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= 0216.0013.p (185 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 116 1e-27 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 110 7e-26 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 110 8e-26 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 100 5e-23 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 100 8e-23 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 116 bits (290), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 56/119 (47%), Positives = 81/119 (68%), Gaps = 5/119 (4%) Query: 1 VLAEACRQAKIWSLETPRKFVIAVNISPRQFHH--PSFLRRVTTTLSESMIDPSFIELEI 58 VL ACRQ + W +AVN+SPRQ + P F V L++S + S++ELEI Sbjct: 509 VLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQSLPDF---VAGVLAQSGLAASWLELEI 565 Query: 59 TEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSFIRHL 117 TE +VM+D E+++ L L++ GL +++DDFGTGYSSL+YL+RF +D LKID+SF+R + Sbjct: 566 TENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDI 624 >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 = 110 bits (275), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 62/155 (40%), Positives = 89/155 (57%), Gaps = 9/155 (5%) Query: 1 VLAEACRQAKIWSLETPRKFVIAVNISPRQFHHPSFLRRVTTTLSESMIDPSFIELEITE 60 VL AC Q + W L ++VN+S QF + + L ++ + P +ELE+TE Sbjct: 761 VLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELELTE 820 Query: 61 GIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSFIRHLRPN 120 ++M DVE I +L L+K G+ L+IDDFGTGYSSLAYLKRF ID LKID+SF+R + + Sbjct: 821 SLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDITID 880 Query: 121 SEXGQSAEKALRCSGFVEMER---LRIVARSERLD 152 A+ A + + + R LR++A D Sbjct: 881 ------ADDAAITASIISLARHLKLRVIAEGVETD 909 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 110 bits (274), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 68/165 (41%), Positives = 90/165 (54%), Gaps = 11/165 (6%) Query: 1 VLAEACRQAKIWSLETPRKFVIAVNISPRQFHHPSFLRRVTTTLSESMIDPSFIELEITE 60 VL EACRQ + W + ++VN+S QF P L V TTL + P + LE+TE Sbjct: 507 VLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERHQLPPPCLTLEVTE 566 Query: 61 GIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSFIRHLRPN 120 M D E +++ L + G+ ++IDDFGTGYSSL YLKR ++LKID+ F+R LR Sbjct: 567 STAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELR-- 624 Query: 121 SEXGQSAEKALRCSGFVEMER---LRIVARSERLDGVGAQCFLVG 162 Q E A S V + R LRIVA E ++ V Q FL Sbjct: 625 ----QDGEDAAIVSAIVALGRTLNLRIVA--EGVETVEQQDFLTA 663 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 100 bits (250), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 52/124 (41%), Positives = 80/124 (64%), Gaps = 5/124 (4%) Query: 1 VLAEACRQAKIWSLETPR--KFVIAVNISPRQFHHPSFLRRVTTTLSESMIDPSFIELEI 58 VL ACRQ W+ + P+ IAVN+S Q P F++ V T+ + +P ++LE+ Sbjct: 845 VLETACRQLATWAAQ-PQMADLSIAVNVSAPQLREPDFVQTVLDTIERTGANPRRLKLEL 903 Query: 59 TEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSFIRH-- 116 TE +++ +VE I+ + L+ G+ ++DDFGTGYSSL+YLKR +++LKIDQSF+R Sbjct: 904 TESLLVDNVEDIIQKMFALKAYGVEFSLDDFGTGYSSLSYLKRLPLNQLKIDQSFVRDVL 963 Query: 117 LRPN 120 + PN Sbjct: 964 IDPN 967 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 100 bits (249), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 51/113 (45%), Positives = 72/113 (63%), Gaps = 1/113 (0%) Query: 1 VLAEACRQAKIWSLETPRKFVIAVNISPRQFHHPSFLRRVTTTLSESMIDPSFIELEITE 60 VL CRQA+ W IA+N++ R+F S RV L M+ ++ELEITE Sbjct: 488 VLDAVCRQARAWKDAGLPPIRIALNVTAREFTR-SLPDRVGAALERHMLSGEWLELEITE 546 Query: 61 GIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSF 113 ++M +R I ++E + G+T+++DDFGTGYSSL+YLKRF I+ LKID+SF Sbjct: 547 SMLMHSTDRVISIMEKICGLGITVSLDDFGTGYSSLSYLKRFPINTLKIDRSF 599 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 0.140 0.403 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: 517,193 Number of extensions: 18053 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 105 Number of HSP's successfully gapped: 17 Length of query: 185 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 105 Effective length of database: 1,241,070 Effective search space: 130312350 Effective search space used: 130312350 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 (21.6 bits) S2: 128 (53.9 bits)