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= 0002.0289.p (360 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 261 6e-71 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 117 1e-27 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 104 1e-23 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 101 9e-23 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 100 1e-22 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 261 bits (667), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 126/159 (79%), Positives = 139/159 (87%) Query: 163 LLRSDRHSPAFHRAIWESVRHSGGWQGEIWNRRKNGQVYPEWLTISAVKGDDGVVTHYVG 222 LLRSDRH PAF + + ES+R G WQGEIW+RRKNG+VYPEWLTISAVK D VTHYV Sbjct: 521 LLRSDRHGPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYPEWLTISAVKNKDQQVTHYVS 580 Query: 223 THHDITERKIAEERIKELAFFDALTRLPNRTLLLDRLKQAIAASTRNKTSSALLFIDLDH 282 THHDI++RK+AEERI+ELAFFDALTRLPNRTLLLDRLKQAIA S R KT +ALLFIDLDH Sbjct: 581 THHDISDRKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIALSLRTKTCAALLFIDLDH 640 Query: 283 FKTLNDTLGHDKGDLLLKQVAQRLALSVRANDTVARVGG 321 FKTLNDT+GH+KGD LLKQVAQRL +VR NDTVARVGG Sbjct: 641 FKTLNDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGG 679 Score = 189 bits (479), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 94/146 (64%), Positives = 117/146 (80%) Query: 7 FTTRFGRNAELQTALTGVGLSMLLALLAWLLMSSRRRAIRLANKMTSELRASEEQFRAIA 66 F +FGRNAE A TG+ +S+ LALLAWL++SSR RA+RLA KMT+ELRASEEQFRAIA Sbjct: 298 FHAQFGRNAEPLIATTGIAMSLSLALLAWLMVSSRVRAVRLAQKMTAELRASEEQFRAIA 357 Query: 67 DCTVNWEVWWGLDGKPRWINPSVFHYTGYTVEECMAMPNFKAQFIYLEDLPRVVPEFDKG 126 DCTVNWEVWWGLDG+PRWIN +V YTGYTVEEC+AM +F + ED PR+ E + Sbjct: 358 DCTVNWEVWWGLDGRPRWINHAVLDYTGYTVEECLAMDDFIGTIAHPEDEPRIRAELARC 417 Query: 127 LLGERGDDLEFRCVRKDGSLFWLSVS 152 + G++ +D+E RCVRKDGS+FWL++S Sbjct: 418 MDGQKREDVELRCVRKDGSVFWLALS 443 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 64/163 (39%), Positives = 98/163 (60%), Gaps = 4/163 (2%) Query: 159 SLFWLLRSDRHSPAFHRAIWESVRHSGGWQGEIWNRRKNGQVYPEWLTISAVKGDDGVVT 218 ++ +L ++ + H E GG + E+ R+K+G+V+ L++S ++ +G Sbjct: 166 NVLFLYENEDEEDSLHDLFLEH----GGREMEVRRRKKSGEVFWASLSLSVMRDQNGHPI 221 Query: 219 HYVGTHHDITERKIAEERIKELAFFDALTRLPNRTLLLDRLKQAIAASTRNKTSSALLFI 278 +G +DITERK AE+ I LA++DALT LPNRTLL + QA+ + ++FI Sbjct: 222 GLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHGCVMFI 281 Query: 279 DLDHFKTLNDTLGHDKGDLLLKQVAQRLALSVRANDTVARVGG 321 DL+ FK +NDTLGH GD+LL +VA RL ++R D VAR+G Sbjct: 282 DLNRFKPINDTLGHVAGDMLLVEVAMRLRRALREQDVVARLGA 324 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 53/89 (59%), Positives = 64/89 (71%) Query: 233 AEERIKELAFFDALTRLPNRTLLLDRLKQAIAASTRNKTSSALLFIDLDHFKTLNDTLGH 292 A E + ++ D LTRLPNRTLL DRL QAI + R + AL+F+DLD FK +ND+LGH Sbjct: 258 ANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGH 317 Query: 293 DKGDLLLKQVAQRLALSVRANDTVARVGG 321 GD LL +VAQRL S RANDTVAR+GG Sbjct: 318 HVGDRLLVEVAQRLTSSSRANDTVARLGG 346 >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 = 101 bits (252), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 61/151 (40%), Positives = 84/151 (55%) Query: 171 PAFHRAIWESVRHSGGWQGEIWNRRKNGQVYPEWLTISAVKGDDGVVTHYVGTHHDITER 230 P +W ++R + N K+G I+ V+ + G VTH+V +DIT Sbjct: 449 PEGFETVWIAMREQREHNVVLRNYHKDGSELWNDFYIAPVRDESGEVTHFVAALYDITSM 508 Query: 231 KIAEERIKELAFFDALTRLPNRTLLLDRLKQAIAASTRNKTSSALLFIDLDHFKTLNDTL 290 K E ++ A D LT L NR +L L+QAI + R K + ++F+DLD FK +NDTL Sbjct: 509 KRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTL 568 Query: 291 GHDKGDLLLKQVAQRLALSVRANDTVARVGG 321 GH GD LL+ VA RL +VR DTVAR+GG Sbjct: 569 GHKAGDTLLRTVAGRLRAAVREADTVARLGG 599 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 51/93 (54%), Positives = 67/93 (72%) Query: 229 ERKIAEERIKELAFFDALTRLPNRTLLLDRLKQAIAASTRNKTSSALLFIDLDHFKTLND 288 ER+ A RI +LAF+D+LT LPNR+LLL + QAIAA+ RN ++ A++FIDLD FK +ND Sbjct: 546 EREDARARIHQLAFYDSLTGLPNRSLLLVQAGQAIAAAERNCSTVAVMFIDLDRFKQVND 605 Query: 289 TLGHDKGDLLLKQVAQRLALSVRANDTVARVGG 321 +LGH GD LL+ VA RL R +D V R+ G Sbjct: 606 SLGHQAGDELLRTVATRLQSQARRSDIVGRLSG 638 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 0.136 0.421 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: 1,039,045 Number of extensions: 39804 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 36 Length of query: 360 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 274 Effective length of database: 1,212,660 Effective search space: 332268840 Effective search space used: 332268840 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: 131 (55.1 bits)