#=GF ID   HMUDK_HMUD1
#=GF AC   PF18748.5
#=GF DE   5-hmdU DNA kinase
#=GF PI   Ploopntkinase1;
#=GF AU   Iyer LM;0000-0002-4844-2022
#=GF AU   Aravind L;0000-0003-0771-253X
#=GF AU   Burroughs AM;0000-0002-2229-8771
#=GF AU   El-Gebali S;0000-0003-1378-5495
#=GF SE   Iyer LM
#=GF GA   27.00 27.00;
#=GF TC   27.00 42.60;
#=GF NC   26.70 24.10;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch -Z 75585367 --cpu 4 -E 1000 HMM pfamseq
#=GF TP   Family
#=GF CL   CL0023
#=GF RN   [1]
#=GF RM   23814188
#=GF RT   Computational identification of novel biochemical systems
#=GF RT   involved in oxidation,  glycosylation and other complex
#=GF RT   modifications of bases in DNA.
#=GF RA   Iyer LM, Zhang D, Burroughs AM, Aravind L;
#=GF RL   Nucleic Acids Res. 2013;41:7635-7655.
#=GF RN   [2]
#=GF RM   34522950
#=GF RT   Pathways of thymidine hypermodification.
#=GF RA   Lee YJ, Dai N, Muller SI, Guan C, Parker MJ, Fraser ME, Walsh
#=GF RA   SE, Sridar J, Mulholland A, Nayak K, Sun Z, Lin YC, Comb DG,
#=GF RA   Marks K, Gonzalez R, Dowling DP, Bandarian V, Saleh L, Correa
#=GF RA   IR, Weigele PR;
#=GF RL   Nucleic Acids Res. 2022;50:3001-3017.
#=GF RN   [3]
#=GF RM   29555775
#=GF RT   Identification and biosynthesis of thymidine hypermodifications
#=GF RT   in the genomic DNA of widespread bacterial viruses.
#=GF RA   Lee YJ, Dai N, Walsh SE, Muller S, Fraser ME, Kauffman KM, Guan
#=GF RA   C, Correa IR Jr, Weigele PR;
#=GF RL   Proc Natl Acad Sci U S A. 2018;115:E3116.
#=GF DR   INTERPRO; IPR040924;
#=GF DR   SO; 0100021; polypeptide_conserved_region;
#=GF CC   5-hmdU DNA kinase (HMUDK) and 5-hmdU DNA kinase 1 (HDMU1) are
#=GF CC   P-loop nucleotide kinases that phosphorylates
#=GF CC   5-hydroxymethyluracil (5hmdU) into
#=GF CC   5-phosphomethyl-2'-deoxyuridine (5-PmdU) on DNA as a step in the
#=GF CC   pathway leading to thymidine hypermodifications in the viral
#=GF CC   genome [2]. HMUDK also transfers glutamate to
#=GF CC   5-pyrophosphoryloxymethyldeoxyuridine (5-PPmdU) to produce
#=GF CC   5-Nalpha-glyutamylthymidine (Nalpha-GluT) [2,3]. These
#=GF CC   modifications probably prevent degradation of viral genome by
#=GF CC   the host restriction-modification antiviral defense system
#=GF CC   [1,3].
#=GF SQ   24
#=GS K7YIY0_9CAUD/13-208      AC K7YIY0.1
#=GS A0A4P2WVH0_9CAUD/1-111   AC A0A4P2WVH0.1
#=GS A0A0C5PQK6_9CAUD/14-209  AC A0A0C5PQK6.1
#=GS A0A482MZM3_9CAUD/14-209  AC A0A482MZM3.1
#=GS S6CGF3_9CAUD/14-209      AC S6CGF3.1
#=GS A0A2Z3DPE0_9CAUD/14-209  AC A0A2Z3DPE0.1
#=GS A0A2D0WBE1_9CAUD/1-165   AC A0A2D0WBE1.1
#=GS K4I4U2_9CAUD/14-209      AC K4I4U2.1
#=GS I0J2S0_9CAUD/14-209      AC I0J2S0.1
#=GS A0A6G6XUL2_9CAUD/14-209  AC A0A6G6XUL2.1
#=GS A0A2K8I3V5_9CAUD/2-171   AC A0A2K8I3V5.1
#=GS HMUD1_BPSAV/14-209       AC E1XT70.1
#=GS C8XUG4_9CAUD/14-209      AC C8XUG4.1
#=GS A0A7S9SMU6_9CAUD/14-209  AC A0A7S9SMU6.1
#=GS HMUDK_BPS10/23-198       AC F8WQ30.1
#=GS A0A1W6DYL9_9CAUD/11-218  AC A0A1W6DYL9.1
#=GS A0A248H6W9_9CAUD/14-209  AC A0A248H6W9.1
#=GS A0A0A0YSQ1_9CAUD/11-206  AC A0A0A0YSQ1.1
#=GS A0A7S5UQA0_9CAUD/1-180   AC A0A7S5UQA0.1
#=GS A0A0N7CCV4_9CAUD/1-178   AC A0A0N7CCV4.1
#=GS A0A7D3UYA3_9CAUD/23-199  AC A0A7D3UYA3.1
#=GS A0A5B9N1P7_9CAUD/14-209  AC A0A5B9N1P7.1
#=GS A9J510_BPPYU/2-170       AC A9J510.1
#=GS A0A2D0W9H6_9CAUD/1-166   AC A0A2D0W9H6.1
K7YIY0_9CAUD/13-208                 ..................HTFVRPPKVEVPRQPVGDIYYVKGCNGSGKSTVPSYLSEKDPDAYV...CLL.........G....SR.V.....LLTVFPSFG.ILAFGKYDK....T....KSK.GVDSLSDYAEIELALALSER...EDLVKYD.AFFEGIIPATILHTW......IEKLN.....RPAR...RLVTLFLDTPLATCLSRVDTRNGG..E....DYNRDLVAEKFRRIESHRVRHKELFPTVPAGMIRSEGKTMEQMVE.............
A0A4P2WVH0_9CAUD/1-111              ..................----------------------------------------------...---.........-....--.-.....---------.---------....-....---.----------MLFALSIADL...PEYQVYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVQDHRQRHKGLFPTVAAGMMKSHGLTVDQAV-m............
A0A0C5PQK6_9CAUD/14-209             ..................HLFVKPPAVEGEYSARGELYYIKGSNGSGKSTVPSYLAENDPQAYV...VTH.........N....SK.I.....MLTVCPSYN.IVCVGKYDK....S....KSK.GVDSLKDTEQMLFALSIADQ...PEYLKYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVHNHRGRHKELFPTVCAGMMKSHGLTVDQAV-m............
A0A482MZM3_9CAUD/14-209             ..................HLFHKPPAVVGNYPARGELYYVKGSNGSGKSTVPSWMAENDPQAYV...VTH.........N....GK.V.....MLTVCPSFN.IICVGKYDK....S....KSK.GVDSLKDTEQMLFAVSITEQ...PEYIGYD.VIFEGIIPATLLNTW......IERLN.....RPTR...RLVVLFLDTPKEICLARVSSRNGG..E....DFKHELVLEKWKRVNSHRERHKELFPNITAGMMKSNGLTVDQAVS.............
S6CGF3_9CAUD/14-209                 ..................HLFHKPPAVVGEYPARGELYYVKGSNGSGKSTVPSWMAENDPQAYV...VTH.........N....GK.V.....MLTVCPSFN.IICVGKYDK....S....KSK.GVDSLKDTEQMLFAVSITEQ...PEYIGYD.VIFEGIIPATLLNTW......IERLN.....RPTR...RLVVLFLDTPKEVCLARVSSRNGG..E....DFKHELVLEKWKRVNSHRERHKELFPNIPAGMMKSNGLTVDQAVS.............
A0A2Z3DPE0_9CAUD/14-209             ..................HLFVKPPAVEGEYPARGELYYVKGSNGSGKSTVPSYLAENDPQAYV...VAR.........D....SK.I.....MLTVCPSYN.IICIGKYDK....S....KSK.GVDSLKDTEQMLFALSIADQ...PEYLKYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....EFNESLVVEKWERVHDHRQRHKGLFPTVPAGMMKSHGLTVDQAV-m............
A0A2D0WBE1_9CAUD/1-165              ...............mtk------------------LINVRGCNGSGKTXLLRCLGRGEGVTVVegsVPD.........H....KP.I.....PITYTPE-G.FAIIGDYTPaaagA....TTA.GLDRIKTQAAAKAIIEFAAS...NTAVR-A.VLFEGVVVSTIYGPW......QE-WS.....KANG...GMIWAFLDTPLEVCLKRIQERNGG..K....PIKEDQVAAKHKTIAR--VRE------------------------kaladg.......
K4I4U2_9CAUD/14-209                 ..................HTFIKPPVVKGIYPARGQLYYVKGSNGSGKSTVPSQLAERDPQAYV...VTH.........D....GK.I.....MLTVCPSFN.VVCIGKYDK....S....KSK.GVDSLKDTEQMLFALSIADL...PEYQVYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVQDHRQRHKGLFPTVAAGMMKSHGLTVDQAV-m............
I0J2S0_9CAUD/14-209                 ..................HTFTKPPVVKGIYPARGQLYYIKGSNGSGKSTVPSQLAERDHQAYV...VTH.........D....GK.I.....MLTVCPSFN.VVCVGKYDK....S....KSK.GVDSLKDTEQMLFALSIADL...PEFQVYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVHDHRERHKGLFPKVAAGMMKSHGLTVDQAV-m............
A0A6G6XUL2_9CAUD/14-209             ..................HTFIKPPVVKGIYPARGQLYYVKGSNGSGKSTVPSQLAERDPQAYV...VTH.........D....GK.I.....MLTVCPSFN.VVCIGKYDK....S....KSK.GVDSLKDTEQMLFALSIADL...PEYQVYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVQDHRQRHKGLFPTVAAGMMKSHGLTVDQAV-m............
A0A2K8I3V5_9CAUD/2-171              ...............kyi--------------------NVRGCNGSGKTTLLRCLA-RDPLCRV...INVi......vpD....HKpI.....PVTYAP-DG.IAIIGDYTP....AaagaTTA.GLDRIKTQAAAKAVAELVGR...DPDVK-A.VLFEGVVVSTIYGPW......QE-WS.....KANG...GMIWAFLDTPLEVCLKRIQERNGG..K....PIKEDQVADKHRTIAR--VRDK-----------------------aladgetvrdih.
HMUD1_BPSAV/14-209                  ..................HLFVKPPAVEGEYPARGELYYVKGSNGSGKSTVPSYLAENDPQAYV...VTY.........N....GK.I.....MLTVCPSYN.IICIGKYDK....S....KSK.GVDSLKDTEQMLFALSIADQ...PEYLKYD.VLFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCVSRVKSRNGG..A....DFNESLVVEKWERVHDHSQRHKGLFPTVPAGMMKSNGLTIEQAVF.............
C8XUG4_9CAUD/14-209                 ..................HTFIKPPVVKGIYPARGQLYYVKGSNGSGKSTVPSQLAERDPQAYV...VTH.........D....GK.I.....MLTVCPSFN.VVCIGKYDK....S....KSK.GVDSLKDTEQMLFALSIADL...PEYQVYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVQDHRQRHKGLFPTVAAGMMKSHGLTVDQAV-m............
A0A7S9SMU6_9CAUD/14-209             ..................HLFVKPPAVEGEYPARGELYYVKGSNGSGKSTVPSYLAENDPQAYV...VTY.........N....GK.I.....MLTVCPSYN.IICIGKYDK....S....KSK.GVDSLKDTEQMLFALSIADQ...PEYLKYD.VLFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCVSRVKSRNGG..A....DFNESLVVEKWERVHDHRQRHKGLFPTVPAGMMKSNGLTIEQAVF.............
HMUDK_BPS10/23-198                  ......fgykiqyrqdlv------------------LVNIRGCNGAGKSTVPMQMLQTDPGAFM...LTL.........D....GK.D.....KATVFPSYG.FVAMGRYF-....S....KTG.GLDGFKNNEETLKVLKLLWE...---LPFS.IIMEGVISSTIFSTYcdlfkeLEQRN.....NPKR...AVGVLNLLPPFEVCLERIKKRTPEkfD....SIKKDQIEGKWRTVNRNAQKFR-----------------------dagvt........
A0A1W6DYL9_9CAUD/11-218             fkkvelsftppgvmnmpi------------------FFEVRGTNGSGKSTVPFMLQAGDPEAFK...AVE.........KdpvlGD.L.....VLTCSPNSR.TIIVGSYPI....G....RAVgGCDTISGSEKIEGHLAFAKRlleTHSGKFDkVFFEGIMTSTSNSRYtk..flLQELK.....VPQE...QLVVGWCNTPLEVCIERIYGRT-G..K....EFNHSLVEGKHDQLSRQPQNHRDLFPDVNRVV-------------ydcmcsketmlen
A0A248H6W9_9CAUD/14-209             ..................HTFTKPPVVKGIYPARGQLYYIKGSNGSGKSTVPSQLAERDHQAYV...VTH.........D....GK.I.....MLTVCPSFN.VVCVGKYDK....S....KSK.GVDSLKDTEQMLFALSIADL...PEFQVYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVHDHRERHKGLFPKVAAGMMKSHGLTVDQAV-m............
A0A0A0YSQ1_9CAUD/11-206             ..................HGLMKPKPVQTRYPARGELFYVKACNGAGKSTIPSYCAERDPEAYT...VSQ.........D....GR.I.....LLTVMPSYG.MLAFGKYDK....S....KSK.GVDSLKDYDEMKKAVELSEL...EEFIGYT.AFFEGVIPSTILHTW......VEYLN.....RPAR...PLTTVFIDTDLETCLSRVNSRNGG..A....EFNADLVTEKFNRVMSHKTRHKELFPSVPAVTIRSQGITIDEMVS.............
A0A7S5UQA0_9CAUD/1-180              ..............miin---------------------IRGTNGSGKTTLARTFQ-DHPSARV...VNLvdypaptkrD...pAA.IkfvtgVVTDLPGVGsVCCVGSYSQ....A....Q-G.GLDTVPNFELQRMAIAHA--...-AAICDH.VICEGVLASTVAGSW......LEFFV.....RTQMaglKVAVCYLDTPLDVCLARIKERQER..AgkvrDIKEDLVADKVKAIDATRAK-------------------------fdaagist.....
A0A0N7CCV4_9CAUD/1-178              ..................------------------MYYIKGSNGSGKSTVPSYLAENDPQAYV...VTH.........N....SK.I.....MLTVCPSYN.IVCVGKYDK....S....KSK.GVDSLKDTEQMLFALSIADQ...PEYLKYD.VIFEGIIPSTLLSSW......IPRLT.....RPPR...ELVVLFMDTPLETCIARVKSRNGG..A....DFNESLVVEKWERVHDHRQRHKGLFPTVPAGMMKSDGLTVEQAVF.............
A0A7D3UYA3_9CAUD/23-199             ..........aeylkkng----------AKYPDGMKMVNIRGCNGAGKSTVPMEFLFNDPAVYL...LTY.........E....GK.D.....VATVFPTYG.WVAMGKY-R....T....KTG.GLDGYKNGEQTRNMLQLL--...-WCLPFN.IIMEGVIASTIYSTY......ADLFNeykshKIKR...EIGVMNLLPPFEVIKDRLEKRNGG..K....EIKWEQVESKYRTVKKNAQK-------------------------fleagli......
A0A5B9N1P7_9CAUD/14-209             ..................HLFHKPPAVVGEYPARGELYYVKGSNGSGKSTVPSWMAENDPQAYV...VTH.........N....GK.V.....MLTVCPSFN.IICVGKYDK....S....KSK.GVDSLKDTEQMLFAVSITEQ...PEYIGYD.VIFEGIIPATLLNTW......IERLN.....RPTR...RLVVLFLDTPKEVCLARVSSRNGG..E....DFKHELVLEKWKRVNSHRERHKELFPNIPAGMMKSNGLTVDQAVS.............
A9J510_BPPYU/2-170                  ...............kyi--------------------NVRGCNGSGKTTLLRCLA-RDPLCRV...INVi......vpD....HKpI.....PVTYAP-DG.IAIIGDYTP....AaagaTTA.GLDRIKTQAAAKAVAELVGR...DPDVK-A.VLFEGVVVSTIYGPW......QE-WS.....KANG...GMIWAFLDTPLEVCLKRIQERNGG..K....PIKEDQVADKHRTIAR--VRDK-----------------------aladgetvrdi..
A0A2D0W9H6_9CAUD/1-166              ................mt-----------------KLINVRGCNGSGKTTLLRCLGRGEGVTVVegsVPD.........H....KP.I.....PITYTPE-G.FAIIGDYTPaaagA....TTA.GLDRIKTQAAAKAIIEFAAS...NTAVR-A.VLFEGVVVSTIYGPW......QE-WS.....KANG...GMIWAFLDTPLEVCLKRIQERNGG..K....PIKEDQVAAKHKTIAR--VRE------------------------kaladge......
#=GC seq_cons                       ............................s.h.shhpLaYVKGoNGSGKSTVPShLAEpDPpAYV...Vop.........c....uK.I.....hLTVsPSas.llslGKYDK....S....KSK.GVDSLKDsEpMLhALulA-p...sEaltYD.VIFEGIIPSTlLuoW......I.+Lo.....RPsR...cLVVLFhDTPLEsCluRVcSRNGG..t....DFpEsLVsEKWcRVpcHRpRHKtLFPslsAGMh+SpGlTl-QhV.h............
//