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= 0001.3269.p (695 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... 1097 0.0 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 392 e-110 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 384 e-108 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 377 e-105 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 367 e-102 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 1097 bits (2837), Expect = 0.0, Method: Compositional matrix adjust. Identities = 573/695 (82%), Positives = 618/695 (88%) Query: 1 MLIAHYDKLLVVVSLLVAILASYTALDMAERISTSNHLYSRAARFWLAGGAIAMGVGIWS 60 MLIA YDKLLVVVSLLVAILASYTALDMAERI+T+ + RAAR+WLAGGA+AMG+GIWS Sbjct: 1 MLIATYDKLLVVVSLLVAILASYTALDMAERINTTASQHGRAARWWLAGGAVAMGLGIWS 60 Query: 61 MHFIGMLAFRLPIALGYDAWITLVSLLIAVLTSGFALWIVTRAELPLRRLLGSAVLMGSG 120 MHFIGMLAFRLPIALGYDA IT +SL+IA+ SGFALWIVTR ELP RRLLGSA+ MG G Sbjct: 61 MHFIGMLAFRLPIALGYDAGITALSLVIAIAVSGFALWIVTRPELPTRRLLGSALFMGIG 120 Query: 121 IVAMHYTGMAAMRMQPGIDYDLVLFVGSVIIAVVTSATALWIAFSLRRNTPHVRVARAGA 180 I MHYTGMAA+RMQPGI YDL LF+ SV IA+ SA ALWIAFSLRRNTPHVR AR GA Sbjct: 121 IACMHYTGMAALRMQPGIAYDLFLFLASVAIAIAASAAALWIAFSLRRNTPHVRAARGGA 180 Query: 181 SVVMGLAIVGMHYTGMAAASFPRGAVCLAAREGVGSGWLAILIIVVTLAVLTIALLTSVL 240 SVVMG+AI GMHYTGM AASF R ++CL+AREGV GWLA+LIIVVTLA LTIALLTSVL Sbjct: 181 SVVMGIAIFGMHYTGMGAASFSRDSICLSAREGVAPGWLAVLIIVVTLAALTIALLTSVL 240 Query: 241 DARLESRTAKLARSLAEANEELTQMVLHDHLTKLPNRTLLEDRLTQAIHKAARTQGHFAL 300 DARLESRTAKLARSLA ANEELTQMVLHD LT+LPNRTLLEDRL QAI+KAAR QGHFAL Sbjct: 241 DARLESRTAKLARSLAAANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFAL 300 Query: 301 MFMDLDGFKAINDSLGHHVGDRLLVEVARRLSSIMRAQDTVARLGGDEFVILVELERPEG 360 MFMDLDGFKAINDSLGHHVGDRLLVEVA+RL+S RA DTVARLGGDEFVILV+L PE Sbjct: 301 MFMDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSSRANDTVARLGGDEFVILVDLNTPED 360 Query: 361 AMPVAEKLVEVVNQAFTLAQQELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGR 420 AM VAEKLVE VNQ F + Q ELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKR+GR Sbjct: 361 AMGVAEKLVEAVNQPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGR 420 Query: 421 NGYHFFEPSMNANAHHQLQWLQELRVAVERKQLRLVYQPKFGLPDGQVLGAEALLRWQHP 480 NGYHFFEPSMNANA QLQWLQ+LRVA+ER Q RLVYQPKF LP G VLGAEALLRW+HP Sbjct: 421 NGYHFFEPSMNANAQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHP 480 Query: 481 QRGLVGPDEFIGLAERSGLIIPIGAWVLDEACRQMRQWLTLGYAHWKIAVNLSALQFADP 540 GLV PD+FIGLAERSGLI+PIGAWVLDEACRQMR+W LGY W ++VNLSALQFADP Sbjct: 481 VHGLVAPDQFIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADP 540 Query: 541 HLVEVVRTALDKHQLPPHCLTLEVTESTAMHDTEASLQTLQKIAELGVEIAIDDFGTGYS 600 HL+EVVRT L++HQLPP CLTLEVTESTAMHDTEASLQTL++IA+LGVEI+IDDFGTGYS Sbjct: 541 HLLEVVRTTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYS 600 Query: 601 SLLYLKRLPAHELKIDRGFVRDLSEGSEDAAIVSAIVALGRALRLRIVAEGVETEGQQQF 660 SLLYLKRLPA+ELKIDRGFVR+L + EDAAIVSAIVALGR L LRIVAEGVET QQ F Sbjct: 601 SLLYLKRLPANELKIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDF 660 Query: 661 LAAAGCHALQGYLRGRPMAPDLFLQTMREQQKSAA 695 L AAGC ALQGYL GRPM P+LFLQTMRE+ KSAA Sbjct: 661 LTAAGCDALQGYLMGRPMTPELFLQTMRERHKSAA 695 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 392 bits (1007), Expect = e-110, Method: Compositional matrix adjust. Identities = 270/695 (38%), Positives = 400/695 (57%), Gaps = 54/695 (7%) Query: 9 LLVVVSLLVAILASYTALDMAERISTSNHLYSRAARFWLAGGAIAMGVGIWSMHFIGMLA 68 LL+ ++LVA L++Y AL+++ER+ S+ R WL+ GA+ +G+G+W+ F+ + A Sbjct: 8 LLLAFAVLVASLSAYAALEVSERMVMQE---SQHRRLWLSVGAVVLGLGVWATLFLTVAA 64 Query: 69 FRLPIALGYDAWITLVSLLIAVLTSGFALWIVT--RAELPLRRLLGSAVLMGSGIVAMHY 126 L + +G+D +T+++LL+ + S F L ++ R P R +G + +G+ I A + Sbjct: 65 LGLSMPVGFDIRLTVLALLLCL-GSAFYLMHLSGLRRPHPSRLAIG-GLSIGAAINAAFH 122 Query: 127 TGMAAMRMQPGIDYDLVLF---------VGSVIIAVVTS-------ATALWIAFSLRRNT 170 +AAM++ P + Y VL +G I+A+ ++ A +L + R Sbjct: 123 MALAAMQLLPALLYQQVLLGLALLLTELIGVFIVALFSASNGRKPKAGSLNSQQTRRVLA 182 Query: 171 PHVRVARAGASVVMGLA--IVGMHYTGMAAASFPRGAVCLAAREGVGSGWLAILIIVVTL 228 + A+ GL ++ H +A AS RE + +G ++ + L Sbjct: 183 ALLVGLGLVAAATAGLRALVIAPHTQSLAVASL--------LREHLVNG----IVFLAFL 230 Query: 229 AVLTIALLTSVLDARLESRTAKLARSLAEANEELTQMVLHDHLTKLPNRTLLEDRLTQAI 288 A+ +++ V R L R + N++L HD LT LPNR LL DR+ A+ Sbjct: 231 AMALALVISGV------QRNQVLKRIVGRTNDKLLHFATHDVLTGLPNRALLADRIQHAV 284 Query: 289 HKAARTQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEVARRLSSIMRAQDTVARLGGDE 348 A R FA++FMDLDGFKAINDSLGH VGD LLV VA+R+ +R +D VAR+GGDE Sbjct: 285 EVARRNGKTFAVLFMDLDGFKAINDSLGHAVGDGLLVAVAQRIRQCLRGEDMVARIGGDE 344 Query: 349 FVILV-ELERPEGAMPVAEKLVEVVNQAFTLAQQELRVSASVGIAIYPEDGATRHDLVIN 407 FV++V L P+ ++E ++ + Q F + LRV++S+GIA+YP G + L+ N Sbjct: 345 FVVVVGNLSSPDVVEQLSENILAALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKN 404 Query: 408 ADAAMYHTKRAGRNGYHFFEPSMNANAHHQLQWLQELRVAVERKQLRLVYQPKFGLPDGQ 467 ADAAMY K++GRN Y FFEP+M+A+A LQ Q L+ A++ +Q RL +QPK+ + Sbjct: 405 ADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKE 464 Query: 468 VLGAEALLRWQHPQRGLVGPDEFIGLAERSGLIIPIGAWVLDEACRQMRQWLTLGYAHWK 527 + G EALLRW HPQ G + P EFI +AERSG I+ IG WVL C Q+ +W G K Sbjct: 465 LTGLEALLRWTHPQLGEMAPTEFIPIAERSGQILCIGDWVLQAVCEQIARWDAAGMKPVK 524 Query: 528 IAVNLSALQFADP---HLVEVVRTALDKHQLPPHCLTLEVTESTAMHDTEASLQTLQKIA 584 +A+NLS LQ +VE+V A + P L E+TE+ AM D E S + + ++ Sbjct: 525 VALNLSPLQMRTDLVARIVELVGAA----GIAPQRLMFEITETAAMKDVERSQRVIGELQ 580 Query: 585 ELGVEIAIDDFGTGYSSLLYLKRLPAHELKIDRGFVRDLSEGSEDAA--IVSAIVALGRA 642 LG +IAIDDFGTGYSSL YL + ++KIDR F L +G + + IV+AI+AL A Sbjct: 581 ALGFDIAIDDFGTGYSSLAYLAQFHCRQIKIDRFFTSRL-DGDDHSGRAIVAAIIALAHA 639 Query: 643 LRLRIVAEGVETEGQQQFLAAAGCHALQGYLRGRP 677 L++ +VAEGVETEGQ + L C +QG+L GRP Sbjct: 640 LQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRP 674 >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 = 384 bits (987), Expect = e-108, Method: Compositional matrix adjust. Identities = 205/440 (46%), Positives = 277/440 (62%), Gaps = 3/440 (0%) Query: 254 SLAEANEELTQMVLHDHLTKLPNRTLLEDRLTQAIHKAARTQGHFALMFMDLDGFKAIND 313 S+ EL D LT L NR +L L QAI A R + ++F+DLD FK +ND Sbjct: 507 SMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVND 566 Query: 314 SLGHHVGDRLLVEVARRLSSIMRAQDTVARLGGDEFVILVELERPEGAMPVA--EKLVEV 371 +LGH GD LL VA RL + +R DTVARLGGDEF++++ E+ E + +++++ Sbjct: 567 TLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILP-EQDELTLDTRSLQRIMDA 625 Query: 372 VNQAFTLAQQELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYHFFEPSMN 431 V TL L ++ SVG+A YP DG L+ +AD AMY K+ GRN + F+ P+MN Sbjct: 626 VAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMN 685 Query: 432 ANAHHQLQWLQELRVAVERKQLRLVYQPKFGLPDGQVLGAEALLRWQHPQRGLVGPDEFI 491 A +L+ +LR A++ + L YQPK L G+V+G+EAL+RWQHPQ G+V P FI Sbjct: 686 EQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFI 745 Query: 492 GLAERSGLIIPIGAWVLDEACRQMRQWLTLGYAHWKIAVNLSALQFADPHLVEVVRTALD 551 GLAE +GLI+PIGAWVL AC Q RQW GYA ++VNLS QF LV + L+ Sbjct: 746 GLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLE 805 Query: 552 KHQLPPHCLTLEVTESTAMHDTEASLQTLQKIAELGVEIAIDDFGTGYSSLLYLKRLPAH 611 LPP L LE+TES M D E ++ L + +LGV ++IDDFGTGYSSL YLKR P Sbjct: 806 DTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPID 865 Query: 612 ELKIDRGFVRDLSEGSEDAAIVSAIVALGRALRLRIVAEGVETEGQQQFLAAAGCHALQG 671 LKIDR FVRD++ ++DAAI ++I++L R L+LR++AEGVET+ Q +L GC +QG Sbjct: 866 VLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQG 925 Query: 672 YLRGRPMAPDLFLQTMREQQ 691 YL P+ D F Q +R+ + Sbjct: 926 YLFSPPVPADKFEQILRQDR 945 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 377 bits (968), Expect = e-105, Method: Compositional matrix adjust. Identities = 198/437 (45%), Positives = 277/437 (63%), Gaps = 7/437 (1%) Query: 261 ELTQMVLHDHLTKLPNRTLLEDRLTQAIHKAARTQGHF-ALMFMDLDGFKAINDSLGHHV 319 E+ HD LT LPNR +L + L +A+ + AR +G A+ F+DLD FK INDSLGH V Sbjct: 261 EMRHQATHDALTGLPNRNMLHEHLQRAL-RVARQKGALTAVAFVDLDQFKFINDSLGHQV 319 Query: 320 GDRLLVEVARRLSSIMRAQDTVARLGGDEFVILVELERPEGAMPVAE---KLVEVVNQAF 376 GD LL VA+RL + +R D VAR GGDEFV++++ + EG +AE +++ V + + Sbjct: 320 GDELLKTVAQRLQACLREADMVARQGGDEFVLVLQ-NQTEGEAGIAEVMQRILAAVARPW 378 Query: 377 TLAQQELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYHFFEPSMNANAHH 436 +E +V+AS+G++ YP DG L+ +AD+AMY K GRN + FF P M++ + Sbjct: 379 QAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSN 438 Query: 437 QLQWLQELRVAVERKQLRLVYQPKFGLPDGQVLGAEALLRWQHPQRGLVGPDEFIGLAER 496 +L+ L LR A+++ + +L YQPK L DG+++GAEAL+RW+ PQ+G+V PD FI AE Sbjct: 439 RLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEE 498 Query: 497 SGLIIPIGAWVLDEACRQMRQWLTLGYAHWKIAVNLSALQFADPHLVEVVRTALDKHQLP 556 +GLI+PIG WVL ACRQ + W G +AVNLS Q + L + V L + L Sbjct: 499 AGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQL-NQSLPDFVAGVLAQSGLA 557 Query: 557 PHCLTLEVTESTAMHDTEASLQTLQKIAELGVEIAIDDFGTGYSSLLYLKRLPAHELKID 616 L LE+TE+ M D E S+ TL + LG++I++DDFGTGYSSL YL+R P LKID Sbjct: 558 ASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKID 617 Query: 617 RGFVRDLSEGSEDAAIVSAIVALGRALRLRIVAEGVETEGQQQFLAAAGCHALQGYLRGR 676 + FVRD+ ++ AAIV AI++L L LR++AEGVE E Q FL C +QGY G+ Sbjct: 618 KSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGK 677 Query: 677 PMAPDLFLQTMREQQKS 693 PM +F M EQ ++ Sbjct: 678 PMEVAVFTAWMSEQAQA 694 >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 = 367 bits (941), Expect = e-102, Method: Compositional matrix adjust. Identities = 190/439 (43%), Positives = 267/439 (60%), Gaps = 9/439 (2%) Query: 258 ANEELTQMVLHDHLTKLPNRTLLEDRLTQAIHKAARTQGHFALMFMDLDGFKAINDSLGH 317 A+E + + +D LT LPNR L ++ AI A G A++ MDLD FK IND+ GH Sbjct: 662 ADERIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFGH 721 Query: 318 HVGDRLLVEVARRLSSIMRAQDTVARLGGDEFVILVE-LERPEGAMPVAEKLVEVVNQAF 376 G+ +L E+A+R + +R D +AR+GGDEF++LV+ + P +A+KL+ + F Sbjct: 722 ETGEAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEARKPF 781 Query: 377 TLAQQELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRAGRNGYHFFEPSMNANAHH 436 + QE +S S+GIA YP DG L+ NAD AMY K G++ Y FF +N N Sbjct: 782 IIDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNTVE 841 Query: 437 QLQWLQELRVAVERKQLRLVYQPKFGLPDGQVLGAEALLRWQHPQRGLVGPDEFIGLAER 496 ++ ELR A+ER + + YQPK L +G+++GAEAL+RWQHP RGL+ P EFI LAE Sbjct: 842 RIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLAEE 901 Query: 497 SGLIIPIGAWVLDEACRQM----RQWLTLGYAHWKIAVNLSALQFADPHLVEVVRTALDK 552 + LI IG VLD ACR + +Q +T G +I++NL+ QF D L++ ++ +D+ Sbjct: 902 TRLIDQIGLLVLDVACRDIGLMRQQQMTCG----RISINLTGSQFGDERLLDDIKEVVDR 957 Query: 553 HQLPPHCLTLEVTESTAMHDTEASLQTLQKIAELGVEIAIDDFGTGYSSLLYLKRLPAHE 612 H PP CL E+TES MH+ E ++ + I G I+IDDFGTGYSSL YLKR P + Sbjct: 958 HGTPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNT 1017 Query: 613 LKIDRGFVRDLSEGSEDAAIVSAIVALGRALRLRIVAEGVETEGQQQFLAAAGCHALQGY 672 LKID+ F+ D+ + +AIV AI+A+ AL L++V EGVETE Q Q L G QGY Sbjct: 1018 LKIDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGY 1077 Query: 673 LRGRPMAPDLFLQTMREQQ 691 +P+ F+Q + QQ Sbjct: 1078 YFSKPVPYAQFVQLLAGQQ 1096 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 0.137 0.400 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: 2,101,455 Number of extensions: 90185 Number of successful extensions: 593 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 504 Number of HSP's successfully gapped: 45 Length of query: 695 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 603 Effective length of database: 1,184,250 Effective search space: 714102750 Effective search space used: 714102750 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)