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= 0001.2741.p (809 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 1291 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 330 2e-91 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 321 1e-88 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 321 2e-88 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 304 2e-83 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 1291 bits (3341), Expect = 0.0, Method: Compositional matrix adjust. Identities = 653/796 (82%), Positives = 710/796 (89%), Gaps = 2/796 (0%) Query: 1 VRLYRLESKIVALFIILIVVVQVAGFVAIRTAIDRNARSAISDELVIGERVFTHLLDQNA 60 VRLYRLESKIVALFI L+VVVQ+AGFVAIRTAIDRNAR++IS+EL +GERVF LDQNA Sbjct: 2 VRLYRLESKIVALFITLLVVVQLAGFVAIRTAIDRNARASISEELAVGERVFARQLDQNA 61 Query: 61 QKLTQGARLLASDFGFRQAIGTDDRDTIASVLANHGARIGATIGMLVGTDGRIHASTLEL 120 QKLTQGARLLASDFGFRQAIGTDDR+TIASVL+NHGARIGA++ ML+G DG+I AST+E Sbjct: 62 QKLTQGARLLASDFGFRQAIGTDDRETIASVLSNHGARIGASMAMLIGNDGQIRASTVEY 121 Query: 121 ADPELQRVSLELVRKAGNGNANGAAESAVVGDKLFQIVAVPVKAPVTIAWVVMGFPVGPA 180 D +LQR SLELVRKAGNGN GA+E+AVVGD+LFQIVAVP+KAPVTIAWVVMGFP+ Sbjct: 122 PDTDLQRSSLELVRKAGNGN--GASENAVVGDRLFQIVAVPIKAPVTIAWVVMGFPIDHQ 179 Query: 181 LVNDMRALSQLQVSILVRQRDSGSWGSDVSTLPVAQTQMLASQAGHTDMGLAGATDLQID 240 LV+DMR LS LQVSILV QR W +DVSTL ML + G M G DLQID Sbjct: 180 LVSDMRELSSLQVSILVSQRGGVGWNADVSTLTAPAASMLLKEVGQPAMRAGGLIDLQID 239 Query: 241 DNQYRARILPLARASNGQEAVAVLQRSVSEAVAPYQRLQLILLSITVLGVLVAALASAVM 300 NQYRAR+LPLA+ASNGQ+AVAVLQRSVSEAV PYQRLQLILLSITVLGVL AA+ASAV+ Sbjct: 240 GNQYRARLLPLAQASNGQQAVAVLQRSVSEAVEPYQRLQLILLSITVLGVLGAAVASAVL 299 Query: 301 ARRITSPLRELAAVAKRLGEGDYSEGLYLRRQDEIGRLGAAFETMRSEIANRELKISRLA 360 ARRITSPLR+LA VAKRLGEGDYSEGL++RRQDEIGRLG AFETMR EIA+RELKISRLA Sbjct: 300 ARRITSPLRDLADVAKRLGEGDYSEGLFIRRQDEIGRLGNAFETMRLEIASRELKISRLA 359 Query: 361 YQDHLTGLPNRVQFADLLKEAIAQVQRSGGGSCYILMMDLDRFQQVNDVLGHSFGDDLLR 420 YQD LTGLPNRVQFADLL++AIA+ R+ G +CYILMMDLDRFQQVNDVLGHSFGDDLLR Sbjct: 360 YQDQLTGLPNRVQFADLLRDAIAEAARTPGAACYILMMDLDRFQQVNDVLGHSFGDDLLR 419 Query: 421 QVALRLSGQLLHAGAKMARLGGDEFAILLPEVDLDGALAQATHILRVLEQPLSLQEQTMD 480 QVALRLS QLLH GAK++RLGGDEFAILLP VD +GA+ QA ILR LEQPLSL +QT+D Sbjct: 420 QVALRLSAQLLHPGAKLSRLGGDEFAILLPGVDQEGAVEQALQILRALEQPLSLHQQTVD 479 Query: 481 LGAGIGVAGYPAHGQTSGELLSRAEVAMYTAKRKGSGVVIYDPAIDQSSQESLSLLSELR 540 LGAGIG++GYPAHGQ+S LLS AEVAMY AKRKGSG+VIYDPAIDQSSQESLSLLSELR Sbjct: 480 LGAGIGISGYPAHGQSSDVLLSHAEVAMYIAKRKGSGLVIYDPAIDQSSQESLSLLSELR 539 Query: 541 RALERDEFMLYLQPKLELGTGAVIGAEALVRWVHPEKGFVGPDNFIPFAETTGFIRMLTL 600 RALERDEFMLYLQPKLEL +G V+GAEALVRW+HPEKGF+GPDNFIPFAETTGFIRMLTL Sbjct: 540 RALERDEFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIPFAETTGFIRMLTL 599 Query: 601 WMMEKVAGLSAQLQAQGLSLKFSVNLSTRDLLDQELPVAFAAILERHRLTPDALCLEITE 660 WMME+VA LS QLQ QG+ LKFSVNLSTRDLLDQELP AFAAIL+RHRL P ALCLEITE Sbjct: 600 WMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRLQPAALCLEITE 659 Query: 661 SAIMDDPGRAQNTLERLSAMGFALSIDDFGTGYSSLAYLKSLPVDELKIDKSFVMKMAQD 720 SAIMDDP RAQNTLERLS MGFALSIDDFGTGYSSLAYLK LPVDELKIDKSFVMKMAQD Sbjct: 660 SAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKIDKSFVMKMAQD 719 Query: 721 QDDAKIVRSTIDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPVEHFLEW 780 QDDAKIVRST+DLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPV+HFL W Sbjct: 720 QDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPVQHFLAW 779 Query: 781 RQQWRVPHRSALSGNL 796 R+QWR P S N+ Sbjct: 780 REQWRAPDMLDQSENM 795 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 330 bits (847), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 195/455 (42%), Positives = 265/455 (58%), Gaps = 11/455 (2%) Query: 333 DEIGRLGAAFETMRSEIANR---ELKISRLAYQDHLTGLPNRVQFADLLKEAIAQVQRSG 389 DE G+L + +E I R E ++ A D LTGLPNR + L+ A+ +V R Sbjct: 237 DEAGKL-SCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRAL-RVARQK 294 Query: 390 GGSCYILMMDLDRFQQVNDVLGHSFGDDLLRQVALRLSGQLLHAGAKMARLGGDEFAILL 449 G + +DLD+F+ +ND LGH GD+LL+ VA RL L A +AR GGDEF ++L Sbjct: 295 GALTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADM-VARQGGDEFVLVL 353 Query: 450 P-EVDLDGALAQATH-ILRVLEQPLSLQEQTMDLGAGIGVAGYPAHGQTSGELLSRAEVA 507 + + + +A+ IL + +P ++ + A IGV+ YPA G+ LL A+ A Sbjct: 354 QNQTEGEAGIAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADSA 413 Query: 508 MYTAKRKG-SGVVIYDPAIDQSSQESLSLLSELRRALERDEFMLYLQPKLELGTGAVIGA 566 MY AK +G + + P +D L +L LRRAL++DEF LY QPKL L G +IGA Sbjct: 414 MYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGA 473 Query: 567 EALVRWVHPEKGFVGPDNFIPFAETTGFIRMLTLWMMEKVAGLSAQLQAQGLS-LKFSVN 625 EAL+RW P++G V PD FIPFAE G I + W++ + Q GL + +VN Sbjct: 474 EALIRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVN 533 Query: 626 LSTRDLLDQELPVAFAAILERHRLTPDALCLEITESAIMDDPGRAQNTLERLSAMGFALS 685 LS R L +Q LP A +L + L L LEITE+ +M D ++ TL L +G +S Sbjct: 534 LSPRQL-NQSLPDFVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQIS 592 Query: 686 IDDFGTGYSSLAYLKSLPVDELKIDKSFVMKMAQDQDDAKIVRSTIDLGHNLGLRVVAEG 745 +DDFGTGYSSL+YL+ PVD LKIDKSFV + +D D A IV++ I L H L LRV+AEG Sbjct: 593 VDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEG 652 Query: 746 VESEEVWFLLRQMGCDQGQGYFMGKPMPVEHFLEW 780 VE EE L++ CD+ QGY+ GKPM V F W Sbjct: 653 VEDEEQHAFLKENACDEVQGYYFGKPMEVAVFTAW 687 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 321 bits (823), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 191/444 (43%), Positives = 258/444 (58%), Gaps = 9/444 (2%) Query: 350 ANRELKISRLAYQDHLTGLPNRVQFADLLKEAIAQVQRSGGGSCYILMMDLDRFQQVNDV 409 AN EL +++ D LT LPNR D L +AI + R G ++ MDLD F+ +ND Sbjct: 258 ANEEL--TQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFA-LMFMDLDGFKAINDS 314 Query: 410 LGHSFGDDLLRQVALRLSGQLLHAGAKMARLGGDEFAILLPEVDLDGALAQATHILRVLE 469 LGH GD LL +VA RL+ A +ARLGGDEF IL+ + A+ A ++ + Sbjct: 315 LGHHVGDRLLVEVAQRLTSSS-RANDTVARLGGDEFVILVDLNTPEDAMGVAEKLVEAVN 373 Query: 470 QPLSLQEQTMDLGAGIGVAGYPAHGQTSGELLSRAEVAMYTAKRKG-SGVVIYDPAIDQS 528 QP + + + + A +G+A YP G T +L+ A+ AMY KR G +G ++P+++ + Sbjct: 374 QPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGYHFFEPSMNAN 433 Query: 529 SQESLSLLSELRRALERDEFMLYLQPKLELGTGAVIGAEALVRWVHPEKGFVGPDNFIPF 588 +Q+ L L +LR ALER +F L QPK L G V+GAEAL+RW HP G V PD FI Sbjct: 434 AQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGL 493 Query: 589 AETTGFIRMLTLWMMEKVAGLSAQLQAQG-LSLKFSVNLSTRDLLDQELPVAFAAILERH 647 AE +G I + W++++ + A G + SVNLS D L LERH Sbjct: 494 AERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERH 553 Query: 648 RLTPDALCLEITESAIMDDPGRAQNTLERLSAMGFALSIDDFGTGYSSLAYLKSLPVDEL 707 +L P L LE+TES M D + TL +++ +G +SIDDFGTGYSSL YLK LP +EL Sbjct: 554 QLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANEL 613 Query: 708 KIDKSFVMKMAQDQDDAKIVRSTIDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYF 767 KID+ FV ++ QD +DA IV + + LG L LR+VAEGVE+ E L GCD QGY Sbjct: 614 KIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYL 673 Query: 768 MGKPMPVEHFLEWRQQWRVPHRSA 791 MG+PM E FL Q R H+SA Sbjct: 674 MGRPMTPELFL---QTMRERHKSA 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 = 321 bits (822), Expect = 2e-88, Method: Compositional matrix adjust. Identities = 192/448 (42%), Positives = 261/448 (58%), Gaps = 13/448 (2%) Query: 344 TMRSEIANRELKISRLAYQDHLTGLPNRVQFADLLKEAIAQVQRSGGGSCYILMMDLDRF 403 +M+ A E + SR D LTGL NR L++AI +R + +++ +DLDRF Sbjct: 507 SMKRYEAELEFQASR----DTLTGLINRHMLRHHLEQAIGVAERQKQ-ALWVVFVDLDRF 561 Query: 404 QQVNDVLGHSFGDDLLRQVALRLSGQLLHAGAKMARLGGDEFAILLPEVD---LDGALAQ 460 + VND LGH GD LLR VA RL + A +ARLGGDEF ++LPE D LD Q Sbjct: 562 KFVNDTLGHKAGDTLLRTVAGRLRAAVREADT-VARLGGDEFIMILPEQDELTLDTRSLQ 620 Query: 461 ATHILRVLEQPLSLQEQTMDLGAGIGVAGYPAHGQTSGELLSRAEVAMYTAKRKG-SGVV 519 I+ + P++L T+ + +GVA YP G L+ A++AMY K+ G + Sbjct: 621 --RIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQ 678 Query: 520 IYDPAIDQSSQESLSLLSELRRALERDEFMLYLQPKLELGTGAVIGAEALVRWVHPEKGF 579 Y PA+++ + E L + +LR AL+ EF+L+ QPK++L +G VIG+EAL+RW HP+ G Sbjct: 679 FYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGM 738 Query: 580 VGPDNFIPFAETTGFIRMLTLWMMEKVAGLSAQLQAQGLS-LKFSVNLSTRDLLDQELPV 638 V P FI AE TG I + W++ Q Q G + + SVNLS L ++L Sbjct: 739 VSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVS 798 Query: 639 AFAAILERHRLTPDALCLEITESAIMDDPGRAQNTLERLSAMGFALSIDDFGTGYSSLAY 698 + A +LE L P++L LE+TES +M D A L L +G LSIDDFGTGYSSLAY Sbjct: 799 SIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAY 858 Query: 699 LKSLPVDELKIDKSFVMKMAQDQDDAKIVRSTIDLGHNLGLRVVAEGVESEEVWFLLRQM 758 LK P+D LKID+SFV + D DDA I S I L +L LRV+AEGVE++E LR Sbjct: 859 LKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHY 918 Query: 759 GCDQGQGYFMGKPMPVEHFLEWRQQWRV 786 GCD+ QGY P+P + F + +Q RV Sbjct: 919 GCDEIQGYLFSPPVPADKFEQILRQDRV 946 >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 = 304 bits (779), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 167/428 (39%), Positives = 247/428 (57%), Gaps = 5/428 (1%) Query: 355 KISRLAYQDHLTGLPNRVQFADLLKEAIAQVQRSGGGSCYILMMDLDRFQQVNDVLGHSF 414 +I LA+ D LTGLPNR + AI + G ILM DLDRF+ +ND GH Sbjct: 665 RIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILM-DLDRFKNINDTFGHET 723 Query: 415 GDDLLRQVALRLSGQLLHAGAKMARLGGDEFAILLPEVDLDGALAQ-ATHILRVLEQPLS 473 G+ +L+++A R L +AR+GGDEF +L+ + D L + A +L +P Sbjct: 724 GEAVLQEIAQRFRNSLRELDI-LARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEARKPFI 782 Query: 474 LQEQTMDLGAGIGVAGYPAHGQTSGELLSRAEVAMYTAKRKGSG-VVIYDPAIDQSSQES 532 + Q L IG+A YP G + L+ A++AMY AK G + I+ ++ E Sbjct: 783 IDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNTVER 842 Query: 533 LSLLSELRRALERDEFMLYLQPKLELGTGAVIGAEALVRWVHPEKGFVGPDNFIPFAETT 592 ++L +ELRRA+ER EF+++ QPK+EL G ++GAEALVRW HP +G + P FI AE T Sbjct: 843 IALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLAEET 902 Query: 593 GFIRMLTLWMMEKVAGLSAQLQAQGLSL-KFSVNLSTRDLLDQELPVAFAAILERHRLTP 651 I + L +++ ++ Q ++ + S+NL+ D+ L +++RH P Sbjct: 903 RLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEVVDRHGTPP 962 Query: 652 DALCLEITESAIMDDPGRAQNTLERLSAMGFALSIDDFGTGYSSLAYLKSLPVDELKIDK 711 L EITES +M + RA ++ + A GF +SIDDFGTGYSSLAYLK PV+ LKIDK Sbjct: 963 SCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLKIDK 1022 Query: 712 SFVMKMAQDQDDAKIVRSTIDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKP 771 SF+ + + + + IV++ I + H L L+VV EGVE+E+ LR+ G D+ QGY+ KP Sbjct: 1023 SFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYFSKP 1082 Query: 772 MPVEHFLE 779 +P F++ Sbjct: 1083 VPYAQFVQ 1090 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 0.320 0.136 0.382 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: 2,320,589 Number of extensions: 95272 Number of successful extensions: 555 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 459 Number of HSP's successfully gapped: 44 Length of query: 809 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 716 Effective length of database: 1,179,515 Effective search space: 844532740 Effective search space used: 844532740 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 (21.8 bits) S2: 135 (56.6 bits)