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= 0029.0034.p (519 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 138 1e-33 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 118 1e-27 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 116 4e-27 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 115 1e-26 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 114 2e-26 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 138 bits (347), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 89/194 (45%), Positives = 115/194 (59%), Gaps = 5/194 (2%) Query: 323 VSARDPFKKKQIVMAARLTRFIRGVTDELESAHAELKKLAVTDTLTQLCNRMRLDHMLKD 382 + A D F +V+ R + +E + +L LAVTD LT L NRM+LD +L + Sbjct: 129 LGAEDFFVISHVVITGR-----KLAEQRVERLNEKLALLAVTDKLTGLANRMKLDEVLDN 183 Query: 383 CQGQAQRYAIPFSVILLDIDHFKSVNDGHGHLVGDDVLRQVAAILRDNTRNVDIAGRWGG 442 +A RY S+ILLDIDHFK VND GH GD VL ++A ILR N R+ D+AGRWGG Sbjct: 184 EINRADRYGKNLSLILLDIDHFKEVNDNFGHSTGDAVLVRIAEILRANVRSSDLAGRWGG 243 Query: 443 EEFLVIVRNGRLEEARLLAEKLRQAIAGAHFPVVNSVTASLGVACFDPEESVSSLLDRAD 502 EEFL+I+ +E+A +AEKLR I +F V T S GVA + ++LL AD Sbjct: 244 EEFLLILPECDMEDAARMAEKLRLLIENYNFVPVGRRTCSFGVAAYQAGHDRTTLLTLAD 303 Query: 503 NALYAAKRGGRNQV 516 ALY AK GRN+V Sbjct: 304 LALYRAKNTGRNRV 317 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 118 bits (296), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 73/181 (40%), Positives = 107/181 (59%), Gaps = 7/181 (3%) Query: 344 IRGVTDELESAHAELKKLAVTDTLTQLCNRMRLDHMLKDCQGQAQRYAIPFSVILLDIDH 403 +R T ELE A+ +L+ L+ TD LT + NR R D L + +A R ++++LD+D+ Sbjct: 384 VRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDY 443 Query: 404 FKSVNDGHGHLVGDDVLRQVAAILRDNTRN-VDIAGRWGGEEFLVIVRNGRLEEARLLAE 462 FK ND +GHL GD+ LR VA +L+ ++R D+ R+GGEEF VI+ +A AE Sbjct: 444 FKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAE 503 Query: 463 KLRQAIAGAHFPVVNS----VTASLGVACFDPEESVS--SLLDRADNALYAAKRGGRNQV 516 + QAI P +S ++AS+GVA P+E + ++ AD ALY AK GRN+V Sbjct: 504 NICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNRV 563 Query: 517 V 517 V Sbjct: 564 V 564 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 116 bits (291), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 72/172 (41%), Positives = 105/172 (61%), Gaps = 8/172 (4%) Query: 353 SAHAELKKLAVTDTLTQLCNRMRLDHMLKDCQGQAQR-YAIPFSVILLDIDHFKSVNDGH 411 +A +L+ LA TD LT L NR LD L+ + QR FSV+ +D+D+FK+ ND + Sbjct: 338 TAERQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTY 397 Query: 412 GHLVGDDVLRQVAAILRDN-TRNVDIAGRWGGEEFLVIVRNGRLEEARLLAEKLRQAIAG 470 GH +GD VL++VAA L R+ D AGR+GGEEF+V++ L+ A+++A++L A+ Sbjct: 398 GHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRE 457 Query: 471 AHFPVVNS----VTASLGVACF--DPEESVSSLLDRADNALYAAKRGGRNQV 516 H +S VT S+GVA D V +L+ AD ALY AK+ GR++V Sbjct: 458 RHIAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDRV 509 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 115 bits (287), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 71/172 (41%), Positives = 105/172 (61%), Gaps = 8/172 (4%) Query: 353 SAHAELKKLAVTDTLTQLCNRMRLDHMLKDCQGQAQRYAIP-FSVILLDIDHFKSVNDGH 411 +A +L+ LA TD LT L NR LD L ++QR FS + +D+D+FK ND + Sbjct: 318 AAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTY 377 Query: 412 GHLVGDDVLRQVAAILRDN-TRNVDIAGRWGGEEFLVIVRNGRLEEARLLAEKLRQAIAG 470 GH +GD VL+ VAA+LR++ R D+AGR+GGEEF+V++ A +A++L +AI Sbjct: 378 GHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYN 437 Query: 471 AHFPVVNS----VTASLGVACFD--PEESVSSLLDRADNALYAAKRGGRNQV 516 P S ++ S+GVA + P + + +L+ AD+ALY AKR GRN+V Sbjct: 438 RGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRNRV 489 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 114 bits (285), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 68/174 (39%), Positives = 100/174 (57%), Gaps = 16/174 (9%) Query: 358 LKKLAVTDTLTQLCNRMRLDHMLKDCQGQAQRYAIPFSVILLDIDHFKSVNDGHGHLVGD 417 LK + +TD LT + NR ++ +++ ++QR S + +DIDHFK VND GH GD Sbjct: 196 LKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGD 255 Query: 418 DVLRQVAAILRDNTRNVDIAGRWGGEEFLVIVRNGRLEEARLLAEKLRQA-------IAG 470 DVLR+VAA ++ R D GR+GGEEF+V++ + E+A +AE++R I G Sbjct: 256 DVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAARIAERIRAGVCSRGVMIEG 315 Query: 471 AHFPVVNSVTASLGVACFDPE-------ESVSSLLDRADNALYAAKRGGRNQVV 517 + P+ +TAS+G A P E ++L AD ALY AK GRN+V+ Sbjct: 316 SRDPL--KITASIGAAALTPPDRSRPAAEVKQAMLKAADQALYQAKEAGRNRVM 367 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 0.137 0.399 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: 1,551,690 Number of extensions: 63020 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 39 Length of query: 519 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 430 Effective length of database: 1,198,455 Effective search space: 515335650 Effective search space used: 515335650 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: 133 (55.8 bits)