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= 0015.0257.p (434 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 724 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 395 e-111 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 394 e-111 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 372 e-104 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 355 5e-99 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 724 bits (1868), Expect = 0.0, Method: Compositional matrix adjust. Identities = 361/434 (83%), Positives = 392/434 (90%), Gaps = 3/434 (0%) Query: 1 MVLHDHLTKLPNRTLLEDRLSQAINKAARSQGHFALMFMDLDGFKAINDSLGHHVGDRML 60 MVLHD LT+LPNRTLLEDRL+QAINKAAR QGHFALMFMDLDGFKAINDSLGHHVGDR+L Sbjct: 265 MVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLL 324 Query: 61 VEVAQRLTGAMRAHDTVARLGGDEFVILVELAQPEDAMPVAEKLVEVVNLPFRLAEQDLR 120 VEVAQRLT + RA+DTVARLGGDEFVILV+L PEDAM VAEKLVE VN PF++ + +LR Sbjct: 325 VEVAQRLTSSSRANDTVARLGGDEFVILVDLNTPEDAMGVAEKLVEAVNQPFKVDQHELR 384 Query: 121 VSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYNFFEPSMNANAHHQLQWLQDL 180 VSASVGIAIYPEDGATRHDLVINADAAMYHTKR+GRNGY+FFEPSMNANA QLQWLQDL Sbjct: 385 VSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGYHFFEPSMNANAQQQLQWLQDL 444 Query: 181 RVALERKQFRLVYQPKFSLLDGPVLGAEALLRWQHPQRGLVGPDEFIGLAERSGLIIPIG 240 RVALER QFRLVYQPKFSL GPVLGAEALLRW+HP GLV PD+FIGLAERSGLI+PIG Sbjct: 445 RVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGLAERSGLILPIG 504 Query: 241 AWVLDEACRQMHEWLTLGYADWKIAVNLSPVQFADPHLLDVVRAALEKHQLPPSCLTLEV 300 AWVLDEACRQM EW LGY DW ++VNLS +QFADPHLL+VVR LE+HQLPP CLTLEV Sbjct: 505 AWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERHQLPPPCLTLEV 564 Query: 301 TESTAMNNTEQSLQTLQQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRDLS 360 TESTAM++TE SLQTL+QIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVR+L Sbjct: 565 TESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELR 624 Query: 361 EGTEDAAIVSAIVALGRTLNLRIVAEGVETERQQEFLHQVGCDAMQGYLLGRPMAPDLFL 420 + EDAAIVSAIVALGRTLNLRIVAEGVET QQ+FL GCDA+QGYL+GRPM P+LFL Sbjct: 625 QDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRPMTPELFL 684 Query: 421 QTMRDHAAEHKTAA 434 QTMR+ HK+AA Sbjct: 685 QTMRE---RHKSAA 695 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 395 bits (1016), Expect = e-111, Method: Compositional matrix adjust. Identities = 202/427 (47%), Positives = 277/427 (64%), Gaps = 5/427 (1%) Query: 4 HDHLTKLPNRTLLEDRLSQAINKAARSQGHFALMFMDLDGFKAINDSLGHHVGDRMLVEV 63 HD LT LPNR +L + L +A+ A + A+ F+DLD FK INDSLGH VGD +L V Sbjct: 268 HDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFKFINDSLGHQVGDELLKTV 327 Query: 64 AQRLTGAMRAHDTVARLGGDEFVILVELAQPEDAMPVAE---KLVEVVNLPFRLAEQDLR 120 AQRL +R D VAR GGDEFV++++ Q E +AE +++ V P++ +++ + Sbjct: 328 AQRLQACLREADMVARQGGDEFVLVLQ-NQTEGEAGIAEVMQRILAAVARPWQAGDREFQ 386 Query: 121 VSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYNFFEPSMNANAHHQLQWLQDL 180 V+AS+G++ YP DG L+ +AD+AMY K GRN + FF P M++ ++L+ L +L Sbjct: 387 VTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINL 446 Query: 181 RVALERKQFRLVYQPKFSLLDGPVLGAEALLRWQHPQRGLVGPDEFIGLAERSGLIIPIG 240 R AL++ +F+L YQPK SL DG ++GAEAL+RW+ PQ+G+V PD FI AE +GLI+PIG Sbjct: 447 RRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAGLIVPIG 506 Query: 241 AWVLDEACRQMHEWLTLGYADWKIAVNLSPVQFADPHLLDVVRAALEKHQLPPSCLTLEV 300 WVL ACRQ W G +AVNLSP Q + L D V L + L S L LE+ Sbjct: 507 EWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQL-NQSLPDFVAGVLAQSGLAASWLELEI 565 Query: 301 TESTAMNNTEQSLQTLQQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRDLS 360 TE+ M + E+S+ TL + LG++IS+DDFGTGYSSL YL+R P + LKID+ FVRD+ Sbjct: 566 TENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIV 625 Query: 361 EGTEDAAIVSAIVALGRTLNLRIVAEGVETERQQEFLHQVGCDAMQGYLLGRPMAPDLFL 420 + AAIV AI++L LNLR++AEGVE E Q FL + CD +QGY G+PM +F Sbjct: 626 RDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVAVFT 685 Query: 421 QTMRDHA 427 M + A Sbjct: 686 AWMSEQA 692 >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 = 394 bits (1012), Expect = e-111, Method: Compositional matrix adjust. Identities = 205/424 (48%), Positives = 271/424 (63%), Gaps = 7/424 (1%) Query: 5 DHLTKLPNRTLLEDRLSQAINKAARSQGHFALMFMDLDGFKAINDSLGHHVGDRMLVEVA 64 D LT L NR +L L QAI A R + ++F+DLD FK +ND+LGH GD +L VA Sbjct: 522 DTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLRTVA 581 Query: 65 QRLTGAMRAHDTVARLGGDEFVILV----ELAQPEDAMPVAEKLVEVVNLPFRLAEQDLR 120 RL A+R DTVARLGGDEF++++ EL ++ +++++ V P L L Sbjct: 582 GRLRAAVREADTVARLGGDEFIMILPEQDELTLDTRSL---QRIMDAVAAPVTLGGHTLF 638 Query: 121 VSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYNFFEPSMNANAHHQLQWLQDL 180 ++ SVG+A YP DG L+ +AD AMY K+ GRN + F+ P+MN A +L+ DL Sbjct: 639 MTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGDL 698 Query: 181 RVALERKQFRLVYQPKFSLLDGPVLGAEALLRWQHPQRGLVGPDEFIGLAERSGLIIPIG 240 R AL+ +F L YQPK L G V+G+EAL+RWQHPQ G+V P FIGLAE +GLI+PIG Sbjct: 699 RNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIG 758 Query: 241 AWVLDEACRQMHEWLTLGYADWKIAVNLSPVQFADPHLLDVVRAALEKHQLPPSCLTLEV 300 AWVL AC Q +W GYAD ++VNLS QF L+ + LE LPP L LE+ Sbjct: 759 AWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELEL 818 Query: 301 TESTAMNNTEQSLQTLQQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRDLS 360 TES M + E ++ L + LGV +SIDDFGTGYSSL YLKR P + LKIDR FVRD++ Sbjct: 819 TESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDIT 878 Query: 361 EGTEDAAIVSAIVALGRTLNLRIVAEGVETERQQEFLHQVGCDAMQGYLLGRPMAPDLFL 420 +DAAI ++I++L R L LR++AEGVET+ Q ++L GCD +QGYL P+ D F Sbjct: 879 IDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKFE 938 Query: 421 QTMR 424 Q +R Sbjct: 939 QILR 942 >gi|300312026|ref|YP_003776118.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1106 Score = 372 bits (956), Expect = e-104, Method: Compositional matrix adjust. Identities = 191/425 (44%), Positives = 263/425 (61%), Gaps = 9/425 (2%) Query: 4 HDHLTKLPNRTLLEDRLSQAINKAARSQGHFALMFMDLDGFKAINDSLGHHVGDRMLVEV 63 +D LT LPNR L +S AI A G A++ MDLD FK IND+ GH G+ +L E+ Sbjct: 672 YDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFGHETGEAVLQEI 731 Query: 64 AQRLTGAMRAHDTVARLGGDEFVILVE-LAQPEDAMPVAEKLVEVVNLPFRLAEQDLRVS 122 AQR ++R D +AR+GGDEF++LV+ P +A+KL+ PF + Q+ +S Sbjct: 732 AQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEARKPFIIDGQEAMLS 791 Query: 123 ASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYNFFEPSMNANAHHQLQWLQDLRV 182 S+GIA YP DG L+ NAD AMY K G++ Y FF +N N ++ +LR Sbjct: 792 VSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNTVERIALEAELRR 851 Query: 183 ALERKQFRLVYQPKFSLLDGPVLGAEALLRWQHPQRGLVGPDEFIGLAERSGLIIPIGAW 242 A+ER +F + YQPK L +G ++GAEAL+RWQHP RGL+ P EFI LAE + LI IG Sbjct: 852 AIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLAEETRLIDQIGLL 911 Query: 243 VLDEACRQM----HEWLTLGYADWKIAVNLSPVQFADPHLLDVVRAALEKHQLPPSCLTL 298 VLD ACR + + +T G +I++NL+ QF D LLD ++ +++H PPSCL Sbjct: 912 VLDVACRDIGLMRQQQMTCG----RISINLTGSQFGDERLLDDIKEVVDRHGTPPSCLEF 967 Query: 299 EVTESTAMNNTEQSLQTLQQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRD 358 E+TES M+N E+++ + I G ISIDDFGTGYSSL YLKR P N LKID+ F+ D Sbjct: 968 EITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLKIDKSFIND 1027 Query: 359 LSEGTEDAAIVSAIVALGRTLNLRIVAEGVETERQQEFLHQVGCDAMQGYLLGRPMAPDL 418 + + +AIV AI+A+ LNL++V EGVETE+Q + L + G D QGY +P+ Sbjct: 1028 IPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYFSKPVPYAQ 1087 Query: 419 FLQTM 423 F+Q + Sbjct: 1088 FVQLL 1092 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 355 bits (910), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 198/416 (47%), Positives = 272/416 (65%), Gaps = 11/416 (2%) Query: 4 HDHLTKLPNRTLLEDRLSQAINKAARSQGHFALMFMDLDGFKAINDSLGHHVGDRMLVEV 63 HD LT LPNR LL DR+ A+ A R+ FA++FMDLDGFKAINDSLGH VGD +LV V Sbjct: 264 HDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVGDGLLVAV 323 Query: 64 AQRLTGAMRAHDTVARLGGDEFVILV-ELAQPEDAMPVAEKLVEVVNLPFRLAEQDLRVS 122 AQR+ +R D VAR+GGDEFV++V L+ P+ ++E ++ + F++ + LRV+ Sbjct: 324 AQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDFQIDDATLRVT 383 Query: 123 ASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYNFFEPSMNANAHHQLQWLQDLRV 182 +S+GIA+YP G + L+ NADAAMY K++GRN Y FFEP+M+A+A LQ Q L+ Sbjct: 384 SSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQVRQALQQ 443 Query: 183 ALERKQFRLVYQPKFSLLDGPVLGAEALLRWQHPQRGLVGPDEFIGLAERSGLIIPIGAW 242 A++ +QFRL +QPK+ + G EALLRW HPQ G + P EFI +AERSG I+ IG W Sbjct: 444 AIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPTEFIPIAERSGQILCIGDW 503 Query: 243 VLDEACRQMHEWLTLGYADWKIAVNLSPVQFAD---PHLLDVVRAALEKHQLPPSCLTLE 299 VL C Q+ W G K+A+NLSP+Q ++++V AA + P L E Sbjct: 504 VLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTDLVARIVELVGAA----GIAPQRLMFE 559 Query: 300 VTESTAMNNTEQSLQTLQQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRDL 359 +TE+ AM + E+S + + ++ LG +I+IDDFGTGYSSL YL + ++KIDR F L Sbjct: 560 ITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAYLAQFHCRQIKIDRFFTSRL 619 Query: 360 SEGTEDAA--IVSAIVALGRTLNLRIVAEGVETERQQEFLHQVGCDAMQGYLLGRP 413 +G + + IV+AI+AL L + +VAEGVETE Q L + CD +QG+LLGRP Sbjct: 620 -DGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRP 674 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 0.136 0.401 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: 1,388,810 Number of extensions: 60280 Number of successful extensions: 312 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 240 Number of HSP's successfully gapped: 45 Length of query: 434 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 346 Effective length of database: 1,203,190 Effective search space: 416303740 Effective search space used: 416303740 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: 132 (55.5 bits)