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= 0025.0182.p (765 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314042|ref|YP_003778134.1| signal transduction protein con... 359 e-100 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 354 1e-98 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 335 7e-93 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 310 3e-85 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 304 2e-83 >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 = 359 bits (921), Expect = e-100, Method: Compositional matrix adjust. Identities = 215/567 (37%), Positives = 311/567 (54%), Gaps = 21/567 (3%) Query: 187 DIRERRQAQLAIDRLNSLANAAFEGLLVCE----DNVITTANISLANLAGCSVDQLVGAN 242 DI+ RR A+ A+ + A+ +L+ D I N + A + G S + VG + Sbjct: 379 DIKARRLAERALRLRHQAIEASANAILILSAQEPDYTIEYVNPAFARITGYSSTEAVGKS 438 Query: 243 LMSIL---PDP-GAARNCLGSTSSIAFETMLQPVA--GAPFAVEAFSRPVI--YGNRQKI 294 + + DP G + +L+ G+ + + PV G Sbjct: 439 IRFLEGRDSDPEGFETVWIAMREQREHNVVLRNYHKDGSELWNDFYIAPVRDESGEVTHF 498 Query: 295 VVAIRDLRDRKKAEKDIYFLAHHDTLTGLSNRNAFNQRLQQLLEEHAPGGQHEDKCMAVL 354 V A+ D+ K+ E ++ F A DTLTGL NR+ L+Q + + + + + V+ Sbjct: 499 VAALYDITSMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAI----GVAERQKQALWVV 554 Query: 355 CLDLDRFKEVNDLFGHAAGDKLLQTVAYTAKLVLRQGQMMARLGGDEFAIIAPGLGDPKQ 414 +DLDRFK VND GH AGD LL+TVA + +R+ +ARLGGDEF +I P + Sbjct: 555 FVDLDRFKFVNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDELTL 614 Query: 415 AGRIAQELINAFKAENQRVSTSSAMISASIGIAVFPNDAGDDTSLMSCADTALYRAKSDG 474 R Q +++A A + + ++ S+G+A +PND D +L+ AD A+YR K G Sbjct: 615 DTRSLQRIMDAVAAPVT-LGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTG 673 Query: 475 RGVYRFFEEAMGEQVRDRRKIEHDLRFAITRNELSLVYQPLAQIIGREVLGFEALLRWQH 534 R ++F+ AM EQ +R +IE DLR A+ E L YQP + V+G EAL+RWQH Sbjct: 674 RNNFQFYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQH 733 Query: 535 PERGNVPPGVFIPIAEECNLILHIGEWVLREACQQAATWN----NPLSLSVNVSAAQLHS 590 P+ G V P FI +AEE LIL IG WVLR AC Q W +S+SVN+S Q Sbjct: 734 PQLGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQ 793 Query: 591 PGFVQSVGDILAQTGLHASRLELEITETALIRDPGRALTMLRQLKELGVRIAMDDFGTGY 650 V S+ D+L TGL LELE+TE+ ++ D A+ +L LK+LGVR+++DDFGTGY Sbjct: 794 KDLVSSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGY 853 Query: 651 SSLSNLRAFPFDKIKIDQSFIKSVNVNKQAAAIVRAVLGLGRGLELPVIAEGVETEEELA 710 SSL+ L+ FP D +KID+SF++ + ++ AAI +++ L R L+L VIAEGVET+E+L Sbjct: 854 SSLAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLD 913 Query: 711 FLRAESCQEAQGYLLGPPQSIGVFRHL 737 +LR C E QGYL PP F + Sbjct: 914 YLRHYGCDEIQGYLFSPPVPADKFEQI 940 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 354 bits (909), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 224/576 (38%), Positives = 321/576 (55%), Gaps = 34/576 (5%) Query: 183 GFALDIRERRQA----QLAIDRLNSLANAAFEGLL-VCEDNVITTANISLANLAGCSV-- 235 GF D+ ER++A Q A R S+ A EG+ D N +LA + G Sbjct: 119 GFLQDVTERKEAAQALQEAERRYRSIFENAIEGVFQTTPDGTYIAVNPALARIYGYHSPE 178 Query: 236 DQLVGANLMS--ILPDPGAARNCL------GSTSSIAFETMLQPVAGAPFAVEAFSRPVI 287 D +VG +S + +P + + GS S+ FE+ + G + +R V Sbjct: 179 DLIVGLRDISHQLYVEPERRQEFMRLMEEQGSVSN--FESRVYRRDGEIIWISENARAV- 235 Query: 288 YGNRQKIVV---AIRDLRDRKKAEKDIYFLAHHDTLTGLSNRNAFNQRLQQLLEEHAPGG 344 Y K+ + + +RK E ++ A HD LTGL NRN ++ LQ+ L G Sbjct: 236 YDEAGKLSCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKG 295 Query: 345 QHEDKCMAVLCLDLDRFKEVNDLFGHAAGDKLLQTVAYTAKLVLRQGQMMARLGGDEFAI 404 AV +DLD+FK +ND GH GD+LL+TVA + LR+ M+AR GGDEF + Sbjct: 296 ----ALTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVL 351 Query: 405 IAPGLGDPKQAGRIAQELINAFKAENQRVSTSSAMISASIGIAVFPNDAGDDTSLMSCAD 464 + + + + I A A + ++ASIG++ +P D D SL+ AD Sbjct: 352 VLQNQTEGEAGIAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHAD 411 Query: 465 TALYRAKSDGRGVYRFFEEAMGEQVRDRRKIEHDLRFAITRNELSLVYQPLAQIIGREVL 524 +A+YRAK GR ++FF M QV +R ++ +LR A+ ++E L YQP + ++ Sbjct: 412 SAMYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLI 471 Query: 525 GFEALLRWQHPERGNVPPGVFIPIAEECNLILHIGEWVLREACQQAATWNN----PLSLS 580 G EAL+RW+ P++G VPP FIP AEE LI+ IGEWVLR AC+Q W P+ ++ Sbjct: 472 GAEALIRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVA 531 Query: 581 VNVSAAQLHS--PGFVQSVGDILAQTGLHASRLELEITETALIRDPGRALTMLRQLKELG 638 VN+S QL+ P FV V LAQ+GL AS LELEITE +++D +++ L LK LG Sbjct: 532 VNLSPRQLNQSLPDFVAGV---LAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLG 588 Query: 639 VRIAMDDFGTGYSSLSNLRAFPFDKIKIDQSFIKSVNVNKQAAAIVRAVLGLGRGLELPV 698 ++I++DDFGTGYSSLS LR FP D +KID+SF++ + + +AAIV+A++ L L L V Sbjct: 589 LQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRV 648 Query: 699 IAEGVETEEELAFLRAESCQEAQGYLLGPPQSIGVF 734 IAEGVE EE+ AFL+ +C E QGY G P + VF Sbjct: 649 IAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVAVF 684 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 335 bits (859), Expect = 7e-93, Method: Compositional matrix adjust. Identities = 219/578 (37%), Positives = 314/578 (54%), Gaps = 33/578 (5%) Query: 181 FAGF---ALDIRERRQAQLAIDRLNSLANAAFEGLLVCEDNV-ITTANISLANLAGCSVD 236 F GF + DI +R+Q + + R++++A + EG+L+ + N I N + + G S + Sbjct: 454 FTGFRTSSRDITDRKQIEAEL-RISAVAFDSREGMLITDANSKILRVNKAFTEITGYSAE 512 Query: 237 QLVGAN---LMSILPDPG---AARNCLGSTSSIAFETMLQPVAGAPFAVEAFSRPVIYGN 290 ++VG + L S P R + E + G + E + + Sbjct: 513 EIVGKHPNLLRSDRHGPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYP-EWLTISAVKNK 571 Query: 291 RQKI---VVAIRDLRDRKKAEKDIYFLAHHDTLTGLSNRNAFNQRLQQLLEEHAPGGQHE 347 Q++ V D+ DRK AE+ I LA D LT L NR RL+Q + Sbjct: 572 DQQVTHYVSTHHDISDRKLAEERIRELAFFDALTRLPNRTLLLDRLKQAI----ALSLRT 627 Query: 348 DKCMAVLCLDLDRFKEVNDLFGHAAGDKLLQTVAYTAKLVLRQGQMMARLGGDEFAIIAP 407 C A+L +DLD FK +ND GH GD LL+ VA +R+ +AR+GGDEF ++ Sbjct: 628 KTCAALLFIDLDHFKTLNDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVVVLE 687 Query: 408 GLGDPKQAGR-----IAQELINAFKAENQRVSTSSAMISASIGIAVFPNDAGDDTSLMSC 462 GL + +Q I ++++ A + Q + +ASIG VF A LM Sbjct: 688 GLNELQQEAATQTRAIGEKILTALGSTYQ-LDDVEYRTTASIGATVFLGRAASVDELMKQ 746 Query: 463 ADTALYRAKSDGRGVYRFFEEAMGEQVRDRRKIEHDLRFAITRNELSLVYQPLAQII-GR 521 AD A+Y+AK GR RFF+ AM V +R +E LR AI N+L L YQP Q++ G Sbjct: 747 ADLAMYKAKETGRNALRFFDPAMQTAVLERATLEAGLRKAIDGNQLLLHYQP--QVVEGG 804 Query: 522 EVLGFEALLRWQHPERGNVPPGVFIPIAEECNLILHIGEWVLREACQQAATWN-NP---- 576 V G E L+RWQHP+RG VPPG FIP+AEE LIL +G WVL AC+Q ATW P Sbjct: 805 RVTGAEVLVRWQHPQRGMVPPGDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQMAD 864 Query: 577 LSLSVNVSAAQLHSPGFVQSVGDILAQTGLHASRLELEITETALIRDPGRALTMLRQLKE 636 LS++VNVSA QL P FVQ+V D + +TG + RL+LE+TE+ L+ + + + LK Sbjct: 865 LSIAVNVSAPQLREPDFVQTVLDTIERTGANPRRLKLELTESLLVDNVEDIIQKMFALKA 924 Query: 637 LGVRIAMDDFGTGYSSLSNLRAFPFDKIKIDQSFIKSVNVNKQAAAIVRAVLGLGRGLEL 696 GV ++DDFGTGYSSLS L+ P +++KIDQSF++ V ++ A+I + ++ L + L L Sbjct: 925 YGVEFSLDDFGTGYSSLSYLKRLPLNQLKIDQSFVRDVLIDPNDASIAKTIVNLAQSLGL 984 Query: 697 PVIAEGVETEEELAFLRAESCQEAQGYLLGPPQSIGVF 734 VIAEGVET+ + +FL C QGY P ++ F Sbjct: 985 GVIAEGVETDAQRSFLADAGCHAYQGYFFCRPVTVEAF 1022 >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 = 310 bits (794), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 172/440 (39%), Positives = 256/440 (58%), Gaps = 15/440 (3%) Query: 305 KKAEKDIYFLAHHDTLTGLSNRNAFNQRLQQLLEEHAPGGQHEDKCMAVLCLDLDRFKEV 364 ++A++ I LAH+D LTGL NR Q + + HA +H + +AV+ +DLDRFK + Sbjct: 660 RRADERIRHLAHYDELTGLPNRFLCTQHVSNAIT-HA---EHRNGMVAVILMDLDRFKNI 715 Query: 365 NDLFGHAAGDKLLQTVAYTAKLVLRQGQMMARLGGDEFAIIAPGLGDPKQAGRIAQELIN 424 ND FGH G+ +LQ +A + LR+ ++AR+GGDEF ++ DP Q G IAQ+L+ Sbjct: 716 NDTFGHETGEAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLT 775 Query: 425 AFKAENQRVSTSSAMISASIGIAVFPNDAGDDTSLMSCADTALYRAKSDGRGVYRFFEEA 484 + + AM+S SIGIA +P D + +L+ AD A+YRAK G+ YRFF + Sbjct: 776 EARKPFI-IDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDE 834 Query: 485 MGEQVRDRRKIEHDLRFAITRNELSLVYQPLAQIIGREVLGFEALLRWQHPERGNVPPGV 544 + +R +E +LR AI R E + YQP ++ ++G EAL+RWQHP RG +PPG Sbjct: 835 INTNTVERIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGE 894 Query: 545 FIPIAEECNLILHIGEWVLREAC-------QQAATWNNPLSLSVNVSAAQLHSPGFVQSV 597 FI +AEE LI IG VL AC QQ T +S+N++ +Q + + Sbjct: 895 FITLAEETRLIDQIGLLVLDVACRDIGLMRQQQMTCGR---ISINLTGSQFGDERLLDDI 951 Query: 598 GDILAQTGLHASRLELEITETALIRDPGRALTMLRQLKELGVRIAMDDFGTGYSSLSNLR 657 +++ + G S LE EITE+ ++ + RA+ ++ ++ G I++DDFGTGYSSL+ L+ Sbjct: 952 KEVVDRHGTPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLK 1011 Query: 658 AFPFDKIKIDQSFIKSVNVNKQAAAIVRAVLGLGRGLELPVIAEGVETEEELAFLRAESC 717 FP + +KID+SFI + N ++AIV+A++ + L L V+ EGVETE++L LR Sbjct: 1012 RFPVNTLKIDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGS 1071 Query: 718 QEAQGYLLGPPQSIGVFRHL 737 E QGY P F L Sbjct: 1072 DEYQGYYFSKPVPYAQFVQL 1091 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 304 bits (778), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 177/442 (40%), Positives = 257/442 (58%), Gaps = 14/442 (3%) Query: 294 IVVAIRDLRDRKKAEKDIYFLAHHDTLTGLSNRNAFNQRLQQLLEEHAPGGQHEDKCMAV 353 ++ + D+ +RK AEK I+ LA++D LTGL NR + + Q LEE +HE+ V Sbjct: 223 LIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEE----ARHENLHGCV 278 Query: 354 LCLDLDRFKEVNDLFGHAAGDKLLQTVAYTAKLVLRQGQMMARLGGDEFAIIAPGLGDPK 413 + +DL+RFK +ND GH AGD LL VA + LR+ ++ARLG DEFA+ G+ D Sbjct: 279 MFIDLNRFKPINDTLGHVAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGI-DKD 337 Query: 414 QAGRIAQELINAFKAENQRVSTSSAMISASIGIAVFPNDAGDDTSLMSCADTALYRAKSD 473 +AQ+L+ F + + + ASIG++++P +A D +L+ AD A+YRAK Sbjct: 338 SPAYVAQKLLALFD-DPFFIDGHELRVGASIGVSLYPENATDTETLLRLADIAMYRAKQG 396 Query: 474 GR---GVYRFFEEAMGEQVRDRRKIEHDLRFAITRNELSLVYQPLAQIIGREVLGFEALL 530 G G Y + E M D +IE L A NEL L YQP + + G EAL+ Sbjct: 397 GENNEGGYACYSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMQTLAITGAEALV 456 Query: 531 RWQHPERGNVPPGVFIPIAEECNLILHIGEWVLREACQQAATWNN----PLSLSVNVSAA 586 RWQHPERG + PG FIPIAEE LI+ + +WVL C+QA W + P+ +++NV+A Sbjct: 457 RWQHPERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTAR 516 Query: 587 QLHSPGFVQSVGDILAQTGLHASRLELEITETALIRDPGRALTMLRQLKELGVRIAMDDF 646 + + VG L + L LELEITE+ L+ R ++++ ++ LG+ +++DDF Sbjct: 517 EF-TRSLPDRVGAALERHMLSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLDDF 575 Query: 647 GTGYSSLSNLRAFPFDKIKIDQSFIKSVNVNKQAAAIVRAVLGLGRGLELPVIAEGVETE 706 GTGYSSLS L+ FP + +KID+SF + + AI A++G+ + L VIAEGVE E Sbjct: 576 GTGYSSLSYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVEDE 635 Query: 707 EELAFLRAESCQEAQGYLLGPP 728 ++ FLR C E QGY+ P Sbjct: 636 KQFNFLREAGCNELQGYIFSRP 657 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 0.397 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: 2,215,892 Number of extensions: 88738 Number of successful extensions: 462 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 358 Number of HSP's successfully gapped: 46 Length of query: 765 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 672 Effective length of database: 1,179,515 Effective search space: 792634080 Effective search space used: 792634080 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)