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= 0020.0004.p (169 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314042|ref|YP_003778134.1| signal transduction protein con... 137 4e-34 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 130 5e-32 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 129 1e-31 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 119 1e-28 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 118 2e-28 >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 = 137 bits (345), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 70/121 (57%), Positives = 86/121 (71%) Query: 3 MDDPEKSIAIMVHLRKLGVTLSIDDFGTGYSNLGYLKRFPVGRLKIDKSFVRDLVDDPHD 62 M D E +I I+ L+KLGV LSIDDFGTGYS+L YLKRFP+ LKID+SFVRD+ D D Sbjct: 824 MTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDITIDADD 883 Query: 63 LAICRSVIALAKSLRLEVIAEGVETINQLKLLHAEGCDKIQGYYFSAAMSAEECTSFLAR 122 AI S+I+LA+ L+L VIAEGVET QL L GCD+IQGY FS + A++ L + Sbjct: 884 AAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKFEQILRQ 943 Query: 123 D 123 D Sbjct: 944 D 944 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 130 bits (327), Expect = 5e-32, Method: Composition-based stats. Identities = 63/121 (52%), Positives = 83/121 (68%) Query: 1 VSMDDPEKSIAIMVHLRKLGVTLSIDDFGTGYSNLGYLKRFPVGRLKIDKSFVRDLVDDP 60 V M D EKS+A + L++LG+ +S+DDFGTGYS+L YL+RFPV LKIDKSFVRD+V D Sbjct: 569 VVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDA 628 Query: 61 HDLAICRSVIALAKSLRLEVIAEGVETINQLKLLHAEGCDKIQGYYFSAAMSAEECTSFL 120 AI +++I+LA L L VIAEGVE Q L CD++QGYYF M T+++ Sbjct: 629 DSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVAVFTAWM 688 Query: 121 A 121 + Sbjct: 689 S 689 >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 = 129 bits (323), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 64/131 (48%), Positives = 87/131 (66%) Query: 3 MDDPEKSIAIMVHLRKLGVTLSIDDFGTGYSNLGYLKRFPVGRLKIDKSFVRDLVDDPHD 62 M + E++IAIM +R G T+SIDDFGTGYS+L YLKRFPV LKIDKSF+ D+ D+P+ Sbjct: 975 MHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLKIDKSFINDIPDNPNS 1034 Query: 63 LAICRSVIALAKSLRLEVIAEGVETINQLKLLHAEGCDKIQGYYFSAAMSAEECTSFLAR 122 AI +++IA++ +L L+V+ EGVET QL+ L G D+ QGYYFS + + LA Sbjct: 1035 SAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYFSKPVPYAQFVQLLAG 1094 Query: 123 DVSLPLDTIRR 133 P R+ Sbjct: 1095 QQDRPQGLARQ 1105 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 119 bits (298), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 56/113 (49%), Positives = 74/113 (65%) Query: 2 SMDDPEKSIAIMVHLRKLGVTLSIDDFGTGYSNLGYLKRFPVGRLKIDKSFVRDLVDDPH 61 +M D E S+ + + LGV +SIDDFGTGYS+L YLKR P LKID+ FVR+L D Sbjct: 569 AMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELRQDGE 628 Query: 62 DLAICRSVIALAKSLRLEVIAEGVETINQLKLLHAEGCDKIQGYYFSAAMSAE 114 D AI +++AL ++L L ++AEGVET+ Q L A GCD +QGY M+ E Sbjct: 629 DAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRPMTPE 681 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 118 bits (296), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 58/117 (49%), Positives = 78/117 (66%) Query: 3 MDDPEKSIAIMVHLRKLGVTLSIDDFGTGYSNLGYLKRFPVGRLKIDKSFVRDLVDDPHD 62 +D+ E I M L+ GV S+DDFGTGYS+L YLKR P+ +LKID+SFVRD++ DP+D Sbjct: 909 VDNVEDIIQKMFALKAYGVEFSLDDFGTGYSSLSYLKRLPLNQLKIDQSFVRDVLIDPND 968 Query: 63 LAICRSVIALAKSLRLEVIAEGVETINQLKLLHAEGCDKIQGYYFSAAMSAEECTSF 119 +I ++++ LA+SL L VIAEGVET Q L GC QGY+F ++ E F Sbjct: 969 ASIAKTIVNLAQSLGLGVIAEGVETDAQRSFLADAGCHAYQGYFFCRPVTVEAFEKF 1025 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 0.325 0.140 0.413 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: 473,928 Number of extensions: 16788 Number of successful extensions: 84 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 83 Number of HSP's successfully gapped: 18 Length of query: 169 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 90 Effective length of database: 1,245,805 Effective search space: 112122450 Effective search space used: 112122450 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: 127 (53.5 bits)