#=GF ID   Rep_N
#=GF AC   PF08724.14
#=GF DE   Rep protein catalytic domain like
#=GF AU   Mistry J;0000-0003-2479-5322
#=GF SE   pdb_1m55
#=GF GA   27.00 27.00;
#=GF TC   44.80 43.70;
#=GF NC   22.00 19.70;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch --cpu 4 -E 1000 -Z 75585367 HMM pfamseq
#=GF TP   Domain
#=GF CL   CL0169
#=GF RN   [1]
#=GF RM   12191478
#=GF RT   Structural unity among viral origin binding proteins: crystal
#=GF RT   structure of the nuclease domain of adeno-associated virus Rep. 
#=GF RA   Hickman AB, Ronning DR, Kotin RM, Dyda F; 
#=GF RL   Mol Cell. 2002;10:327-337.
#=GF DR   INTERPRO; IPR014835;
#=GF DR   SCOP; 1m55; fa;
#=GF DR   SO; 0000417; polypeptide_domain;
#=GF CC   Adeno-associated virus (AAV) Replication (Rep) protein is
#=GF CC   essential for viral replication and integration.  The catalytic
#=GF CC   domain has DNA binding and endonuclease activity.
#=GF SQ   8
#=GS H2ESE4_BTPV1/76-203      AC H2ESE4.1
#=GS A0A501X810_9BACT/35-195  AC A0A501X810.1
#=GS REP68_AAV2S/4-192        AC P03132.1
#=GS VU94_HHV6U/17-203        AC Q00683.1
#=GS REP78_AAV2S/4-192        AC Q89268.1
#=GS I3VQC2_9BETA/16-200      AC I3VQC2.1
#=GS NS1_PAVHV/2-177          AC Q9PZT1.1
#=GS VU94_HHV6Z/17-203        AC Q9WSZ6.1
H2ESE4_BTPV1/76-203                 ..........................lytatirsfycifagrap---------------------------------..----------.----...------------------------P....LVFLQLEPCtspDLEYHFHLV..VGAEGLTGRDY----SYWLRQLGRFMFQYVS.WEWPYKWEVKKTRQ..-GRLYRADLGFVTQYLLPKVPLNgCWWAWTNIPKFEAARLNKRVR-------lgw.
A0A501X810_9BACT/35-195             dvhvctdgldwpqltgqvyqyvqagmliwnlweeqlaglfygcp---------------------------------..----------.----...-----------------------PP....MHFMQLEPG...VGGPHLHIV..LDAPYMGARGWTATLKKLTAKLHSMFAECGAgEETKYYYSVPRDRH..-GKVLRCDEEFIRTYLLKKVPLDgVWWAWTTIDKFKPIVLSETRRRSLAA--ae..
REP68_AAV2S/4-192                   ............................................FYEIVIKVPSDLDGHLPGISDSFVNWVAEKEWElpPDSDMDLNLI.EQAP...LTVAEKLQRDFLTEWRRVSKAPEA-....LFFVQFEKG...ESYFHMHVL..VETTGVKSMVLGRFLSQIREKLIQRIYRGIE.PTLPNWFAVTKTRNgaGGGNKVVDECYIPNYLLPKTQPE.LQWAWTNMEQYLSACLNLTERKRLVAQH....
VU94_HHV6U/17-203                   ............................................YIMLTIKGPMEWEAEIPGISTDFFCKFSN---V.sVPHFRDMHSP.GAPDikwITACTKMIDVILNYWNNKTAVPTPA....KWYAQAENK...AGRPSLILL..IALDGIPSATIGKHTTEIRGVLIKDFFDGNA.PKIDDWCTYAKTKK.nGGGTQVFSLSYIPFALLQIIRPQ.FQWAWTNINELGDVCDEI-HRKHIISHF....
REP78_AAV2S/4-192                   ............................................FYEIVIKVPSDLDGHLPGISDSFVNWVAEKEWElpPDSDMDLNLI.EQAP...LTVAEKLQRDFLTEWRRVSKAPEA-....LFFVQFEKG...ESYFHMHVL..VETTGVKSMVLGRFLSQIREKLIQRIYRGIE.PTLPNWFAVTKTRNgaGGGNKVVDECYIPNYLLPKTQPE.LQWAWTNMEQYLSACLNLTERKRLVAQH....
I3VQC2_9BETA/16-200                 ............................................FIMLNIYGPVDWSSEIPGLSEAFYTDMDNRDFE..----ADLEERrDLNRr.wLSVCEKILPIVLTYWKAKILTSEPA....QWFAQAECY...DDRPLMKLMlqIGAGTSLGSSLSRHLTHMRRLIIARVYEDHH.PMMGEWFFVSRTGL.sGGNVRVFELDYITSTLLQVTVPI.YQWSWTNITTLTDAQLSA--RNH-----lfld
NS1_PAVHV/2-177                     .....................................elfrgvl-----------------QVSSNVLDCANDNWWC..--SLLDLDTS.DWEP...LTHTNRLMAIYLSSVASKLDFTGGPlagcLYFFQVECNk.fEEGYHIHVV..IGGPGLNPRNL---TVCVEGLFNNVLYHLVT.ENVKLKFLPGMTTK..-GKYFRDGEQFIENYLMKKIPLN.VVWCVTNIDGYIDTCISATFRRGACHA-k...
VU94_HHV6Z/17-203                   ............................................YIMLTIKGPVEWEAEIPGISTDFFCKFSN---V.pVPHFRDMHSP.GAPDikwITACTKMIDVILNYWNNKTAVPTPA....KWYAQAENK...AGRPSLTLL..IALDGIPTATIGKHTTEIRGVLIKDFFDGNA.PKIDDWCTYAKTKK.nGGGTQVFSLSYIPFALLQIIRPQ.FQWAWTNINELGDVCDEI-HRKHIISHF....
#=GC seq_cons                       ............................................ah.lsIhsP.-hpuclPGlSssFhshhsp........p.hDhp...t.ss...lTsspKh.t.hLs.Wpph.tsspss....haFsQhEss...-ut.HhHll..lussGlsutslu+ahoplRthLIpchacsss.PplspWasVsKT+p.sGGsspVs-.sYIssYLLpKl.Pp.hQWAWTNIspatssCLshpcR++lhut.....
//