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= 0004.0146.p (410 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... 209 2e-55 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 204 8e-54 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 204 8e-54 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 192 4e-50 gi|300309360|ref|YP_003773452.1| hypothetical protein Hsero_0014... 187 1e-48 >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 = 209 bits (533), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 133/398 (33%), Positives = 209/398 (52%), Gaps = 11/398 (2%) Query: 19 ALVVIRLDSIKYANDAHGSAAGDALIVAFADALRRLLPDGSLIARLRSVVFSFTIETSHA 78 A++++ LD K ND G G+A++ A R L + ++AR+ F ++ Sbjct: 703 AVILMDLDRFKNINDTFGHETGEAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDF-- 760 Query: 79 SRDAIPQIEHIRRSLPEE----LLVGGQRHPVQVSMAIAFSRPGE-TSGDELIQRGKLAL 133 D Q+ I + L E ++ GQ + VS+ IA + PG+ + LI+ +A+ Sbjct: 761 --DDPVQLGEIAQKLLTEARKPFIIDGQEAMLSVSIGIA-TYPGDGDNAQTLIKNADIAM 817 Query: 134 DSARRSGTQDITVFDDEAAALIRRRLNIEQSILMALRENELRLVYQPKVT-QDGEIVGLE 192 A+ G D F DE R+ +E + A+ E + YQPK+ +G IVG E Sbjct: 818 YRAKHHGKDDYRFFSDEINTNTVERIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAE 877 Query: 193 ALIRWRSPTLGDVSPAEFIPVAETSGAIHFITAFVVDKVCAYIRQTLDSERRCLPIAINL 252 AL+RW+ P G + P EFI +AE + I I V+D C I + C I+INL Sbjct: 878 ALVRWQHPLRGLLPPGEFITLAEETRLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINL 937 Query: 253 SAIDIVRADLLDLVNASCQKYGVSSDHLEFEITETGLVGNENLAISHLEALNAKGYGITI 312 + LLD + ++G LEFEITE+ ++ N AI+ ++ + A+G+ I+I Sbjct: 938 TGSQFGDERLLDDIKEVVDRHGTPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISI 997 Query: 313 DDFGTGYSSLQKLSRFPTKSIKIDQSFVAQIGISEKSELIIRAVVSLAKILSCTTVAEGV 372 DDFGTGYSSL L RFP ++KID+SF+ I + S I++A+++++ L+ V EGV Sbjct: 998 DDFGTGYSSLAYLKRFPVNTLKIDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGV 1057 Query: 373 ETLVQEKFLKAIGCQFFQGFYYYPPMEFQQVNQLLKGR 410 ET Q + L+ G +QG+Y+ P+ + Q QLL G+ Sbjct: 1058 ETEKQLQALREFGSDEYQGYYFSKPVPYAQFVQLLAGQ 1095 >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 = 204 bits (520), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 129/390 (33%), Positives = 196/390 (50%), Gaps = 1/390 (0%) Query: 20 LVVIRLDSIKYANDAHGSAAGDALIVAFADALRRLLPDGSLIARLRSVVFSFTIETSHAS 79 +V + LD K+ ND G AGD L+ A LR + + +ARL F + Sbjct: 553 VVFVDLDRFKFVNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDEL 612 Query: 80 RDAIPQIEHIRRSLPEELLVGGQRHPVQVSMAIAFSRPGETSGDELIQRGKLALDSARRS 139 ++ I ++ + +GG + S+ +A T G+ LI+ +A+ +++ Sbjct: 613 TLDTRSLQRIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQT 672 Query: 140 GTQDITVFDDEAAALIRRRLNIEQSILMALRENELRLVYQPKVT-QDGEIVGLEALIRWR 198 G + + RL IE + AL E L YQPKV G ++G EALIRW+ Sbjct: 673 GRNNFQFYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQ 732 Query: 199 SPTLGDVSPAEFIPVAETSGAIHFITAFVVDKVCAYIRQTLDSERRCLPIAINLSAIDIV 258 P LG VSPA FI +AE +G I I A+V+ C RQ + +++NLS + Sbjct: 733 HPQLGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFL 792 Query: 259 RADLLDLVNASCQKYGVSSDHLEFEITETGLVGNENLAISHLEALNAKGYGITIDDFGTG 318 + DL+ + + G+ + LE E+TE+ ++ + AI L L G ++IDDFGTG Sbjct: 793 QKDLVSSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTG 852 Query: 319 YSSLQKLSRFPTKSIKIDQSFVAQIGISEKSELIIRAVVSLAKILSCTTVAEGVETLVQE 378 YSSL L RFP +KID+SFV I I I +++SLA+ L +AEGVET Q Sbjct: 853 YSSLAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQL 912 Query: 379 KFLKAIGCQFFQGFYYYPPMEFQQVNQLLK 408 +L+ GC QG+ + PP+ + Q+L+ Sbjct: 913 DYLRHYGCDEIQGYLFSPPVPADKFEQILR 942 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 204 bits (520), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 131/385 (34%), Positives = 202/385 (52%), Gaps = 7/385 (1%) Query: 19 ALVVIRLDSIKYANDAHGSAAGDALIVAFADALRRLLPDGSLIARLRSVVFSFTIETSHA 78 A+ + LD K+ ND+ G GD L+ A L+ L + ++AR F ++ Sbjct: 299 AVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTE 358 Query: 79 SRDAIPQI-EHIRRSLPEELLVGGQRHPVQVSMAIAFSR-PGETSGDE-LIQRGKLALDS 135 I ++ + I ++ G + QV+ +I SR P + E L++ A+ Sbjct: 359 GEAGIAEVMQRILAAVARPWQAGDRE--FQVTASIGVSRYPADGKDVESLLKHADSAMYR 416 Query: 136 ARRSGTQDITVFDDEAAALIRRRLNIEQSILMALRENELRLVYQPKVT-QDGEIVGLEAL 194 A+ G + F + + RL + ++ AL ++E +L YQPK++ QDG ++G EAL Sbjct: 417 AKEQGRNNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEAL 476 Query: 195 IRWRSPTLGDVSPAEFIPVAETSGAIHFITAFVVDKVCAYIRQTLDSERRCLPIAINLSA 254 IRW SP G V P FIP AE +G I I +V+ C + + +P+A+NLS Sbjct: 477 IRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSP 536 Query: 255 IDIVRADLLDLVNASCQKYGVSSDHLEFEITETGLVGNENLAISHLEALNAKGYGITIDD 314 + ++ L D V + G+++ LE EITE ++ + +++ L AL G I++DD Sbjct: 537 RQLNQS-LPDFVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDD 595 Query: 315 FGTGYSSLQKLSRFPTKSIKIDQSFVAQIGISEKSELIIRAVVSLAKILSCTTVAEGVET 374 FGTGYSSL L RFP ++KID+SFV I S I++A++SLA IL+ +AEGVE Sbjct: 596 FGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVED 655 Query: 375 LVQEKFLKAIGCQFFQGFYYYPPME 399 Q FLK C QG+Y+ PME Sbjct: 656 EEQHAFLKENACDEVQGYYFGKPME 680 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 192 bits (488), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 126/393 (32%), Positives = 194/393 (49%), Gaps = 18/393 (4%) Query: 18 AALVVIRLDSIKYANDAHGSAAGDALIVAFADALRRLLPDGSLIARLRSVVFSFTIET-S 76 AAL+ I LD K ND G GD L+ A L + + +AR+ F +E + Sbjct: 631 AALLFIDLDHFKTLNDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVVVLEGLN 690 Query: 77 HASRDAIPQIEHIRRSLPEELLVG----------GQRHPVQVSMAIAFSRPGETSGDELI 126 ++A Q R++ E++L R + + R S DEL+ Sbjct: 691 ELQQEAATQT----RAIGEKILTALGSTYQLDDVEYRTTASIGATVFLGRAA--SVDELM 744 Query: 127 QRGKLALDSARRSGTQDITVFDDEAAALIRRRLNIEQSILMALRENELRLVYQPKVTQDG 186 ++ LA+ A+ +G + FD + R +E + A+ N+L L YQP+V + G Sbjct: 745 KQADLAMYKAKETGRNALRFFDPAMQTAVLERATLEAGLRKAIDGNQLLLHYQPQVVEGG 804 Query: 187 EIVGLEALIRWRSPTLGDVSPAEFIPVAETSGAIHFITAFVVDKVCAYI-RQTLDSERRC 245 + G E L+RW+ P G V P +FIP+AE +G I + +V++ C + + Sbjct: 805 RVTGAEVLVRWQHPQRGMVPPGDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQMAD 864 Query: 246 LPIAINLSAIDIVRADLLDLVNASCQKYGVSSDHLEFEITETGLVGNENLAISHLEALNA 305 L IA+N+SA + D + V + ++ G + L+ E+TE+ LV N I + AL A Sbjct: 865 LSIAVNVSAPQLREPDFVQTVLDTIERTGANPRRLKLELTESLLVDNVEDIIQKMFALKA 924 Query: 306 KGYGITIDDFGTGYSSLQKLSRFPTKSIKIDQSFVAQIGISEKSELIIRAVVSLAKILSC 365 G ++DDFGTGYSSL L R P +KIDQSFV + I I + +V+LA+ L Sbjct: 925 YGVEFSLDDFGTGYSSLSYLKRLPLNQLKIDQSFVRDVLIDPNDASIAKTIVNLAQSLGL 984 Query: 366 TTVAEGVETLVQEKFLKAIGCQFFQGFYYYPPM 398 +AEGVET Q FL GC +QG+++ P+ Sbjct: 985 GVIAEGVETDAQRSFLADAGCHAYQGYFFCRPV 1017 >gi|300309360|ref|YP_003773452.1| hypothetical protein Hsero_0014 [Herbaspirillum seropedicae SmR1] Length = 726 Score = 187 bits (476), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 108/310 (34%), Positives = 171/310 (55%), Gaps = 7/310 (2%) Query: 103 RHPVQVSMAIAFSRPGETSGDELIQRGKLALDSARRSGTQDITVFDDEAAALIRRRLNIE 162 R P V++ I R + EL+ + +LA+ +R +G FD AL +R +E Sbjct: 414 RFPCSVNLGINIVRDEQYGASELVMQAELAMVQSRAAGRNVFRFFDPAMQALANQRSQLE 473 Query: 163 QSILMALRENELRLVYQPKVTQDGEIVGLEALIRWRSPTLGDVSPAEFIPVAETSGAIHF 222 + A+ + + YQP+VT +G++VG EAL+RW+ P G VSP FI +AE G + Sbjct: 474 AELRQAVARRQFIVYYQPQVTYEGDVVGAEALVRWQHPIRGIVSPTTFISLAEDMGLMDE 533 Query: 223 ITAFVVDKVCA----YIRQTLDSERRCLPIAINLSAIDIVRADLLDLVNASCQKYGVSSD 278 I V+ ++C + R+ L R L +AIN+SA + + + +++ V S Sbjct: 534 IGRQVLHRICTDLENWQREGL---ARDLVVAINVSAQEFKVDNFVYRFREIMREHHVPSH 590 Query: 279 HLEFEITETGLVGNENLAISHLEALNAKGYGITIDDFGTGYSSLQKLSRFPTKSIKIDQS 338 ++ E+TE+ +V + I+ ++AL + I++DDFGTGYSSL L RFP IKIDQ+ Sbjct: 591 SVKVELTESMMVDHIEDVITKMQALRSNEVSISLDDFGTGYSSLSYLGRFPIDQIKIDQT 650 Query: 339 FVAQIGISEKSELIIRAVVSLAKILSCTTVAEGVETLVQEKFLKAIGCQFFQGFYYYPPM 398 FV ++ IIR+++ L + L+ + +AEGVET Q FL A GC +QG++Y P+ Sbjct: 651 FVREMQNDAAMASIIRSIIMLGQSLNLSIIAEGVETEQQRDFLHAQGCLLYQGYWYSKPI 710 Query: 399 EFQQVNQLLK 408 +Q LL Sbjct: 711 PGEQFADLLN 720 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 0.135 0.379 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: 1,156,255 Number of extensions: 46409 Number of successful extensions: 227 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 20 Length of query: 410 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 323 Effective length of database: 1,207,925 Effective search space: 390159775 Effective search space used: 390159775 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: 132 (55.5 bits)