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= 0220.0007.p (444 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q0AU52.1 Q0AU52_SYNWW RNA-directed DNA polymerase (Reverse trans... 494 e-138 Q0AW97.1 Q0AW97_SYNWW RNA-directed DNA polymerase (Reverse trans... 492 e-137 Q2RGC1.1 Q2RGC1_MOOTA RNA-directed DNA polymerase (Reverse trans... 476 e-132 A6LY84.1 A6LY84_CLOB8 RNA-directed DNA polymerase (Reverse trans... 434 e-119 Q64B18.1 Q64B18_9ARCH Retron type reverse transcriptase 419 e-115 >Q0AU52.1 Q0AU52_SYNWW RNA-directed DNA polymerase (Reverse transcriptase) Length = 443 Score = 494 bits (1272), Expect = e-138, Method: Compositional matrix adjust. Identities = 237/433 (54%), Positives = 317/433 (73%), Gaps = 2/433 (0%) Query: 1 MDTKLSRIAEVARNRPKERMTSLVHLLDKQRLWDCHLEMQGDKAAGVDGVTKAEYERELE 60 M+T L RIAE+AR PKER T+L+H ++ + L +CHLE+ G KA+GVD VTK YE LE Sbjct: 1 METGLVRIAEIARQNPKERFTALIHHINHETLKECHLEISGSKASGVDQVTKQAYEENLE 60 Query: 61 SNLEDLLSRMKRQAYKPKPSRRTYIPKENGNKR-PLGIPSYEDKLVQKAMSQILNAIYEE 119 +N+ DL+ RMKRQAYKP+P RR YIPKE NKR PLGIPSYEDKLVQK +++ILN IYE+ Sbjct: 61 ANIADLIGRMKRQAYKPQPVRRVYIPKEGSNKRRPLGIPSYEDKLVQKGLARILNTIYEQ 120 Query: 120 KFLPCSYGFRPGRSQHQALQALDRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIA 179 FL CS+GFRPGR H AL+ L+ +I ++ V YIVD DI+GFF++VDHEW+ +FLE IA Sbjct: 121 DFLDCSFGFRPGRGCHDALKVLNHIIERKKVNYIVDADIRGFFDHVDHEWMMKFLELRIA 180 Query: 180 DPNFLRLIGRFLKGGVMEEGFYQETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKR 239 DPN LRLI RFLK GVME G +T +GTPQGG +SP+L N+YLHYVLDLWFE +K KR Sbjct: 181 DPNLLRLIKRFLKAGVMEAGIVYDTPKGTPQGGIVSPILANIYLHYVLDLWFEKVVK-KR 239 Query: 240 CRGKAGMVRFADDFVCGFEREEEAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDC 299 C+G+A +VR+ADDFVC F+ + +A+ FY L ER+ KFNL +AEEKT++I FG A+ + Sbjct: 240 CQGEAYLVRYADDFVCCFQNKSDAEWFYANLRERLNKFNLEVAEEKTRIIAFGRFADKES 299 Query: 300 KRAGLTKPATFDFLGFRHIWGRGKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGM 359 K+ G KP TFDFLGF H + K G +R+ RKTS KK+R + + W R++ P Sbjct: 300 KKQGRKKPDTFDFLGFTHYCSKSKKGWFRVKRKTSQKKYRSSLLKCKTWLRKHLISPTDY 359 Query: 360 FVDSVRRKLRGHYQYYGVSDNWHGISRYYSLVLNAIWKWRNRRSQKRTFTLEKFKAFLAR 419 ++ ++ KL+G+Y+YYG++DN + + V ++KW NRRSQ+++ +K+ FL + Sbjct: 360 VIEMLQIKLQGYYRYYGITDNSTALRNFCDKVRRMLFKWFNRRSQRKSMNWDKYVRFLNK 419 Query: 420 NPLPKPRITVNLY 432 +PLPK RI V++Y Sbjct: 420 HPLPKGRIYVDIY 432 >Q0AW97.1 Q0AW97_SYNWW RNA-directed DNA polymerase (Reverse transcriptase) Length = 443 Score = 492 bits (1267), Expect = e-137, Method: Compositional matrix adjust. Identities = 236/433 (54%), Positives = 316/433 (72%), Gaps = 2/433 (0%) Query: 1 MDTKLSRIAEVARNRPKERMTSLVHLLDKQRLWDCHLEMQGDKAAGVDGVTKAEYERELE 60 M+T L RIAE+AR PKER T+L+H ++ + L +CHLE+ G KA+GVD VTK YE LE Sbjct: 1 METGLVRIAEIARQNPKERFTALIHHINHETLKECHLEISGSKASGVDQVTKQAYEENLE 60 Query: 61 SNLEDLLSRMKRQAYKPKPSRRTYIPKENGNKR-PLGIPSYEDKLVQKAMSQILNAIYEE 119 +N+ DL+ RMKRQAYKP+P RR YIPKE NKR PLGIPSYEDKLVQK +++ILN IYE+ Sbjct: 61 ANIADLIGRMKRQAYKPQPVRRVYIPKEGSNKRRPLGIPSYEDKLVQKGLARILNTIYEQ 120 Query: 120 KFLPCSYGFRPGRSQHQALQALDRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIA 179 FL CS+GFRPGR H AL+ L+ +I ++ V YIVD DI+GFF++VDHEW+ +FLE IA Sbjct: 121 DFLDCSFGFRPGRGCHDALKVLNHIIERKKVNYIVDADIRGFFDHVDHEWMMKFLELRIA 180 Query: 180 DPNFLRLIGRFLKGGVMEEGFYQETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKR 239 DPN LRLI RFLK GVME G +T +GTPQGG +SP+L N+YLHYVLDLWFE +K KR Sbjct: 181 DPNLLRLIKRFLKAGVMEAGIVYDTPKGTPQGGIVSPILANIYLHYVLDLWFEKVVK-KR 239 Query: 240 CRGKAGMVRFADDFVCGFEREEEAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDC 299 C+G+A +VR+ADDFVC F+ + +A+ FY L ER+ KFNL +AEEKT++I FG A+ + Sbjct: 240 CQGEAYLVRYADDFVCCFQNKSDAEWFYANLRERLNKFNLEVAEEKTRIIAFGRFADKES 299 Query: 300 KRAGLTKPATFDFLGFRHIWGRGKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGM 359 K+ G KP TFD LGF H + K G +R+ RKTS KK+R + + W R++ P Sbjct: 300 KKQGRKKPDTFDLLGFTHYCSKSKKGWFRVKRKTSQKKYRSSLLKCKTWLRKHLISPTDY 359 Query: 360 FVDSVRRKLRGHYQYYGVSDNWHGISRYYSLVLNAIWKWRNRRSQKRTFTLEKFKAFLAR 419 ++ ++ KL+G+Y+YYG++DN + + V ++KW NRRSQ+++ +K+ FL + Sbjct: 360 VIEMLQIKLQGYYRYYGITDNSTALRNFCDKVRRMLFKWFNRRSQRKSMNWDKYVRFLNK 419 Query: 420 NPLPKPRITVNLY 432 +PLPK RI V++Y Sbjct: 420 HPLPKGRIYVDIY 432 >Q2RGC1.1 Q2RGC1_MOOTA RNA-directed DNA polymerase (Reverse transcriptase) Length = 411 Score = 476 bits (1224), Expect = e-132, Method: Compositional matrix adjust. Identities = 227/412 (55%), Positives = 302/412 (73%), Gaps = 2/412 (0%) Query: 1 MDTKLSRIAEVARNRPKERMTSLVHLLDKQRLWDCHLEMQGDKAAGVDGVTKAEYERELE 60 M TKL+RIAEVAR RPKER TSL+HL+D L CH+E++ ++A G+DG+TK +Y LE Sbjct: 1 MTTKLARIAEVARTRPKERFTSLMHLIDADMLRICHVELKANRATGIDGITKEQYGDNLE 60 Query: 61 SNLEDLLSRMKRQAYKPKPSRRTYIPKENGNK-RPLGIPSYEDKLVQKAMSQILNAIYEE 119 +N++ LL R+KR+AY+P+P RR YIPK +K RPLGIP+YEDK+VQ A S+ILNAIYE Sbjct: 61 ANIQSLLERLKRKAYRPQPVRRVYIPKPGSDKKRPLGIPAYEDKIVQLAASKILNAIYEA 120 Query: 120 KFLPCSYGFRPGRSQHQALQALDRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIA 179 +FL S+GFRP R H AL+ L+ LI+ + V YIVD DIKGFF++V+H+WL +FL H IA Sbjct: 121 EFLDMSFGFRPQRGCHDALKLLNYLIVARKVNYIVDADIKGFFDHVNHDWLMKFLGHRIA 180 Query: 180 DPNFLRLIGRFLKGGVMEEGFYQETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKR 239 DPNFLR I RFLK G+ME G ++ EGTPQGG +SP+L N+YLHYVLDLWFE ++ K Sbjct: 181 DPNFLRFIRRFLKAGIMENGELRDATEGTPQGGIVSPILANIYLHYVLDLWFEKAVR-KH 239 Query: 240 CRGKAGMVRFADDFVCGFEREEEAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDC 299 CRG+A MVR+ADDF+C F+ + EA+AFY AL+ R+ KF+L++AEEKTK+I FG A C Sbjct: 240 CRGEAYMVRYADDFICCFQYKHEAEAFYRALKARLAKFSLSVAEEKTKIIPFGRFATQWC 299 Query: 300 KRAGLTKPATFDFLGFRHIWGRGKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPEGM 359 KR G KP TFDFLGF H GK+R+ R+TS KKFR V+ + +W + NR P + Sbjct: 300 KRMGQNKPDTFDFLGFTHYCSTSHQGKFRVKRRTSRKKFRQSVQRMKEWIKGNRMMPAKV 359 Query: 360 FVDSVRRKLRGHYQYYGVSDNWHGISRYYSLVLNAIWKWRNRRSQKRTFTLE 411 + ++RKL G+Y YYG++DN I ++ + ++KW NRRSQ+ + L+ Sbjct: 360 LMALLKRKLEGYYHYYGITDNSKRILAFHYIARCMLFKWLNRRSQRVSVKLQ 411 >A6LY84.1 A6LY84_CLOB8 RNA-directed DNA polymerase (Reverse transcriptase) Length = 433 Score = 434 bits (1115), Expect = e-119, Method: Compositional matrix adjust. Identities = 216/433 (49%), Positives = 302/433 (69%), Gaps = 2/433 (0%) Query: 1 MDTKLSRIAEVARNRPKERMTSLVHLLDKQRLWDCHLEMQGDKAAGVDGVTKAEYERELE 60 M+TKL +IAE+AR + KE+ TSL H ++K+ L CH ++ G+KA G+D VTK EY +EL+ Sbjct: 1 METKLIKIAEIARQKTKEKFTSLYHYINKEMLLKCHKQLLGNKATGIDDVTKQEYSKELD 60 Query: 61 SNLEDLLSRMKRQAYKPKPSRRTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEK 120 +N+E+L+ +++ +YKP+ +R YIPK +G RPLGIPSYEDKLVQ A+++IL +IYE + Sbjct: 61 NNIENLIVKLRNHSYKPQAVKRVYIPKGDGKTRPLGIPSYEDKLVQMALNKILQSIYEAE 120 Query: 121 FLPCSYGFRPGRSQHQALQALDRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIAD 180 F SYGFRP R+ H A++AL+++I + Y+VD DIKGFFN V+HEW+ +FLE I D Sbjct: 121 FKDFSYGFRPKRNCHSAIKALNKVIENGRINYVVDADIKGFFNNVNHEWMIKFLEVRIGD 180 Query: 181 PNFLRLIGRFLKGGVMEEGFYQETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRC 240 PN + L+ +FLK G+M+ G + TE GTPQG +SP L N+YLHY LDLWFE IK + Sbjct: 181 PNIISLVKKFLKAGLMDNGIIKTTEIGTPQGSIVSPTLANIYLHYSLDLWFEKVIK-RNF 239 Query: 241 RGKAGMVRFADDFVCGFEREEEAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCK 300 RG++ + R+ADDFVC F+ E EA+ F L R+ KFNL + K+KLI FG AE K Sbjct: 240 RGQSEITRYADDFVCCFQYESEARQFCRLLVSRLNKFNLEVERTKSKLILFGRFAEEIRK 299 Query: 301 RAGLTKPATFDFLGFRHIWGRGKSGKYRLLRKTSPKKFRLRVKEITQWARQNRHQPE-GM 359 G TFDFLGF H + K G +R+ RKTS KKF+ ++K+ QW + R++ G Sbjct: 300 SRGFKNAETFDFLGFTHYCAKSKRGYFRVKRKTSKKKFKAKIKDFNQWIKSVRNKLHIGD 359 Query: 360 FVDSVRRKLRGHYQYYGVSDNWHGISRYYSLVLNAIWKWRNRRSQKRTFTLEKFKAFLAR 419 ++KL GHYQYYG++DN + I ++ + A++KW NRRSQ+R+F LEKFK ++ Sbjct: 360 VFKLTKQKLIGHYQYYGITDNSYMIGQFCLEIKKALFKWLNRRSQRRSFDLEKFKMYMKY 419 Query: 420 NPLPKPRITVNLY 432 NPLPKP++ VN+Y Sbjct: 420 NPLPKPKMNVNVY 432 >Q64B18.1 Q64B18_9ARCH Retron type reverse transcriptase Length = 597 Score = 419 bits (1078), Expect = e-115, Method: Compositional matrix adjust. Identities = 212/429 (49%), Positives = 294/429 (68%), Gaps = 5/429 (1%) Query: 1 MDTKLSRIAEVARNRPKERMTSLVHLLDKQRLWDCHLEMQGDKAAGVDGVTKAEYERELE 60 + TKL I + AR P + TSL HLL L DC E++ DKA GVDGVT +YE L+ Sbjct: 162 VSTKLWFITQRAREDPSCKFTSLAHLLTADFLKDCFRELKKDKAPGVDGVTWRKYEENLD 221 Query: 61 SNLEDLLSRMKRQAYKPKPSRRTYIPKENGNKRPLGIPSYEDKLVQKAMSQILNAIYEEK 120 N+EDL++R+ + Y+P+P +R YIPK NG +RPLGIP+ EDK+VQ A+ +IL AI+EE Sbjct: 222 ENIEDLVTRLIAKQYRPQPVKRAYIPKSNGERRPLGIPALEDKIVQLAIKKILEAIFEED 281 Query: 121 FLPCSYGFRPGRSQHQALQALDRLIMKQGVRYIVDVDIKGFFNYVDHEWLRQFLEHDIAD 180 F SYGFRP RS H AL +D +IM + V +VD+DI FF+ VDHE + + L+ + D Sbjct: 282 FCDVSYGFRPNRSCHDALDMVDMIIMTKPVNSVVDMDITKFFDTVDHECVMECLKQRVVD 341 Query: 181 PNFLRLIGRFLKGGVMEEGFYQETEEGTPQGGNLSPLLGNVYLHYVLDLWFEIEIKGKRC 240 P+ LR+I RFL GVMEEG Y ET+ GTPQGG LSP+L N+YLHY LDLWFE E+K ++ Sbjct: 342 PSLLRIIARFLTSGVMEEGKYLETDRGTPQGGLLSPILANIYLHYALDLWFEKEVK-EQL 400 Query: 241 RGKAGMVRFADDFVCGFEREEEAKAFYEALEERMGKFNLTIAEEKTKLIRFGYGAEVDCK 300 +G A +VR+ADDF+ F+ ++EA+AF +AL R+ KF LTI+EEK+++I+FG A + Sbjct: 401 KGFAQLVRYADDFIVCFQYDDEARAFGKALRVRLAKFGLTISEEKSRIIKFGRYACQQAR 460 Query: 301 RAGLTKPATFDFLGFRHIWGRGKSGKYRLLRKTSPKKFRLRVKEITQWAR--QNRHQPEG 358 + G K ATFDFLGF + ++GK ++ RKTS KKFRL++K + W + +NR E Sbjct: 461 KQG-KKCATFDFLGFTLYCDKTRNGKSKVGRKTSSKKFRLKMKTMNLWLKGVRNRMILE- 518 Query: 359 MFVDSVRRKLRGHYQYYGVSDNWHGISRYYSLVLNAIWKWRNRRSQKRTFTLEKFKAFLA 418 ++ + +K+ GHYQYYG+S N G+ +Y +KW NRRSQ++++ +F FL+ Sbjct: 519 LWWPMLAQKMTGHYQYYGISGNIRGLQSFYYHTAKLAFKWINRRSQRKSYNWSQFNRFLS 578 Query: 419 RNPLPKPRI 427 NPLPKP+I Sbjct: 579 FNPLPKPKI 587 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.322 0.139 0.425 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 2,738,738,906 Number of extensions: 122062997 Number of successful extensions: 281489 Number of sequences better than 1.0e-05: 1592 Number of HSP's gapped: 278992 Number of HSP's successfully gapped: 1593 Length of query: 444 Length of database: 3,060,696,203 Length adjustment: 139 Effective length of query: 305 Effective length of database: 1,751,175,118 Effective search space: 534108410990 Effective search space used: 534108410990 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)