Conserved Protein Domain Family
RVT_1

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pfam00078: RVT_1 
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Reverse transcriptase (RNA-dependent DNA polymerase)
A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.
Statistics
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PSSM-Id: 200982
View PSSM: pfam00078
Aligned: 157 rows
Threshold Bit Score: -1
Threshold Setting Gi: 0
Created: 21-Dec-2011
Updated: 5-Jan-2012
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

pfam00078 is not assigned to any domain superfamily.
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1MU2_A        63 IKKKDk---NKWRML--IDFRELNKVTQDFTEIQLGIPHPAG----LAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLP 133
gi 74764936   53 KPGT-----NLHRPv--lDLKRLNTYINNQSFKMEGIKNLPSm---VKQGYYMVKLDIKKAYLHVLVDPQYRDLFRFVWK 122
gi 74766486   46 KCRLV----MDLTTv---NPYITANKIKLEN-VAIAKSLI-------PKSGFMLTFDMKSGYHQARMADSELIYLAFRWE 110
gi 232018    394 VDKNSrn-tTEARLv--vDFSQFSKGKNAMRFPRYWSPNLSTlrriLPVGMPRISLDLSQAFYHLPLNPASSSRLA--VS 468
gi 172045667 376 VDKNPhn-tTESRLV--VDFSQFSRGSTHVSWPKFAVPNLQSltnlLSSNLSWLSLDVSAAFYHIPLHPAAMPHLLVGSS 452
gi 118864    413 LVDKNpynsSESRLv--vDFSQFSRGHSRVHWPKFAVPNLQTlanlLSTNLQWLSLDVSAAFYHIPVSPAAVPHFLVGSP 490
gi 118895    416 LVDKNpnnsSESRLv--vDFSQFSRGHTRVHWPKFAVPNLQTlanlLSTNLQWLSLDVSAAFYHIPISPAAVPHLLVGSP 493
gi 81923183  364 VDKNPhn-aTESRLv--vDFSQFSRGNTSVSWPKFAVPNLQSltnlLSTDLSWVSLDVFAAFYHLPLHPASMPHLLVGSS 440
gi 82002188   72 LVDKNphntAESRLv--vDFSQFSRGSSRVSWPKFAVPNLQSltnlLSSNLSWLSLDVSAAFYHLPLHPAAMPHLLVGSS 149
gi 74956947  425 KSCGD----YVIRLitgRFNRYLESGNIPKD---WKTSKTt---------LIFKKGDYFQKAFDSVEPEDVWDSLQQQGV 488
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1MU2_A       134 S------------------------------------------------VN-NAe--pGKRYIYKVLPQGWKGSPAIFQH 162
gi 74764936  123 ----------------------------------------------------------GSHYRWKTMPFGLSTAPRIFTM 144
gi 74766486  111 ----------------------------------------------------------GKTFWMKALPFGLSSAPEYFTK 132
gi 232018    469 Dg--------------------------------------------------------QRVYYFRKAPMGVGLSPFLLHL 492
gi 172045667 453 GlpryvarlsstsrninyqhgtmqdlhdscsrnlyvsllllyktfgrklHL-YSh---PIILGFRKIPMGGGLSPFLLAQ 528
gi 118864    491 Gl---------------------------------------------------------ERFASCMSHDASNRNNSKLQT 513
gi 118895    494 Glerfntcm---------------------------------sssthngND-SQlq-tMHALCTRHVYSSLLLLFKTYGR 538
gi 81923183  441 Glpryvarv---------------------------------ssstnsyRN-NNnngtLQDLHANCSRHLFVSLMLLYQT 486
gi 82002188  150 Glsryvar-------------------------------------------lssnsriINHQYGTLPNLHDSCSRNLYVS 186
gi 74956947  489 Qrgyinllqe-------------------------------cytdcsttFTpFHk---nVTVPVTRGVRQGDPISPNLFS 534
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1MU2_A       163 TMRQVLEPFRKAn---------------------------------------------------kDVIIIQYMDDILIAS 191
gi 74764936  145 LLRPVLRMLRDI-----------------------------------------------------NVSVIAYLDDLLIVG 171
gi 74766486  133 LFRHPLATLRGD-----------------------------------------------------GVNCLLYLDDLLVWS 159
gi 232018    493 FTTALGSEIARRf----------------------------------------------------NVWTFTYMDDFLLCH 520
gi 172045667 529 FTSAICSVVRRAf---------------------------------------------------pHCLAFSYMDDVVLGA 557
gi 118864    514 MHHICSRHLYNTllllfktygrklhllahpfimgfrklpmgvglspfllaqftsaltsmvrrnfpHCLAFAYMDDLVLGA 593
gi 118895    539 KLHLLAHPFIMGfrklpmgvglspflla----------------------qftsaiasmvrrnfpHCVVFAYMDDLVLGA 596
gi 81923183  487 YGRKLHLYSHPLimgfrkvpmglglspfl-------------------laqftsaicsvvrrafpHCMAFSYMDDVVLGA 547
gi 82002188  187 LMLLFKTFGRKLhlyshpiimgfrkipmgvgls------------pfllaqftsaicsvvrrafpHCLAFSYMDDVVLGA 254
gi 74956947  535 ACLEHVFRQLNWkhfkgderye----------------------------------tegirvngqNLTNLRFADDIVLVA 580
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
1MU2_A       192 DrTDLEHDRVVLQLKELLNGLGFSTPDEK--FQK-----------------------DPPYHWMGYEL 234
gi 74764936  172 S-TKEECLSNLKKTMDLLVKLGFKLNLEKsvLEP-----------------------TQSITFLGLQI 215
gi 74766486  160 E-TYEGACEASAKVRALFGKLGVVLNNEKssVTP-----------------------QREVKWLGVVF 203
gi 232018    521 P-NARHLNSISHAVCTFLQELGIRINFDKttPSP-----------------------VTEIRFLGYQI 564
gi 172045667 558 K-SVQHLESLFTSITNFLLSLGIHLNPNKtkRW------------------------GYSLNFMGYVI 600
gi 118864    594 R-SYEHLTAVYSHICSVFLDLGIHLNVEKtkWW------------------------GHTLHFMGYTI 636
gi 118895    597 R-TSEHLTAIYSHICSVFLDLGIHLNVNKtkWW------------------------GNHLHFMGYVI 639
gi 81923183  548 K-SVQHLESLLASVTTFLLALGIHLNPEKtkRW------------------------GKALNFMGYVI 590
gi 82002188  255 K-SVQHLESLYTAVTNFLLSLGIHLNPNKtkRW------------------------GYSLNFMGYVI 297
gi 74956947  581 H-NPRTASQMLTELVEKCSSVGLKINTGKtkVLRnrfaykrkveircpnttniiiddVNEYIYLGRQI 647
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