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= 0003.0170.p (567 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309360|ref|YP_003773452.1| hypothetical protein Hsero_0014... 771 0.0 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 355 4e-99 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 276 3e-75 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 270 2e-73 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 268 9e-73 >gi|300309360|ref|YP_003773452.1| hypothetical protein Hsero_0014 [Herbaspirillum seropedicae SmR1] Length = 726 Score = 771 bits (1992), Expect = 0.0, Method: Compositional matrix adjust. Identities = 386/568 (67%), Positives = 464/568 (81%), Gaps = 3/568 (0%) Query: 1 MEAMQTSLKTLFDEQAAILGNIPAGVLFVRDGRIAFANDAAQSMLALNGAGLTTLASAQI 60 MEAMQ SLKTLFDEQAAILGNIPAGVLFVR G+I F N+AAQ++LA + L +A+ + Sbjct: 159 MEAMQASLKTLFDEQAAILGNIPAGVLFVRKGKIVFGNEAAQALLARDDRRLVGVAAEDL 218 Query: 61 FEDAQQQSLYINHTLLRPHGATGEIVLLKRADGRSFPAELHTSLIDGTGQNDQIWVIIDV 120 F ++ QQ++Y+ + R GA GEIVLL+ A G SFPAELHTSLID +QIWV+IDV Sbjct: 219 FVESVQQAVYVARAVARSSGAAGEIVLLRNASGASFPAELHTSLIDPARPGEQIWVVIDV 278 Query: 121 SERLEAESRIDRLAFYDPVTDLPNKKLFLDRLRRGLGRQQAHGLPLVVFYMEMHRADLSH 180 S RLEAE+RID+LAFYDPVT LPNKKLF+DRLRRGL R++ G VF ME+HRADLS+ Sbjct: 279 SARLEAENRIDQLAFYDPVTQLPNKKLFMDRLRRGLDRRRTSGHAGAVFVMEIHRADLSY 338 Query: 181 GLVKADDADRLFKECARRLGACVAADQTLARLDGERFALGCDLPVSELAEGIRFCETLAH 240 G VKAD+ ++L ECARR +C+ A+QT+AR++GE+FALG ++ +ELAE IR+CE LA Sbjct: 339 GSVKADEMEQLLIECARRFSSCITAEQTVARMEGEKFALGTEIRSNELAECIRYCEALAQ 398 Query: 241 RLIAALAEPQG-STVSFPYSLNIGINILRGDVQSAEEAVMQAKLAMVQSLAAGRNVFRFF 299 R++ A +PQ S FP S+N+GINI+R + A E VMQA+LAMVQS AAGRNVFRFF Sbjct: 399 RILDAFTDPQSLSAARFPCSVNLGINIVRDEQYGASELVMQAELAMVQSRAAGRNVFRFF 458 Query: 300 DPAMQALASQRSALEVELRTAVAQHQFVVHYQPQVTFEGKVVGAEALVRWKHPMKGMVPP 359 DPAMQALA+QRS LE ELR AVA+ QF+V+YQPQVT+EG VVGAEALVRW+HP++G+V P Sbjct: 459 DPAMQALANQRSQLEAELRQAVARRQFIVYYQPQVTYEGDVVGAEALVRWQHPIRGIVSP 518 Query: 360 ALFIPVAEELGLMEEIGHQVLEAICRDLESWQREGLARELVVAVNVSAQEFKVDHFVARF 419 FI +AE++GLM+EIG QVL IC DLE+WQREGLAR+LVVA+NVSAQEFKVD+FV RF Sbjct: 519 TTFISLAEDMGLMDEIGRQVLHRICTDLENWQREGLARDLVVAINVSAQEFKVDNFVYRF 578 Query: 420 HETIRQHRISSKAVKVELTESMMIDKIDEVIEKMNDLKSHEVSISLDDFGTGYSSLSYLG 479 E +R+H + S +VKVELTESMM+D I++VI KM L+S+EVSISLDDFGTGYSSLSYLG Sbjct: 579 REIMREHHVPSHSVKVELTESMMVDHIEDVITKMQALRSNEVSISLDDFGTGYSSLSYLG 638 Query: 480 RFPIDQLKIDQSFVRRMQDDAATASIIRSIIMLGQSLGLSIIAEGVETMEQRDLLHAQGC 539 RFPIDQ+KIDQ+FVR MQ+DAA ASIIRSIIMLGQSL LSIIAEGVET +QRD LHAQGC Sbjct: 639 RFPIDQIKIDQTFVREMQNDAAMASIIRSIIMLGQSLNLSIIAEGVETEQQRDFLHAQGC 698 Query: 540 TLYQGYWYGRPMPGEQFTALLE--GRQR 565 LYQGYWY +P+PGEQF LL GR R Sbjct: 699 LLYQGYWYSKPIPGEQFADLLNTPGRFR 726 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 355 bits (912), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 196/474 (41%), Positives = 282/474 (59%), Gaps = 9/474 (1%) Query: 89 KRADGRSFPAELHTSLIDGTGQNDQIWVII--DVSERLEAESRIDRLAFYDPVTDLPNKK 146 +R +G +P L S + Q +V D+S+R AE RI LAF+D +T LPN+ Sbjct: 552 RRKNGEVYPEWLTISAVKNKDQQVTHYVSTHHDISDRKLAEERIRELAFFDALTRLPNRT 611 Query: 147 LFLDRLRRGLGRQQAHGLPLVVFYMEMHRADLSHGLVKADDADRLFKECARRLGACVAAD 206 L LDRL++ + + ++++ + + + D L K+ A+RL A V + Sbjct: 612 LLLDRLKQAIALSLRTKTCAALLFIDLDHFKTLNDTIGHEKGDTLLKQVAQRLLANVREN 671 Query: 207 QTLARLDGERFAL---GCDLPVSELAEGIRFCETLAHRLIAALAEP-QGSTVSFPYSLNI 262 T+AR+ G+ F + G + E A R + +++ AL Q V + + +I Sbjct: 672 DTVARVGGDEFVVVLEGLNELQQEAATQTR---AIGEKILTALGSTYQLDDVEYRTTASI 728 Query: 263 GINILRGDVQSAEEAVMQAKLAMVQSLAAGRNVFRFFDPAMQALASQRSALEVELRTAVA 322 G + G S +E + QA LAM ++ GRN RFFDPAMQ +R+ LE LR A+ Sbjct: 729 GATVFLGRAASVDELMKQADLAMYKAKETGRNALRFFDPAMQTAVLERATLEAGLRKAID 788 Query: 323 QHQFVVHYQPQVTFEGKVVGAEALVRWKHPMKGMVPPALFIPVAEELGLMEEIGHQVLEA 382 +Q ++HYQPQV G+V GAE LVRW+HP +GMVPP FIP+AEE GL+ +G+ VLE Sbjct: 789 GNQLLLHYQPQVVEGGRVTGAEVLVRWQHPQRGMVPPGDFIPLAEETGLILSLGNWVLET 848 Query: 383 ICRDLESWQREGLARELVVAVNVSAQEFKVDHFVARFHETIRQHRISSKAVKVELTESMM 442 CR L +W + +L +AVNVSA + + FV +TI + + + +K+ELTES++ Sbjct: 849 ACRQLATWAAQPQMADLSIAVNVSAPQLREPDFVQTVLDTIERTGANPRRLKLELTESLL 908 Query: 443 IDKIDEVIEKMNDLKSHEVSISLDDFGTGYSSLSYLGRFPIDQLKIDQSFVRRMQDDAAT 502 +D ++++I+KM LK++ V SLDDFGTGYSSLSYL R P++QLKIDQSFVR + D Sbjct: 909 VDNVEDIIQKMFALKAYGVEFSLDDFGTGYSSLSYLKRLPLNQLKIDQSFVRDVLIDPND 968 Query: 503 ASIIRSIIMLGQSLGLSIIAEGVETMEQRDLLHAQGCTLYQGYWYGRPMPGEQF 556 ASI ++I+ L QSLGL +IAEGVET QR L GC YQGY++ RP+ E F Sbjct: 969 ASIAKTIVNLAQSLGLGVIAEGVETDAQRSFLADAGCHAYQGYFFCRPVTVEAF 1022 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 276 bits (706), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 163/451 (36%), Positives = 259/451 (57%), Gaps = 12/451 (2%) Query: 120 VSERLEAESRIDRLAFYDPVTDLPNKKLFLDRLRRGLGRQQAHGLPLVVFYMEMHRADLS 179 ++ER E+ + A +D +T LPN+ + + L+R L + G V ++++ + Sbjct: 252 ITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFKFI 311 Query: 180 HGLVKADDADRLFKECARRLGACVAADQTLARLDGERFALGCDLPVSELAEGIRFCETLA 239 + + D L K A+RL AC+ +AR G+ F L + EG + Sbjct: 312 NDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVL----VLQNQTEGEAGIAEVM 367 Query: 240 HRLIAALAEP-QGSTVSFPYSLNIGINILRGDVQSAEEAVMQAKLAMVQSLAAGRNVFRF 298 R++AA+A P Q F + +IG++ D + E + A AM ++ GRN F+F Sbjct: 368 QRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQF 427 Query: 299 FDPAMQALASQRSALEVELRTAVAQHQFVVHYQPQVTFE-GKVVGAEALVRWKHPMKGMV 357 F P M + S R + + LR A+ Q +F ++YQP+++ + G+++GAEAL+RW+ P +GMV Sbjct: 428 FAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMV 487 Query: 358 PPALFIPVAEELGLMEEIGHQVLEAICRDLESWQREGLARELVVAVNVSAQEFK--VDHF 415 PP FIP AEE GL+ IG VL CR ++WQ+ GL + VAVN+S ++ + F Sbjct: 488 PPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLP-PIPVAVNLSPRQLNQSLPDF 546 Query: 416 VARFHETIRQHRISSKAVKVELTESMMIDKIDEVIEKMNDLKSHEVSISLDDFGTGYSSL 475 VA + Q +++ +++E+TE++++ ++ + ++ LK + IS+DDFGTGYSSL Sbjct: 547 VA---GVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSL 603 Query: 476 SYLGRFPIDQLKIDQSFVRRMQDDAATASIIRSIIMLGQSLGLSIIAEGVETMEQRDLLH 535 SYL RFP+D LKID+SFVR + DA +A+I+++II L L L +IAEGVE EQ L Sbjct: 604 SYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLK 663 Query: 536 AQGCTLYQGYWYGRPMPGEQFTALLEGRQRA 566 C QGY++G+PM FTA + + +A Sbjct: 664 ENACDEVQGYYFGKPMEVAVFTAWMSEQAQA 694 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 270 bits (691), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 160/447 (35%), Positives = 251/447 (56%), Gaps = 15/447 (3%) Query: 126 AESRIDRLAFYDPVTDLPNKKLFLDRLRRGL---GRQQAHGLPLVVFYMEMHRADLSHGL 182 A + ++ +D +T LPN+ L DRL + + R+Q H + +M++ + Sbjct: 258 ANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGH---FALMFMDLDGFKAINDS 314 Query: 183 VKADDADRLFKECARRLGACVAADQTLARLDGERFALGCDLPVSELAEGIRFCETLAHRL 242 + DRL E A+RL + A+ T+ARL G+ F + DL E A G+ A +L Sbjct: 315 LGHHVGDRLLVEVAQRLTSSSRANDTVARLGGDEFVILVDLNTPEDAMGV------AEKL 368 Query: 243 IAALAEP-QGSTVSFPYSLNIGINILRGDVQSAEEAVMQAKLAMVQSLAAGRNVFRFFDP 301 + A+ +P + S ++GI I D + + V+ A AM + +GRN + FF+P Sbjct: 369 VEAVNQPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGYHFFEP 428 Query: 302 AMQALASQRSALEVELRTAVAQHQFVVHYQPQVTFE-GKVVGAEALVRWKHPMKGMVPPA 360 +M A A Q+ +LR A+ + QF + YQP+ + G V+GAEAL+RW+HP+ G+V P Sbjct: 429 SMNANAQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPD 488 Query: 361 LFIPVAEELGLMEEIGHQVLEAICRDLESWQREGLARELVVAVNVSAQEFKVDHFVARFH 420 FI +AE GL+ IG VL+ CR + W G + ++VN+SA +F H + Sbjct: 489 QFIGLAERSGLILPIGAWVLDEACRQMREWFALGYV-DWTMSVNLSALQFADPHLLEVVR 547 Query: 421 ETIRQHRISSKAVKVELTESMMIDKIDEVIEKMNDLKSHEVSISLDDFGTGYSSLSYLGR 480 T+ +H++ + +E+TES + + ++ + + V IS+DDFGTGYSSL YL R Sbjct: 548 TTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKR 607 Query: 481 FPIDQLKIDQSFVRRMQDDAATASIIRSIIMLGQSLGLSIIAEGVETMEQRDLLHAQGCT 540 P ++LKID+ FVR ++ D A+I+ +I+ LG++L L I+AEGVET+EQ+D L A GC Sbjct: 608 LPANELKIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCD 667 Query: 541 LYQGYWYGRPMPGEQFTALLEGRQRAS 567 QGY GRPM E F + R +++ Sbjct: 668 ALQGYLMGRPMTPELFLQTMRERHKSA 694 >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 = 268 bits (685), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 166/448 (37%), Positives = 248/448 (55%), Gaps = 12/448 (2%) Query: 117 IIDVSERLEAESRIDRLAFYDPVTDLPNKKLFLDRLRRGLGRQQAHGLPLVVFYMEMHRA 176 + D++ E+ ++ A D +T L N+ + L + +G + L V ++++ R Sbjct: 502 LYDITSMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRF 561 Query: 177 DLSHGLVKADDADRLFKECARRLGACVAADQTLARLDGERFALGCDLP-VSELAEGIRFC 235 + + D L + A RL A V T+ARL G+ F + LP EL R Sbjct: 562 KFVNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIM--ILPEQDELTLDTRSL 619 Query: 236 ETLAHRLIAALAEPQ--GSTVSFPYSLNIGINILRGDVQSAEEAVMQAKLAMVQSLAAGR 293 + R++ A+A P G F + ++G+ D E + A +AM + GR Sbjct: 620 Q----RIMDAVAAPVTLGGHTLF-MTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGR 674 Query: 294 NVFRFFDPAMQALASQRSALEVELRTAVAQHQFVVHYQPQVTF-EGKVVGAEALVRWKHP 352 N F+F+ PAM A +R +E +LR A+ +F++HYQP+V G+V+G+EAL+RW+HP Sbjct: 675 NNFQFYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHP 734 Query: 353 MKGMVPPALFIPVAEELGLMEEIGHQVLEAICRDLESWQREGLARELVVAVNVSAQEFKV 412 GMV PA FI +AEE GL+ IG VL A C WQ G A ++ V+VN+S +F Sbjct: 735 QLGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYA-DISVSVNLSVGQFLQ 793 Query: 413 DHFVARFHETIRQHRISSKAVKVELTESMMIDKIDEVIEKMNDLKSHEVSISLDDFGTGY 472 V+ + + + +++++ELTES+M+ ++ I + LK V +S+DDFGTGY Sbjct: 794 KDLVSSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGY 853 Query: 473 SSLSYLGRFPIDQLKIDQSFVRRMQDDAATASIIRSIIMLGQSLGLSIIAEGVETMEQRD 532 SSL+YL RFPID LKID+SFVR + DA A+I SII L + L L +IAEGVET EQ D Sbjct: 854 SSLAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLD 913 Query: 533 LLHAQGCTLYQGYWYGRPMPGEQFTALL 560 L GC QGY + P+P ++F +L Sbjct: 914 YLRHYGCDEIQGYLFSPPVPADKFEQIL 941 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 0.322 0.136 0.389 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: 1,625,095 Number of extensions: 63783 Number of successful extensions: 271 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 232 Number of HSP's successfully gapped: 19 Length of query: 567 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 477 Effective length of database: 1,193,720 Effective search space: 569404440 Effective search space used: 569404440 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: 133 (55.8 bits)