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= 0136.0028.p (485 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311427|ref|YP_003775519.1| signal transduction histidine k... 637 0.0 gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782... 65 8e-12 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 61 2e-10 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 60 5e-10 gi|300310309|ref|YP_003774401.1| methyl-accepting chemotaxis tra... 59 6e-10 >gi|300311427|ref|YP_003775519.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 560 Score = 637 bits (1643), Expect = 0.0, Method: Compositional matrix adjust. Identities = 310/467 (66%), Positives = 373/467 (79%), Gaps = 2/467 (0%) Query: 1 MLCLAVTIGWFLYRAGDDATEVLARNALMDTMNRVGQATDRQLLGARETLRVVAPDPIPP 60 M+CL +TIGWFLYRAGDDATEVLARNAL + + RV QA DRQ +GARE+L VVAP + Sbjct: 1 MVCLVLTIGWFLYRAGDDATEVLARNALTELIGRVSQAIDRQTMGARESLNVVAPPAVRT 60 Query: 61 AEKGGQPIYIPFPKDKAALEERLWLANSLFDDPSYVYFGGADGSFLGVKQEEMNLFMYST 120 A G P +PFP LEERLWLAN +F+DPSYVYFGGADGSFLG+KQEE + F YS Sbjct: 61 AAPGQPPAMLPFPVHSKELEERLWLANLMFEDPSYVYFGGADGSFLGIKQEEGSQFTYSV 120 Query: 121 RDPQGKNYVYHLRGPGTTPTLIATQDYEPRNRPWYRQAIERKKETWSPVFTDFRLKFLGI 180 R+P GKNYVY LRGPGT L+A Q+YEPR RPWY QA++R +ETWS V+ D+R K LGI Sbjct: 121 REPDGKNYVYQLRGPGTPMELVAAQEYEPRKRPWYVQAVQRGRETWSSVYADYRQKHLGI 180 Query: 181 TLSKPVYSPEQVLLGVATSSIGLLRLSEFLQALPLTKNGVAFIVEMSGDLIATSVNEPIH 240 LSKP++ + LLGVA SSIGLLRL+ L+ALPL +GVAF+ E++GD+IA SVNEP+H Sbjct: 181 NLSKPIFDADGKLLGVANSSIGLLRLTTLLRALPLGAHGVAFVTELNGDMIADSVNEPLH 240 Query: 241 KV--DGANFVRLNAGQSTSPIVRQAFADLGAYMKTQKLEPGKLVIQSLQTDGPKTELAFR 298 ++ + RLNA QS+SP+VRQA+ ++ Y+ Q + GKL++ S +T+G K E+AFR Sbjct: 241 QIRDQDPDLRRLNASQSSSPLVRQAYEEVRRYLARQPAQSGKLMLLSSRTEGGKIEVAFR 300 Query: 299 LHHDDAGLDWVAVSAVSRSDFLGSVTGGVYQTLLLGFIAVCMTFVLGFAILRWVLRDIRK 358 LHHD AGLDW+A+SA RSDFLGSVT GVYQTL+LG +AVC+TFV+GF +LRWVLRDIR+ Sbjct: 301 LHHDAAGLDWLAISAAPRSDFLGSVTSGVYQTLMLGLMAVCLTFVIGFLLLRWVLRDIRR 360 Query: 359 LTLAAKSIGNGEPFPSLNIDRRDEIGQLAQSFQEMERNLRTDRLTNVLNRDSFIAQIDFR 418 LT AAKSIGNG PFP LNI+R DEIGQLAQSF EMERNLRTDRLTNVLNRDS IAQIDFR Sbjct: 361 LTQAAKSIGNGSPFPDLNINRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFR 420 Query: 419 RRKGTEVTPLQFALLFIDLDKFKAINDQYGHDEGDKVLISAASQLQH 465 R + +PL F LLFIDLD+FKA+ND+YGHDEGDKVL++ A +LQH Sbjct: 421 RSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLVTIAQRLQH 467 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 65.5 bits (158), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 43/124 (34%), Positives = 56/124 (45%), Gaps = 25/124 (20%) Query: 351 WVLRDIRKLTLAAKSIGNGE-PFPSLNIDRRDEIGQLAQSFQ-----------EMERNLR 398 W R +R+ A + GE P L +DRRDE+GQL +F E++ Sbjct: 352 WFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLKLHQAELQHQAH 411 Query: 399 TDRLTNVLNRDSFIAQID------FRRRKGTEVTPLQFALLFIDLDKFKAINDQYGHDEG 452 D LT + NR ++ R R G LLF+DLD FK IND GH G Sbjct: 412 HDVLTGLPNRMMLAERMQAALTHACRERNGV-------GLLFLDLDGFKPINDTLGHKAG 464 Query: 453 DKVL 456 D+VL Sbjct: 465 DQVL 468 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 55/167 (32%), Positives = 79/167 (47%), Gaps = 26/167 (15%) Query: 328 YQTLLLGFIAVCMTFVLGFAILRWVL-----RDIRKLTLAAKSIGNGEPFPSLNIDRRDE 382 YQ L L +++ + VLG A+ VL +R L AK +G G+ L I R+DE Sbjct: 274 YQRLQLILLSITVLGVLGAAVASAVLARRITSPLRDLADVAKRLGEGDYSEGLFIRRQDE 333 Query: 383 IGQLAQSFQEM-----ERNLRT------DRLTNVLNRDSFIAQIDFRRRKGTEVTPLQFA 431 IG+L +F+ M R L+ D+LT + NR F D R E A Sbjct: 334 IGRLGNAFETMRLEIASRELKISRLAYQDQLTGLPNRVQF---ADLLRDAIAEAARTPGA 390 Query: 432 ---LLFIDLDKFKAINDQYGHDEGDKVLISAA----SQLQHAXLQIS 471 +L +DLD+F+ +ND GH GD +L A +QL H ++S Sbjct: 391 ACYILMMDLDRFQQVNDVLGHSFGDDLLRQVALRLSAQLLHPGAKLS 437 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 59.7 bits (143), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 52/189 (27%), Positives = 81/189 (42%), Gaps = 33/189 (17%) Query: 308 WVAVSAVSRSDFLGSVTGGVYQTLL-LGFIAVCMTFVLGFAILRWVLRDIRKLTLAAKSI 366 WVA +++ SD L + T V ++ +G + ++ +L I R + +++L A K Sbjct: 285 WVA--SITPSDRLNADTRSVRDKIIAIGLVCFAVSLLLSALISRSISVPLQRLVAAMKEA 342 Query: 367 GNGEPFPSLNIDRRDEIGQLAQSFQEMERNLR---------------------------- 398 G+G+ + DEI L++ F EM L+ Sbjct: 343 GSGDTTVRVEQHGNDEIAVLSRKFNEMAGKLQQNREVLEEQVRLRTRELERANRKLEALS 402 Query: 399 -TDRLTNVLNRDSFIAQIDFRRRKGTEVTPLQFALLFIDLDKFKAINDQYGHDEGDKVLI 457 TD LT V NR F + R+ + ALL +D+D FK ND+YGH GD+ L Sbjct: 403 ATDGLTGVANRRRFDEALANEMRRAVR-SGQSLALLMLDVDYFKKYNDRYGHLAGDECLR 461 Query: 458 SAASQLQHA 466 A LQ + Sbjct: 462 IVARVLQKS 470 >gi|300310309|ref|YP_003774401.1| methyl-accepting chemotaxis transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 625 Score = 59.3 bits (142), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 74/306 (24%), Positives = 134/306 (43%), Gaps = 56/306 (18%) Query: 146 DYEPRNRPWYRQAIERKKETWSPVFTDFRLKFLGITLSKPVYSPEQVLLGVATSSIGLLR 205 DY+P RPWY+QA + + + +T L +T ++ V QV A + Sbjct: 134 DYDPTKRPWYQQAAKTSEPVLTAPYTSASTGKLLVTFAQSVSKDGQVAAVAAADVLLDTV 193 Query: 206 LSEFLQALPLTKNGVAFIVEMSGDLIATSVNEPIHKVDGANFVRLNAGQSTSPIVRQAFA 265 +++ + P T N AF+ ++SG +IA P K +RL + A Sbjct: 194 VADVVAIKP-TPNSYAFLADLSGKIIA----HPNDK------LRL-----------KPLA 231 Query: 266 DLGAYMKTQKLEPGKL--VIQSLQTDGPKTEL-AFRLHHDDAGLDWVAVSAVSRSDFLGS 322 DL A + Q L+ V Q + DG + L R+ G DW+ V A+ R+D L S Sbjct: 232 DLDAAITPQTLDEAMRTGVHQDVALDGRRQMLFVARV----GGTDWLLVVALDRADALAS 287 Query: 323 VTGGVYQTLLLGFIAVCMTFVLGFAILRWVLRDIRKLTL---AAKSIGNGEPFPSLNID- 378 ++ + + G +AV +T + + + R + +LT+ A + I +G+ + +D Sbjct: 288 LSAMLVSS---GVMAVLVTVLAALVLGALISRLLGRLTVVQGALEEIADGDGDLTRRLDT 344 Query: 379 --RRDEIGQLAQSFQEMERNLRTDRLTNVL-------------NRDSFIAQIDFRRRKGT 423 R DE+G++ +F N D++ +V+ +RD +D +R + Sbjct: 345 HGRSDELGRIGAAF-----NRFVDKIEHVMIDIRDASHTIHAASRDIASGNMDLSQRTES 399 Query: 424 EVTPLQ 429 + + L+ Sbjct: 400 QASSLE 405 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 0.321 0.137 0.407 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: 1,519,296 Number of extensions: 65646 Number of successful extensions: 259 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 264 Number of HSP's successfully gapped: 9 Length of query: 485 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 396 Effective length of database: 1,198,455 Effective search space: 474588180 Effective search space used: 474588180 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 (21.8 bits) S2: 132 (55.5 bits)