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= 0036.0021.p (583 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 902 0.0 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 189 7e-49 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 169 8e-43 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 167 2e-42 gi|300312843|ref|YP_003776935.1| response regulator containing a... 159 6e-40 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 902 bits (2332), Expect = 0.0, Method: Compositional matrix adjust. Identities = 466/583 (79%), Positives = 510/583 (87%), Gaps = 10/583 (1%) Query: 1 MKKRLDFFWLGFLRKIEIRYRLINSFILVSLVPLVISGLLAYRETTRATQEKVRTLFXVW 60 M+KRLDF FLR+I I YRLI++FILVSL+PL+ISGLLAY ET+RATQ+KVR Sbjct: 1 MRKRLDFLSRHFLRRIAIGYRLISAFILVSLLPLLISGLLAYGETSRATQDKVRA----- 55 Query: 61 FLNRTYSVQVVKQISQNLMLRMEKIEDTSEELALSDKLQRLLGDYYSGDEATSAAARSGV 120 YSVQVV+QISQNL+LRMEKIEDTSE LALS+K+QRLL DYYSGD SAAAR+ Sbjct: 56 -----YSVQVVQQISQNLLLRMEKIEDTSEALALSEKMQRLLADYYSGDADASAAARNSA 110 Query: 121 ARVLLDTYGSLPDVNQKYLLDRKRQVIDPQIFAPLASNITRVAEDAPDLGGRGWWTLYNG 180 ARVLLDTYG+L VNQKYLLDR RQVIDPQIFAPLAS+I RVAE+AP+L GRGWWTLY+ Sbjct: 111 ARVLLDTYGALTYVNQKYLLDRDRQVIDPQIFAPLASSIGRVAEEAPELTGRGWWTLYHA 170 Query: 181 GHGQKSVAMLREIRFTGNNRGAGVLFIGVRPSYFFSIFEGVDLGYDSSLFIVDASDGTVV 240 GHGQKS+AMLRE+RFT NNR AGVLF+GV PSYFF IF G DLGY +S+ IVDASDG VV Sbjct: 171 GHGQKSLAMLREVRFTANNRPAGVLFVGVHPSYFFDIFRGADLGYGASISIVDASDGAVV 230 Query: 241 VQGRDTSFSSADPALLEGITASVGQRRTSDFIAYTRADKTRYYAAIAQLPHTSWWVVSAT 300 VQ R++S S ADPALL GIT S+ Q R SDFIAY ADKT YYAAIA+LPHTSWWV S T Sbjct: 231 VQSRESSASQADPALLGGITESLAQGRDSDFIAYVGADKTPYYAAIARLPHTSWWVASIT 290 Query: 301 PSDKLNADTRSVRDKIIAIGLLCFAASLLLSALIARSISVPLQRLVGAMKEAGSGDTTVR 360 PSD+LNADTRSVRDKIIAIGL+CFA SLLLSALI+RSISVPLQRLV AMKEAGSGDTTVR Sbjct: 291 PSDRLNADTRSVRDKIIAIGLVCFAVSLLLSALISRSISVPLQRLVAAMKEAGSGDTTVR 350 Query: 361 VEQAGGDEIAILSRKFNEMAGKLQQNKEELEDQVARRTRELELANRKLEALSATDGLTGV 420 VEQ G DEIA+LSRKFNEMAGKLQQN+E LE+QV RTRELE ANRKLEALSATDGLTGV Sbjct: 351 VEQHGNDEIAVLSRKFNEMAGKLQQNREVLEEQVRLRTRELERANRKLEALSATDGLTGV 410 Query: 421 ANRRRFDEVLDSELRRSVRSGHALALLMLDVDYFKKYNDRYGHVAGDECLRIVARVLQKS 480 ANRRRFDE L +E+RR+VRSG +LALLMLDVDYFKKYNDRYGH+AGDECLRIVARVLQKS Sbjct: 411 ANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKS 470 Query: 481 SRRATDLVARYGGEEFCVIIAESDTAHALQQAEHICQAIFELKLPHADSPFGYITASIGV 540 SRRATDLVARYGGEEF VIIAE DT ALQQAE+ICQAIFELKLPHADSPFGYI+ASIGV Sbjct: 471 SRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGV 530 Query: 541 ASLQPDEHTSAEQLLRVADQALYHAKYQGRNRVVLGSDATSNL 583 A L PDEHT+ EQ++R+ADQALYHAKYQGRNRVVLGSDAT L Sbjct: 531 AVLLPDEHTAPEQMVRIADQALYHAKYQGRNRVVLGSDATQGL 573 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 189 bits (479), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 102/205 (49%), Positives = 132/205 (64%), Gaps = 8/205 (3%) Query: 382 KLQQNKEEL-------EDQVARRTRELELANRKLEALSATDGLTGVANRRRFDEVLDSEL 434 +L+Q K+ L E ++A RTR+L AN +L +LS TDGLTG+ANRR FDE L+ E Sbjct: 160 ELEQEKQSLSALNRSLELRIAERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEW 219 Query: 435 RRSVRSGHALALLMLDVDYFKKYNDRYGHVAGDECLRIVARVLQKSSRRATDLVARYGGE 494 RRS+R G L L +DVD+FK YND YGH+AGD LR VA+ L++S R D VARYGGE Sbjct: 220 RRSMRHGTPLMLAFIDVDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGE 279 Query: 495 EFCVIIAESDTAHALQQAEHICQAIFELKLPHADSPFGYITASIGVASLQPDEHTSA-EQ 553 EF +I A++D +C A+ L + HA S G IT S GVAS P + + + Sbjct: 280 EFAIIAADTDGQAGADMLRRMCDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDG 339 Query: 554 LLRVADQALYHAKYQGRNRVVLGSD 578 LL+ AD ALY AK +GRNRVVL ++ Sbjct: 340 LLQAADAALYRAKMEGRNRVVLATE 364 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 169 bits (427), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 89/179 (49%), Positives = 121/179 (67%), Gaps = 5/179 (2%) Query: 399 RELELANRKLEALSATDGLTGVANRRRFDEVLDSELRRSVRSGHALALLMLDVDYFKKYN 458 ++L+ +N +L+ L+ TDGLTG+ANRR FD+ L +E RR+ R G LALL++DVD+FK YN Sbjct: 161 QQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYN 220 Query: 459 DRYGHVAGDECLRIVARVLQKSSRRATDLVARYGGEEFCVIIAES--DTAHALQQAEHIC 516 D YGHVAGD LR VA L S +R DL AR+GGEEF +I+ + D AHA+ A+ +C Sbjct: 221 DNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAI--AQKVC 278 Query: 517 QAIFELKLPHADSPF-GYITASIGVASLQPDEHTSAEQLLRVADQALYHAKYQGRNRVV 574 + L++PH S ++T S+G A+L P E +L+ AD+ LY AK QGRNRVV Sbjct: 279 HLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQGRNRVV 337 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 167 bits (424), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 93/203 (45%), Positives = 126/203 (62%), Gaps = 10/203 (4%) Query: 376 FNEMAGKLQQ-NKEELEDQVARRTRELELANRKLEALSATDGLTGVANRRRFDEVLDSEL 434 F +AG L + EL +VA A ++LE L+ TDGLTG+ NRR DE L + Sbjct: 298 FTALAGVLLMLVRRELLKRVA--------AEKQLEDLARTDGLTGLLNRRSLDEALLAVW 349 Query: 435 RRSVRSGHA-LALLMLDVDYFKKYNDRYGHVAGDECLRIVARVLQKSSRRATDLVARYGG 493 +RS RS A + L +DVDYFK+YND YGH GD L+ VA VL++ +R DL RYGG Sbjct: 350 QRSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGG 409 Query: 494 EEFCVIIAESDTAHALQQAEHICQAIFELKLPHADSPFGYITASIGVASLQPDEHTSAEQ 553 EEF V++ ++D AL+ A+ +C+AI+ +PH+ SP G I+ SIGVA++ H E Sbjct: 410 EEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMED 469 Query: 554 LLRVADQALYHAKYQGRNRVVLG 576 +L AD ALY AK +GRNRV + Sbjct: 470 VLNAADHALYIAKREGRNRVCVA 492 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 159 bits (402), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 95/189 (50%), Positives = 129/189 (68%), Gaps = 2/189 (1%) Query: 391 EDQVARRTRELELANRKLEALSATDGLTGVANRRRFDEVLDSELRRSVRSGHALALLMLD 450 ED+ + EL++AN +LE L+ DGLTG+ANRR D +L++E +R+ RSG ALAL+M+D Sbjct: 326 EDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLDTMLETEFKRAERSGAALALIMID 385 Query: 451 VDYFKKYNDRYGHVAGDECLRIVARVLQKSSRRATDLVARYGGEEFCVIIAESDTAHALQ 510 VD+FK+YND YGH AGDECLR VA VL++ RR DL ARYGGEE +++ +D A Sbjct: 386 VDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGTDAEGACA 445 Query: 511 QAEHICQAIFELKLPHADSPFGYITASIGVASLQ--PDEHTSAEQLLRVADQALYHAKYQ 568 AE + I L+LPH +P G +T S+GV +L+ P S + LL AD ALY AK++ Sbjct: 446 VAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELLPSAARSVQALLGAADAALYEAKHE 505 Query: 569 GRNRVVLGS 577 GRN+V L + Sbjct: 506 GRNQVRLAA 514 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 0.320 0.135 0.383 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: 1,703,138 Number of extensions: 70662 Number of successful extensions: 416 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 349 Number of HSP's successfully gapped: 40 Length of query: 583 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 493 Effective length of database: 1,193,720 Effective search space: 588503960 Effective search space used: 588503960 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: 133 (55.8 bits)