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= 0001.1990.p (697 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311453|ref|YP_003775545.1| signal transduction containing ... 1217 0.0 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 436 e-123 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 420 e-118 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 412 e-116 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 375 e-105 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 1217 bits (3149), Expect = 0.0, Method: Compositional matrix adjust. Identities = 603/683 (88%), Positives = 636/683 (93%), Gaps = 8/683 (1%) Query: 1 MISSVGSDDLACCSALLDATQNLQGMALHAALGGIASGFLKRPGGRYMVNLPPESGGDGN 60 M+SSVG+DDLACCSALL+A QNL GMALHAALGGIASG LKRPGGRY++ G Sbjct: 1 MLSSVGTDDLACCSALLEAMQNLHGMALHAALGGIASGLLKRPGGRYVI-------GASA 53 Query: 61 TSANGLCQAVQFESTQFGYFVFPPLTRPYTDQERSRLALLASFLGRLMQRRADSDKRSRA 120 GLCQ VQ E FG+FVFPPLTRPY+DQER RLA+LA+FLGRLMQ RAD+++R RA Sbjct: 54 PVEGGLCQPVQCEGALFGHFVFPPLTRPYSDQERQRLAMLAAFLGRLMQGRADTEQRVRA 113 Query: 121 LDQIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGYTSLEAIGRNVLFLYEN 180 LDQIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGY+++EAIGRNVLFLYEN Sbjct: 114 LDQIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGYSAMEAIGRNVLFLYEN 173 Query: 181 EEEEDAMHALFLEHGSREIEVRRRKKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITER 240 E+EED++H LFLEHG RE+EVRRRKKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITER Sbjct: 174 EDEEDSLHDLFLEHGGREMEVRRRKKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITER 233 Query: 241 KNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALTAAQHENLQGCVMFIDLNRFKPINDTL 300 KNAEKLIHHLAYYDALTGLPNRTLLTRTVDQAL A+HENL GCVMFIDLNRFKPINDTL Sbjct: 234 KNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHGCVMFIDLNRFKPINDTL 293 Query: 301 GHVAGDMLLVEVAIRLRRALREQDVVARLGADEFAVALFDIDKDHHPGYVAQKLLSLFDE 360 GHVAGDMLLVEVA+RLRRALREQDVVARLGADEFAVALF IDKD P YVAQKLL+LFD+ Sbjct: 294 GHVAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGIDKDS-PAYVAQKLLALFDD 352 Query: 361 PFFIDGHELRVGASIGVSMYPEDASDTETLLRLADIAMYRAKQGGDNNEGGYVYYSEEMN 420 PFFIDGHELRVGASIGVS+YPE+A+DTETLLRLADIAMYRAKQGG+NNEGGY YSEEMN Sbjct: 353 PFFIDGHELRVGASIGVSLYPENATDTETLLRLADIAMYRAKQGGENNEGGYACYSEEMN 412 Query: 421 RNTLDLLRIETGLLHAFEYNELLLYYQPKVDMNTLAITGGEALVRWQHPERGLLLPGEFI 480 RNTLDLLRIETGLLHAFEYNELLLYYQPKVDM TLAITG EALVRWQHPERGLLLPGEFI Sbjct: 413 RNTLDLLRIETGLLHAFEYNELLLYYQPKVDMQTLAITGAEALVRWQHPERGLLLPGEFI 472 Query: 481 PIAEETGLIVQLSDWVLDAVCRQARAWKEAGLAPIRIALNVTAREFTRSLPDRVRAALNR 540 PIAEETGLIVQLSDWVLDAVCRQARAWK+AGL PIRIALNVTAREFTRSLPDRV AAL R Sbjct: 473 PIAEETGLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTAREFTRSLPDRVGAALER 532 Query: 541 HALSGDWLEIEITESMLMHSTDRVISIMEKICSLGITISLDDFGTGYSSLSYLKRFPINT 600 H LSG+WLE+EITESMLMHSTDRVISIMEKIC LGIT+SLDDFGTGYSSLSYLKRFPINT Sbjct: 533 HMLSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLDDFGTGYSSLSYLKRFPINT 592 Query: 601 LKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVETEKQFNFLREAGCNELQGF 660 LKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVE EKQFNFLREAGCNELQG+ Sbjct: 593 LKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVEDEKQFNFLREAGCNELQGY 652 Query: 661 LFSCPVPADDFHAMLLEGRKLNL 683 +FS PVPA DFHAMLLEGRKL L Sbjct: 653 IFSRPVPAPDFHAMLLEGRKLAL 675 >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 = 436 bits (1120), Expect = e-123, Method: Compositional matrix adjust. Identities = 234/575 (40%), Positives = 347/575 (60%), Gaps = 12/575 (2%) Query: 115 DKRSRALDQIEAKLEQQAQILNQMHESVITM---DPAGFITSWNRGAEQLFGYTSLEAIG 171 D ++R L + +L QA + +++ + +P I N ++ GY+S EA+G Sbjct: 379 DIKARRLAERALRLRHQA--IEASANAILILSAQEPDYTIEYVNPAFARITGYSSTEAVG 436 Query: 172 RNVLFLYENEEEEDAMHALFL---EHGSREIEVRRRKKSGEVFWASLSLSVMRDQNGHPI 228 +++ FL + + + +++ E + +R K G W ++ +RD++G Sbjct: 437 KSIRFLEGRDSDPEGFETVWIAMREQREHNVVLRNYHKDGSELWNDFYIAPVRDESGEVT 496 Query: 229 GLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALTAAQHENLQGCVMFI 288 + L DIT K E + A D LTGL NR +L ++QA+ A+ + V+F+ Sbjct: 497 HFVAALYDITSMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFV 556 Query: 289 DLNRFKPINDTLGHVAGDMLLVEVAIRLRRALREQDVVARLGADEFAVALFDIDKDHHPG 348 DL+RFK +NDTLGH AGD LL VA RLR A+RE D VARLG DEF + L + D+ Sbjct: 557 DLDRFKFVNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDT 616 Query: 349 YVAQKLLSLFDEPFFIDGHELRVGASIGVSMYPEDASDTETLLRLADIAMYRAKQGGDNN 408 Q+++ P + GH L + S+GV+ YP D +D ETL++ ADIAMYR KQ G NN Sbjct: 617 RSLQRIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNN 676 Query: 409 EGGYVYYSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMNTLAITGGEALVRWQH 468 + +Y+ MN L+ LRIE L +A ++ E LL+YQPKVD+ + + G EAL+RWQH Sbjct: 677 ---FQFYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQH 733 Query: 469 PERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKEAGLAPIRIALNVTAREF-T 527 P+ G++ P FI +AEETGLI+ + WVL A C Q R W+ G A I +++N++ +F Sbjct: 734 PQLGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQ 793 Query: 528 RSLPDRVRAALNRHALSGDWLEIEITESMLMHSTDRVISIMEKICSLGITISLDDFGTGY 587 + L + L L + LE+E+TES++M + I I+ + LG+ +S+DDFGTGY Sbjct: 794 KDLVSSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGY 853 Query: 588 SSLSYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVETEKQFN 647 SSL+YLKRFPI+ LKIDRSF I D +D AI ++II +A+ L+ +VIAEGVET++Q + Sbjct: 854 SSLAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLD 913 Query: 648 FLREAGCNELQGFLFSCPVPADDFHAMLLEGRKLN 682 +LR GC+E+QG+LFS PVPAD F +L + R + Sbjct: 914 YLRHYGCDEIQGYLFSPPVPADKFEQILRQDRVMT 948 >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 = 420 bits (1080), Expect = e-118, Method: Compositional matrix adjust. Identities = 217/438 (49%), Positives = 291/438 (66%), Gaps = 4/438 (0%) Query: 239 ERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALTAAQHENLQGCVMFIDLNRFKPIND 298 E + A++ I HLA+YD LTGLPNR L T+ V A+T A+H N V+ +DL+RFK IND Sbjct: 658 ESRRADERIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNIND 717 Query: 299 TLGHVAGDMLLVEVAIRLRRALREQDVVARLGADEFAVALFDIDKDHHPGYVAQKLLSLF 358 T GH G+ +L E+A R R +LRE D++AR+G DEF V + D D G +AQKLL+ Sbjct: 718 TFGHETGEAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEA 777 Query: 359 DEPFFIDGHELRVGASIGVSMYPEDASDTETLLRLADIAMYRAKQGGDNNEGGYVYYSEE 418 +PF IDG E + SIG++ YP D + +TL++ ADIAMYRAK G ++ Y ++S+E Sbjct: 778 RKPFIIDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDD---YRFFSDE 834 Query: 419 MNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMNTLAITGGEALVRWQHPERGLLLPGE 478 +N NT++ + +E L A E E +++YQPK+++ I G EALVRWQHP RGLL PGE Sbjct: 835 INTNTVERIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGE 894 Query: 479 FIPIAEETGLIVQLSDWVLDAVCRQARAWKEAGLAPIRIALNVTAREF-TRSLPDRVRAA 537 FI +AEET LI Q+ VLD CR ++ + RI++N+T +F L D ++ Sbjct: 895 FITLAEETRLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEV 954 Query: 538 LNRHALSGDWLEIEITESMLMHSTDRVISIMEKICSLGITISLDDFGTGYSSLSYLKRFP 597 ++RH LE EITESM+MH+ +R I+IM+ I + G TIS+DDFGTGYSSL+YLKRFP Sbjct: 955 VDRHGTPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFP 1014 Query: 598 INTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVETEKQFNFLREAGCNEL 657 +NTLKID+SF IPD+ N AI AII ++ L KV+ EGVETEKQ LRE G +E Sbjct: 1015 VNTLKIDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEY 1074 Query: 658 QGFLFSCPVPADDFHAML 675 QG+ FS PVP F +L Sbjct: 1075 QGYYFSKPVPYAQFVQLL 1092 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 412 bits (1059), Expect = e-116, Method: Compositional matrix adjust. Identities = 231/571 (40%), Positives = 331/571 (57%), Gaps = 9/571 (1%) Query: 113 DSDKRSRALDQIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGYTSLE--AI 170 D +R A ++ + I E V P G + N +++GY S E + Sbjct: 123 DVTERKEAAQALQEAERRYRSIFENAIEGVFQTTPDGTYIAVNPALARIYGYHSPEDLIV 182 Query: 171 G-RNVLF-LYENEEEEDAMHALFLEHGS-REIEVRRRKKSGEVFWASLSLSVMRDQNGHP 227 G R++ LY E L E GS E R ++ GE+ W S + + D+ G Sbjct: 183 GLRDISHQLYVEPERRQEFMRLMEEQGSVSNFESRVYRRDGEIIWISENARAVYDEAGKL 242 Query: 228 IGLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALTAAQHENLQGCVMF 287 G + ITERK E + H A +DALTGLPNR +L + +AL A+ + V F Sbjct: 243 SCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAF 302 Query: 288 IDLNRFKPINDTLGHVAGDMLLVEVAIRLRRALREQDVVARLGADEFAVALFD-IDKDHH 346 +DL++FK IND+LGH GD LL VA RL+ LRE D+VAR G DEF + L + + + Sbjct: 303 VDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAG 362 Query: 347 PGYVAQKLLSLFDEPFFIDGHELRVGASIGVSMYPEDASDTETLLRLADIAMYRAKQGGD 406 V Q++L+ P+ E +V ASIGVS YP D D E+LL+ AD AMYRAK+ G Sbjct: 363 IAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGR 422 Query: 407 NNEGGYVYYSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMNTLAITGGEALVRW 466 NN + +++ M+ + L + L A + +E LYYQPK+ + + G EAL+RW Sbjct: 423 NN---FQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRW 479 Query: 467 QHPERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKEAGLAPIRIALNVTAREF 526 + P++G++ P FIP AEE GLIV + +WVL CRQ +AW++AGL PI +A+N++ R+ Sbjct: 480 ESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQL 539 Query: 527 TRSLPDRVRAALNRHALSGDWLEIEITESMLMHSTDRVISIMEKICSLGITISLDDFGTG 586 +SLPD V L + L+ WLE+EITE+++M ++ ++ + + LG+ IS+DDFGTG Sbjct: 540 NQSLPDFVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTG 599 Query: 587 YSSLSYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVETEKQF 646 YSSLSYL+RFP++ LKID+SF I D + AI AII +A L +VIAEGVE E+Q Sbjct: 600 YSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQH 659 Query: 647 NFLREAGCNELQGFLFSCPVPADDFHAMLLE 677 FL+E C+E+QG+ F P+ F A + E Sbjct: 660 AFLKENACDEVQGYYFGKPMEVAVFTAWMSE 690 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 375 bits (963), Expect = e-105, Method: Compositional matrix adjust. Identities = 218/567 (38%), Positives = 331/567 (58%), Gaps = 19/567 (3%) Query: 123 QIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGYTSLEAIGRNVLFLYENEE 182 QIEA+L A + E ++ D I N+ ++ GY++ E +G++ L + Sbjct: 469 QIEAELRISAVAFDS-REGMLITDANSKILRVNKAFTEITGYSAEEIVGKHPNLLRSDRH 527 Query: 183 EE---DAMHALFLEHGSREIEVRRRKKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITE 239 M G + E+ R+K+GEV+ L++S +++++ + +DI++ Sbjct: 528 GPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYPEWLTISAVKNKDQQVTHYVSTHHDISD 587 Query: 240 RKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALTAAQHENLQGCVMFIDLNRFKPINDT 299 RK AE+ I LA++DALT LPNRTLL + QA+ + ++FIDL+ FK +NDT Sbjct: 588 RKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIALSLRTKTCAALLFIDLDHFKTLNDT 647 Query: 300 LGHVAGDMLLVEVAIRLRRALREQDVVARLGADEFAVALFDIDKDHHPGY-----VAQKL 354 +GH GD LL +VA RL +RE D VAR+G DEF V L +++ + +K+ Sbjct: 648 IGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVVVLEGLNELQQEAATQTRAIGEKI 707 Query: 355 LSLFDEPFFIDGHELRVGASIGVSMYPEDASDTETLLRLADIAMYRAKQGGDNNEGGYVY 414 L+ + +D E R ASIG +++ A+ + L++ AD+AMY+AK+ G N + Sbjct: 708 LTALGSTYQLDDVEYRTTASIGATVFLGRAASVDELMKQADLAMYKAKETGRN---ALRF 764 Query: 415 YSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMNTLAITGGEALVRWQHPERGLL 474 + M L+ +E GL A + N+LLL+YQP+V + +TG E LVRWQHP+RG++ Sbjct: 765 FDPAMQTAVLERATLEAGLRKAIDGNQLLLHYQPQV-VEGGRVTGAEVLVRWQHPQRGMV 823 Query: 475 LPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWK-EAGLAPIRIALNVTAREFTRSLPDR 533 PG+FIP+AEETGLI+ L +WVL+ CRQ W + +A + IA+NV+A + PD Sbjct: 824 PPGDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQMADLSIAVNVSAPQLRE--PDF 881 Query: 534 VRAALN---RHALSGDWLEIEITESMLMHSTDRVISIMEKICSLGITISLDDFGTGYSSL 590 V+ L+ R + L++E+TES+L+ + + +I M + + G+ SLDDFGTGYSSL Sbjct: 882 VQTVLDTIERTGANPRRLKLELTESLLVDNVEDIIQKMFALKAYGVEFSLDDFGTGYSSL 941 Query: 591 SYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVETEKQFNFLR 650 SYLKR P+N LKID+SF + D ND +IA I+ +A+ L VIAEGVET+ Q +FL Sbjct: 942 SYLKRLPLNQLKIDQSFVRDVLIDPNDASIAKTIVNLAQSLGLGVIAEGVETDAQRSFLA 1001 Query: 651 EAGCNELQGFLFSCPVPADDFHAMLLE 677 +AGC+ QG+ F PV + F E Sbjct: 1002 DAGCHAYQGYFFCRPVTVEAFEKFAQE 1028 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 0.137 0.403 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: 2,244,383 Number of extensions: 97036 Number of successful extensions: 408 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 337 Number of HSP's successfully gapped: 44 Length of query: 697 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 605 Effective length of database: 1,184,250 Effective search space: 716471250 Effective search space used: 716471250 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: 134 (56.2 bits)