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= 0229.0043.p (392 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312026|ref|YP_003776118.1| signal transduction protein con... 618 e-178 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 388 e-109 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 352 3e-98 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 350 1e-97 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 330 1e-91 >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 = 618 bits (1593), Expect = e-178, Method: Compositional matrix adjust. Identities = 302/386 (78%), Positives = 334/386 (86%) Query: 1 MDLDRFKNINDTFGHETGEALLSEIALRFRHCLRELDILARVGGDEFIVLVDDYDDPLQL 60 MDLDRFKNINDTFGHETGEA+L EIA RFR+ LRELDILARVGGDEFIVLVDD+DDP+QL Sbjct: 707 MDLDRFKNINDTFGHETGEAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQL 766 Query: 61 GEIAQKLLSVARKPFDISGHECQLSTSIGIATYPTDGANAQTLIKNADIAMYRAKHNGKD 120 GEIAQKLL+ ARKPF I G E LS SIGIATYP DG NAQTLIKNADIAMYRAKH+GKD Sbjct: 767 GEIAQKLLTEARKPFIIDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKD 826 Query: 121 DYRFYSDEVNTHTVERIALETELRRAIERREFVVHYQPKVELTSSRIVGAEALVRWQHPV 180 DYRF+SDE+NT+TVERIALE ELRRAIER EFVVHYQPK+EL RIVGAEALVRWQHP+ Sbjct: 827 DYRFFSDEINTNTVERIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPL 886 Query: 181 RGLLPPAEFIGLAEEAGLIDQIGLLVLDSACADIAKLNRLGLPFGRIAINLAGSQFNDDN 240 RGLLPP EFI LAEE LIDQIGLLVLD AC DI + + + GRI+INL GSQF D+ Sbjct: 887 RGLLPPGEFITLAEETRLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDER 946 Query: 241 LLADIQRVVQARGVSSASLEFEITESMVMHNREQAIAIMDGIRALGFTISIDDFGTGYSS 300 LL DI+ VV G + LEFEITESMVMHNRE+AIAIMDGIRA GFTISIDDFGTGYSS Sbjct: 947 LLDDIKEVVDRHGTPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSS 1006 Query: 301 LAYLKRFPVDNVKIDRSFITDIPHDANGSAIVQAIIAMAHALKLKVVTEGVETEVQLQAL 360 LAYLKRFPV+ +KID+SFI DIP + N SAIVQAIIAM+HAL LKVVTEGVETE QLQAL Sbjct: 1007 LAYLKRFPVNTLKIDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQAL 1066 Query: 361 QVFGSDEYQGYFFSRPIPHEKFVEML 386 + FGSDEYQGY+FS+P+P+ +FV++L Sbjct: 1067 REFGSDEYQGYYFSKPVPYAQFVQLL 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 = 388 bits (996), Expect = e-109, Method: Compositional matrix adjust. Identities = 185/388 (47%), Positives = 270/388 (69%) Query: 1 MDLDRFKNINDTFGHETGEALLSEIALRFRHCLRELDILARVGGDEFIVLVDDYDDPLQL 60 +DLDRFK +NDT GH+ G+ LL +A R R +RE D +AR+GGDEFI+++ + D+ Sbjct: 556 VDLDRFKFVNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLD 615 Query: 61 GEIAQKLLSVARKPFDISGHECQLSTSIGIATYPTDGANAQTLIKNADIAMYRAKHNGKD 120 Q+++ P + GH ++ S+G+A YP DG + +TLIK+ADIAMYR K G++ Sbjct: 616 TRSLQRIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRN 675 Query: 121 DYRFYSDEVNTHTVERIALETELRRAIERREFVVHYQPKVELTSSRIVGAEALVRWQHPV 180 +++FY+ +N +ER+ +E +LR A++ EF++HYQPKV+L S R++G+EAL+RWQHP Sbjct: 676 NFQFYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQ 735 Query: 181 RGLLPPAEFIGLAEEAGLIDQIGLLVLDSACADIAKLNRLGLPFGRIAINLAGSQFNDDN 240 G++ PA FIGLAEE GLI IG VL +AC + G +++NL+ QF + Sbjct: 736 LGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKD 795 Query: 241 LLADIQRVVQARGVSSASLEFEITESMVMHNREQAIAIMDGIRALGFTISIDDFGTGYSS 300 L++ I V++ G+ SLE E+TES++M + E AI I+ G++ LG +SIDDFGTGYSS Sbjct: 796 LVSSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSS 855 Query: 301 LAYLKRFPVDNVKIDRSFITDIPHDANGSAIVQAIIAMAHALKLKVVTEGVETEVQLQAL 360 LAYLKRFP+D +KIDRSF+ DI DA+ +AI +II++A LKL+V+ EGVET+ QL L Sbjct: 856 LAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYL 915 Query: 361 QVFGSDEYQGYFFSRPIPHEKFVEMLQR 388 + +G DE QGY FS P+P +KF ++L++ Sbjct: 916 RHYGCDEIQGYLFSPPVPADKFEQILRQ 943 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 352 bits (903), Expect = 3e-98, Method: Compositional matrix adjust. Identities = 169/378 (44%), Positives = 260/378 (68%), Gaps = 2/378 (0%) Query: 1 MDLDRFKNINDTFGHETGEALLSEIALRFRHCLRELDILARVGGDEFI-VLVDDYDDPLQ 59 +DLD+FK IND+ GH+ G+ LL +A R + CLRE D++AR GGDEF+ VL + + Sbjct: 303 VDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAG 362 Query: 60 LGEIAQKLLSVARKPFDISGHECQLSTSIGIATYPTDGANAQTLIKNADIAMYRAKHNGK 119 + E+ Q++L+ +P+ E Q++ SIG++ YP DG + ++L+K+AD AMYRAK G+ Sbjct: 363 IAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGR 422 Query: 120 DDYRFYSDEVNTHTVERIALETELRRAIERREFVVHYQPKVELTSSRIVGAEALVRWQHP 179 ++++F++ +++ R+ + LRRA+++ EF ++YQPK+ L R++GAEAL+RW+ P Sbjct: 423 NNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESP 482 Query: 180 VRGLLPPAEFIGLAEEAGLIDQIGLLVLDSACADIAKLNRLGLPFGRIAINLAGSQFNDD 239 +G++PP FI AEEAGLI IG VL +AC + GLP +A+NL+ Q N Sbjct: 483 QQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLN-Q 541 Query: 240 NLLADIQRVVQARGVSSASLEFEITESMVMHNREQAIAIMDGIRALGFTISIDDFGTGYS 299 +L + V+ G++++ LE EITE++VM + E+++A + ++ LG IS+DDFGTGYS Sbjct: 542 SLPDFVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYS 601 Query: 300 SLAYLKRFPVDNVKIDRSFITDIPHDANGSAIVQAIIAMAHALKLKVVTEGVETEVQLQA 359 SL+YL+RFPVD +KID+SF+ DI DA+ +AIV+AII++AH L L+V+ EGVE E Q Sbjct: 602 SLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAF 661 Query: 360 LQVFGSDEYQGYFFSRPI 377 L+ DE QGY+F +P+ Sbjct: 662 LKENACDEVQGYYFGKPM 679 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 350 bits (897), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 193/394 (48%), Positives = 259/394 (65%), Gaps = 15/394 (3%) Query: 1 MDLDRFKNINDTFGHETGEALLSEIALRFRHCLRELDILARVGGDEFIVLV--DDYDDPL 58 +DL+RFK INDT GH G+ LL E+A+R R LRE D++AR+G DEF V + D D P Sbjct: 281 IDLNRFKPINDTLGHVAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGIDKDSP- 339 Query: 59 QLGEIAQKLLSVARKPFDISGHECQLSTSIGIATYPTDGANAQTLIKNADIAMYRAKHNG 118 +AQKLL++ PF I GHE ++ SIG++ YP + + +TL++ ADIAMYRAK G Sbjct: 340 --AYVAQKLLALFDDPFFIDGHELRVGASIGVSLYPENATDTETLLRLADIAMYRAKQGG 397 Query: 119 KDD---YRFYSDEVNTHTVERIALETELRRAIERREFVVHYQPKVELTSSRIVGAEALVR 175 +++ Y YS+E+N +T++ + +ET L A E E +++YQPKV++ + I GAEALVR Sbjct: 398 ENNEGGYACYSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMQTLAITGAEALVR 457 Query: 176 WQHPVRGLLPPAEFIGLAEEAGLIDQIGLLVLDSACADIAKLNRLGLPFGRIAINLAGSQ 235 WQHP RGLL P EFI +AEE GLI Q+ VLD+ C GLP RIA+N+ + Sbjct: 458 WQHPERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTARE 517 Query: 236 FN---DDNLLADIQRVVQARGVSSASLEFEITESMVMHNREQAIAIMDGIRALGFTISID 292 F D + A ++R + +S LE EITESM+MH+ ++ I+IM+ I LG T+S+D Sbjct: 518 FTRSLPDRVGAALERHM----LSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLD 573 Query: 293 DFGTGYSSLAYLKRFPVDNVKIDRSFITDIPHDANGSAIVQAIIAMAHALKLKVVTEGVE 352 DFGTGYSSL+YLKRFP++ +KIDRSF IP D N AI AII +A L+ KV+ EGVE Sbjct: 574 DFGTGYSSLSYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVE 633 Query: 353 TEVQLQALQVFGSDEYQGYFFSRPIPHEKFVEML 386 E Q L+ G +E QGY FSRP+P F ML Sbjct: 634 DEKQFNFLREAGCNELQGYIFSRPVPAPDFHAML 667 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 330 bits (845), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 169/390 (43%), Positives = 239/390 (61%), Gaps = 1/390 (0%) Query: 1 MDLDRFKNINDTFGHETGEALLSEIALRFRHCLRELDILARVGGDEFIVLVDDYDDPLQL 60 MDLD FK IND+ GH G+ LL E+A R R D +AR+GGDEF++LVD + P Sbjct: 303 MDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSSRANDTVARLGGDEFVILVD-LNTPEDA 361 Query: 61 GEIAQKLLSVARKPFDISGHECQLSTSIGIATYPTDGANAQTLIKNADIAMYRAKHNGKD 120 +A+KL+ +PF + HE ++S S+GIA YP DGA L+ NAD AMY K +G++ Sbjct: 362 MGVAEKLVEAVNQPFKVDQHELRVSASVGIAIYPEDGATRHDLVINADAAMYHTKRSGRN 421 Query: 121 DYRFYSDEVNTHTVERIALETELRRAIERREFVVHYQPKVELTSSRIVGAEALVRWQHPV 180 Y F+ +N + +++ +LR A+ER +F + YQPK L + ++GAEAL+RW+HPV Sbjct: 422 GYHFFEPSMNANAQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPV 481 Query: 181 RGLLPPAEFIGLAEEAGLIDQIGLLVLDSACADIAKLNRLGLPFGRIAINLAGSQFNDDN 240 GL+ P +FIGLAE +GLI IG VLD AC + + LG +++NL+ QF D + Sbjct: 482 HGLVAPDQFIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPH 541 Query: 241 LLADIQRVVQARGVSSASLEFEITESMVMHNREQAIAIMDGIRALGFTISIDDFGTGYSS 300 LL ++ ++ + L E+TES MH+ E ++ + I LG ISIDDFGTGYSS Sbjct: 542 LLEVVRTTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSS 601 Query: 301 LAYLKRFPVDNVKIDRSFITDIPHDANGSAIVQAIIAMAHALKLKVVTEGVETEVQLQAL 360 L YLKR P + +KIDR F+ ++ D +AIV AI+A+ L L++V EGVET Q L Sbjct: 602 LLYLKRLPANELKIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFL 661 Query: 361 QVFGSDEYQGYFFSRPIPHEKFVEMLQRHH 390 G D QGY RP+ E F++ ++ H Sbjct: 662 TAAGCDALQGYLMGRPMTPELFLQTMRERH 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 0.322 0.139 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: 1,184,122 Number of extensions: 48418 Number of successful extensions: 222 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 43 Length of query: 392 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 305 Effective length of database: 1,207,925 Effective search space: 368417125 Effective search space used: 368417125 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: 131 (55.1 bits)