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= 0035.0201.p (618 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PA... 1236 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 149 7e-37 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 134 2e-32 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 126 4e-30 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 122 7e-29 >gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC sensor protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 1236 bits (3198), Expect = 0.0, Method: Compositional matrix adjust. Identities = 604/611 (98%), Positives = 607/611 (99%) Query: 8 MTSERPPHRADSAFHEKALAYHQLTLTYIARGAPLDQLLDRIAVGFAQAYPERWLAIFLY 67 MTSERPPHRADSAFHEKALAYHQLTLTYIARGAPLDQLLDRIAVGFAQAYPERWLAIFLY Sbjct: 1 MTSERPPHRADSAFHEKALAYHQLTLTYIARGAPLDQLLDRIAVGFAQAYPERWLAIFLY 60 Query: 68 DDQARRMQAGAAPYMAPALVAQIQDLPAEAADAPDVWQRLDELAGRHGVRLAEMLPLRSF 127 DDQARRMQAGA PYMAPALVAQIQDLPAEAAD PDVWQR DELAGRHGVRLAEMLPLRSF Sbjct: 61 DDQARRMQAGAVPYMAPALVAQIQDLPAEAADTPDVWQRFDELAGRHGVRLAEMLPLRSF 120 Query: 128 AGQLAGLLMIAATDADSGFEEDQAYRQTVSAAVSMAMLAIERALVPGHVLTPRDAPDQAY 187 AGQLAGL+MIAATDADSGFEEDQAYRQTVSAAVSMAMLAIERALVPGHVLTPRDAPDQAY Sbjct: 121 AGQLAGLMMIAATDADSGFEEDQAYRQTVSAAVSMAMLAIERALVPGHVLTPRDAPDQAY 180 Query: 188 ERMALAIEGSGTGIWDRNAVTGEMYYSRGWKAILGYEDWELSSHLADAYQRIHPDDLAYV 247 ERMALAIEGSGTGIWDRNAVTGEMYYSRGWKAILGYEDWELSSHLADAYQRIHPDDLAYV Sbjct: 181 ERMALAIEGSGTGIWDRNAVTGEMYYSRGWKAILGYEDWELSSHLADAYQRIHPDDLAYV 240 Query: 248 QQTIRQHFEARSDHYEVEHRIRCQDGSYKWISSRGKVVARDAQGNALRMIGTTTDITEIK 307 QQTIRQHFEARSDHYEVEHRIRCQDGSYKWISSRGKVVARDAQGNALRMIGTTTDITEIK Sbjct: 241 QQTIRQHFEARSDHYEVEHRIRCQDGSYKWISSRGKVVARDAQGNALRMIGTTTDITEIK 300 Query: 308 RLTEKLGKSSRMLDYLTSEIPGMVFQFKVPPGAPGYFTYVSEGARETYGLTPQQLLENPA 367 RLTEKLGKSSRMLDYLTSEIPGMVFQFKVPPGAPGYFTYVSEGARETYGLTPQQLLENPA Sbjct: 301 RLTEKLGKSSRMLDYLTSEIPGMVFQFKVPPGAPGYFTYVSEGARETYGLTPQQLLENPA 360 Query: 368 IIDTVIHPEDMPLYEAAREAVLAGAAHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGTTLW 427 IIDTVIHP+DMPLYEAAREAVL GAAHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGTTLW Sbjct: 361 IIDTVIHPDDMPLYEAAREAVLGGAAHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGTTLW 420 Query: 428 HGFISDISQSKAIELELQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCD 487 HGFISDISQSKAIELELQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCD Sbjct: 421 HGFISDISQSKAIELELQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCD 480 Query: 488 LDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAAADF 547 LDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAAADF Sbjct: 481 LDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAAADF 540 Query: 548 AARLQNRFAGQPLIHEEREVKVTLSIGVALMQADSAGQEQVLRASDDALYRAKEKGRNRV 607 AARLQNRFAGQPLIH+EREVKVTLSIGVALMQADSAGQEQVLRASDDALYRAKEKGRNRV Sbjct: 541 AARLQNRFAGQPLIHDEREVKVTLSIGVALMQADSAGQEQVLRASDDALYRAKEKGRNRV 600 Query: 608 EFAPFGSARSG 618 EFAPFGSARSG Sbjct: 601 EFAPFGSARSG 611 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 149 bits (375), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 131/408 (32%), Positives = 194/408 (47%), Gaps = 17/408 (4%) Query: 212 YYSRGWKAILGY--EDWELSSHLADAYQRIHPDDLAYVQQTIRQHFEARSDHYEVEHRIR 269 + S G A+ GY ED L+ L+ + HP+D V+ + R ++E+RI Sbjct: 34 FVSEGCLALTGYLPEDLLLNQRLS-FLELTHPEDRTLVRNHVDACMRERR-RIDIEYRIV 91 Query: 270 CQDGSYKWISSRGKVVARDAQGNALRMIGTTTDITEIKRLTEKLGKSSRMLDYLTSEIPG 329 DG+ +W+ RG V +A G + G D+TE K + L ++ R + Sbjct: 92 RADGAVRWVWERG-VGIYNANGQVEAIEGFLQDVTERKEAAQALQEAERRYRSIFENAIE 150 Query: 330 MVFQFKVPPGAPGYFTYVSEGARETYGL-TPQQLLENPAIIDTVIHPEDMPLYEAAREAV 388 VFQ P G + V+ YG +P+ L+ I ++ E E R Sbjct: 151 GVFQ-TTPDGT---YIAVNPALARIYGYHSPEDLIVGLRDISHQLYVEPERRQEFMRLME 206 Query: 389 LAGAAHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGT-TLWHGFISDISQSKAIELELQEF 447 G+ E RV + W+ +R + G + + G + I++ KA E E++ Sbjct: 207 EQGSVS-NFESRVYRRDGEIIWISENARAVYDEAGKLSCYEGTVEAITERKAHEAEMRHQ 265 Query: 448 ALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCDLDHFKRINDSLGHAVGDLVL 507 A D LT LPNR + LQ R+ R A AV DLD FK INDSLGH VGD +L Sbjct: 266 ATHDALTGLPNRNMLHEHLQRAL-RVARQKGALTAVAFVDLDQFKFINDSLGHQVGDELL 324 Query: 508 RHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAAADFAARLQNRFA--GQPLIHEER 565 + A L++ LR +D R GG+EF ++L + A A +Q A +P +R Sbjct: 325 KTVAQRLQACLREADMVARQGGDEFVLVLQN-QTEGEAGIAEVMQRILAAVARPWQAGDR 383 Query: 566 EVKVTLSIGVALMQADSAGQEQVLRASDDALYRAKEKGRNRVE-FAPF 612 E +VT SIGV+ AD E +L+ +D A+YRAKE+GRN + FAP+ Sbjct: 384 EFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPW 431 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 134 bits (338), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 96/254 (37%), Positives = 133/254 (52%), Gaps = 29/254 (11%) Query: 373 IHPEDMPLYEAAREAVLAGA-AHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGTTLWHGFI 431 +H P YE AVL H L + L G R+ R +L FI Sbjct: 129 LHGPLFPHYEPVSVAVLPLVRQHRLLGYLALGSAYGERFTR------------SLATDFI 176 Query: 432 SDISQSKAIELE-------LQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVL 484 ++ A+ LE L+ LTD LT + NRRY QR+QEE +R QR +A + L Sbjct: 177 ERLATIAAVCLENVINNERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSA-LSCL 235 Query: 485 MCDLDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAA 544 D+DHFKR+ND GH GD VLR A +K +LR SD GR GGEEF ++LT A ++ A Sbjct: 236 FIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDA 295 Query: 545 ADFAARLQNRFAGQPLIHEERE--VKVTLSIGVALM------QADSAGQEQVLRASDDAL 596 A A R++ + ++ E +K+T SIG A + + + ++ +L+A+D AL Sbjct: 296 ARIAERIRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAAEVKQAMLKAADQAL 355 Query: 597 YRAKEKGRNRVEFA 610 Y+AKE GRNRV A Sbjct: 356 YQAKEAGRNRVMLA 369 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 126 bits (317), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 117/416 (28%), Positives = 197/416 (47%), Gaps = 55/416 (13%) Query: 219 AILGYEDWELSSHLA--DAYQRI-HPDDLAYVQQTIRQHFEARSDHYEVEHRIRCQDGSY 275 A+L Y + + LA D I HP+D ++ + + + + +VE R +DGS Sbjct: 379 AVLDYTGYTVEECLAMDDFIGTIAHPEDEPRIRAELARCMDGQKRE-DVELRCVRKDGSV 437 Query: 276 KWISSRGKVVARDAQGNALRMIGTTTDITEIKRLTEKLGKSSRMLDYLTSEIPGMVFQFK 335 W++ + DAQG ++ DIT+ K++ +L S+ D GM+ Sbjct: 438 FWLALSCAPI-HDAQGRFTGFRTSSRDITDRKQIEAELRISAVAFD----SREGMLI--- 489 Query: 336 VPPGAPGYFTYVSEGARETYGLTPQQLL-ENPAIIDTVIHPEDMPLYEAAREAVLAGAAH 394 A V++ E G + ++++ ++P ++ + H ++ RE++ Sbjct: 490 --TDANSKILRVNKAFTEITGYSAEEIVGKHPNLLRSDRHGP--AFFQEMRESI------ 539 Query: 395 WTLEFRVLPPGQGVRWLR---GQSRPRRL--------DDGTTLWHGFISDISQSKAIELE 443 R QG W R G+ P L D T + DIS K E Sbjct: 540 -----RRFGKWQGEIWDRRKNGEVYPEWLTISAVKNKDQQVTHYVSTHHDISDRKLAEER 594 Query: 444 LQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCDLDHFKRINDSLGHAVG 503 ++E A D LT+LPNR + RL++ + R+ T AA+L DLDHFK +ND++GH G Sbjct: 595 IRELAFFDALTRLPNRTLLLDRLKQAIALSLRTKTC-AALLFIDLDHFKTLNDTIGHEKG 653 Query: 504 DLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGAD--QQAAADFAARLQNRFAGQPLI 561 D +L+ A L + +R +DT R+GG+EF ++L G + QQ AA Q R G+ ++ Sbjct: 654 DTLLKQVAQRLLANVRENDTVARVGGDEFVVVLEGLNELQQEAAT-----QTRAIGEKIL 708 Query: 562 H--------EEREVKVTLSIGVALMQADSAGQEQVLRASDDALYRAKEKGRNRVEF 609 ++ E + T SIG + +A +++++ +D A+Y+AKE GRN + F Sbjct: 709 TALGSTYQLDDVEYRTTASIGATVFLGRAASVDELMKQADLAMYKAKETGRNALRF 764 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 122 bits (307), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 74/173 (42%), Positives = 104/173 (60%), Gaps = 3/173 (1%) Query: 441 ELELQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCDLDHFKRINDSLGH 500 E +L+ A TD LT L NRR + LQ + R QR++ A +VL D+D+FK ND+ GH Sbjct: 340 ERQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGH 399 Query: 501 AVGDLVLRHFATVLKSQL-RRSDTAGRLGGEEFAIILTGADQQAAADFAARLQNRFAGQP 559 +GD VL+ A L ++L R +D AGR GGEEF ++L D Q A A RL + + Sbjct: 400 KLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERH 459 Query: 560 LIHEEREVK-VTLSIGVALMQADSAGQ-EQVLRASDDALYRAKEKGRNRVEFA 610 + H + VT+S+GVA ++ D + E VL A+D ALYRAK+ GR+RV + Sbjct: 460 IAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDRVHLS 512 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 0.134 0.396 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: 1,950,470 Number of extensions: 82748 Number of successful extensions: 419 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 356 Number of HSP's successfully gapped: 40 Length of query: 618 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 527 Effective length of database: 1,188,985 Effective search space: 626595095 Effective search space used: 626595095 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)