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= 0033.0107.p (203 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309883|ref|YP_003773975.1| GGDEF domain/EAL domain signal ... 65 3e-12 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 62 4e-11 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 57 1e-09 gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364... 55 3e-09 >gi|300309883|ref|YP_003773975.1| GGDEF domain/EAL domain signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 650 Score = 65.5 bits (158), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 55/187 (29%), Positives = 98/187 (52%), Gaps = 9/187 (4%) Query: 3 VYPMTFLPTMERLGLIKHVDCYVVRRAIELLRRTP-QLSLGVNVSAQ---SAEDIAWWKE 58 V P+ F+P ER+G+I + ++R+A+ P Q+ L N+SA S+E +A + Sbjct: 442 VSPVEFIPAAERMGIINQLSVILLRKALAAAASWPAQIRLSFNLSANDINSSEGMAEIIK 501 Query: 59 ILRELSVSPGVAGRLIVELTETEKIT-LRHKRTLFASLKDAGCRIAIDDFGAGHSIHNAD 117 ++RE P RL +E+TET + L R L SL+ GC I +DDFG G++ + Sbjct: 502 LIRESGFCPS---RLDLEITETALLQDLEKTRQLIHSLRQLGCGITLDDFGTGYASLSHL 558 Query: 118 VIGEPDLIKIDRSVIQQ-ARDSEASRFLQKVLDAARRRCPSMIVEGIEFENDLSLVGQME 176 IKID+S + +D+ + + ++ +L + +VEG+E L+++ ++ Sbjct: 559 HALPLTRIKIDKSFVADIGQDAVSLKIVKSLLALTLDMDLACVVEGLETPQHLAVLRELG 618 Query: 177 NCWLQGH 183 + QG+ Sbjct: 619 AMYGQGY 625 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 61.6 bits (148), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 53/192 (27%), Positives = 91/192 (47%), Gaps = 16/192 (8%) Query: 3 VYPMTFLPTMERLGLIKHVDCYVVRRAI----ELLRRTPQLSLGVNVSAQSAEDIAWWKE 58 + P F+P E+ G I+ V +V+R+ + L+ L + N SA+ + + Sbjct: 393 IPPDVFIPLAEKTGQIRQVTAWVLRQVVAQVARWLKSGRALPVAFNASARDFDSDELREL 452 Query: 59 ILRELS---VSPGVAGRLIVELTETEKITLRHK---RTLFASLKDAGCRIAIDDFGAGHS 112 + ++L V P ++E+ TE H R +L++ G ++AIDDFGAG S Sbjct: 453 LAQQLKLHKVPPA-----LIEIEFTEHAMANHPQQVRQRVQALRELGVKVAIDDFGAGFS 507 Query: 113 IHNADVIGEPDLIKIDRSVIQQARDSEASRFL-QKVLDAARRRCPSMIVEGIEFENDLSL 171 + D +KIDRS I + D EA + + +L A S++ EG+E E +L Sbjct: 508 NLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSILHLAHNLGFSVVAEGLESERTATL 567 Query: 172 VGQMENCWLQGH 183 + + + QG+ Sbjct: 568 LRHLGCDYGQGY 579 >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 = 56.6 bits (135), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 52/195 (26%), Positives = 92/195 (47%), Gaps = 13/195 (6%) Query: 2 IVYPMTFLPTMERLGLIKHVDCYVVRRAIELLRR-----TPQLSLGVNVSAQS---AEDI 53 +V P F+ E GLI + +V+R A R+ +S+ VN+S + + Sbjct: 738 MVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLV 797 Query: 54 AWWKEILRELSVSPGVAGRLIVELTETEKIT-LRHKRTLFASLKDAGCRIAIDDFGAGHS 112 + ++L + + P L +ELTE+ +T + H + A LK G R++IDDFG G+S Sbjct: 798 SSIADVLEDTGLPPE---SLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYS 854 Query: 113 IHNADVIGEPDLIKIDRSVIQQAR-DSEASRFLQKVLDAARRRCPSMIVEGIEFENDLSL 171 D++KIDRS ++ D++ + ++ AR +I EG+E + L Sbjct: 855 SLAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDY 914 Query: 172 VGQMENCWLQGHWLN 186 + +QG+ + Sbjct: 915 LRHYGCDEIQGYLFS 929 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 55.5 bits (132), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 49/176 (27%), Positives = 87/176 (49%), Gaps = 14/176 (7%) Query: 2 IVYPMTFLPTMERLGLIKHVDCYVVRRAIE----LLRRTPQLSLGVNVSAQS--AEDIAW 55 ++ P F+P E+ LI+ V +V++R IE RR + + +NVSA+ +D+ Sbjct: 400 VISPALFIPLAEKTALIRQVTLWVLQRGIEQATAWARRGVAIPVAINVSARDFDNDDLLQ 459 Query: 56 WKEILRELSVSPGVAGRLIVELTETEKITLRHKRTLFA---SLKDAGCRIAIDDFGAGHS 112 L E P AG ++E+ TE R+ L+ +K G ++AIDDFGAG S Sbjct: 460 LLGRLLEQHRIP--AG--LIEIEFTESAMSRNPEKLYGRIQEIKRLGVKVAIDDFGAGFS 515 Query: 113 IHNADVIGEPDLIKIDRS-VIQQARDSEASRFLQKVLDAARRRCPSMIVEGIEFEN 167 + D +K+D+S +++ D + + ++ +R +++ EG+E E Sbjct: 516 NLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPSMIHLGQRLGFAVVAEGVENEK 571 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 0.323 0.138 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: 611,913 Number of extensions: 23028 Number of successful extensions: 96 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 102 Number of HSP's successfully gapped: 6 Length of query: 203 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 122 Effective length of database: 1,236,335 Effective search space: 150832870 Effective search space used: 150832870 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 128 (53.9 bits)