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= 0005.0238.p (355 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311453|ref|YP_003775545.1| signal transduction containing ... 436 e-123 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 85 1e-17 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 82 9e-17 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 75 8e-15 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 73 4e-14 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 436 bits (1120), Expect = e-123, Method: Compositional matrix adjust. Identities = 212/295 (71%), Positives = 245/295 (83%), Gaps = 2/295 (0%) Query: 1 MIATLSSNDLACCSALLDAVLGLEGIALHEALSNIVSSFLGRSGGRYFSDVPNALDTQQL 60 M++++ ++DLACCSALL+A+ L G+ALH AL I S L R GGRY ++ L Sbjct: 1 MLSSVGTDDLACCSALLEAMQNLHGMALHAALGGIASGLLKRPGGRYVIGASAPVEGG-L 59 Query: 61 LQPVEHEGVSYGHYVFPDPPENYTEAEAGRLASFAALTGRLLQNRADTEKRSRVLDQIES 120 QPV+ EG +GH+VFP Y++ E RLA AA GRL+Q RADTE+R R LDQIE+ Sbjct: 60 CQPVQCEGALFGHFVFPPLTRPYSDQERQRLAMLAAFLGRLMQGRADTEQRVRALDQIEA 119 Query: 121 KLEQQAQILNQMHESVITMDQAGFITSWNRGAEQLFGYTAIEAIGRNVLFLYENEDEDDA 180 KLEQQAQILNQMHESVITMD AGFITSWNRGAEQLFGY+A+EAIGRNVLFLYENEDE+D Sbjct: 120 KLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGYSAMEAIGRNVLFLYENEDEED- 178 Query: 181 SLNDVFLAQGGREMEVRRRKKSGEAFWASLSLSVMRDQHGQPIGMIGYINDITERKNAEK 240 SL+D+FL GGREMEVRRRKKSGE FWASLSLSVMRDQ+G PIG+IGY+NDITERKNAEK Sbjct: 179 SLHDLFLEHGGREMEVRRRKKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITERKNAEK 238 Query: 241 LIHHLAYYDSLTGLPNRTLLTRTVDQALLAAQQDNIYGCIMFIDLNRFKPINDTL 295 LIHHLAYYD+LTGLPNRTLLTRTVDQAL A+ +N++GC+MFIDLNRFKPINDTL Sbjct: 239 LIHHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHGCVMFIDLNRFKPINDTL 293 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 55/185 (29%), Positives = 98/185 (52%), Gaps = 3/185 (1%) Query: 117 QIESKLEQQAQILNQMHESVITMDQAGFITSWNRGAEQLFGYTAIEAIGRNVLFLYENED 176 QIE++L A + E ++ D I N+ ++ GY+A E +G++ L + Sbjct: 469 QIEAELRISAVAFDS-REGMLITDANSKILRVNKAFTEITGYSAEEIVGKHPNLLRSDRH 527 Query: 177 EDD--ASLNDVFLAQGGREMEVRRRKKSGEAFWASLSLSVMRDQHGQPIGMIGYINDITE 234 + + G + E+ R+K+GE + L++S ++++ Q + +DI++ Sbjct: 528 GPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYPEWLTISAVKNKDQQVTHYVSTHHDISD 587 Query: 235 RKNAEKLIHHLAYYDSLTGLPNRTLLTRTVDQALLAAQQDNIYGCIMFIDLNRFKPINDT 294 RK AE+ I LA++D+LT LPNRTLL + QA+ + + ++FIDL+ FK +NDT Sbjct: 588 RKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIALSLRTKTCAALLFIDLDHFKTLNDT 647 Query: 295 LCWSK 299 + K Sbjct: 648 IGHEK 652 >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 = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 49/154 (31%), Positives = 81/154 (52%), Gaps = 4/154 (2%) Query: 145 ITSWNRGAEQLFGYTAIEAIGRNVLFLYENEDEDDASLNDVFLA---QGGREMEVRRRKK 201 I N ++ GY++ EA+G+++ FL E D D V++A Q + +R K Sbjct: 416 IEYVNPAFARITGYSSTEAVGKSIRFL-EGRDSDPEGFETVWIAMREQREHNVVLRNYHK 474 Query: 202 SGEAFWASLSLSVMRDQHGQPIGMIGYINDITERKNAEKLIHHLAYYDSLTGLPNRTLLT 261 G W ++ +RD+ G+ + + DIT K E + A D+LTGL NR +L Sbjct: 475 DGSELWNDFYIAPVRDESGEVTHFVAALYDITSMKRYEAELEFQASRDTLTGLINRHMLR 534 Query: 262 RTVDQALLAAQQDNIYGCIMFIDLNRFKPINDTL 295 ++QA+ A++ ++F+DL+RFK +NDTL Sbjct: 535 HHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTL 568 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 75.1 bits (183), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 57/199 (28%), Positives = 93/199 (46%), Gaps = 7/199 (3%) Query: 101 LLQNRADTEKRSRVLDQIESKLEQQAQILNQMHESVITMDQAGFITSWNRGAEQLFGYTA 160 LQ+ + ++ ++ L + E + I E V G + N +++GY + Sbjct: 120 FLQDVTERKEAAQALQEAERRYRS---IFENAIEGVFQTTPDGTYIAVNPALARIYGYHS 176 Query: 161 IE--AIG-RNVLFLYENEDEDDASLNDVFLAQGG-REMEVRRRKKSGEAFWASLSLSVMR 216 E +G R++ E E + QG E R ++ GE W S + + Sbjct: 177 PEDLIVGLRDISHQLYVEPERRQEFMRLMEEQGSVSNFESRVYRRDGEIIWISENARAVY 236 Query: 217 DQHGQPIGMIGYINDITERKNAEKLIHHLAYYDSLTGLPNRTLLTRTVDQALLAAQQDNI 276 D+ G+ G + ITERK E + H A +D+LTGLPNR +L + +AL A+Q Sbjct: 237 DEAGKLSCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGA 296 Query: 277 YGCIMFIDLNRFKPINDTL 295 + F+DL++FK IND+L Sbjct: 297 LTAVAFVDLDQFKFINDSL 315 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 34/62 (54%), Positives = 46/62 (74%) Query: 234 ERKNAEKLIHHLAYYDSLTGLPNRTLLTRTVDQALLAAQQDNIYGCIMFIDLNRFKPIND 293 ER++A IH LA+YDSLTGLPNR+LL QA+ AA+++ +MFIDL+RFK +ND Sbjct: 546 EREDARARIHQLAFYDSLTGLPNRSLLLVQAGQAIAAAERNCSTVAVMFIDLDRFKQVND 605 Query: 294 TL 295 +L Sbjct: 606 SL 607 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 0.318 0.131 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: 1,095,283 Number of extensions: 45349 Number of successful extensions: 202 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 206 Number of HSP's successfully gapped: 8 Length of query: 355 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 269 Effective length of database: 1,212,660 Effective search space: 326205540 Effective search space used: 326205540 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)