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= 0031.0006.p (491 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... 339 2e-94 gi|300310865|ref|YP_003774957.1| response regulator containing a... 306 2e-84 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 224 2e-59 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 221 1e-58 gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi... 178 9e-46 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 339 bits (870), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 195/455 (42%), Positives = 286/455 (62%), Gaps = 4/455 (0%) Query: 26 ARALAQHGDDTFKAADIILSGVVERLEADGVDDVQKPRLHKLLQKRVSEVSQLAGVFILD 85 A+ALA+H D +A D +L + +R+++ G+ + L +L++ SE+ QL G+++ D Sbjct: 58 AKALARHAYDVLQATDGLLLDMSDRIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVFD 117 Query: 86 ADGNPVVDSSDTPFS-GNISDRNYFQYHRDHKDRGPYIG-PLIKNPAGAWRLTVSRRFDY 143 G ++ SS P + N SDR+YF +HRDH D GP++G L+ G W + +SRR ++ Sbjct: 118 EHGKRLLTSSAPPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLNH 177 Query: 144 PDGRFRGVVLAAIDIDYFRNFYSTFKIGDNGLIILGLNDGTLLVRRPFFDKYVGYNLSKV 203 PDG F GV+LA +DI++F Y T +IG G I L L DGTLL R PF Y+ + S+ Sbjct: 178 PDGSFAGVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQG 237 Query: 204 PIFRDYVTKNHHGTHTAPSTVDGKDRINAYRHFNQFPLFVAIALSKEEVLDSWVEDTLHH 263 +F + + + G S +D + R +Y+ +++PL + + L++EE L W + T + Sbjct: 238 RLFLEGLPHSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVY 297 Query: 264 TAAILLLIVILALLGNWLLRQIKLRLETEAELRVARDNLDQLNRHLQNLALEDGLTGLAN 323 AA+LLL+ I+ + G L+ QI+LRL E A L N L+ LA +DGLTGLAN Sbjct: 298 GAAVLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLAN 357 Query: 324 RRHFDIALSQEFARALRNKDSVALIMLDVDWFKQYNDIYGHRAGDDCLRRIAALLRQVPQ 383 RRH D L EF RA R+ ++ALIM+DVD+FKQYND+YGH+AGD+CLRR+A +L++ + Sbjct: 358 RRHLDTMLETEFKRAERSGAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQR 417 Query: 384 RTGDLVARYGGEELVVLLPQTTLESAALIAERIRADIVALDILHAASPLTIVTVSAGVAM 443 R GDL ARYGGEE+ +LLP T E A +AE++RA I AL++ H +P+ +VTVS GV Sbjct: 418 RPGDLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCA 477 Query: 444 IEPSQESGKSGEPEELVEEADRALYVAKARGRNCV 478 +E + +S + L+ AD ALY AK GRN V Sbjct: 478 LELLPSAARS--VQALLGAADAALYEAKHEGRNQV 510 >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 = 306 bits (785), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 176/459 (38%), Positives = 266/459 (57%), Gaps = 8/459 (1%) Query: 22 ANXRARALAQHGDDTFKAADIILSGVVERLEADGVDDVQKPRLHKLLQKRVSEVSQLAGV 81 A+ A AL QH + + K ADI+L V E L+ + + R H + + V+ + QLA + Sbjct: 60 ASNVALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARIRTHDFMIRSVASLPQLAQL 119 Query: 82 FILDADGNPVVDSSDTPF-SGNISDRNYFQYHRDHKDRGPYIG-PLIKNPAGAWRLTVSR 139 ++D G V S +G+ +YFQYH+ + P+IG P+ + G LTVSR Sbjct: 120 TVVDEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRPFIGQPMRSHVTGQRTLTVSR 179 Query: 140 RFDYPDGRFRGVVLAAIDIDYFRNFYSTFKIGDNGLIILGLNDGTLLVRRPFFDKYVGYN 199 R ++ DG F GV++A ID+ YF+ +Y F IG +G+I+ GL G+L++RRP + Sbjct: 180 RINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLTGGSLILRRPLLADMTDRS 239 Query: 200 LSKVPIFRDYVTKNHHGTHTAPSTVDGKDRINAYRHFNQFPLFVAIALSKEEVLDSWVED 259 + R ++ + G+ S DG +RI+ ++ +P+F +AL+K+++L+ W Sbjct: 240 PAMSEALRKHMEQARRGSFAMRSERDGVERISCFQQGEAYPIFTVVALAKDDILEDWSRH 299 Query: 260 TLHHTAAILLLIVILALLGNWLLRQIKLRLETEAELRVARDNLDQLNRHLQNLALEDGLT 319 ++LL+ ++ G L+ + R EA+ AR L+ L R L+ + +DGLT Sbjct: 300 VWVRGIGVVLLLAVICFGGKRLVVLVAGRERAEAQAIAARQELESLYRTLEAQSQKDGLT 359 Query: 320 GLANRRHFDIALSQEFARALRNKDSVALIMLDVDWFKQYNDIYGHRAGDDCLRRIAALLR 379 + NRR+FD AL+ E AR R +S++L+M+DVD FKQ+ND YGH AGD CLR++AA + Sbjct: 360 DVFNRRYFDAALAAELARLNRTGESLSLMMIDVDHFKQFNDTYGHAAGDVCLRQVAAAIS 419 Query: 380 QVPQRTGDLVARYGGEELVVLLPQTTLESAALIAERIRADIVALDILHAASPLTIVTVSA 439 V +R GD+VARYGGEE V+LP SA +A R+ + L+I H SP+ +VT+S Sbjct: 420 TVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVRGLEIAHERSPMGVVTISV 479 Query: 440 GVAMIEPSQESGKS--GEPEELVEEADRALYVAKARGRN 476 GVA S SGKS EP EL++ AD ALY AK GR+ Sbjct: 480 GVA----SLASGKSLLIEPRELIDSADGALYRAKEEGRD 514 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 224 bits (570), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 153/415 (36%), Positives = 226/415 (54%), Gaps = 32/415 (7%) Query: 77 QLAGVFILDADGNPVVDS--SDTP-FSGNISDRNYFQYHRDHKDRGPYIGPLIKNPAGAW 133 + + ILDADG V S S +P N S+R YF HRD D G +I IK G Sbjct: 98 HITALAILDADGYVRVTSRRSASPSVVVNYSERTYFTVHRDSADAGLFISRPIKANLGNE 157 Query: 134 R--LTVSRRFDYPDGRFRGVVLAAIDIDYFRNFYSTFKIGDNGLIILGLNDGTLLVRRPF 191 + +S+R DG F GVVL A+D+ YFR+ ++ +G++G++ L +DG +R P+ Sbjct: 158 LPVVVLSKRLSRKDGSFDGVVLMALDMSYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPY 217 Query: 192 FDKYVGYNLSKVPIFRDY--VTKNHHGTHTAPSTVDGKDRINAYRHFNQFPLFVAIALSK 249 +G ++ P F+ + ++ G A + DG +R+ +R PL V + S+ Sbjct: 218 HPSSIGREITNNPNFQRLRAMLVDNDGNFFARAHTDGVERLYTFRRIPDAPLIVLLGRSE 277 Query: 250 EEVLDSWVEDTLHHTAAILLLIVILALLGNWLLRQIKLRLETEAELRVARDNLDQLNRHL 309 + +W DTL+ ++LLL++I L LL ++ L RVA + + L Sbjct: 278 RFIFKTWY-DTLY---SVLLLLIIFTALAGVLLMLVRRELLK----RVAAE------KQL 323 Query: 310 QNLALEDGLTGLANRRHFDIALSQEFARALRNKDS-VALIMLDVDWFKQYNDIYGHRAGD 368 ++LA DGLTGL NRR D AL + R+ R+ + + + +DVD+FK+YND YGH GD Sbjct: 324 EDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGD 383 Query: 369 DCLRRIAALLRQVPQRTGDLVARYGGEELVVLLPQTTLESAALIAERIRADIVALDILHA 428 L+ +AA+LR+ QR DL RYGGEE VVLL QT A +A+++ I I H+ Sbjct: 384 TVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHS 443 Query: 429 ASPLTIVTVSAGVAMIE--PSQESGKSGEPEELVEEADRALYVAKARGRN--CVA 479 SPL +++VS GVA + P Q E+++ AD ALY+AK GRN CVA Sbjct: 444 GSPLGVISVSIGVATMNRAPHQRM------EDVLNAADHALYIAKREGRNRVCVA 492 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 221 bits (563), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 153/437 (35%), Positives = 226/437 (51%), Gaps = 32/437 (7%) Query: 51 LEADGVDDVQKPRLHKLLQKRVSEVSQLAGVFILDADGNPVVDSSDTPFSG--NISDRNY 108 L A ++D Q+ + L + VS +A + +LDADG V S +G + +DR Y Sbjct: 96 LSARRLNDAQR---YAYLFGSTTNVSHIAVMAVLDADGRVQVSSRLGRGNGAPHYADRAY 152 Query: 109 FQYHRDHKDRGPYIG-PLIKNPAGAWRLTV-SRRFDYPDGRFRGVVLAAIDIDYFRNFYS 166 F HRD G Y+ P+ + ++ V S+R DG F GVV+ A+D+ YFR + Sbjct: 153 FIAHRDSPTVGLYVSRPMQASLGNELQVVVLSKRLSNEDGSFAGVVVMALDLAYFRELFE 212 Query: 167 TFKIGDNGLIILGLNDGTLLVRRPFFDKYVGYNLSKVPIFRDY--VTKNHHGTHTAPSTV 224 +GD G+I L ++G +R P+ + +G ++S+ F+ + G+ A +T Sbjct: 213 GLALGDEGIISLYSDEGIAYMRVPYRETIIGRDISQTGNFQRLRAMLSEEEGSFFAHATN 272 Query: 225 DGKDRINAYRHFNQFPLFVAIALSKEEVLDSWVEDTLHHTAAILLLIVILALLGNWLLRQ 284 DG R+ +R PL V + ++E + +W T + A+L+ + I LL WLL Sbjct: 273 DGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTW-RKTFY---AVLVSLAIFGLLTAWLLLH 328 Query: 285 IK--LRLETEAELRVARDNLDQLNRHLQNLALEDGLTGLANRRHFDIALSQEFARALRN- 341 ++ LR AE R L+ LA DGLT L NRR D AL + R RN Sbjct: 329 VRQELRRRVTAE------------RQLEALARTDGLTDLLNRRALDEALQATWERCQRNL 376 Query: 342 KDSVALIMLDVDWFKQYNDIYGHRAGDDCLRRIAALLRQVPQRTGDLVARYGGEELVVLL 401 S +++ +DVD+FK YND YGH+ GD L+ +AA L R D RYGGEE VVLL Sbjct: 377 GASFSVLFIDVDYFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLL 436 Query: 402 PQTTLESAALIAERIRADIVALDILHAASPLTIVTVSAGVAMIEPSQESGKSGEPEELVE 461 QT L+ A ++A+R+ + I H +SPL +VT+S GVA +E E+++ Sbjct: 437 EQTDLQGAQMMAQRLCDAVRERHIAHTSSPLAVVTISVGVATLERDHHR----RVEDVLN 492 Query: 462 EADRALYVAKARGRNCV 478 AD ALY AK GR+ V Sbjct: 493 AADAALYRAKQAGRDRV 509 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 178 bits (451), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 148/472 (31%), Positives = 232/472 (49%), Gaps = 41/472 (8%) Query: 27 RALAQHGDDTFKAADIILSGVVERLEADGVDDV----QKPRLHKL-LQKRVS-------E 74 RA +HG + + A +S VE L +D + + +LH++ LQ+++ E Sbjct: 19 RAAIEHGANIARIAQRSISRNVELLTL-ALDSLTWRYRHTQLHEMPLQQKMEFLLGENIE 77 Query: 75 VSQLAGVFILDADGNPVVDSS--DTPFSGNISDRNYFQYHRDHK---DRGPYI-GPLIKN 128 +A + I+D DG VV S+ G + ++F H+ H D G YI PL Sbjct: 78 ARYVAALGIVDTDGELVVGSAALSQILPGPYAQSDFFTAHQTHHAQGDTGLYISAPLTVR 137 Query: 129 PAGAWRLTV-SRRFDYPDGRFRGVVLAAIDIDYFRNFYSTFKIGDNGLIILGLNDGTLLV 187 ++ V S+R PDG F G+ L + +DYFR+ + + ++G+I L DG + Sbjct: 138 LERRMQVVVLSKRLAQPDGSFAGISLMVLYLDYFRDLFQGLTLENDGVISLYSADGLAYM 197 Query: 188 RRPFFDKYVGYNLSKVPIFRDYVTKN--HHGTHTAPSTVDGKDRINAYRHFNQFPLFVAI 245 R P+ + ++G L+ + + G++ A + DG + + V I Sbjct: 198 RIPYNEAFIGSRLNISEDLERIFSPSGPAQGSYFARAQQDGPRWLYTFARVPGTGWTVFI 257 Query: 246 ALSKEEVLDSWVEDTLHHTAAILLLIVILALLGNWLLRQIKLRLETEAELRVARDNLDQL 305 + + W + L+ A+L L+ + +L+R++++ L+ R LDQ Sbjct: 258 GRTGARIFREWY-NMLY---AVLFLMASFCIASIYLIRRVRVELQR-------RSALDQ- 305 Query: 306 NRHLQNLALEDGLTGLANRRHFDIALSQEFARALRNKDSV-ALIMLDVDWFKQYNDIYGH 364 L+ LA D LT L NRR D AL++ + RA N D++ +L+ +DVD+FK YND YGH Sbjct: 306 --QLEELARTDKLTSLLNRRALDEALARAWKRAEENPDAIFSLLFVDVDFFKLYNDTYGH 363 Query: 365 RAGDDCLRRIAALLRQVPQRTGDLVARYGGEELVVLLPQTTLESAALIAERIRADIVALD 424 +AGD L ++ + R D RYGGEE VVLL T A +A+RI + I +L Sbjct: 364 KAGDYALMAVSRCIVAAVSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRIISAIQSLK 423 Query: 425 ILHAASPLTIVTVSAGVAMIEPSQESGKSGEPEELVEEADRALYVAKARGRN 476 I H SP I+TVS GV + S E++V++AD ALY AK GRN Sbjct: 424 IPHERSPFDILTVSIGVTSLLREHHS----SIEDVVKDADAALYRAKQDGRN 471 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 0.139 0.408 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: 1,475,202 Number of extensions: 62922 Number of successful extensions: 301 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 221 Number of HSP's successfully gapped: 41 Length of query: 491 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 402 Effective length of database: 1,198,455 Effective search space: 481778910 Effective search space used: 481778910 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: 132 (55.5 bits)