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= 0004.0022.p (706 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 1410 0.0 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 421 e-119 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 382 e-107 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 349 4e-97 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 335 5e-93 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 1410 bits (3651), Expect = 0.0, Method: Compositional matrix adjust. Identities = 705/706 (99%), Positives = 705/706 (99%) Query: 1 MSGSFHFLLLAFAVLVASLSAYAALEVSERMVMQESQHRRLWLSVGAVVLGLGVWATLFL 60 MSGSFHFLLLAFAVLVASLSAYAALEVSERMVMQESQHRRLWLSVGAVVLGLGVWATLFL Sbjct: 1 MSGSFHFLLLAFAVLVASLSAYAALEVSERMVMQESQHRRLWLSVGAVVLGLGVWATLFL 60 Query: 61 TVAALGLSMPVGFDIRLTVLALLLCLGSAFYLMHLSGLRRPHPSRLAIGGLSIGAAINAA 120 TVAALGLSMPVGFDIRLTVLALLLCLGSAFYLMHLSGLRRPHPSRLAIGGLSIGAAINAA Sbjct: 61 TVAALGLSMPVGFDIRLTVLALLLCLGSAFYLMHLSGLRRPHPSRLAIGGLSIGAAINAA 120 Query: 121 FHMALAAMQLLPALLYQQVLLGLALLLTELIGVFIVALFSASNGRKPKAGSLNSQQTRRV 180 FHMALAAMQLLPALLYQQVLLGLALLLTELIGVFIVALFSASNGRKPKAGSLNSQQTRRV Sbjct: 121 FHMALAAMQLLPALLYQQVLLGLALLLTELIGVFIVALFSASNGRKPKAGSLNSQQTRRV 180 Query: 181 LAALLVGLGLVAAATAGLRALVIAPHTQSLAVASLLREHLVNGIVFLAFLAMALALVISG 240 LAALLVGLGLVAAATAGLRALVIAPHTQSLAVASLLREHLVNGIVFLAFLAMALALVISG Sbjct: 181 LAALLVGLGLVAAATAGLRALVIAPHTQSLAVASLLREHLVNGIVFLAFLAMALALVISG 240 Query: 241 VQRNQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMD 300 VQRNQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMD Sbjct: 241 VQRNQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMD 300 Query: 301 LDGFKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQ 360 LDGFKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQ Sbjct: 301 LDGFKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQ 360 Query: 361 LSENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTY 420 LSENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTY Sbjct: 361 LSENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTY 420 Query: 421 RFFEPAMHASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLG 480 RFFEPAMHASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLG Sbjct: 421 RFFEPAMHASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLG 480 Query: 481 EMAPAEFIPIAERSGQILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVA 540 EMAP EFIPIAERSGQILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVA Sbjct: 481 EMAPTEFIPIAERSGQILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVA 540 Query: 541 RIVELVGAAGIAPQRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAY 600 RIVELVGAAGIAPQRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAY Sbjct: 541 RIVELVGAAGIAPQRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAY 600 Query: 601 LAQFHCRQIKIDRFFTSRLDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQL 660 LAQFHCRQIKIDRFFTSRLDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQL Sbjct: 601 LAQFHCRQIKIDRFFTSRLDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQL 660 Query: 661 LHCDQVQGFLLGRPAEAPSVPGLVQASNDDLFGAAAGASAVLKLER 706 LHCDQVQGFLLGRPAEAPSVPGLVQASNDDLFGAAAGASAVLKLER Sbjct: 661 LHCDQVQGFLLGRPAEAPSVPGLVQASNDDLFGAAAGASAVLKLER 706 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 421 bits (1083), Expect = e-119, Method: Compositional matrix adjust. Identities = 263/676 (38%), Positives = 391/676 (57%), Gaps = 34/676 (5%) Query: 17 ASLSAYAALEVSERMVMQESQH---RRLWLSVGAVVLGLGVWATLFLTVAALGLSMPVGF 73 A L++Y AL+++ER+ SQH R WL+ GAV +GLG+W+ F+ + A L + +G+ Sbjct: 18 AILASYTALDMAERINTTASQHGRAARWWLAGGAVAMGLGIWSMHFIGMLAFRLPIALGY 77 Query: 74 DIRLTVLALLLCLGSAFYLMHLSGLRRPH-PSRLAIGG-LSIGAAINAAFHMALAAMQLL 131 D +T L+L++ + + + + + + RP P+R +G L +G I + +AA+++ Sbjct: 78 DAGITALSLVIAIAVSGFALWI--VTRPELPTRRLLGSALFMGIGIACMHYTGMAALRMQ 135 Query: 132 PALLYQQVLLGLALLLTELIGVFIVALFSASNGRKPKAGSLNSQQTRRVLAALLVGLGLV 191 P + Y L ++ + + + + P + R A++++G+ + Sbjct: 136 PGIAYDLFLFLASVAIAIAASAAALWIAFSLRRNTPHV------RAARGGASVVMGIAIF 189 Query: 192 AAATAGLRALVIAPHTQSLAVASLLREHLVNG-----IVFLAFLAMALALVISGVQ---- 242 G+ A + + L+ RE + G I+ + A+ +AL+ S + Sbjct: 190 GMHYTGMGAASFSRDSICLSA----REGVAPGWLAVLIIVVTLAALTIALLTSVLDARLE 245 Query: 243 -RNQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDL 301 R L R + N++L HD LT LPNR LL DR+ A+ A R FA++FMDL Sbjct: 246 SRTAKLARSLAAANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDL 305 Query: 302 DGFKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQL 361 DGFKAINDSLGH VGD LLV VAQR+ R D VAR+GGDEFV++V +L++P+ + Sbjct: 306 DGFKAINDSLGHHVGDRLLVEVAQRLTSSSRANDTVARLGGDEFVILV-DLNTPEDAMGV 364 Query: 362 SENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYR 421 +E ++ A+ Q F++D LRV++S+GIA+YP G + L+ NADAAMY K+SGRN Y Sbjct: 365 AEKLVEAVNQPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGYH 424 Query: 422 FFEPAMHASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGE 481 FFEP+M+A+A + LQ Q L+ A++ QFRL +QPK+ + + G EALLRW HP G Sbjct: 425 FFEPSMNANAQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGL 484 Query: 482 MAPAEFIPIAERSGQILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVAR 541 +AP +FI +AERSG IL IG WVL C Q+ W A G +++NLS LQ + Sbjct: 485 VAPDQFIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLE 544 Query: 542 IVE-LVGAAGIAPQRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAY 600 +V + + P L E+TE+ AM D E S + + ++ LG +I+IDDFGTGYSSL Y Sbjct: 545 VVRTTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLY 604 Query: 601 LAQFHCRQIKIDRFFTSRL--DGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLREL 658 L + ++KIDR F L DG+D AIV+AI+AL L + +VAEGVET Q L Sbjct: 605 LKRLPANELKIDRGFVRELRQDGED---AAIVSAIVALGRTLNLRIVAEGVETVEQQDFL 661 Query: 659 QLLHCDQVQGFLLGRP 674 CD +QG+L+GRP Sbjct: 662 TAAGCDALQGYLMGRP 677 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 382 bits (982), Expect = e-107, Method: Compositional matrix adjust. Identities = 198/421 (47%), Positives = 274/421 (65%), Gaps = 2/421 (0%) Query: 257 KLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVG 316 ++ H ATHD LTGLPNR +L + +Q A+ VAR+ G AV F+DLD FK INDSLGH VG Sbjct: 261 EMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFKFINDSLGHQVG 320 Query: 317 DGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDV-VEQLSENILAALRQDFQI 375 D LL VAQR++ CLR DMVAR GGDEFV+V+ N + + + ++ + ILAA+ + +Q Sbjct: 321 DELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQA 380 Query: 376 DDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHL 435 D +VT+SIG++ YP G V++L+K+AD+AMY AK+ GRN ++FF P M + L Sbjct: 381 GDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRL 440 Query: 436 QVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPAEFIPIAERSG 495 ++ L++A+D+ +F+L++QPK L G EAL+RW PQ G + P FIP AE +G Sbjct: 441 EMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAG 500 Query: 496 QILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVARIVELVGAAGIAPQR 555 I+ IG+WVL+ C Q W AG+ P+ VA+NLSP Q+ L + ++ +G+A Sbjct: 501 LIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQSLPDFVAGVLAQSGLAASW 560 Query: 556 LMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAYLAQFHCRQIKIDRFF 615 L EITE MKD E+S + L+ LG I++DDFGTGYSSL+YL +F +KID+ F Sbjct: 561 LELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSF 620 Query: 616 TSRLDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRPA 675 + D S AIV AII+LAH L + V+AEGVE E Q L+ CD+VQG+ G+P Sbjct: 621 VRDIVRDADSA-AIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPM 679 Query: 676 E 676 E Sbjct: 680 E 680 >gi|300314042|ref|YP_003778134.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 948 Score = 349 bits (896), Expect = 4e-97, Method: Compositional matrix adjust. Identities = 184/419 (43%), Positives = 265/419 (63%), Gaps = 6/419 (1%) Query: 262 ATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVGDGLLV 321 A+ D LTGL NR +L ++ A+ VA R + V+F+DLD FK +ND+LGH GD LL Sbjct: 519 ASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLR 578 Query: 322 AVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDFQIDDATLR 381 VA R+R +R D VAR+GGDEF++++ + + + I+ A+ + TL Sbjct: 579 TVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQRIMDAVAAPVTLGGHTLF 638 Query: 382 VTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQVRQAL 441 +T S+G+A YPN G + L+K+AD AMY KQ+GRN ++F+ PAM+ A+ L++ L Sbjct: 639 MTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGDL 698 Query: 442 QQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPAEFIPIAERSGQILCIG 501 + A+D +F LH+QPK AS + G EAL+RW HPQLG ++PA FI +AE +G IL IG Sbjct: 699 RNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIG 758 Query: 502 DWVLQAVCEQIARWDAAGMKPVKVALNLSPLQ-MRTDLVARIVELVGAAGIAPQRLMFEI 560 WVL+A C Q +W G + V++NLS Q ++ DLV+ I +++ G+ P+ L E+ Sbjct: 759 AWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELEL 818 Query: 561 TETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAYLAQFHCRQIKIDRFFTS--R 618 TE+ M DVE + ++ L+ LG ++IDDFGTGYSSLAYL +F +KIDR F Sbjct: 819 TESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDIT 878 Query: 619 LDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRPAEA 677 +D DD AI A+II+LA L++ V+AEGVET+ QL L+ CD++QG+L P A Sbjct: 879 IDADDA---AITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPA 934 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 335 bits (860), Expect = 5e-93, Method: Compositional matrix adjust. Identities = 181/422 (42%), Positives = 259/422 (61%), Gaps = 6/422 (1%) Query: 257 KLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVG 316 KL H A +D L+GLPNR LL D +Q V A+++ AV+F+DLD FK +NDSLGH+VG Sbjct: 308 KLRHQANYDPLSGLPNRRLLGDMLQREVASAKKHAYPLAVVFIDLDRFKDVNDSLGHSVG 367 Query: 317 DGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDFQID 376 D LLV AQR+R +R D+VAR+ GDEFV V+ L + + ++ ++I+AAL + FQ+ Sbjct: 368 DQLLVVAAQRVRASVREHDLVARLAGDEFVAVLPRLEASAALTRIGDDIVAALAEPFQLG 427 Query: 377 DATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQ 436 + +R+++S+GIA+YP+ D+V L+ AD AM+ AK GRN FF M + + Sbjct: 428 EHRVRISASVGIAIYPHDADTVTTLIGCADQAMFAAKGGGRNGLAFFTEDMREKSFERRR 487 Query: 437 VRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPAEFIPIAERSGQ 496 + L A+ E QF LHFQP S + EAL+RW HP G ++P FIP+AE SG Sbjct: 488 LLNDLYDALQEGQFELHFQPALELQSGVIHKAEALVRWRHPAFGMISPDRFIPLAEESGL 547 Query: 497 ILCIGDWVLQAVCEQIARWDAAGMKPVK--VALNLSPLQ-MRTDLVARIVELVGAAGIAP 553 I +G W+LQ RW+A G P + +++NLSP+Q + A +++ + G P Sbjct: 548 IFDLGRWILQEAARVSVRWNAQGTSPFRKQISVNLSPVQFLNGHYDAIVMDQLSLQGCQP 607 Query: 554 QRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAYLAQFHCRQIKIDR 613 + EITE + D E + + L+A G +A+DDFGTGYS+++YL +F +KIDR Sbjct: 608 GLIAIEITEGLLLDDSEAVRSQLNNLRAAGIQVALDDFGTGYSAMSYLKKFSMDYLKIDR 667 Query: 614 FFTSRL-DGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLG 672 F + D D S +AIV AII +AH L M+V+AEGVET Q + L+ C+ VQG+L Sbjct: 668 SFVQDMVDAD--SNKAIVEAIIVMAHRLGMKVIAEGVETMVQAQLLRDAGCEYVQGYLYS 725 Query: 673 RP 674 RP Sbjct: 726 RP 727 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 0.325 0.137 0.391 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: 1,796,418 Number of extensions: 70175 Number of successful extensions: 492 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 395 Number of HSP's successfully gapped: 45 Length of query: 706 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 614 Effective length of database: 1,184,250 Effective search space: 727129500 Effective search space used: 727129500 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: 40 (21.6 bits) S2: 134 (56.2 bits)