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= 0001.2982.p (633 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... 889 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 149 8e-37 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 137 3e-33 gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein... 124 2e-29 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 120 3e-28 >gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC sensor protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 889 bits (2298), Expect = 0.0, Method: Compositional matrix adjust. Identities = 440/610 (72%), Positives = 507/610 (83%), Gaps = 6/610 (0%) Query: 22 MMSERPIPQIDAEPDRYRKALAFNNLTLSYIARGAPLDQLLDRIASGFSCNYPQRALAIF 81 M SERP + D+ + KALA++ LTL+YIARGAPLDQLLDRIA GF+ YP+R LAIF Sbjct: 1 MTSERPPHRADSA--FHEKALAYHQLTLTYIARGAPLDQLLDRIAVGFAQAYPERWLAIF 58 Query: 82 LFDPATQRMRVGAAPRMTPQFLAEVCALPVPDPDTPQFWHSFTALSERHQICLLELLPLR 141 L+D +RM+ GA P M P +A++ LP DTP W F L+ RH + L E+LPLR Sbjct: 59 LYDDQARRMQAGAVPYMAPALVAQIQDLPAEAADTPDVWQRFDELAGRHGVRLAEMLPLR 118 Query: 142 SFAGAVSGILAVCAQTRALADPA-HLDPDYREAVGAAMSMAMLAIERALVPAHTWVAPEP 200 SFAG ++G++ + A AD D YR+ V AA+SMAMLAIERALVP H + Sbjct: 119 SFAGQLAGLMMIAATD---ADSGFEEDQAYRQTVSAAVSMAMLAIERALVPGHVLTPRDA 175 Query: 201 PGLVDERMALAIEGSGTGIWDRNAVTGEMYYSRGWKAILGYEDWELSSHLEDAYQRIHPE 260 P ERMALAIEGSGTGIWDRNAVTGEMYYSRGWKAILGYEDWELSSHL DAYQRIHP+ Sbjct: 176 PDQAYERMALAIEGSGTGIWDRNAVTGEMYYSRGWKAILGYEDWELSSHLADAYQRIHPD 235 Query: 261 DLPYVQETIRQHFTSQSDTYQVEHRIRCRDGGYKWISSRGKVVARDAAGNALRMIGTTTD 320 DL YVQ+TIRQHF ++SD Y+VEHRIRC+DG YKWISSRGKVVARDA GNALRMIGTTTD Sbjct: 236 DLAYVQQTIRQHFEARSDHYEVEHRIRCQDGSYKWISSRGKVVARDAQGNALRMIGTTTD 295 Query: 321 ITEVKQLTEKLAKSSRMLDYLTSEIPGMVFQYRVPPRSHGFFTYISEGARETYGLTSQQL 380 ITE+K+LTEKL KSSRMLDYLTSEIPGMVFQ++VPP + G+FTY+SEGARETYGLT QQL Sbjct: 296 ITEIKRLTEKLGKSSRMLDYLTSEIPGMVFQFKVPPGAPGYFTYVSEGARETYGLTPQQL 355 Query: 381 LENPTLIDTIIHPEDLPMFQAARQAVLDGGSHWMLEFRVIPPGQGVRWLRGQARPRRLED 440 LENP +IDT+IHP+D+P+++AAR+AVL G +HW LEFRV+PPGQGVRWLRGQ+RPRRL+D Sbjct: 356 LENPAIIDTVIHPDDMPLYEAAREAVLGGAAHWTLEFRVLPPGQGVRWLRGQSRPRRLDD 415 Query: 441 GTTLWHGFVSDISQSKAFELELQELALTDHLTQLPNRRSFMQRLQEEYSRVQRGVIEGAA 500 GTTLWHGF+SDISQSKA ELELQE ALTD+LTQLPNRR FMQRLQEEYSR+QR V GAA Sbjct: 416 GTTLWHGFISDISQSKAIELELQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAA 475 Query: 501 VLMCDLDHFKRVNDSLGHAVGDQVLSHFAALLKGQLRKSDAVGRLGGEEFAVILSRANRQ 560 VLMCDLDHFKR+NDSLGHAVGD VL HFA +LK QLR+SD GRLGGEEFA+IL+ A++Q Sbjct: 476 VLMCDLDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQ 535 Query: 561 AAAEFALRLQTSFASHPLLHEGGEVEVTISIGIALMQADSSGPEQVLRASDDALYRAKEK 620 AAA+FA RLQ FA PL+H+ EV+VT+SIG+ALMQADS+G EQVLRASDDALYRAKEK Sbjct: 536 AAADFAARLQNRFAGQPLIHDEREVKVTLSIGVALMQADSAGQEQVLRASDDALYRAKEK 595 Query: 621 GRNRFEFAPF 630 GRNR EFAPF Sbjct: 596 GRNRVEFAPF 605 >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 = 8e-37, Method: Compositional matrix adjust. Identities = 134/413 (32%), Positives = 193/413 (46%), Gaps = 27/413 (6%) Query: 230 YYSRGWKAILGY--EDWELSSHLEDAYQRIHPEDLPYVQETIRQHFTS---QSDTYQVEH 284 + S G A+ GY ED L+ L + HPED + +R H + + +E+ Sbjct: 34 FVSEGCLALTGYLPEDLLLNQRL-SFLELTHPED----RTLVRNHVDACMRERRRIDIEY 88 Query: 285 RIRCRDGGYKWISSRGKVVARDAAGNALRMIGTTTDITEVKQLTEKLAKSSRMLDYLTSE 344 RI DG +W+ RG V +A G + G D+TE K+ + L ++ R + Sbjct: 89 RIVRADGAVRWVWERG-VGIYNANGQVEAIEGFLQDVTERKEAAQALQEAERRYRSIFEN 147 Query: 345 IPGMVFQYRVPPRSHGFFTYISEGARETYGLTS-QQLLENPTLID--TIIHPEDLPMFQA 401 VFQ G + ++ YG S + L+ I + PE F Sbjct: 148 AIEGVFQ----TTPDGTYIAVNPALARIYGYHSPEDLIVGLRDISHQLYVEPERRQEFM- 202 Query: 402 ARQAVLDGGSHWMLEFRVIPPGQGVRWLRGQARPRRLEDGT-TLWHGFVSDISQSKAFEL 460 + + + GS E RV + W+ AR E G + + G V I++ KA E Sbjct: 203 --RLMEEQGSVSNFESRVYRRDGEIIWISENARAVYDEAGKLSCYEGTVEAITERKAHEA 260 Query: 461 ELQELALTDHLTQLPNRRSFMQRLQEEYSRVQRGVIEGAAVLMCDLDHFKRVNDSLGHAV 520 E++ A D LT LPNR + LQ RV R AV DLD FK +NDSLGH V Sbjct: 261 EMRHQATHDALTGLPNRNMLHEHLQRAL-RVARQKGALTAVAFVDLDQFKFINDSLGHQV 319 Query: 521 GDQVLSHFAALLKGQLRKSDAVGRLGGEEFAVILSRANRQAA--AEFALRLQTSFASHPL 578 GD++L A L+ LR++D V R GG+EF ++L A AE R+ + A P Sbjct: 320 GDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVA-RPW 378 Query: 579 LHEGGEVEVTISIGIALMQADSSGPEQVLRASDDALYRAKEKGRNRFE-FAPF 630 E +VT SIG++ AD E +L+ +D A+YRAKE+GRN F+ FAP+ Sbjct: 379 QAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPW 431 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 137 bits (345), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 92/232 (39%), Positives = 125/232 (53%), Gaps = 28/232 (12%) Query: 412 HWMLEFRVIPPGQGVRWLRGQARPRRLEDGTTLWHGFVSDISQSKAFELE-------LQE 464 H +L + + G R+ R +L F+ ++ A LE L+ Sbjct: 151 HRLLGYLALGSAYGERFTR------------SLATDFIERLATIAAVCLENVINNERLKH 198 Query: 465 LALTDHLTQLPNRRSFMQRLQEEYSRVQRGVIEGAAVLMCDLDHFKRVNDSLGHAVGDQV 524 + LTD LT + NRR QR+QEE +R QR + L D+DHFKRVND GH GD V Sbjct: 199 IGLTDPLTGVNNRRYIEQRMQEEVARSQRDR-SALSCLFIDIDHFKRVNDQFGHQSGDDV 257 Query: 525 LSHFAALLKGQLRKSDAVGRLGGEEFAVILSRANRQAAAEFALRLQTSFASHPLLHEGGE 584 L AA +K +LR SDA+GR GGEEF V+L+ A R+ AA A R++ S ++ EG Sbjct: 258 LREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAARIAERIRAGVCSRGVMIEGSR 317 Query: 585 --VEVTISIG-IALMQADSSGP-----EQVLRASDDALYRAKEKGRNRFEFA 628 +++T SIG AL D S P + +L+A+D ALY+AKE GRNR A Sbjct: 318 DPLKITASIGAAALTPPDRSRPAAEVKQAMLKAADQALYQAKEAGRNRVMLA 369 >gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 738 Score = 124 bits (312), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 75/188 (39%), Positives = 101/188 (53%), Gaps = 4/188 (2%) Query: 444 LWHGFVSDISQSKAFELELQELALTDHLTQLPNRRSFMQRLQEEYSRVQRGVIEGAAVLM 503 L+ F+ DI++ AF +++ELALTD LT LPNRR+F RL E R +R + A+ Sbjct: 547 LFIAFLHDITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRAH-QLLALFF 605 Query: 504 CDLDHFKRVNDSLGHAVGDQVLSHFAALLKGQLRKSDAVGRLGGEEFAVILSRANRQAAA 563 DLD FK +ND GH GD++L FA L+ +R D V RL G+EF VIL Q A Sbjct: 606 MDLDGFKGINDRYGHEAGDELLVEFARRLQASVRDVDTVARLAGDEFVVILENLQSQQDA 665 Query: 564 EFALRLQTSFASHPLLHEGGEVEVTISIGIALMQAD---SSGPEQVLRASDDALYRAKEK 620 P V ++ SIG+A+ Q D GPE++L +D A+Y AK Sbjct: 666 IMVAEKILHAIREPFELTHSTVHISSSIGVAVYQPDLDGEIGPEELLSMADKAMYAAKRL 725 Query: 621 GRNRFEFA 628 G+NR E Sbjct: 726 GKNRIELG 733 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 120 bits (302), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 73/174 (41%), Positives = 100/174 (57%), Gaps = 3/174 (1%) Query: 459 ELELQELALTDHLTQLPNRRSFMQRLQEEYSRVQRGVIEGAAVLMCDLDHFKRVNDSLGH 518 E +L+ LA TD LT L NRR+ + LQ + R QR + +VL D+D+FK ND+ GH Sbjct: 340 ERQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGH 399 Query: 519 AVGDQVLSHFAALLKGQL-RKSDAVGRLGGEEFAVILSRANRQAAAEFALRLQTSFASHP 577 +GD VL AA L +L R +D GR GGEEF V+L + + Q A A RL + Sbjct: 400 KLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERH 459 Query: 578 LLHEGGEVE-VTISIGIALMQAD-SSGPEQVLRASDDALYRAKEKGRNRFEFAP 629 + H + VTIS+G+A ++ D E VL A+D ALYRAK+ GR+R + Sbjct: 460 IAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDRVHLSS 513 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 0.321 0.135 0.406 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: 2,042,700 Number of extensions: 89838 Number of successful extensions: 401 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 337 Number of HSP's successfully gapped: 40 Length of query: 633 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 542 Effective length of database: 1,188,985 Effective search space: 644429870 Effective search space used: 644429870 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)