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= 0001.0078.p (386 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... 140 2e-34 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 137 1e-33 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 133 3e-32 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 132 6e-32 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 129 5e-31 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 140 bits (353), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 70/170 (41%), Positives = 109/170 (64%), Gaps = 1/170 (0%) Query: 215 EAKALKMAFKDPLTGLYNKHFMNNLFDQALLLATRPHHLVAVYYIDLDNFKPVNDQAGHA 274 EA+ A D LTGL N++ ++ +AL +A + L AV ++DLD FK +ND GH Sbjct: 259 EAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFKFINDSLGHQ 318 Query: 275 VGDKVLMCVAQRLKEAVRSTDICARLGGDEFT-VIATQLERQDQAPEIAKKLLAKLAAPI 333 VGD++L VAQRL+ +R D+ AR GGDEF V+ Q E + E+ +++LA +A P Sbjct: 319 VGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPW 378 Query: 334 EVGHQQFVLGASIGISLYPSHGQDLSRLLEQADAAMYHVKHRGKSGYELY 383 + G ++F + ASIG+S YP+ G+D+ LL+ AD+AMY K +G++ ++ + Sbjct: 379 QAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFF 428 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 82/212 (38%), Positives = 116/212 (54%), Gaps = 7/212 (3%) Query: 178 PPWLRYGFLLGT--ALVALQYTSLLTAIL----ALFHRRLIQAEAKALKMAFKDPLTGLY 231 P WL ++ T AL TS+L A L A R L A + +M D LT L Sbjct: 216 PGWLAVLIIVVTLAALTIALLTSVLDARLESRTAKLARSLAAANEELTQMVLHDQLTRLP 275 Query: 232 NKHFMNNLFDQALLLATRPHHLVAVYYIDLDNFKPVNDQAGHAVGDKVLMCVAQRLKEAV 291 N+ + + +QA+ A R A+ ++DLD FK +ND GH VGD++L+ VAQRL + Sbjct: 276 NRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSS 335 Query: 292 RSTDICARLGGDEFTVIATQLERQDQAPEIAKKLLAKLAAPIEVGHQQFVLGASIGISLY 351 R+ D ARLGGDEF VI L + A +A+KL+ + P +V + + AS+GI++Y Sbjct: 336 RANDTVARLGGDEF-VILVDLNTPEDAMGVAEKLVEAVNQPFKVDQHELRVSASVGIAIY 394 Query: 352 PSHGQDLSRLLEQADAAMYHVKHRGKSGYELY 383 P G L+ ADAAMYH K G++GY + Sbjct: 395 PEDGATRHDLVINADAAMYHTKRSGRNGYHFF 426 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 133 bits (334), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 64/167 (38%), Positives = 99/167 (59%) Query: 217 KALKMAFKDPLTGLYNKHFMNNLFDQALLLATRPHHLVAVYYIDLDNFKPVNDQAGHAVG 276 K L A D LTGL N+ + + A+ +A R AV ++DLD FK +ND GHAVG Sbjct: 257 KLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVG 316 Query: 277 DKVLMCVAQRLKEAVRSTDICARLGGDEFTVIATQLERQDQAPEIAKKLLAKLAAPIEVG 336 D +L+ VAQR+++ +R D+ AR+GGDEF V+ L D ++++ +LA L ++ Sbjct: 317 DGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDFQID 376 Query: 337 HQQFVLGASIGISLYPSHGQDLSRLLEQADAAMYHVKHRGKSGYELY 383 + +SIGI++YP+ G + L++ ADAAMY K G++ Y + Sbjct: 377 DATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFF 423 >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 = 132 bits (331), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 82/235 (34%), Positives = 119/235 (50%), Gaps = 4/235 (1%) Query: 150 PLIRRCMATACIALTLHWASGGLIGHFYPPWLRYGFLLGTALVALQYTSLLTAILALFHR 209 PLI + +C A + G L+G F L+ + L + A +A+ R Sbjct: 602 PLIDTEIYPSCGAWPIIGKEGQLLGVF-AALLKENQAPSNEYLQLANIAADLASVAIESR 660 Query: 210 RLIQAEAKALKMAFKDPLTGLYNKHFMNNLFDQALLLATRPHHLVAVYYIDLDNFKPVND 269 R A+ + +A D LTGL N+ A+ A + +VAV +DLD FK +ND Sbjct: 661 R---ADERIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNIND 717 Query: 270 QAGHAVGDKVLMCVAQRLKEAVRSTDICARLGGDEFTVIATQLERQDQAPEIAKKLLAKL 329 GH G+ VL +AQR + ++R DI AR+GGDEF V+ + Q EIA+KLL + Sbjct: 718 TFGHETGEAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEA 777 Query: 330 AAPIEVGHQQFVLGASIGISLYPSHGQDLSRLLEQADAAMYHVKHRGKSGYELYT 384 P + Q+ +L SIGI+ YP G + L++ AD AMY KH GK Y ++ Sbjct: 778 RKPFIIDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFS 832 >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 = 129 bits (323), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 65/170 (38%), Positives = 99/170 (58%) Query: 215 EAKALKMAFKDPLTGLYNKHFMNNLFDQALLLATRPHHLVAVYYIDLDNFKPVNDQAGHA 274 EA+ A +D LTGL N+H + + +QA+ +A R + V ++DLD FK VND GH Sbjct: 512 EAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHK 571 Query: 275 VGDKVLMCVAQRLKEAVRSTDICARLGGDEFTVIATQLERQDQAPEIAKKLLAKLAAPIE 334 GD +L VA RL+ AVR D ARLGGDEF +I + + ++++ +AAP+ Sbjct: 572 AGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQRIMDAVAAPVT 631 Query: 335 VGHQQFVLGASIGISLYPSHGQDLSRLLEQADAAMYHVKHRGKSGYELYT 384 +G + S+G++ YP+ G D L++ AD AMY K G++ ++ YT Sbjct: 632 LGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYT 681 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 0.328 0.140 0.434 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: 1,187,147 Number of extensions: 47431 Number of successful extensions: 266 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 232 Number of HSP's successfully gapped: 38 Length of query: 386 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 299 Effective length of database: 1,207,925 Effective search space: 361169575 Effective search space used: 361169575 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 131 (55.1 bits)