAVCDGSCDADSLLQAADQAMYAAKANGRGCYVIAPARPA 577 Query: 536 AVQT 539 T Sbjct: 578 CANT 581 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 138 bits (347), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 83/203 (40%), Positives = 122/203 (60%), Gaps = 8/203 (3%) Query: 344 DEVGHLTMAFNRL--LSRLKTHQSELQHQAHHDILTGLPNRVMLAERMQQAI-AQTQRG- 399 DE G L+ + ++ K H++E++HQA HD LTGLPNR ML E +Q+A+ Q+G Sbjct: 237 DEAGKLSCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGA 296 Query: 400 -VALLFLDLDGFKPINDTLGHKAGDQVLQEITQRLQKVARHSDTLARVGGDEFVLLATDL 458 A+ F+DLD FK IND+LGH+ GD++L+ + QRLQ R +D +AR GGDEFVL+ + Sbjct: 297 LTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQN- 355 Query: 459 GAPLENGARALAEKCIRVVADPLQIGHGEYKIGVSIGIA-VCETYCDPDILLQAADKAMY 517 E G + ++ + VA P Q G E+++ SIG++ D + LL+ AD AMY Sbjct: 356 QTEGEAGIAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMY 415 Query: 518 DAKNKGRGCY-VIAPVTEAAVQT 539 AK +GR + AP ++ V Sbjct: 416 RAKEQGRNNFQFFAPWMDSQVSN 438 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 137 bits (346), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 76/179 (42%), Positives = 110/179 (61%), Gaps = 7/179 (3%) Query: 354 NRLLSRLKTHQSE-LQHQAHHDILTGLPNRVMLAERMQQAIAQTQRG---VALLFLDLDG 409 N++L R+ ++ L H A HD+LTGLPNR +LA+R+Q A+ +R A+LF+DLDG Sbjct: 244 NQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDG 303 Query: 410 FKPINDTLGHKAGDQVLQEITQRLQKVARHSDTLARVGGDEFVLLATDLGAPLENGARAL 469 FK IND+LGH GD +L + QR+++ R D +AR+GGDEFV++ +L +P + L Sbjct: 304 FKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSP--DVVEQL 361 Query: 470 AEKCIRVVADPLQIGHGEYKIGVSIGIAVCETYCDP-DILLQAADKAMYDAKNKGRGCY 527 +E + + QI ++ SIGIAV D D L++ AD AMY+AK GR Y Sbjct: 362 SENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTY 420 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 135 bits (340), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 78/177 (44%), Positives = 103/177 (58%), Gaps = 7/177 (3%) Query: 355 RLLSRLKTHQSELQHQAHHDILTGLPNRVMLAERMQQAI---AQTQRGVALLFLDLDGFK 411 +L L EL HD LT LPNR +L +R+ QAI A+ Q AL+F+DLDGFK Sbjct: 250 KLARSLAAANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFK 309 Query: 412 PINDTLGHKAGDQVLQEITQRLQKVARHSDTLARVGGDEFVLLATDLGAPLENGARALAE 471 IND+LGH GD++L E+ QRL +R +DT+AR+GGDEFV+L DL P A +AE Sbjct: 310 AINDSLGHHVGDRLLVEVAQRLTSSSRANDTVARLGGDEFVIL-VDLNTP--EDAMGVAE 366 Query: 472 KCIRVVADPLQIGHGEYKIGVSIGIAVC-ETYCDPDILLQAADKAMYDAKNKGRGCY 527 K + V P ++ E ++ S+GIA+ E L+ AD AMY K GR Y Sbjct: 367 KLVEAVNQPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGY 423 >gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 738 Score = 130 bits (327), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 76/201 (37%), Positives = 117/201 (58%), Gaps = 9/201 (4%) Query: 332 ELPLTPLPVYRNDEVGHLTMAFNRLLSRLKTHQSELQHQAHHDILTGLPNRVMLAERMQQ 391 ELP+ + + GHL +AF ++ + +++ A D+LT LPNR ++R+ + Sbjct: 530 ELPVEITVGHVKRQSGHLFIAFLHDITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPE 589 Query: 392 AIAQTQRG---VALLFLDLDGFKPINDTLGHKAGDQVLQEITQRLQKVARHSDTLARVGG 448 + + +R +AL F+DLDGFK IND GH+AGD++L E +RLQ R DT+AR+ G Sbjct: 590 GMMRARRAHQLLALFFMDLDGFKGINDRYGHEAGDELLVEFARRLQASVRDVDTVARLAG 649 Query: 449 DEFVLLATDLGAPLENGARALAEKCIRVVADPLQIGHGEYKIGVSIGIAVCETYCD---- 504 DEFV++ +L + + A +AEK + + +P ++ H I SIG+AV + D Sbjct: 650 DEFVVILENLQS--QQDAIMVAEKILHAIREPFELTHSTVHISSSIGVAVYQPDLDGEIG 707 Query: 505 PDILLQAADKAMYDAKNKGRG 525 P+ LL ADKAMY AK G+ Sbjct: 708 PEELLSMADKAMYAAKRLGKN 728 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 0.324 0.139 0.404 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: 1,691,477 Number of extensions: 74873 Number of successful extensions: 365 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 289 Number of HSP's successfully gapped: 39 Length of query: 541 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 451 Effective length of database: 1,193,720 Effective search space: 538367720 Effective search space used: 538367720 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 133 (55.8 bits)