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= 0007.0092.p (359 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... 735 0.0 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 99 6e-22 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 97 2e-21 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 95 9e-21 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 93 3e-20 >gi|300310777|ref|YP_003774869.1| GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 735 bits (1897), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/352 (100%), Positives = 352/352 (100%) Query: 8 MKKPLLKHLVEITAHREHSRLAISVVSALYQLTDVKTIRMMDIFTMRDEHYVQEKMVIRD 67 MKKPLLKHLVEITAHREHSRLAISVVSALYQLTDVKTIRMMDIFTMRDEHYVQEKMVIRD Sbjct: 1 MKKPLLKHLVEITAHREHSRLAISVVSALYQLTDVKTIRMMDIFTMRDEHYVQEKMVIRD 60 Query: 68 GTLHTIDEHTADDPKELLSAYPAMVACIRNHLNEYLEATPDGLHVLWLPVWLHGKMNSCL 127 GTLHTIDEHTADDPKELLSAYPAMVACIRNHLNEYLEATPDGLHVLWLPVWLHGKMNSCL Sbjct: 61 GTLHTIDEHTADDPKELLSAYPAMVACIRNHLNEYLEATPDGLHVLWLPVWLHGKMNSCL 120 Query: 128 EIRSQQPFAPQMMDVIHGIFHVFCNYQSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAP 187 EIRSQQPFAPQMMDVIHGIFHVFCNYQSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAP Sbjct: 121 EIRSQQPFAPQMMDVIHGIFHVFCNYQSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAP 180 Query: 188 HEAHSMEQDERRHDSAEAQDDEPKGHWLAVVDIDHFKQVNDRYGHLYGDEVLILVANILR 247 HEAHSMEQDERRHDSAEAQDDEPKGHWLAVVDIDHFKQVNDRYGHLYGDEVLILVANILR Sbjct: 181 HEAHSMEQDERRHDSAEAQDDEPKGHWLAVVDIDHFKQVNDRYGHLYGDEVLILVANILR 240 Query: 248 ASFRSHDRIFRFGGEEFVILLRSTTLSDARKIFDRFRQNVQEYDFPQVGKVTVSLGFVGI 307 ASFRSHDRIFRFGGEEFVILLRSTTLSDARKIFDRFRQNVQEYDFPQVGKVTVSLGFVGI Sbjct: 241 ASFRSHDRIFRFGGEEFVILLRSTTLSDARKIFDRFRQNVQEYDFPQVGKVTVSLGFVGI 300 Query: 308 ARETPVVILGHADQALYHAKKTGRNRICYYQELVNSGVLRSGIATNDTVEFF 359 ARETPVVILGHADQALYHAKKTGRNRICYYQELVNSGVLRSGIATNDTVEFF Sbjct: 301 ARETPVVILGHADQALYHAKKTGRNRICYYQELVNSGVLRSGIATNDTVEFF 352 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 99.0 bits (245), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 61/146 (41%), Positives = 86/146 (58%), Gaps = 1/146 (0%) Query: 190 AHSMEQDERRHDSAEAQDDEPKGHWLAVVDIDHFKQVNDRYGHLYGDEVLILVANILRAS 249 A+ M+ DE + D K L ++DIDHFK+VND +GH GD VL+ +A ILRA+ Sbjct: 172 ANRMKLDEVLDNEINRADRYGKNLSLILLDIDHFKEVNDNFGHSTGDAVLVRIAEILRAN 231 Query: 250 FRSHDRIFRFGGEEFVILLRSTTLSDARKIFDRFRQNVQEYDFPQVGKVTVSLGFVGI-A 308 RS D R+GGEEF+++L + DA ++ ++ R ++ Y+F VG+ T S G A Sbjct: 232 VRSSDLAGRWGGEEFLLILPECDMEDAARMAEKLRLLIENYNFVPVGRRTCSFGVAAYQA 291 Query: 309 RETPVVILGHADQALYHAKKTGRNRI 334 +L AD ALY AK TGRNR+ Sbjct: 292 GHDRTTLLTLADLALYRAKNTGRNRV 317 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 66/185 (35%), Positives = 91/185 (49%), Gaps = 34/185 (18%) Query: 163 DALTGLFNRKTFDEQFTRYAFAIAPHEAHSMEQDERRHDSAEAQDDEPKGHWLAVVDIDH 222 D LTG+ NR+ +++ + + A +Q D L +DIDH Sbjct: 203 DPLTGVNNRRYIEQRM--------------------QEEVARSQRDRSALSCL-FIDIDH 241 Query: 223 FKQVNDRYGHLYGDEVLILVANILRASFRSHDRIFRFGGEEFVILLRSTTLSDARKIFDR 282 FK+VND++GH GD+VL VA ++ R D + RFGGEEFV+LL T DA +I +R Sbjct: 242 FKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAARIAER 301 Query: 283 FRQNVQEYDFPQVG-----KVTVSLGFVGI--------ARETPVVILGHADQALYHAKKT 329 R V G K+T S+G + A E +L ADQALY AK+ Sbjct: 302 IRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAAEVKQAMLKAADQALYQAKEA 361 Query: 330 GRNRI 334 GRNR+ Sbjct: 362 GRNRV 366 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 95.1 bits (235), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 63/184 (34%), Positives = 94/184 (51%), Gaps = 29/184 (15%) Query: 160 SERDALTGLFNRKTFDEQFTRYAFAIAPHEAHSMEQDERRHDSAEAQDDEPKGHWLAVVD 219 S D LTG+ NR+ FDE A+ M + R S L ++D Sbjct: 402 SATDGLTGVANRRRFDEAL-----------ANEMRRAVRSGQSLA----------LLMLD 440 Query: 220 IDHFKQVNDRYGHLYGDEVLILVANIL-RASFRSHDRIFRFGGEEFVILLRSTTLSDARK 278 +D+FK+ NDRYGHL GDE L +VA +L ++S R+ D + R+GGEEF +++ + A + Sbjct: 441 VDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQ 500 Query: 279 IFDRFRQNVQEYDFPQV----GKVTVSLGFVGIARE---TPVVILGHADQALYHAKKTGR 331 + Q + E P G ++ S+G + + P ++ ADQALYHAK GR Sbjct: 501 QAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGR 560 Query: 332 NRIC 335 NR+ Sbjct: 561 NRVV 564 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 93.2 bits (230), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 64/190 (33%), Positives = 94/190 (49%), Gaps = 28/190 (14%) Query: 154 QSLLDYSERDALTGLFNRKTFDEQFTRYAFAIAPHEAHSMEQDERRHDSAEAQDDEPKGH 213 + L D + D LTGL NR++ DE ++ Q +R +A G Sbjct: 321 KQLEDLARTDGLTGLLNRRSLDEALL------------AVWQRSQRSPTA--------GF 360 Query: 214 WLAVVDIDHFKQVNDRYGHLYGDEVLILVANILRASF-RSHDRIFRFGGEEFVILLRSTT 272 +D+D+FK+ ND YGH GD VL VA +LR R +D R+GGEEFV+LL T Sbjct: 361 STLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTD 420 Query: 273 LSDARKIFDRFRQNVQEYDFPQ----VGKVTVSLGFVGIAR---ETPVVILGHADQALYH 325 A ++ + + + P +G ++VS+G + R + +L AD ALY Sbjct: 421 EHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYI 480 Query: 326 AKKTGRNRIC 335 AK+ GRNR+C Sbjct: 481 AKREGRNRVC 490 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 0.138 0.415 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: 1,100,068 Number of extensions: 43714 Number of successful extensions: 239 Number of sequences better than 1.0e-08: 37 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 37 Length of query: 359 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 273 Effective length of database: 1,212,660 Effective search space: 331056180 Effective search space used: 331056180 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: 40 (21.5 bits) S2: 131 (55.1 bits)