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= 0034.0110.p (355 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310777|ref|YP_003774869.1| GGDEF family protein [Herbaspir... 662 0.0 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 97 2e-21 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 97 2e-21 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 97 2e-21 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 95 7e-21 >gi|300310777|ref|YP_003774869.1| GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 662 bits (1709), Expect = 0.0, Method: Compositional matrix adjust. Identities = 315/352 (89%), Positives = 336/352 (95%), Gaps = 4/352 (1%) Query: 8 MKKPLLKHLVEITAHREHSRLAISVISALYQLTEVEAIRMLDIFTLRDEYFVQEKMVIRD 67 MKKPLLKHLVEITAHREHSRLAISV+SALYQLT+V+ IRM+DIFT+RDE++VQEKMVIRD Sbjct: 1 MKKPLLKHLVEITAHREHSRLAISVVSALYQLTDVKTIRMMDIFTMRDEHYVQEKMVIRD 60 Query: 68 GTVHTIAELTSDDPKEPLSAYPAMLACIRNHLNEFDETTPEGEHVLWLPVWLHGKMNSCL 127 GT+HTI E T+DDPKE LSAYPAM+ACIRNHLNE+ E TP+G HVLWLPVWLHGKMNSCL Sbjct: 61 GTLHTIDEHTADDPKELLSAYPAMVACIRNHLNEYLEATPDGLHVLWLPVWLHGKMNSCL 120 Query: 128 EIRSQQPFAPTMLDVIRGIFHVYCNYQSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAP 187 EIRSQQPFAP M+DVI GIFHV+CNYQSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAP Sbjct: 121 EIRSQQPFAPQMMDVIHGIFHVFCNYQSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAP 180 Query: 188 HEAHSVDRDERRHDS----NDEPKGHWLGVVDIDHFKQVNDRYGHLYGDEVLILVANILR 243 HEAHS+++DERRHDS +DEPKGHWL VVDIDHFKQVNDRYGHLYGDEVLILVANILR Sbjct: 181 HEAHSMEQDERRHDSAEAQDDEPKGHWLAVVDIDHFKQVNDRYGHLYGDEVLILVANILR 240 Query: 244 ASFRAHDRIFRFGGEEFVILLRSTTLTDARKIFDRFRQNVQEYDFPQVGKVTVSLGFVNI 303 ASFR+HDRIFRFGGEEFVILLRSTTL+DARKIFDRFRQNVQEYDFPQVGKVTVSLGFV I Sbjct: 241 ASFRSHDRIFRFGGEEFVILLRSTTLSDARKIFDRFRQNVQEYDFPQVGKVTVSLGFVGI 300 Query: 304 ARETPVVILGHADQALYHAKKSGRNRICYYQELVNSGVLRSGITTNDTVEFF 355 ARETPVVILGHADQALYHAKK+GRNRICYYQELVNSGVLRSGI TNDTVEFF Sbjct: 301 ARETPVVILGHADQALYHAKKTGRNRICYYQELVNSGVLRSGIATNDTVEFF 352 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 65/180 (36%), Positives = 94/180 (52%), Gaps = 25/180 (13%) Query: 160 SERDALTGLFNRKTFDEQFTRYAFAIAPHEAHSVDRDERRHDSNDEPKGHWLGVVDIDHF 219 S D LTG+ NR+ FDE A+ + R R S L ++D+D+F Sbjct: 402 SATDGLTGVANRRRFDEAL-----------ANEMRRAVRSGQS------LALLMLDVDYF 444 Query: 220 KQVNDRYGHLYGDEVLILVANIL-RASFRAHDRIFRFGGEEFVILLRSTTLTDARKIFDR 278 K+ NDRYGHL GDE L +VA +L ++S RA D + R+GGEEF +++ T A + + Sbjct: 445 KKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAEN 504 Query: 279 FRQNVQEYDFPQV----GKVTVSLGFVNIARE---TPVVILGHADQALYHAKKSGRNRIC 331 Q + E P G ++ S+G + + P ++ ADQALYHAK GRNR+ Sbjct: 505 ICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNRVV 564 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 66/169 (39%), Positives = 93/169 (55%), Gaps = 18/169 (10%) Query: 163 DALTGLFNRKTFDEQFTRYAFAIAPHEAHSVDRDERRHDSNDEPKGHWLGVVDIDHFKQV 222 D LTGL NR DE + +E + DR K L ++DIDHFK+V Sbjct: 166 DKLTGLANRMKLDE--------VLDNEINRADR---------YGKNLSLILLDIDHFKEV 208 Query: 223 NDRYGHLYGDEVLILVANILRASFRAHDRIFRFGGEEFVILLRSTTLTDARKIFDRFRQN 282 ND +GH GD VL+ +A ILRA+ R+ D R+GGEEF+++L + DA ++ ++ R Sbjct: 209 NDNFGHSTGDAVLVRIAEILRANVRSSDLAGRWGGEEFLLILPECDMEDAARMAEKLRLL 268 Query: 283 VQEYDFPQVGKVTVSLGFVNI-ARETPVVILGHADQALYHAKKSGRNRI 330 ++ Y+F VG+ T S G A +L AD ALY AK +GRNR+ Sbjct: 269 IENYNFVPVGRRTCSFGVAAYQAGHDRTTLLTLADLALYRAKNTGRNRV 317 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 96.7 bits (239), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 67/181 (37%), Positives = 91/181 (50%), Gaps = 30/181 (16%) Query: 163 DALTGLFNRKTFDEQFTRYAFAIAPHEAHSVDRDERRHDSNDEPKGHWLGVVDIDHFKQV 222 D LTG+ NR+ +++ V R +R D L +DIDHFK+V Sbjct: 203 DPLTGVNNRRYIEQRMQ-----------EEVARSQR-----DRSALSCL-FIDIDHFKRV 245 Query: 223 NDRYGHLYGDEVLILVANILRASFRAHDRIFRFGGEEFVILLRSTTLTDARKIFDRFRQN 282 ND++GH GD+VL VA ++ R D + RFGGEEFV+LL T DA +I +R R Sbjct: 246 NDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAARIAERIRAG 305 Query: 283 VQEYDFPQVG-----KVTVSLGFVNI--------ARETPVVILGHADQALYHAKKSGRNR 329 V G K+T S+G + A E +L ADQALY AK++GRNR Sbjct: 306 VCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAAEVKQAMLKAADQALYQAKEAGRNR 365 Query: 330 I 330 + Sbjct: 366 V 366 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 95.1 bits (235), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 66/186 (35%), Positives = 95/186 (51%), Gaps = 24/186 (12%) Query: 154 QSLLDYSE---RDALTGLFNRKTFDEQFTRYAFAIAPHEAHSVDRDERRHDSNDEPKGHW 210 Q LL E D LTG NR+ DE S+DR+ D P Sbjct: 355 QQLLQMGELVREDQLTGSLNRRGMDE---------------SLDREITNALRRDTP--LC 397 Query: 211 LGVVDIDHFKQVNDRYGHLYGDEVLILVANILRASFRAHDRIFRFGGEEFVILLRSTTLT 270 + ++D+D FK++ND +GH GDEVL+ + ++R + R D I RFGGEEF++L+ T Sbjct: 398 VALLDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQ 457 Query: 271 DARKIFDRFRQNVQEYDF---PQVGKVTVSLGF-VNIARETPVVILGHADQALYHAKKSG 326 DA +I R ++ + + F Q +T S G V E+ +L AD ALY AK +G Sbjct: 458 DAVQIITRVQRELTKRIFMHESQRLLITFSAGVAVYHPGESQADLLKRADVALYKAKNAG 517 Query: 327 RNRICY 332 +NRI + Sbjct: 518 KNRIVF 523 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 0.324 0.139 0.417 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: 1,093,539 Number of extensions: 44238 Number of successful extensions: 195 Number of sequences better than 1.0e-08: 37 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 37 Length of query: 355 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 269 Effective length of database: 1,212,660 Effective search space: 326205540 Effective search space used: 326205540 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 131 (55.1 bits)