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= 0124.0014.p (208 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309962|ref|YP_003774054.1| response regulator [Herbaspiril... 114 4e-27 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 94 7e-21 gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364... 94 1e-20 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 89 2e-19 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 89 2e-19 >gi|300309962|ref|YP_003774054.1| response regulator [Herbaspirillum seropedicae SmR1] Length = 420 Score = 114 bits (286), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 56/152 (36%), Positives = 89/152 (58%) Query: 32 GCSIPICIKASASTLETPEIADYLYERSQRYGIASHLITVGISEEEPSQHALKLAASLNR 91 G +I + + S LE P+ + E ++ + + + + I+E H L R Sbjct: 233 GLAIKVAVNLSPLLLEKPDFLHRILELVDKHALPAEHVVLEITESSVVAHKGNSLGMLAR 292 Query: 92 LRLCGFGLSIDDFGSGISTMKLLSQMPFTEIRIDRHFVRQFLRQPQCRVIVESIIGIAKR 151 LRL GFGLSIDD+G+G S+M+ L+++PFTE++IDR FV + RVI++S + +A+R Sbjct: 293 LRLKGFGLSIDDYGTGFSSMQQLARIPFTELKIDRSFVHGAHDRKNLRVILQSALDMAQR 352 Query: 152 LKLIVTAEGIENARQMEILAAMGCGRGQGYIV 183 L+L+ AEG+E +L GC GQGY++ Sbjct: 353 LELVTVAEGVETMEDWRLLQDFGCSLGQGYLI 384 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 94.4 bits (233), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 50/156 (32%), Positives = 85/156 (54%), Gaps = 1/156 (0%) Query: 32 GCSIPICIKASASTLETPEIADYLYERSQRYGIASHLITVGISEEEPSQHALKLAASLNR 91 G ++P+ ASA ++ E+ + L ++ + + + LI + +E + H ++ + Sbjct: 430 GRALPVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQQVRQRVQA 489 Query: 92 LRLCGFGLSIDDFGSGISTMKLLSQMPFTEIRIDRHFVRQFLRQPQCRVIVESIIGIAKR 151 LR G ++IDDFG+G S + L +P ++IDR F+ + L ++IV SI+ +A Sbjct: 490 LRELGVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSILHLAHN 549 Query: 152 LKLIVTAEGIENARQMEILAAMGCGRGQGY-IVVPM 186 L V AEG+E+ R +L +GC GQGY I PM Sbjct: 550 LGFSVVAEGLESERTATLLRHLGCDYGQGYAIARPM 585 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 93.6 bits (231), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 53/173 (30%), Positives = 90/173 (52%), Gaps = 1/173 (0%) Query: 28 LAHIGCSIPICIKASASTLETPEIADYLYERSQRYGIASHLITVGISEEEPSQHALKLAA 87 A G +IP+ I SA + ++ L +++ I + LI + +E S++ KL Sbjct: 434 WARRGVAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEKLYG 493 Query: 88 SLNRLRLCGFGLSIDDFGSGISTMKLLSQMPFTEIRIDRHFVRQFLRQPQCRVIVESIIG 147 + ++ G ++IDDFG+G S + L +P +++D+ F+ + + IV S+I Sbjct: 494 RIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPSMIH 553 Query: 148 IAKRLKLIVTAEGIENARQMEILAAMGCGRGQGY-IVVPMRQEDFLNKVGANQ 199 + +RL V AEG+EN + IL +GC GQG+ I PM D + +GA Q Sbjct: 554 LGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGARQ 606 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 89.4 bits (220), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 48/166 (28%), Positives = 87/166 (52%), Gaps = 2/166 (1%) Query: 32 GCSIP-ICIKASASTLETPEIADYLYERSQRYGIASHLITVGISEEEPSQHALKLAASLN 90 G +P I + SA+ ++ ++ +RY + +T+ I+E + ++ Sbjct: 814 GIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEITETVLMDTNPSTSQTIA 873 Query: 91 RLRLCGFGLSIDDFGSGISTMKLLSQMPFTEIRIDRHFVRQFLRQPQCRVIVESIIGIAK 150 + G L++DDFG+G S++ L ++P +E+++D+ FVR + P + ++I I + Sbjct: 874 AVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMAKDPAVSALTNAVIRIGE 933 Query: 151 RLKLIVTAEGIENARQMEILAAMGCGRGQGYIVV-PMRQEDFLNKV 195 LKL V AEG+E+A Q +L + GC QGY+ PM + N V Sbjct: 934 SLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALENWV 979 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 89.0 bits (219), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 57/189 (30%), Positives = 89/189 (47%), Gaps = 1/189 (0%) Query: 5 ERQGLGLMLFYRTVNHVLKTQQKLAHIGCSIPICIKASASTLETPEIADYLYERSQRYGI 64 E G ML + V + ++L G + + S L E+ QR+ + Sbjct: 589 ETTGFIRMLTLWMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRL 648 Query: 65 ASHLITVGISEEEPSQHALKLAASLNRLRLCGFGLSIDDFGSGISTMKLLSQMPFTEIRI 124 + + I+E + +L RL GF LSIDDFG+G S++ L ++P E++I Sbjct: 649 QPAALCLEITESAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKI 708 Query: 125 DRHFVRQFLRQPQCRVIVESIIGIAKRLKLIVTAEGIENARQMEILAAMGCGRGQGYIV- 183 D+ FV + + IV S + + L L V AEG+E+ +L MGC +GQGY + Sbjct: 709 DKSFVMKMAQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMG 768 Query: 184 VPMRQEDFL 192 PM + FL Sbjct: 769 KPMPVQHFL 777 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 0.139 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: 594,678 Number of extensions: 22634 Number of successful extensions: 87 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 85 Number of HSP's successfully gapped: 18 Length of query: 208 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 127 Effective length of database: 1,236,335 Effective search space: 157014545 Effective search space used: 157014545 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)