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= 0008.0004.p (519 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312843|ref|YP_003776935.1| response regulator containing a... 714 0.0 gi|300310865|ref|YP_003774957.1| response regulator containing a... 266 2e-72 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 223 3e-59 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 216 4e-57 gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi... 184 2e-47 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 714 bits (1842), Expect = 0.0, Method: Compositional matrix adjust. Identities = 365/510 (71%), Positives = 419/510 (82%) Query: 1 MLAKAGRVTRHSVARRARLFVALICVAIAAGHVWQSLAARTVQLDNTRTYSGNIARALAR 60 +LAKAG RHSVARRARLFV LIC AIA GH+WQS+ AR VQL+N R+YSGN+A+ALAR Sbjct: 4 LLAKAGSHARHSVARRARLFVVLICAAIAGGHLWQSMTARGVQLENNRSYSGNVAKALAR 63 Query: 61 HAYDVFQATHGALINISDRIDEAGTTHAQLHTMSPVLRRLASEMPQLDGLYIFDEHGNRV 120 HAYDV QAT G L+++SDRID G HA+L + P+LRRL+SEMPQLDGLY+FDEHG R+ Sbjct: 64 HAYDVLQATDGLLLDMSDRIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVFDEHGKRL 123 Query: 121 ASSSPPRASDANNSDRAYFIYHRDHDDPEPHIHPTLLSRSTDQWIIPMSRRLNHPDGRFA 180 +SS P + ANNSDR YFI+HRDHDD PH+ LLSRST +WIIPMSRRLNHPDG FA Sbjct: 124 LTSSAPPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLNHPDGSFA 183 Query: 181 GLLLATLRLDHFNALYQTVEIGRDSSILLLLRPGKVLTRQPFDPAFINRDLSLDPVIGEA 240 G+LLATL ++HFN LY+TVEIG+ SI LLLR G +LTR PFDP +INRD S + E Sbjct: 184 GVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFLEG 243 Query: 241 LASPTSGHVLLHSPLDDIDRYVSYQPVQGFPLIVTVTTSRDEALAPWRQQTIVYGAAVLL 300 L G++ + SPLD R++SYQ V +PL++ VT +R+EALA W+QQT VYGAAVLL Sbjct: 244 LPHSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAAVLL 303 Query: 301 LLIIIGLFGWRLIGQIELRLVAEDRALQVMGELHQANQRLEQLAHQDGLTGLANRRHLDT 360 LL IIG+FGWRL+GQIELRL AEDRALQ MGEL AN RLE LAHQDGLTGLANRRHLDT Sbjct: 304 LLAIIGVFGWRLVGQIELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLDT 363 Query: 361 VLAAEFRRAARSKSALSLIMIDVDFFKQYNDLYGHQAGDECLRRIAAVLRERQRRPGDLA 420 +L EF+RA RS +AL+LIMIDVDFFKQYNDLYGHQAGDECLRR+A VL+ERQRRPGDLA Sbjct: 364 MLETEFKRAERSGAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLA 423 Query: 421 ARYGGEEMLMLLPDTDAAGAVQVAEKIRAGIQALDLPHRGNPRGVVTASAGVCAMELLPA 480 ARYGGEEM MLLP TDA GA VAEK+RAGIQAL+LPHRGNP GVVT S GVCA+ELLP+ Sbjct: 424 ARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELLPS 483 Query: 481 GERTVEDLLGRADAALYEAKHGGRNQVRLA 510 R+V+ LLG ADAALYEAKH GRNQVRLA Sbjct: 484 AARSVQALLGAADAALYEAKHEGRNQVRLA 513 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 266 bits (681), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 166/477 (34%), Positives = 253/477 (53%), Gaps = 8/477 (1%) Query: 34 WQSLAARTVQLDNTRTYSGNIARALARHAYDVFQATHGALINISDRID-EAGTTHAQLHT 92 W + AR V L + T + N+A AL +HA + L + + +D E + A++ T Sbjct: 43 WTAWRAREVALSESTTDASNVALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARIRT 102 Query: 93 MSPVLRRLASEMPQLDGLYIFDEHGNRVASSSPPRASDANNSDRAYFIYHRDHDDPEPHI 152 ++R +AS +PQL L + DE G VASS + YF YH+ P I Sbjct: 103 HDFMIRSVAS-LPQLAQLTVVDEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRPFI 161 Query: 153 HPTLLSRSTDQWIIPMSRRLNHPDGRFAGLLLATLRLDHFNALYQTVEIGRDSSILLLLR 212 + S T Q + +SRR+NH DG FAG+++A + L +F Y+ IG IL L Sbjct: 162 GQPMRSHVTGQRTLTVSRRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLT 221 Query: 213 PGKVLTRQPFDPAFINRDLSLDPVIGEALASPTSGHVLLHSPLDDIDRYVSYQPVQGFPL 272 G ++ R+P +R ++ + + + G + S D ++R +Q + +P+ Sbjct: 222 GGSLILRRPLLADMTDRSPAMSEALRKHMEQARRGSFAMRSERDGVERISCFQQGEAYPI 281 Query: 273 IVTVTTSRDEALAPWRQQTIVYGAAVLLLLIIIGLFGWRLIGQIELRLVAEDRALQVMGE 332 V ++D+ L W + V G V+LLL +I G RL+ + R AE +A+ E Sbjct: 282 FTVVALAKDDILEDWSRHVWVRGIGVVLLLAVICFGGKRLVVLVAGRERAEAQAIAARQE 341 Query: 333 LHQANQRLEQLAHQDGLTGLANRRHLDTVLAAEFRRAARSKSALSLIMIDVDFFKQYNDL 392 L + LE + +DGLT + NRR+ D LAAE R R+ +LSL+MIDVD FKQ+ND Sbjct: 342 LESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLSLMMIDVDHFKQFNDT 401 Query: 393 YGHQAGDECLRRIAAVLRERQRRPGDLAARYGGEEMLMLLPDTDAAGAVQVAEKIRAGIQ 452 YGH AGD CLR++AA + RR GD+ ARYGGEE ++LP+ A +A ++ ++ Sbjct: 402 YGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVR 461 Query: 453 ALDLPHRGNPRGVVTASAGVCAMELLPAGERTV---EDLLGRADAALYEAKHGGRNQ 506 L++ H +P GVVT S GV + L +G+ + +L+ AD ALY AK GR++ Sbjct: 462 GLEIAHERSPMGVVTISVGVAS---LASGKSLLIEPRELIDSADGALYRAKEEGRDR 515 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 223 bits (568), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 145/396 (36%), Positives = 214/396 (54%), Gaps = 22/396 (5%) Query: 122 SSSPPRASDANNSDRAYFIYHRDHDDPEPHI-HPTLLSRSTDQWIIPMSRRLNHPDGRFA 180 S+SP N S+R YF HRD D I P + + ++ +S+RL+ DG F Sbjct: 118 SASPSVV--VNYSERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFD 175 Query: 181 GLLLATLRLDHFNALYQTVEIGRDSSILLLLRPGKVLTRQPFDPAFINRDLSLDPVIGE- 239 G++L L + +F L+ + +G D + L G R P+ P+ I R+++ +P Sbjct: 176 GVVLMALDMSYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRL 235 Query: 240 -ALASPTSGHVLLHSPLDDIDRYVSYQPVQGFPLIVTVTTSRDEALAPWRQQTIVYGAAV 298 A+ G+ + D ++R +++ + PLIV + S W +V Sbjct: 236 RAMLVDNDGNFFARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTWYDTLY----SV 291 Query: 299 LLLLIIIGLFGWRLIGQIELRLVAEDRALQVMGELHQANQRLEQLAHQDGLTGLANRRHL 358 LLLLII + + + L LV + +V E ++LE LA DGLTGL NRR L Sbjct: 292 LLLLII-----FTALAGVLLMLVRRELLKRVAAE-----KQLEDLARTDGLTGLLNRRSL 341 Query: 359 DTVLAAEFRRAARSKSA-LSLIMIDVDFFKQYNDLYGHQAGDECLRRIAAVLRERQRRPG 417 D L A ++R+ RS +A S + IDVD+FK+YND YGH+ GD L+ +AAVLRE +R Sbjct: 342 DEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQN 401 Query: 418 DLAARYGGEEMLMLLPDTDAAGAVQVAEKIRAGIQALDLPHRGNPRGVVTASAGVCAMEL 477 DLA RYGGEE ++LL TD GA+++A+++ I +PH G+P GV++ S GV M Sbjct: 402 DLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNR 461 Query: 478 LPAGERTVEDLLGRADAALYEAKHGGRNQVRLAQAG 513 P + +ED+L AD ALY AK GRN+V +A G Sbjct: 462 AP--HQRMEDVLNAADHALYIAKREGRNRVCVAHPG 495 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 216 bits (549), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 148/408 (36%), Positives = 209/408 (51%), Gaps = 29/408 (7%) Query: 112 IFDEHGNRVASSSPPRASDA-NNSDRAYFIYHRDHDDPEPHI-HPTLLSRSTDQWIIPMS 169 + D G SS R + A + +DRAYFI HRD ++ P S + ++ +S Sbjct: 125 VLDADGRVQVSSRLGRGNGAPHYADRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLS 184 Query: 170 RRLNHPDGRFAGLLLATLRLDHFNALYQTVEIGRDSSILLLLRPGKVLTRQPFDPAFINR 229 +RL++ DG FAG+++ L L +F L++ + +G + I L G R P+ I R Sbjct: 185 KRLSNEDGSFAGVVVMALDLAYFRELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGR 244 Query: 230 DLSLDPVIGE--ALASPTSGHVLLHSPLDDIDRYVSYQPVQGFPLIVTVTTSRDEALAPW 287 D+S A+ S G H+ D + R +++ + G PLIV V + + W Sbjct: 245 DISQTGNFQRLRAMLSEEEGSFFAHATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTW 304 Query: 288 RQQTIVYGAAVLLLLIIIGLF-GWRLIGQIELRLVAEDRALQVMGELHQ---ANQRLEQL 343 R+ AVL+ L I GL W L L V EL + A ++LE L Sbjct: 305 RKTFY----AVLVSLAIFGLLTAWLL--------------LHVRQELRRRVTAERQLEAL 346 Query: 344 AHQDGLTGLANRRHLDTVLAAEFRRAARSKSA-LSLIMIDVDFFKQYNDLYGHQAGDECL 402 A DGLT L NRR LD L A + R R+ A S++ IDVD+FK YND YGH+ GD L Sbjct: 347 ARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTVL 406 Query: 403 RRIAAVLRERQRRPGDLAARYGGEEMLMLLPDTDAAGAVQVAEKIRAGIQALDLPHRGNP 462 + +AA L R R D A RYGGEE ++LL TD GA +A+++ ++ + H +P Sbjct: 407 KEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSP 466 Query: 463 RGVVTASAGVCAMELLPAGERTVEDLLGRADAALYEAKHGGRNQVRLA 510 VVT S GV +E R VED+L ADAALY AK GR++V L+ Sbjct: 467 LAVVTISVGVATLE--RDHHRRVEDVLNAADAALYRAKQAGRDRVHLS 512 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 184 bits (467), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 144/441 (32%), Positives = 213/441 (48%), Gaps = 45/441 (10%) Query: 87 HAQLHTMSPVLRRLAS------EMPQLDGLYIFDEHGNRVASSS--------PPRASDAN 132 H QLH M P+ +++ E + L I D G V S+ P SD Sbjct: 56 HTQLHEM-PLQQKMEFLLGENIEARYVAALGIVDTDGELVVGSAALSQILPGPYAQSD-- 112 Query: 133 NSDRAYFIYHRDH---DDPEPHIHPTLLSRSTDQW-IIPMSRRLNHPDGRFAGLLLATLR 188 +F H+ H D +I L R + ++ +S+RL PDG FAG+ L L Sbjct: 113 -----FFTAHQTHHAQGDTGLYISAPLTVRLERRMQVVVLSKRLAQPDGSFAGISLMVLY 167 Query: 189 LDHFNALYQTVEIGRDSSILLLLRPGKVLTRQPFDPAFINRDLSLDPVIGEALA--SPTS 246 LD+F L+Q + + D I L G R P++ AFI L++ + + P Sbjct: 168 LDYFRDLFQGLTLENDGVISLYSADGLAYMRIPYNEAFIGSRLNISEDLERIFSPSGPAQ 227 Query: 247 GHVLLHSPLDDIDRYVSYQPVQGFPLIVTVTTSRDEALAPWRQQTIVYGAAVLLLLIIIG 306 G + D ++ V G V + + W ++Y AVL L+ Sbjct: 228 GSYFARAQQDGPRWLYTFARVPGTGWTVFIGRTGARIFREW--YNMLY--AVLFLMASFC 283 Query: 307 LFGWRLIGQIELRLVAEDRALQVMGELHQANQRLEQLAHQDGLTGLANRRHLDTVLAAEF 366 + LI ++ + L + R+ +Q+LE+LA D LT L NRR LD LA + Sbjct: 284 IASIYLIRRVRVEL--QRRS--------ALDQQLEELARTDKLTSLLNRRALDEALARAW 333 Query: 367 RRAARSKSAL-SLIMIDVDFFKQYNDLYGHQAGDECLRRIAAVLRERQRRPGDLAARYGG 425 +RA + A+ SL+ +DVDFFK YND YGH+AGD L ++ + R D + RYGG Sbjct: 334 KRAEENPDAIFSLLFVDVDFFKLYNDTYGHKAGDYALMAVSRCIVAAVSRLSDQSGRYGG 393 Query: 426 EEMLMLLPDTDAAGAVQVAEKIRAGIQALDLPHRGNPRGVVTASAGVCAMELLPAGERTV 485 EE ++LL TD GA VA++I + IQ+L +PH +P ++T S GV + LL ++ Sbjct: 394 EEFVVLLNGTDTVGATHVAKRIISAIQSLKIPHERSPFDILTVSIGVTS--LLREHHSSI 451 Query: 486 EDLLGRADAALYEAKHGGRNQ 506 ED++ ADAALY AK GRN+ Sbjct: 452 EDVVKDADAALYRAKQDGRNK 472 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 0.401 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: 1,646,367 Number of extensions: 70984 Number of successful extensions: 330 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 262 Number of HSP's successfully gapped: 42 Length of query: 519 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 430 Effective length of database: 1,198,455 Effective search space: 515335650 Effective search space used: 515335650 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: 133 (55.8 bits)