Conserved Protein Domain Family
Retrotrans_gag

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pfam03732: Retrotrans_gag 
Retrotransposon gag protein
Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Statistics
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PSSM-Id: 309014
View PSSM: pfam03732
Aligned: 56 rows
Threshold Bit Score: 61.5816
Threshold Setting Gi: 75262878
Created: 18-Jul-2016
Updated: 4-Aug-2016
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

pfam03732 is a member of the superfamily cl04237.
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75262445   131 SMV--------KSWILNSVTKQIYKsilrf----ndaaeIWKDLDTRFHITNLP--RSYQLTQQIWSLQQGNMSLSDYYT 196
gi 74665091   148 VHAatflrgraLAWFEPLQQEWLDNpvekysqevrniffSFDGYVKALQSLFLDpdEKRQAERDLSNLRQ-NKSATLYAA 226
gi 74638941    52 IFAttflrgraQHWVKPFLRKYLDSngedna---dgvfkSYNHLKHAMKSVFGVsnEIATAVRVIQHLTQ-KTSTAEYAA 127
gi 172045711  174 CFVtsmligraARWATAKLQRCTYLm------------hNYTAFMMELKHVFEDpqRREAAKRKIRRLRQGPGPVVDYSN 241
gi 82190781   149 GFItslladkaLSWAIAAVDLDPRLs------------sDYSAFRREFKAVFEHptYGEDAASRLLALQQGSRSVAEYTL 216
gi 82246584   117 AFVvnllsgraAQWATAVLENQTPAs------------sSFPEFTAELKRVFDHpiQSGEAASQIRSLRQGSSSVADY-- 182
gi 75169315   150 KMVaihfdshaATWHHSFIQSGIGLdv----------ffNWPEYVKLLKDRFEDa-CDDPMAE-LKKLQE-TDGIVEYHQ 216
gi 75173221   102 DIAsihfddidATWHQSIVQSIMWRhv----------rhDWWNYKLLLQVRYNK--HVDDSIAKLKLLQE-TEGIEVYHA 168
gi 75213196   132 SIAstlcdgaaAKWYKSLFESDFGVkl----------lsNWNMYKLLLEEHFAE--VLDDPISELKQLKE-TNGIEEYHK 198
gi 75175946   163 ALVsvsvsgeaLSWYNWAISRGDFV--------------SWLKLKSGLMLRFGNlkLRGPSQS-LFCIKQ-TGSVAEYVQ 226
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 75262445   197 TLKTLWDDLDgascVNTCrnckccsatasvneHSKIVKFLAGLND 241
gi 74665091   227 EFRRLAARLD-----MTD--------------ESKVFAFYQGLKD 252
gi 74638941   128 KFQEYAQLTD-----WDD--------------EALQVMYRRGLKE 153
gi 172045711  242 AFQMIAQDLD-----WTE--------------PALMDQFQEGLNP 267
gi 82190781   217 EFRILAAESR-----WGE--------------TALRSAYRRGLSE 242
gi 82246584   183 -FRILAARSG-----WND--------------TALRGVFTQGLAE 207
gi 75169315   217 QFELIKVRLN-----LSE--------------EYLVSVYLAGLRT 242
gi 75173221   169 RFESICTRVK-----LDE--------------DFLVSLYLTGLKT 194
gi 75213196   199 KFELLRARVN-----LSE--------------DYLVRVYLDGLHP 224
gi 75175946   227 RFEDLSSQVG----GLDD--------------QKLEGIFLNGLTG 253
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