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= 0001.1374.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|300310865|ref|YP_003774957.1| response regulator containing a... 624 e-180 gi|300312843|ref|YP_003776935.1| response regulator containing a... 310 2e-85 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 237 2e-63 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 212 5e-56 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 178 1e-45 >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 = 624 bits (1608), Expect = e-180, Method: Compositional matrix adjust. Identities = 325/508 (63%), Positives = 400/508 (78%), Gaps = 2/508 (0%) Query: 1 MPEHQIQRASRTARLFVIVVCLIIALLEAWSAWRAYEVVIDESAREASNMALALVQQADQ 60 M +H SRTA LFV+VVC++I LLEAW+AWRA EV + ES +ASN+ALAL+Q A+Q Sbjct: 14 MAQHGKTHTSRTALLFVVVVCVVILLLEAWTAWRAREVALSESTTDASNVALALIQHAEQ 73 Query: 61 SFKEIDVVLQGVQEHLQYDDAGAAGRQRTHDFMVSSVAALPQLAMLTVYDETGLAISSSQ 120 S KE D+VL+ VQEHL ++D A+ R RTHDFM+ SVA+LPQLA LTV DE G ++SSQ Sbjct: 74 SIKEADIVLETVQEHLDHEDRSASARIRTHDFMIRSVASLPQLAQLTVVDEQGRTVASSQ 133 Query: 121 SNLEH--RYIQDDYFLHHQRVRTDRAYIGKPMRSRVSGQWVATMSRRINHIDGSFAGVVV 178 + +QDDYF +HQ R+DR +IG+PMRS V+GQ T+SRRINH+DGSFAGV+V Sbjct: 134 QRMVQTGSPVQDDYFQYHQHRRSDRPFIGQPMRSHVTGQRTLTVSRRINHVDGSFAGVIV 193 Query: 179 ADIDLSHFQRYYEQFAIGRNGAILFGLNEGTVIFRQPLLSYSIGLDISKSTLMTQYLGKS 238 A+IDL++FQRYYEQF IG +G ILFGL G++I R+PLL+ + S + +++ ++ Sbjct: 194 AEIDLAYFQRYYEQFNIGPHGVILFGLTGGSLILRRPLLADMTDRSPAMSEALRKHMEQA 253 Query: 239 EHGSFEMRSPRDDIVRVTSFQRCKLYPTFVAVALAKDDILEDWTRRLWIRSIVVLLLLII 298 GSF MRS RD + R++ FQ+ + YP F VALAKDDILEDW+R +W+R I V+LLL + Sbjct: 254 RRGSFAMRSERDGVERISCFQQGEAYPIFTVVALAKDDILEDWSRHVWVRGIGVVLLLAV 313 Query: 299 IGYGGNRLVAQVARRETAELEAIAARTELERLYRTLEAQSQKDGLTDVFNRRYFDLALTA 358 I +GG RLV VA RE AE +AIAAR ELE LYRTLEAQSQKDGLTDVFNRRYFD AL A Sbjct: 314 ICFGGKRLVVLVAGRERAEAQAIAARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAA 373 Query: 359 ELARLNRSGESLSLIMVDVDHFKRYNDTYGHAAGDVCLKKVATALGSVARRQGDIVARYG 418 ELARLNR+GESLSL+M+DVDHFK++NDTYGHAAGDVCL++VA A+ +VARRQGDIVARYG Sbjct: 374 ELARLNRTGESLSLMMIDVDHFKQFNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYG 433 Query: 419 GEEFALILPNCNAASAAAIANRLVQAVRTLDIPHEGSPMGHVTISVGAASLASGKGAHVE 478 GEEFA+ILPNC+ SA +A+R+VQAVR L+I HE SPMG VTISVG ASLASGK +E Sbjct: 434 GEEFAVILPNCHPGSAQGLAHRVVQAVRGLEIAHERSPMGVVTISVGVASLASGKSLLIE 493 Query: 479 ARELIDIADAALYRAKEQGRDRAIQHDY 506 RELID AD ALYRAKE+GRDRA+Q + Sbjct: 494 PRELIDSADGALYRAKEEGRDRAVQRPF 521 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 310 bits (794), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 200/504 (39%), Positives = 284/504 (56%), Gaps = 12/504 (2%) Query: 4 HQIQRASRTARLFVIVVCLIIALLEAWSAWRAYEVVIDESAREASNMALALVQQADQSFK 63 H +R ARLFV+++C IA W + A V ++ + + N+A AL + A + Sbjct: 11 HARHSVARRARLFVVLICAAIAGGHLWQSMTARGVQLENNRSYSGNVAKALARHAYDVLQ 70 Query: 64 EIDVVLQGVQEHLQYDDAGAAGRQRTHDFM-----VSSVAALPQLAMLTVYDETG--LAI 116 D +L + + + D G A R D M +SS +PQL L V+DE G L Sbjct: 71 ATDGLLLDMSDRI--DSVGIA-HARLVDLMPMLRRLSS--EMPQLDGLYVFDEHGKRLLT 125 Query: 117 SSSQSNLEHRYIQDDYFLHHQRVRTDRAYIGKPMRSRVSGQWVATMSRRINHIDGSFAGV 176 SS+ DYF+ H+ ++GK + SR +G+W+ MSRR+NH DGSFAGV Sbjct: 126 SSAPPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLNHPDGSFAGV 185 Query: 177 VVADIDLSHFQRYYEQFAIGRNGAILFGLNEGTVIFRQPLLSYSIGLDISKSTLMTQYLG 236 ++A +D++HF + Y IG+ G+I L +GT++ R P I D S+ L + L Sbjct: 186 LLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFLEGLP 245 Query: 237 KSEHGSFEMRSPRDDIVRVTSFQRCKLYPTFVAVALAKDDILEDWTRRLWIRSIVVLLLL 296 S G E+ SP D R S+Q YP + V LA+++ L DW ++ ++ VLLLL Sbjct: 246 HSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAAVLLLL 305 Query: 297 IIIGYGGNRLVAQVARRETAELEAIAARTELERLYRTLEAQSQKDGLTDVFNRRYFDLAL 356 IIG G RLV Q+ R AE A+ A EL+ LE + +DGLT + NRR+ D L Sbjct: 306 AIIGVFGWRLVGQIELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLDTML 365 Query: 357 TAELARLNRSGESLSLIMVDVDHFKRYNDTYGHAAGDVCLKKVATALGSVARRQGDIVAR 416 E R RSG +L+LIM+DVD FK+YND YGH AGD CL++VA L RR GD+ AR Sbjct: 366 ETEFKRAERSGAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAAR 425 Query: 417 YGGEEFALILPNCNAASAAAIANRLVQAVRTLDIPHEGSPMGHVTISVGAASLASGKGAH 476 YGGEE A++LP +A A A+A +L ++ L++PH G+P+G VT+SVG +L A Sbjct: 426 YGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELLPSAA 485 Query: 477 VEARELIDIADAALYRAKEQGRDR 500 + L+ ADAALY AK +GR++ Sbjct: 486 RSVQALLGAADAALYEAKHEGRNQ 509 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 237 bits (604), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 169/500 (33%), Positives = 253/500 (50%), Gaps = 37/500 (7%) Query: 18 IVVCLIIALL-----EAWSAWRAYEVVIDESAREASNMALALVQQADQSFKEIDVVLQGV 72 +VV L IA+L A + +++Y+ + ASN+ L + ++ + + + L + Sbjct: 29 LVVILAIAVLMVMAISASTLYQSYQQTRQSAVSNASNVTLVSQRAISRNLEMLSLSLDTL 88 Query: 73 QEHLQYD-DAGAAGRQRTHDFMVSSVAALPQLAMLTVYDETGLAISSSQ---SNLEHRYI 128 Q+ A + + ++ S + +A++ V D G SS+ N Y Sbjct: 89 AYRFQHPLSARRLNDAQRYAYLFGSTTNVSHIAVMAVLDADGRVQVSSRLGRGNGAPHYA 148 Query: 129 QDDYFLHHQRVRTDRAYIGKPMRSRVSGQW-VATMSRRINHIDGSFAGVVVADIDLSHFQ 187 YF+ H+ T Y+ +PM++ + + V +S+R+++ DGSFAGVVV +DL++F+ Sbjct: 149 DRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLSKRLSNEDGSFAGVVVMALDLAYFR 208 Query: 188 RYYEQFAIGRNGAILFGLNEGTVIFRQPLLSYSIGLDISKSTLMTQY--LGKSEHGSFEM 245 +E A+G G I +EG R P IG DIS++ + + E GSF Sbjct: 209 ELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGRDISQTGNFQRLRAMLSEEEGSFFA 268 Query: 246 RSPRDDIVRVTSFQRCKLYPTFVAVALAKDDILEDWTRRLWIRSIVVLLLLIIIGYGGNR 305 + D + R+ +F+R P V V A++ I + W + + VL+ L I G Sbjct: 269 HATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTWRKTFY----AVLVSLAIFGLLTAW 324 Query: 306 LVAQVA----RRETAELEAIAARTELERLYRTLEAQSQKDGLTDVFNRRYFDLALTAELA 361 L+ V RR TAE R LEA ++ DGLTD+ NRR D AL A Sbjct: 325 LLLHVRQELRRRVTAE--------------RQLEALARTDGLTDLLNRRALDEALQATWE 370 Query: 362 RLNRS-GESLSLIMVDVDHFKRYNDTYGHAAGDVCLKKVATALGSVARRQGDIVARYGGE 420 R R+ G S S++ +DVD+FK YNDTYGH GD LK+VA L + R D RYGGE Sbjct: 371 RCQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGE 430 Query: 421 EFALILPNCNAASAAAIANRLVQAVRTLDIPHEGSPMGHVTISVGAASLASGKGAHVEAR 480 EF ++L + A +A RL AVR I H SP+ VTISVG A+L + H Sbjct: 431 EFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSPLAVVTISVGVATLE--RDHHRRVE 488 Query: 481 ELIDIADAALYRAKEQGRDR 500 ++++ ADAALYRAK+ GRDR Sbjct: 489 DVLNAADAALYRAKQAGRDR 508 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 212 bits (540), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 146/497 (29%), Positives = 259/497 (52%), Gaps = 26/497 (5%) Query: 13 ARLFVIVVCLIIALLEAWSAWRAYEVVIDESAREASNMALALVQQADQSFKEIDVVLQGV 72 A + +++ +++++ A S + Y + EA+N+ L + + ++ + + + + + Sbjct: 9 ALILGLIIMMVLSICGA-SLYEGYRQTRISAITEANNVTLIVQRAISRNMEILSLAMDTL 67 Query: 73 QEHLQYD-DAGAAGRQRTHDFMVSSVAALPQLAMLTVYDETG-LAISSSQS---NLEHRY 127 Q+ D A + ++++ S AA + L + D G + ++S +S ++ Y Sbjct: 68 AYRYQHPLDLTHASDEERYNYLFGSTAAAHHITALAILDADGYVRVTSRRSASPSVVVNY 127 Query: 128 IQDDYFLHHQRVRTDRAYIGKPMRSRVSGQW-VATMSRRINHIDGSFAGVVVADIDLSHF 186 + YF H+ +I +P+++ + + V +S+R++ DGSF GVV+ +D+S+F Sbjct: 128 SERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLMALDMSYF 187 Query: 187 QRYYEQFAIGRNGAILFGLNEGTVIFRQPLLSYSIGLDISKSTLMTQY--LGKSEHGSFE 244 + + +G +G + ++G R P SIG +I+ + + + G+F Sbjct: 188 RDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRLRAMLVDNDGNFF 247 Query: 245 MRSPRDDIVRVTSFQRCKLYPTFVAVALAKDDILEDWTRRLWIRSIVVLLLLIIIGYGGN 304 R+ D + R+ +F+R P V + ++ I + W L+ V+LLL+I G Sbjct: 248 ARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTWYDTLYS---VLLLLIIFTALAG- 303 Query: 305 RLVAQVARRETAELEAIAARTELERLYRTLEAQSQKDGLTDVFNRRYFDLALTAELARLN 364 ++ + RRE L+ +AA +LE L RT DGLT + NRR D AL A R Sbjct: 304 -VLLMLVRREL--LKRVAAEKQLEDLART-------DGLTGLLNRRSLDEALLAVWQRSQ 353 Query: 365 RSGES-LSLIMVDVDHFKRYNDTYGHAAGDVCLKKVATALGSVARRQGDIVARYGGEEFA 423 RS + S + +DVD+FKRYNDTYGH GD L+ VA L +RQ D+ RYGGEEF Sbjct: 354 RSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFV 413 Query: 424 LILPNCNAASAAAIANRLVQAVRTLDIPHEGSPMGHVTISVGAASLASGKGAHVEARELI 483 ++L + A +A +L +A+ IPH GSP+G +++S+G A++ + H +++ Sbjct: 414 VLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATM--NRAPHQRMEDVL 471 Query: 484 DIADAALYRAKEQGRDR 500 + AD ALY AK +GR+R Sbjct: 472 NAADHALYIAKREGRNR 488 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 178 bits (451), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 96/191 (50%), Positives = 124/191 (64%), Gaps = 4/191 (2%) Query: 313 RETAELEAIAART-ELERLYRTLEAQSQKDGLTDVFNRRYFDLALTAELARLNRSGESLS 371 RE E E + RT ELER R LEA S DGLT V NRR FD AL E+ R RSG+SL+ Sbjct: 377 REVLE-EQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLA 435 Query: 372 LIMVDVDHFKRYNDTYGHAAGDVCLKKVATALGSVARRQGDIVARYGGEEFALILPNCNA 431 L+M+DVD+FK+YND YGH AGD CL+ VA L +RR D+VARYGGEEF++I+ C+ Sbjct: 436 LLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDT 495 Query: 432 ASAAAIANRLVQAVRTLDIPHEGSPMGHVTISVGAASLASGKGAHVEARELIDIADAALY 491 A A + QA+ L +PH SP G+++ S+G A L + H +++ IAD ALY Sbjct: 496 TQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDE--HTAPEQMVRIADQALY 553 Query: 492 RAKEQGRDRAI 502 AK QGR+R + Sbjct: 554 HAKYQGRNRVV 564 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 0.135 0.388 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: 1,517,017 Number of extensions: 59943 Number of successful extensions: 314 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 246 Number of HSP's successfully gapped: 41 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 (22.0 bits) S2: 133 (55.8 bits)