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= 0003.0075.p (761 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 374 e-104 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 372 e-104 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 367 e-102 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 366 e-102 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 335 1e-92 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 374 bits (959), Expect = e-104, Method: Compositional matrix adjust. Identities = 193/438 (44%), Positives = 285/438 (65%), Gaps = 6/438 (1%) Query: 314 GLIQQLEQEKSRAYQL---ASHDYLTGIPNRMLFYELAATELSRARRSRNLYALFFLDLD 370 G ++ + + K+ ++ A+HD LTG+PNR + +E L AR+ L A+ F+DLD Sbjct: 247 GTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLD 306 Query: 371 KFKLINDTLGHAVGDALLQEVARRLRAAVREYDLVARLGGDEFV-VLVSEIRSEEVVAEI 429 +FK IND+LGH VGD LL+ VA+RL+A +RE D+VAR GGDEFV VL ++ E +AE+ Sbjct: 307 QFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEV 366 Query: 430 ADKLVETLRAPYPDLLGCDVETAPSIGIALYPRDGQSITTLMTNADSAMYTAKSAGSGLY 489 +++ + P+ + + SIG++ YP DG+ + +L+ +ADSAMY AK G + Sbjct: 367 MQRILAAVARPW-QAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNF 425 Query: 490 RFYDASLNAIAVRGLELLGRFRQALKENEFCLHYQPKVALQDYRVVGMEALIRWQHPEHG 549 +F+ +++ LE+L R+AL ++EF L+YQPK++LQD R++G EALIRW+ P+ G Sbjct: 426 QFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQG 485 Query: 550 LIFPGEFIGLAETHDLVQPLGHWIIEAVCRQLAQWRADGLPLVPVAINVSAKQLNDERLI 609 ++ P FI AE L+ P+G W++ CRQ W+ GLP +PVA+N+S +QLN + L Sbjct: 486 MVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLN-QSLP 544 Query: 610 ATVRESLQRHQLSAHWLEIEVTESCFITDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLS 669 V L + L+A WLE+E+TE+ + D E++ TL L+ GL+I +DD+GTGYSSLS Sbjct: 545 DFVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLS 604 Query: 670 HIKALPVYALKIDRSFVRDIRNDNSDGMIVASTVTLARNLGLKVVAEGVETREQLMHLKL 729 +++ PV ALKID+SFVRDI D IV + ++LA L L+V+AEGVE EQ LK Sbjct: 605 YLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKE 664 Query: 730 MGCDEVQGFYLQRPVAAA 747 CDEVQG+Y +P+ A Sbjct: 665 NACDEVQGYYFGKPMEVA 682 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 372 bits (954), Expect = e-104, Method: Compositional matrix adjust. Identities = 202/465 (43%), Positives = 292/465 (62%), Gaps = 5/465 (1%) Query: 280 ISLLVVVLSGGLIAMAHRRRFLYEQLLYSEREKSGLIQQLEQEKSRAYQLASHDYLTGIP 339 +++L++V++ + +A L +L E + L + L Q+ HD LT +P Sbjct: 219 LAVLIIVVTLAALTIALLTSVLDARL---ESRTAKLARSLAAANEELTQMVLHDQLTRLP 275 Query: 340 NRMLFYELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVGDALLQEVARRLRAAV 399 NR L + +++A R + +AL F+DLD FK IND+LGH VGD LL EVA+RL ++ Sbjct: 276 NRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSS 335 Query: 400 REYDLVARLGGDEFVVLVSEIRSEEVVAEIADKLVETLRAPYPDLLGCDVETAPSIGIAL 459 R D VARLGGDEFV+LV ++ + E +A+KLVE + P+ + ++ + S+GIA+ Sbjct: 336 RANDTVARLGGDEFVILV-DLNTPEDAMGVAEKLVEAVNQPF-KVDQHELRVSASVGIAI 393 Query: 460 YPRDGQSITTLMTNADSAMYTAKSAGSGLYRFYDASLNAIAVRGLELLGRFRQALKENEF 519 YP DG + L+ NAD+AMY K +G Y F++ S+NA A + L+ L R AL+ +F Sbjct: 394 YPEDGATRHDLVINADAAMYHTKRSGRNGYHFFEPSMNANAQQQLQWLQDLRVALERGQF 453 Query: 520 CLHYQPKVALQDYRVVGMEALIRWQHPEHGLIFPGEFIGLAETHDLVQPLGHWIIEAVCR 579 L YQPK +L V+G EAL+RW+HP HGL+ P +FIGLAE L+ P+G W+++ CR Sbjct: 454 RLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGLAERSGLILPIGAWVLDEACR 513 Query: 580 QLAQWRADGLPLVPVAINVSAKQLNDERLIATVRESLQRHQLSAHWLEIEVTESCFITDL 639 Q+ +W A G +++N+SA Q D L+ VR +L+RHQL L +EVTES + D Sbjct: 514 QMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERHQLPPPCLTLEVTESTAMHDT 573 Query: 640 EQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKALPVYALKIDRSFVRDIRNDNSDGMIV 699 E + QTL ++ D G+ I +DD+GTGYSSL ++K LP LKIDR FVR++R D D IV Sbjct: 574 EASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELRQDGEDAAIV 633 Query: 700 ASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPV 744 ++ V L R L L++VAEGVET EQ L GCD +QG+ + RP+ Sbjct: 634 SAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRPM 678 >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 = 185/429 (43%), Positives = 266/429 (62%), Gaps = 1/429 (0%) Query: 325 RAYQLASHDYLTGIPNRMLFYELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVG 384 R LA +D LTG+PNR L + + ++ A + A+ +DLD+FK INDT GH G Sbjct: 665 RIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFGHETG 724 Query: 385 DALLQEVARRLRAAVREYDLVARLGGDEFVVLVSEIRSEEVVAEIADKLVETLRAPYPDL 444 +A+LQE+A+R R ++RE D++AR+GGDEF+VLV + + EIA KL+ R P+ + Sbjct: 725 EAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEARKPFI-I 783 Query: 445 LGCDVETAPSIGIALYPRDGQSITTLMTNADSAMYTAKSAGSGLYRFYDASLNAIAVRGL 504 G + + SIGIA YP DG + TL+ NAD AMY AK G YRF+ +N V + Sbjct: 784 DGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNTVERI 843 Query: 505 ELLGRFRQALKENEFCLHYQPKVALQDYRVVGMEALIRWQHPEHGLIFPGEFIGLAETHD 564 L R+A++ EF +HYQPK+ L + R+VG EAL+RWQHP GL+ PGEFI LAE Sbjct: 844 ALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLAEETR 903 Query: 565 LVQPLGHWIIEAVCRQLAQWRADGLPLVPVAINVSAKQLNDERLIATVRESLQRHQLSAH 624 L+ +G +++ CR + R + ++IN++ Q DERL+ ++E + RH Sbjct: 904 LIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEVVDRHGTPPS 963 Query: 625 WLEIEVTESCFITDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKALPVYALKIDRS 684 LE E+TES + + E+A ++ +R EG I +DD+GTGYSSL+++K PV LKID+S Sbjct: 964 CLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLKIDKS 1023 Query: 685 FVRDIRNDNSDGMIVASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPV 744 F+ DI ++ + IV + + ++ L LKVV EGVET +QL L+ G DE QG+Y +PV Sbjct: 1024 FINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYFSKPV 1083 Query: 745 AAAQLVPLL 753 AQ V LL Sbjct: 1084 PYAQFVQLL 1092 >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 = 366 bits (940), Expect = e-102, Method: Compositional matrix adjust. Identities = 190/426 (44%), Positives = 266/426 (62%), Gaps = 1/426 (0%) Query: 330 ASHDYLTGIPNRMLFYELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVGDALLQ 389 AS D LTG+ NR + + A R + + F+DLD+FK +NDTLGH GD LL+ Sbjct: 519 ASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLR 578 Query: 390 EVARRLRAAVREYDLVARLGGDEFVVLVSEIRSEEVVAEIADKLVETLRAPYPDLLGCDV 449 VA RLRAAVRE D VARLGGDEF++++ E + ++++ + AP L G + Sbjct: 579 TVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQRIMDAVAAPV-TLGGHTL 637 Query: 450 ETAPSIGIALYPRDGQSITTLMTNADSAMYTAKSAGSGLYRFYDASLNAIAVRGLELLGR 509 S+G+A YP DG TL+ +AD AMY K G ++FY ++N A+ L + G Sbjct: 638 FMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGD 697 Query: 510 FRQALKENEFCLHYQPKVALQDYRVVGMEALIRWQHPEHGLIFPGEFIGLAETHDLVQPL 569 R AL EF LHYQPKV L RV+G EALIRWQHP+ G++ P FIGLAE L+ P+ Sbjct: 698 LRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPI 757 Query: 570 GHWIIEAVCRQLAQWRADGLPLVPVAINVSAKQLNDERLIATVRESLQRHQLSAHWLEIE 629 G W++ A C Q QW+ G + V++N+S Q + L++++ + L+ L LE+E Sbjct: 758 GAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELE 817 Query: 630 VTESCFITDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKALPVYALKIDRSFVRDI 689 +TES +TD+E A L L+ G+R+ +DD+GTGYSSL+++K P+ LKIDRSFVRDI Sbjct: 818 LTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDI 877 Query: 690 RNDNSDGMIVASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPVAAAQL 749 D D I AS ++LAR+L L+V+AEGVET EQL +L+ GCDE+QG+ PV A + Sbjct: 878 TIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKF 937 Query: 750 VPLLQK 755 +L++ Sbjct: 938 EQILRQ 943 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 335 bits (858), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 180/434 (41%), Positives = 274/434 (63%), Gaps = 3/434 (0%) Query: 328 QLASHDYLTGIPNRMLFYELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVGDAL 387 A+HD LTG+PNR L + + ARR+ +A+ F+DLD FK IND+LGHAVGD L Sbjct: 260 HFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVGDGL 319 Query: 388 LQEVARRLRAAVREYDLVARLGGDEFVVLVSEIRSEEVVAEIADKLVETLRAPYPDLLGC 447 L VA+R+R +R D+VAR+GGDEFVV+V + S +VV ++++ ++ LR + + Sbjct: 320 LVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDF-QIDDA 378 Query: 448 DVETAPSIGIALYPRDGQSITTLMTNADSAMYTAKSAGSGLYRFYDASLNAIAVRGLELL 507 + SIGIA+YP G S+ LM NAD+AMY AK +G YRF++ +++A A+R L++ Sbjct: 379 TLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRHLQVR 438 Query: 508 GRFRQALKENEFCLHYQPKVALQDYRVVGMEALIRWQHPEHGLIFPGEFIGLAETHDLVQ 567 +QA+ E +F LH+QPK + G+EAL+RW HP+ G + P EFI +AE + Sbjct: 439 QALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPTEFIPIAERSGQIL 498 Query: 568 PLGHWIIEAVCRQLAQWRADGLPLVPVAINVSAKQLNDERLIATVRESLQRHQLSAHWLE 627 +G W+++AVC Q+A+W A G+ V VA+N+S Q+ + L+A + E + ++ L Sbjct: 499 CIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMRTD-LVARIVELVGAAGIAPQRLM 557 Query: 628 IEVTESCFITDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKALPVYALKIDRSFVR 687 E+TE+ + D+E++++ + +L+ G I +DD+GTGYSSL+++ +KIDR F Sbjct: 558 FEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYSSLAYLAQFHCRQIKIDRFFTS 617 Query: 688 DIRNDNSDG-MIVASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPVAA 746 + D+ G IVA+ + LA L ++VVAEGVET QL L+L+ CD+VQGF L RP A Sbjct: 618 RLDGDDHSGRAIVAAIIALAHALQMEVVAEGVETEGQLRELQLLHCDQVQGFLLGRPAEA 677 Query: 747 AQLVPLLQKGSFDF 760 + L+Q + D Sbjct: 678 PSVPGLVQASNDDL 691 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 0.137 0.393 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: 2,230,696 Number of extensions: 93535 Number of successful extensions: 416 Number of sequences better than 1.0e-08: 46 Number of HSP's gapped: 348 Number of HSP's successfully gapped: 46 Length of query: 761 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 668 Effective length of database: 1,179,515 Effective search space: 787916020 Effective search space used: 787916020 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: 134 (56.2 bits)