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= 0001.0718.p (700 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... 1072 0.0 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 417 e-117 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 380 e-106 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 353 3e-98 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 337 1e-93 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 1072 bits (2772), Expect = 0.0, Method: Compositional matrix adjust. Identities = 579/694 (83%), Positives = 627/694 (90%) Query: 1 MSASFHFLLLAFALLVASLSAYAALEVSERIVLQDSQHRRLWLAIGAAVFGVGVWGAMLL 60 MS SFHFLLLAFA+LVASLSAYAALEVSER+V+Q+SQHRRLWL++GA V G+GVW + L Sbjct: 1 MSGSFHFLLLAFAVLVASLSAYAALEVSERMVMQESQHRRLWLSVGAVVLGLGVWATLFL 60 Query: 61 TVAALDLTTALAFDARLVMLALLLCLGSAFYLMHLTGIRRPLPLHLLIGGLSIGAAFNAA 120 TVAAL L+ + FD RL +LALLLCLGSAFYLMHL+G+RRP P L IGGLSIGAA NAA Sbjct: 61 TVAALGLSMPVGFDIRLTVLALLLCLGSAFYLMHLSGLRRPHPSRLAIGGLSIGAAINAA 120 Query: 121 FHIVLKSMLLDPPLVYQVPLLLVALVVTEMVAVFIVTLFSASNGRKPMTGSLNSQQARRV 180 FH+ L +M L P L+YQ LL +AL++TE++ VFIV LFSASNGRKP GSLNSQQ RRV Sbjct: 121 FHMALAAMQLLPALLYQQVLLGLALLLTELIGVFIVALFSASNGRKPKAGSLNSQQTRRV 180 Query: 181 LAALLVGAGLVSSAVAGLRALLIDPQAHSGMSGGITREHLVNGLVFLAFLAMALALVVSG 240 LAALLVG GLV++A AGLRAL+I P S + REHLVNG+VFLAFLAMALALV+SG Sbjct: 181 LAALLVGLGLVAAATAGLRALVIAPHTQSLAVASLLREHLVNGIVFLAFLAMALALVISG 240 Query: 241 AQRNQVLKKIVGRTNDKLLHFATHDVLTGLPNRVLLTDRIQHAIEVARRNGKPFAVLFMD 300 QRNQVLK+IVGRTNDKLLHFATHDVLTGLPNR LL DRIQHA+EVARRNGK FAVLFMD Sbjct: 241 VQRNQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMD 300 Query: 301 LDGFKAINDSLGHAVGDGLLVAVAQRIRACVRGEDMVARIGGDEFVVVMGNLSTPVVVEQ 360 LDGFKAINDSLGHAVGDGLLVAVAQRIR C+RGEDMVARIGGDEFVVV+GNLS+P VVEQ Sbjct: 301 LDGFKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQ 360 Query: 361 LSENILMALRQDFQVDDATLCVTSSIGIAVYPNSGETVDMLMKNADAAMYEAKQSGRNTY 420 LSENIL ALRQDFQ+DDATL VTSSIGIAVYPNSG++VD LMKNADAAMYEAKQSGRNTY Sbjct: 361 LSENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTY 420 Query: 421 RFFEPAMHASAMRHLQVRQALQQAIAEQQFRLHFQPKYHGASKELTGVEALLRWRHPDLG 480 RFFEPAMHASAMRHLQVRQALQQAI EQQFRLHFQPKY GASKELTG+EALLRW HP LG Sbjct: 421 RFFEPAMHASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLG 480 Query: 481 EMTPSEFIPIAERSGQILPIGDWVLHAVCTQIARWDAAGMKPVKVALNLSPLQMRTDLVE 540 EM P+EFIPIAERSGQIL IGDWVL AVC QIARWDAAGMKPVKVALNLSPLQMRTDLV Sbjct: 481 EMAPTEFIPIAERSGQILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVA 540 Query: 541 SILKVVGATGIAPQRLMFEITETAAMKDVERTTQVVRELQSLGFDIAIDDFGTGYSSLAY 600 I+++VGA GIAPQRLMFEITETAAMKDVER+ +V+ ELQ+LGFDIAIDDFGTGYSSLAY Sbjct: 541 RIVELVGAAGIAPQRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAY 600 Query: 601 LAQFHCRQVKIDRFFTSRLDQEDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQL 660 LAQFHCRQ+KIDRFFTSRLD +DHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQL Sbjct: 601 LAQFHCRQIKIDRFFTSRLDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQL 660 Query: 661 LHCDQVQGFLLGRPAEAPTVPGLIDASNDDLFAA 694 LHCDQVQGFLLGRPAEAP+VPGL+ ASNDDLF A Sbjct: 661 LHCDQVQGFLLGRPAEAPSVPGLVQASNDDLFGA 694 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 417 bits (1071), Expect = e-117, Method: Compositional matrix adjust. Identities = 271/672 (40%), Positives = 383/672 (56%), Gaps = 26/672 (3%) Query: 17 ASLSAYAALEVSERIVLQDSQH---RRLWLAIGAAVFGVGVWGAMLLTVAALDLTTALAF 73 A L++Y AL+++ERI SQH R WLA GA G+G+W + + A L AL + Sbjct: 18 AILASYTALDMAERINTTASQHGRAARWWLAGGAVAMGLGIWSMHFIGMLAFRLPIALGY 77 Query: 74 DARLVMLALLLCLG-SAFYLMHLTGIRRPLPLHLLIG-GLSIGAAFNAAFHIVLKSMLLD 131 DA + L+L++ + S F L +T R LP L+G L +G + + ++ + Sbjct: 78 DAGITALSLVIAIAVSGFALWIVT--RPELPTRRLLGSALFMGIGIACMHYTGMAALRMQ 135 Query: 132 PPLVYQVPLLLVALVVTEMVAVFIVTLFSASNGRKPMTGSLNSQQARRVLAALLVGAGLV 191 P + Y + L L ++ + + + + + P +A R A++++G + Sbjct: 136 PGIAYDLFLFLASVAIAIAASAAALWIAFSLRRNTPHV------RAARGGASVVMGIAIF 189 Query: 192 SSAVAGLRALL-----IDPQAHSGMSGGITREHLVNGLVFLAFLAMALALVVSGAQ---R 243 G+ A I A G++ G ++ +V LA L +AL V A+ R Sbjct: 190 GMHYTGMGAASFSRDSICLSAREGVAPGWLAVLII--VVTLAALTIALLTSVLDARLESR 247 Query: 244 NQVLKKIVGRTNDKLLHFATHDVLTGLPNRVLLTDRIQHAIEVARRNGKPFAVLFMDLDG 303 L + + N++L HD LT LPNR LL DR+ AI A R FA++FMDLDG Sbjct: 248 TAKLARSLAAANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDG 307 Query: 304 FKAINDSLGHAVGDGLLVAVAQRIRACVRGEDMVARIGGDEFVVVMGNLSTPVVVEQLSE 363 FKAINDSLGH VGD LLV VAQR+ + R D VAR+GGDEFV+++ +L+TP ++E Sbjct: 308 FKAINDSLGHHVGDRLLVEVAQRLTSSSRANDTVARLGGDEFVILV-DLNTPEDAMGVAE 366 Query: 364 NILMALRQDFQVDDATLCVTSSIGIAVYPNSGETVDMLMKNADAAMYEAKQSGRNTYRFF 423 ++ A+ Q F+VD L V++S+GIA+YP G T L+ NADAAMY K+SGRN Y FF Sbjct: 367 KLVEAVNQPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGYHFF 426 Query: 424 EPAMHASAMRHLQVRQALQQAIAEQQFRLHFQPKYHGASKELTGVEALLRWRHPDLGEMT 483 EP+M+A+A + LQ Q L+ A+ QFRL +QPK+ + + G EALLRW HP G + Sbjct: 427 EPSMNANAQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVA 486 Query: 484 PSEFIPIAERSGQILPIGDWVLHAVCTQIARWDAAGMKPVKVALNLSPLQM-RTDLVESI 542 P +FI +AERSG ILPIG WVL C Q+ W A G +++NLS LQ L+E + Sbjct: 487 PDQFIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVV 546 Query: 543 LKVVGATGIAPQRLMFEITETAAMKDVERTTQVVRELQSLGFDIAIDDFGTGYSSLAYLA 602 + + P L E+TE+ AM D E + Q +R++ LG +I+IDDFGTGYSSL YL Sbjct: 547 RTTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLK 606 Query: 603 QFHCRQVKIDRFFTSRLDQEDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLH 662 + ++KIDR F L Q D AIV+AI+AL L + +VAEGVET Q L Sbjct: 607 RLPANELKIDRGFVRELRQ-DGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAG 665 Query: 663 CDQVQGFLLGRP 674 CD +QG+L+GRP Sbjct: 666 CDALQGYLMGRP 677 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 380 bits (977), Expect = e-106, Method: Compositional matrix adjust. Identities = 195/421 (46%), Positives = 272/421 (64%), Gaps = 2/421 (0%) Query: 257 KLLHFATHDVLTGLPNRVLLTDRIQHAIEVARRNGKPFAVLFMDLDGFKAINDSLGHAVG 316 ++ H ATHD LTGLPNR +L + +Q A+ VAR+ G AV F+DLD FK INDSLGH VG Sbjct: 261 EMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFKFINDSLGHQVG 320 Query: 317 DGLLVAVAQRIRACVRGEDMVARIGGDEFVVVMGNLST-PVVVEQLSENILMALRQDFQV 375 D LL VAQR++AC+R DMVAR GGDEFV+V+ N + + ++ + IL A+ + +Q Sbjct: 321 DELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQA 380 Query: 376 DDATLCVTSSIGIAVYPNSGETVDMLMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHL 435 D VT+SIG++ YP G+ V+ L+K+AD+AMY AK+ GRN ++FF P M + L Sbjct: 381 GDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRL 440 Query: 436 QVRQALQQAIAEQQFRLHFQPKYHGASKELTGVEALLRWRHPDLGEMTPSEFIPIAERSG 495 ++ L++A+ + +F+L++QPK L G EAL+RW P G + P FIP AE +G Sbjct: 441 EMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAG 500 Query: 496 QILPIGDWVLHAVCTQIARWDAAGMKPVKVALNLSPLQMRTDLVESILKVVGATGIAPQR 555 I+PIG+WVL C Q W AG+ P+ VA+NLSP Q+ L + + V+ +G+A Sbjct: 501 LIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQSLPDFVAGVLAQSGLAASW 560 Query: 556 LMFEITETAAMKDVERTTQVVRELQSLGFDIAIDDFGTGYSSLAYLAQFHCRQVKIDRFF 615 L EITE MKD E++ + L+ LG I++DDFGTGYSSL+YL +F +KID+ F Sbjct: 561 LELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSF 620 Query: 616 TSRLDQEDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRPA 675 + ++ 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 = 353 bits (906), Expect = 3e-98, Method: Compositional matrix adjust. Identities = 187/417 (44%), Positives = 263/417 (63%), Gaps = 2/417 (0%) Query: 262 ATHDVLTGLPNRVLLTDRIQHAIEVARRNGKPFAVLFMDLDGFKAINDSLGHAVGDGLLV 321 A+ D LTGL NR +L ++ AI VA R + V+F+DLD FK +ND+LGH GD LL Sbjct: 519 ASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLR 578 Query: 322 AVAQRIRACVRGEDMVARIGGDEFVVVMGNLSTPVVVEQLSENILMALRQDFQVDDATLC 381 VA R+RA VR D VAR+GGDEF++++ + + + I+ A+ + TL Sbjct: 579 TVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQRIMDAVAAPVTLGGHTLF 638 Query: 382 VTSSIGIAVYPNSGETVDMLMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQVRQAL 441 +T S+G+A YPN G + L+K+AD AMY KQ+GRN ++F+ PAM+ A+ L++ L Sbjct: 639 MTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGDL 698 Query: 442 QQAIAEQQFRLHFQPKYHGASKELTGVEALLRWRHPDLGEMTPSEFIPIAERSGQILPIG 501 + A+ +F LH+QPK AS + G EAL+RW+HP LG ++P+ FI +AE +G ILPIG Sbjct: 699 RNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIG 758 Query: 502 DWVLHAVCTQIARWDAAGMKPVKVALNLSPLQ-MRTDLVESILKVVGATGIAPQRLMFEI 560 WVL A CTQ +W G + V++NLS Q ++ DLV SI V+ TG+ P+ L E+ Sbjct: 759 AWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELEL 818 Query: 561 TETAAMKDVERTTQVVRELQSLGFDIAIDDFGTGYSSLAYLAQFHCRQVKIDRFFTSRLD 620 TE+ M DVE ++ L+ LG ++IDDFGTGYSSLAYL +F +KIDR F + Sbjct: 819 TESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDI- 877 Query: 621 QEDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRPAEA 677 D AI A+II+LA L++ V+AEGVET+ QL L+ CD++QG+L P A Sbjct: 878 TIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPA 934 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 337 bits (865), Expect = 1e-93, Method: Compositional matrix adjust. Identities = 179/421 (42%), Positives = 255/421 (60%), Gaps = 4/421 (0%) Query: 257 KLLHFATHDVLTGLPNRVLLTDRIQHAIEVARRNGKPFAVLFMDLDGFKAINDSLGHAVG 316 KL H A +D L+GLPNR LL D +Q + A+++ P AV+F+DLD FK +NDSLGH+VG Sbjct: 308 KLRHQANYDPLSGLPNRRLLGDMLQREVASAKKHAYPLAVVFIDLDRFKDVNDSLGHSVG 367 Query: 317 DGLLVAVAQRIRACVRGEDMVARIGGDEFVVVMGNLSTPVVVEQLSENILMALRQDFQVD 376 D LLV AQR+RA VR D+VAR+ GDEFV V+ L + ++ ++I+ AL + FQ+ Sbjct: 368 DQLLVVAAQRVRASVREHDLVARLAGDEFVAVLPRLEASAALTRIGDDIVAALAEPFQLG 427 Query: 377 DATLCVTSSIGIAVYPNSGETVDMLMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQ 436 + + +++S+GIA+YP+ +TV L+ AD AM+ AK GRN FF M + + Sbjct: 428 EHRVRISASVGIAIYPHDADTVTTLIGCADQAMFAAKGGGRNGLAFFTEDMREKSFERRR 487 Query: 437 VRQALQQAIAEQQFRLHFQPKYHGASKELTGVEALLRWRHPDLGEMTPSEFIPIAERSGQ 496 + L A+ E QF LHFQP S + EAL+RWRHP G ++P FIP+AE SG Sbjct: 488 LLNDLYDALQEGQFELHFQPALELQSGVIHKAEALVRWRHPAFGMISPDRFIPLAEESGL 547 Query: 497 ILPIGDWVLHAVCTQIARWDAAGMKPVK--VALNLSPLQMRTDLVESI-LKVVGATGIAP 553 I +G W+L RW+A G P + +++NLSP+Q ++I + + G P Sbjct: 548 IFDLGRWILQEAARVSVRWNAQGTSPFRKQISVNLSPVQFLNGHYDAIVMDQLSLQGCQP 607 Query: 554 QRLMFEITETAAMKDVERTTQVVRELQSLGFDIAIDDFGTGYSSLAYLAQFHCRQVKIDR 613 + EITE + D E + L++ G +A+DDFGTGYS+++YL +F +KIDR Sbjct: 608 GLIAIEITEGLLLDDSEAVRSQLNNLRAAGIQVALDDFGTGYSAMSYLKKFSMDYLKIDR 667 Query: 614 FFTSRLDQEDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGR 673 F + D S +AIV AII +AH L M+V+AEGVET Q + L+ C+ VQG+L R Sbjct: 668 SFVQDMVDAD-SNKAIVEAIIVMAHRLGMKVIAEGVETMVQAQLLRDAGCEYVQGYLYSR 726 Query: 674 P 674 P Sbjct: 727 P 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 0.395 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: 1,715,099 Number of extensions: 64606 Number of successful extensions: 470 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 380 Number of HSP's successfully gapped: 45 Length of query: 700 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 608 Effective length of database: 1,184,250 Effective search space: 720024000 Effective search space used: 720024000 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)