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= 0001.3718.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... 372 e-104 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 368 e-103 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 367 e-102 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 366 e-102 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 330 2e-91 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 372 bits (954), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/463 (43%), Positives = 292/463 (63%), Gaps = 7/463 (1%) Query: 289 GGLISLAHRRRYLYE---KLVYSEREKSGLIHQLEQEKSRAYQLASHDYLTGIPNRMLFY 345 G +I ++ R +Y+ KL E + + E +Q A+HD LTG+PNR + + Sbjct: 223 GEIIWISENARAVYDEAGKLSCYEGTVEAITERKAHEAEMRHQ-ATHDALTGLPNRNMLH 281 Query: 346 ELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVGDALLQEVARRLRAAVREYDLV 405 E L AR+ L A+ F+DLD+FK IND+LGH VGD LL+ VA+RL+A +RE D+V Sbjct: 282 EHLQRALRVARQKGALTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMV 341 Query: 406 ARLGGDEFV-VLVSEIRDEETVAEIADKLVETLRAPYPDLLGCDVETSPSIGIALYPRDG 464 AR GGDEFV VL ++ E +AE+ +++ + P+ + + + SIG++ YP DG Sbjct: 342 ARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPW-QAGDREFQVTASIGVSRYPADG 400 Query: 465 QSIEALMTNADSAMYTAKSAGAGLYRFYDASLNAIAVRGLELLGRFRQAIKDDEFCLHYQ 524 + +E+L+ +ADSAMY AK G ++F+ +++ LE+L R+A+ DEF L+YQ Sbjct: 401 KDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQ 460 Query: 525 PKVELQDYRVVGMEALIRWQHPEHGLIYPGEFIGLAETHDLVQPLGPWIIEAVCRQLAQW 584 PK+ LQD R++G EALIRW+ P+ G++ P FI AE L+ P+G W++ CRQ W Sbjct: 461 PKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAW 520 Query: 585 RDEGLPLVPVAINVSAKQLNDERLIATVHDALRRYHLSADLLEIEVTESCFISDLEQARQ 644 + GLP +PVA+N+S +QLN + L V L + L+A LE+E+TE+ + D E++ Sbjct: 521 QQAGLPPIPVAVNLSPRQLN-QSLPDFVAGVLAQSGLAASWLELEITENVVMKDAEKSVA 579 Query: 645 TLEKLRDEGLRIYLDDYGTGYSSLSHIKTLPVYALKIDRSFVRDIRNDNSDGMIVASTVT 704 TL L+ GL+I +DD+GTGYSSLS+++ PV ALKID+SFVRDI D IV + ++ Sbjct: 580 TLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIIS 639 Query: 705 LARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPVAPA 747 LA L L+V+AEGVE EQ LK CDEVQG+Y +P+ A Sbjct: 640 LAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVA 682 >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 = 368 bits (945), Expect = e-103, Method: Compositional matrix adjust. Identities = 186/429 (43%), Positives = 268/429 (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 DALLQEVARRLRAAVREYDLVARLGGDEFVVLVSEIRDEETVAEIADKLVETLRAPYPDL 444 +A+LQE+A+R R ++RE D++AR+GGDEF+VLV + D + EIA KL+ R P+ + Sbjct: 725 EAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEARKPFI-I 783 Query: 445 LGCDVETSPSIGIALYPRDGQSIEALMTNADSAMYTAKSAGAGLYRFYDASLNAIAVRGL 504 G + S SIGIA YP DG + + L+ NAD AMY AK G YRF+ +N V + Sbjct: 784 DGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNTVERI 843 Query: 505 ELLGRFRQAIKDDEFCLHYQPKVELQDYRVVGMEALIRWQHPEHGLIYPGEFIGLAETHD 564 L R+AI+ EF +HYQPK+EL + R+VG EAL+RWQHP GL+ PGEFI LAE Sbjct: 844 ALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLAEETR 903 Query: 565 LVQPLGPWIIEAVCRQLAQWRDEGLPLVPVAINVSAKQLNDERLIATVHDALRRYHLSAD 624 L+ +G +++ CR + R + + ++IN++ Q DERL+ + + + R+ Sbjct: 904 LIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEVVDRHGTPPS 963 Query: 625 LLEIEVTESCFISDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKTLPVYALKIDRS 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 APAQLVPLL 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 = 367 bits (942), Expect = e-102, Method: Compositional matrix adjust. Identities = 192/429 (44%), Positives = 272/429 (63%), Gaps = 3/429 (0%) Query: 330 ASHDYLTGIPNRMLFYELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVGDALLQ 389 AS D LTG+ NR + + A R + + F+DLD+FK +NDTLGH GD LL+ Sbjct: 519 ASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLR 578 Query: 390 EVARRLRAAVREYDLVARLGGDEFVVLVSEIRDEETV-AEIADKLVETLRAPYPDLLGCD 448 VA RLRAAVRE D VARLGGDEF++++ E +DE T+ ++++ + AP L G Sbjct: 579 TVAGRLRAAVREADTVARLGGDEFIMILPE-QDELTLDTRSLQRIMDAVAAPV-TLGGHT 636 Query: 449 VETSPSIGIALYPRDGQSIEALMTNADSAMYTAKSAGAGLYRFYDASLNAIAVRGLELLG 508 + + S+G+A YP DG E L+ +AD AMY K G ++FY ++N A+ L + G Sbjct: 637 LFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEG 696 Query: 509 RFRQAIKDDEFCLHYQPKVELQDYRVVGMEALIRWQHPEHGLIYPGEFIGLAETHDLVQP 568 R A+ EF LHYQPKV+L RV+G EALIRWQHP+ G++ P FIGLAE L+ P Sbjct: 697 DLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILP 756 Query: 569 LGPWIIEAVCRQLAQWRDEGLPLVPVAINVSAKQLNDERLIATVHDALRRYHLSADLLEI 628 +G W++ A C Q QW+ G + V++N+S Q + L++++ D L L + LE+ Sbjct: 757 IGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLEL 816 Query: 629 EVTESCFISDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKTLPVYALKIDRSFVRD 688 E+TES ++D+E A L L+ G+R+ +DD+GTGYSSL+++K P+ LKIDRSFVRD Sbjct: 817 ELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRD 876 Query: 689 IRNDNSDGMIVASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPVAPAQ 748 I D D I AS ++LAR+L L+V+AEGVET EQL +L+ GCDE+QG+ PV + Sbjct: 877 ITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADK 936 Query: 749 LVPLLQKGR 757 +L++ R Sbjct: 937 FEQILRQDR 945 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 366 bits (939), Expect = e-102, Method: Compositional matrix adjust. Identities = 200/467 (42%), Positives = 286/467 (61%), Gaps = 5/467 (1%) Query: 280 ISLLIVVLSGGLISLAHRRRYLYEKLVYSEREKSGLIHQLEQEKSRAYQLASHDYLTGIP 339 +++LI+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 REYDLVARLGGDEFVVLVSEIRDEETVAEIADKLVETLRAPYPDLLGCDVETSPSIGIAL 459 R D VARLGGDEFV+LV ++ E +A+KLVE + P+ + ++ S S+GIA+ Sbjct: 336 RANDTVARLGGDEFVILV-DLNTPEDAMGVAEKLVEAVNQPF-KVDQHELRVSASVGIAI 393 Query: 460 YPRDGQSIEALMTNADSAMYTAKSAGAGLYRFYDASLNAIAVRGLELLGRFRQAIKDDEF 519 YP DG + L+ NAD+AMY K +G Y F++ S+NA A + L+ L R A++ +F Sbjct: 394 YPEDGATRHDLVINADAAMYHTKRSGRNGYHFFEPSMNANAQQQLQWLQDLRVALERGQF 453 Query: 520 CLHYQPKVELQDYRVVGMEALIRWQHPEHGLIYPGEFIGLAETHDLVQPLGPWIIEAVCR 579 L YQPK L V+G EAL+RW+HP HGL+ P +FIGLAE L+ P+G W+++ CR Sbjct: 454 RLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGLAERSGLILPIGAWVLDEACR 513 Query: 580 QLAQWRDEGLPLVPVAINVSAKQLNDERLIATVHDALRRYHLSADLLEIEVTESCFISDL 639 Q+ +W G +++N+SA Q D L+ V L R+ L L +EVTES + D Sbjct: 514 QMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERHQLPPPCLTLEVTESTAMHDT 573 Query: 640 EQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKTLPVYALKIDRSFVRDIRNDNSDGMIV 699 E + QTL ++ D G+ I +DD+GTGYSSL ++K LP LKIDR FVR++R D D IV Sbjct: 574 EASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELRQDGEDAAIV 633 Query: 700 ASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRPVAP 746 ++ V L R L L++VAEGVET EQ L GCD +QG+ + RP+ P Sbjct: 634 SAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRPMTP 680 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 330 bits (846), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 184/434 (42%), Positives = 260/434 (59%), Gaps = 6/434 (1%) Query: 327 YQLASHDYLTGIPNRMLFYELAATELSRARRSRNLYALFFLDLDKFKLINDTLGHAVGDA 386 + LA +D LTG+PNR L L AR + F+DL++FK INDTLGH GD Sbjct: 241 HHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHGCVMFIDLNRFKPINDTLGHVAGDM 300 Query: 387 LLQEVARRLRAAVREYDLVARLGGDEFVVLVSEIRDEETVAEIADKLVETLRAPYPDLLG 446 LL EVA RLR A+RE D+VARLG DEF V + I D+++ A +A KL+ P+ + G Sbjct: 301 LLVEVAMRLRRALREQDVVARLGADEFAVALFGI-DKDSPAYVAQKLLALFDDPFF-IDG 358 Query: 447 CDVETSPSIGIALYPRDGQSIEALMTNADSAMYTAKSAGA---GLYRFYDASLNAIAVRG 503 ++ SIG++LYP + E L+ AD AMY AK G G Y Y +N + Sbjct: 359 HELRVGASIGVSLYPENATDTETLLRLADIAMYRAKQGGENNEGGYACYSEEMNRNTLDL 418 Query: 504 LELLGRFRQAIKDDEFCLHYQPKVELQDYRVVGMEALIRWQHPEHGLIYPGEFIGLAETH 563 L + A + +E L+YQPKV++Q + G EAL+RWQHPE GL+ PGEFI +AE Sbjct: 419 LRIETGLLHAFEYNELLLYYQPKVDMQTLAITGAEALVRWQHPERGLLLPGEFIPIAEET 478 Query: 564 DLVQPLGPWIIEAVCRQLAQWRDEGLPLVPVAINVSAKQLNDERLIATVHDALRRYHLSA 623 L+ L W+++AVCRQ W+D GLP + +A+NV+A++ L V AL R+ LS Sbjct: 479 GLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTAREFT-RSLPDRVGAALERHMLSG 537 Query: 624 DLLEIEVTESCFISDLEQARQTLEKLRDEGLRIYLDDYGTGYSSLSHIKTLPVYALKIDR 683 + LE+E+TES + ++ +EK+ G+ + LDD+GTGYSSLS++K P+ LKIDR Sbjct: 538 EWLELEITESMLMHSTDRVISIMEKICGLGITVSLDDFGTGYSSLSYLKRFPINTLKIDR 597 Query: 684 SFVRDIRNDNSDGMIVASTVTLARNLGLKVVAEGVETREQLMHLKLMGCDEVQGFYLQRP 743 SF I +D +D I ++ + +A+ L KV+AEGVE +Q L+ GC+E+QG+ RP Sbjct: 598 SFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVEDEKQFNFLREAGCNELQGYIFSRP 657 Query: 744 VAPAQLVPLLQKGR 757 V +L +GR Sbjct: 658 VPAPDFHAMLLEGR 671 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 0.138 0.396 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: 2,200,561 Number of extensions: 93338 Number of successful extensions: 383 Number of sequences better than 1.0e-08: 46 Number of HSP's gapped: 314 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)