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= 0005.0299.p (377 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312803|ref|YP_003776895.1| two component sensor histidine ... 225 6e-60 gi|300312674|ref|YP_003776766.1| two-component system transcript... 108 9e-25 gi|300311807|ref|YP_003775899.1| light-regulated signal transduc... 98 1e-21 gi|300311808|ref|YP_003775900.1| two component sensor histidine ... 87 3e-18 gi|300310697|ref|YP_003774789.1| two component hybrid sensor his... 82 5e-17 >gi|300312803|ref|YP_003776895.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 401 Score = 225 bits (573), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 132/373 (35%), Positives = 208/373 (55%), Gaps = 1/373 (0%) Query: 1 MKLSTFIISNMEKVLAEWDRFARTLELEELSSRTE-VRNHAEQILRAIARDIDTEQSSEQ 59 ++LS FI S ME +L W+ FA+T+ L+ ++ +RNHA +L AIA D++ Q+ EQ Sbjct: 7 LRLSDFIRSRMEPILEAWEAFAKTIHPPALTMDSKALRNHASLMLAAIADDLEKTQTEEQ 66 Query: 60 QQRKSQGLSHSSVIASGASIYGTARQHDGFTLLQLTAEFRALRATVQRLWFSLGNALTPA 119 + KS+G + + + A + AR GF++ QL +E+RALR++V RLW Sbjct: 67 EIAKSEGRAPAHADDTAAETHAIARLLSGFSVEQLASEYRALRSSVLRLWAKEWKEGYET 126 Query: 120 HSADLIRFNEAIDQALAESVGTYAAQASRAKDTFLAILGHDLRNPLATIALSSSLLGQPG 179 + D+ RFNEAIDQALAES+ Y ++++ FLAILGHDLRNPL + ++ Sbjct: 127 NVDDITRFNEAIDQALAESLARYTKLLDQSRNLFLAILGHDLRNPLGATIHGAQIMLLAE 186 Query: 180 MTKEGIALLAPRIKRSASMMNSMINDLLEYARAELGGEMPMSFADVDMLDICHAAVVDAS 239 + +A RI S M+ ++ DLL+Y R LG +P+ + ++ DI + + S Sbjct: 187 DIDDRHRKIAARIYNSGQRMSKLVADLLDYTRTHLGSGLPLEISSANVGDIAQRVIDEIS 246 Query: 240 AVHAHCSFVVNAKEPVLGCFDQIRLQQVFTNLLNNAAQYRGDEMPVTMTLSSDADSATIS 299 H + + G +D+ R+ Q +NLL NA Q+ + + +S+ ++ Sbjct: 247 TSHPDKVITLKTSGELNGEWDKERIAQAISNLLGNAVQHGATGEAIKVEISASRGEVHVA 306 Query: 300 IQNSGALIPKEAIDAIFDPMVQLAIVPEQRERATTSLGLGLYIAKKIAEAHDGSIGVESR 359 I N G LIP+E + IFDP+V+L + S+GLGLYI +++A AH GS+ S Sbjct: 307 INNKGPLIPEEKLHTIFDPLVRLVANGGEGSGQGGSMGLGLYIVREVASAHGGSVTASSS 366 Query: 360 DSTGTTFTVVIPK 372 + GTTFT+ +P+ Sbjct: 367 TAEGTTFTIRLPR 379 >gi|300312674|ref|YP_003776766.1| two-component system transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 108 bits (269), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 72/226 (31%), Positives = 116/226 (51%), Gaps = 7/226 (3%) Query: 148 RAKDTFLAILGHDLRNPLATIALSSSLLGQPGMTKEGIALLAPR-IKRSASMMNSMINDL 206 R + F+AILGHDLRNPL+ + ++++LL + KE +A A + I M +I ++ Sbjct: 152 RLNEMFVAILGHDLRNPLSAVMMAATLLQR--TYKEEVAQKASQQILNGGKRMAKLIENM 209 Query: 207 LEYARAELGGEMPMSFADVDMLDICHAAVVDASAVHAHCSFVVNAKEPVLGCFDQIRLQQ 266 L+ ARA L G +P++ A + +I V + A + + G +D RL Q Sbjct: 210 LDLARARLAGGIPLARASACLGEITERVVQEYQATYPGSVIERRIEGDDNGYWDGDRLAQ 269 Query: 267 VFTNLLNNAAQYRGDEMPVTMTLSSDADSATISIQNSGALIPKEAIDAIFDPMVQLAIVP 326 V NLL NA Q+ P+ + + ++ + + + +IP + + IFDP Sbjct: 270 VAANLLGNALQHGEPGHPICIGIDGRSEHEVVMVIANRGVIPADLLPVIFDPFRG----G 325 Query: 327 EQRERATTSLGLGLYIAKKIAEAHDGSIGVESRDSTGTTFTVVIPK 372 E+ LGLGL+IA++I +AH GSI + S D T TV +P+ Sbjct: 326 EREAGRKEGLGLGLFIAQQIVKAHGGSISMSSDDQLQTMVTVRLPR 371 >gi|300311807|ref|YP_003775899.1| light-regulated signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 732 Score = 97.8 bits (242), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 116/230 (50%), Gaps = 13/230 (5%) Query: 148 RAKDTFLAILGHDLRNPLATIALSSSLL----GQPGMTKEGIALLAPRIKRSASMMNSMI 203 RA++T LA LGHDLR+PL I +++ ++ P + L+ RI S+S M+ +I Sbjct: 510 RARETLLATLGHDLRDPLQAIMMAARMIEVREHSPSSSN-----LSKRISSSSSRMHRLI 564 Query: 204 NDLLEYARAELGGEMPMSFADVDMLDICHAAVVDASAVHAHCSFVVNAKEPVLGCFDQIR 263 + +L+ +R + G + + VD+ + V +A + ++ A++ D R Sbjct: 565 SQVLDISRLQSGMGLDIQRRPVDVRKMVSEIVSEARMAYPDNEIILEAEDCGEIALDGDR 624 Query: 264 LQQVFTNLLNNAAQYRGDEMPVTMTLSSDADSATISIQNSGALIPKEAIDAIFDPMVQLA 323 + QV +NL++N + P T+ + D TI++ N G IP+ +F P + + Sbjct: 625 ISQVVSNLISNTRHHGEIGKPSTLIVFRREDVLTIAVSNHGPAIPEPVRSNLFKPYKKES 684 Query: 324 IVPEQRERATTSLGLGLYIAKKIAEAHDGSIGVESRDSTGTTFTVVIPKL 373 + +R T LGLGLYI +I H G I V S D+ TFTV +P L Sbjct: 685 L---GNQRNTRGLGLGLYIVSEIVHGHGGKIAV-SCDNNIITFTVTLPIL 730 >gi|300311808|ref|YP_003775900.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 289 Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 107/235 (45%), Gaps = 10/235 (4%) Query: 143 AAQASRAKDTFLAILGHDLRNPLATIALSSSLLGQPGMTKEGIALLAPRIKRSASMMNSM 202 A +R KD FLA L H+LR PL I + L + + I+R+A + M Sbjct: 43 ADSVTRLKDEFLATLSHELRTPLNAIVGWTQYLLNDHSDADRLVKGLQVIERNARLQAQM 102 Query: 203 INDLLEYARAELGGEMPMSFADVDMLDICHAAVVDASAVHAHCSFVVNAKEPVLG----- 257 + DLL+ +R L G++ + +D+ + A+ +AV P LG Sbjct: 103 VEDLLDMSRM-LAGKLRLETRPMDLASVAEEAI---AAVRPAAEARQIELHPALGQGGVI 158 Query: 258 CFDQIRLQQVFTNLLNNAAQYRGDEMPVTMTLSSDADSATISIQNSGALIPKEAIDAIFD 317 D RLQQV NLL NA ++ + V+++L D+ + + ++G I E + ++FD Sbjct: 159 LGDPARLQQVVWNLLMNAIKFTPRQGRVSLSLRQHDDTVALEVSDNGRGIKGEFLGSVFD 218 Query: 318 PMVQLAIVPEQRERATTSLGLGLYIAKKIAEAHDGSIGVESRD-STGTTFTVVIP 371 Q + + LGLGL IA+ + E H G I S G FTV +P Sbjct: 219 RFTQEDVSTGSTGSTASGLGLGLAIARHLVELHGGQIRAASAGPGMGAAFTVTLP 273 >gi|300310697|ref|YP_003774789.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 916 Score = 82.4 bits (202), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 112/243 (46%), Gaps = 18/243 (7%) Query: 143 AAQASRAKDTFLAILGHDLRNPLATIALSSSLLGQPGMTKEGIALLAPRIKRSASMMNSM 202 A +A+ AK FL + HDLR PL +I + ++ G G + I RSA M +M Sbjct: 444 ADEANLAKSGFLTRISHDLRTPLTSILGFADMIQASGGPHAGHGRI---IMRSARHMLTM 500 Query: 203 INDLLEYARAE-LGGEMPMS-FADVDMLDICHAAVVDASAVHAHCSFVVNAKEPVLGCFD 260 +NDL++YAR + L P + + +I V A H H + ++ P + D Sbjct: 501 VNDLIDYARGDPLDTPQPTPLYLHALLQEIAQEGQVLAQRQHNHFTLDISPDLPPVLALD 560 Query: 261 QIRLQQVFTNLLNNAAQYRGDEMPVTMTLSSDADSA-------TISIQNSGALIPKEAID 313 RL ++ NLL+NAA+Y E + + + AD A I + ++G I + Sbjct: 561 ARRLHRILGNLLDNAAKYT-REGRIGLHVQWQADHADAGKGALQIEVSDTGCGIAPQFQS 619 Query: 314 AIFDPMVQLAIVPEQRERATTSLGLGLYIAKKIAEAHDGSIGVESRDSTGTTFTVVIPKL 373 IF+P + +R +G+GL I + + GSI +ES+ GT + +P Sbjct: 620 RIFEPFER-----ADADRRQPGIGMGLAIVRLWVQRMGGSIVLESQPGMGTRMHLQLPAE 674 Query: 374 RPS 376 R S Sbjct: 675 RGS 677 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 0.130 0.358 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: 956,457 Number of extensions: 34991 Number of successful extensions: 243 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 224 Number of HSP's successfully gapped: 28 Length of query: 377 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 290 Effective length of database: 1,207,925 Effective search space: 350298250 Effective search space used: 350298250 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)