2025-09-20_00000062|ligand|9EMF

KOD-H4 DNA polymerase mutant in a binary complex with DNA:DNA containing one HNA nucleotide; X-ray diffraction 3.00Å
Protein #1 774 residues (98% resolved)

MILDTDYITEDGKPVIRIFKKENGEFKIEYDRTFEPYFYALLKDDSAIEEVKKITAERHGTVVTVKRVEKVQKKFLGRPVEVWKLYFTHPQDQPAIRDKIREHPAVIDIYEYDTPFAKRYLIDKGLVPMEGDEELKMLAFAIATLYHEGEEFAEGPILMISYADEEGARVITWKNVDLPYVDVVSTEREMIKRFLRVVKEKDPDVLITYNGDNFDFAYLKKRCEKLGINFALGRDGSEPKIQRMGDRFAVEVKGRIHFDLYPVIRRTINLPTYTLEAVYEAVFGQPKEKVYAEEITTAWETGENLERVARYSMEDAKVTYELGKEFLPMEAQLSRLIGQSLWDVSRSSTGNLVEWFLLRKAYERNELAPNKPDEKELARRRQKYEGGYVKEPERGLWENIVYLDFRSLYPSIIITHNVSPDTLNREGCGEYDVAPQVGHRFCKDLPGFIPSLLGDLLEERQKIKKKMKATIDPIERKLLDYRQRLIKILANSVYGHMGFENARWYCKECAESVTAWGREYLTMTIKEIEEKYGFKVIYSDTDGFFATIPGADAETVKKKAMEFLKYINAKLPGALELEYEGFYKRGFFVTKKKYAVIDEEGKITTRGLEIVRRDWSEIAKETQARVLEALLKDGDVEKAVRIVKEVTEKLSKYEVPPEKLVIHKQITRDLKDYKATGPHVAVAKRLAARGVKIRPGTVISYIVLKGSGRIGDRAIPFDEFDPTKHRYDAEYYIEKQVLPAVERILRAFGYRKEDLRYQKTRQVGLSAWLKPKGT

MILDTDYITEDGKPVIRIFKKENGEFKIEYDRTFEPYFYALLKDDSAIEEVKKITAERHGTVVTVKRVEKVQKKFLGRPVEVWKLYFTHPQDQPAIRDKIREHPAVIDIYEYDTPFAKRYLIDKGLVPMEGDEELKMLAFAIATLYHEGEEFAEGPILMISYADEEGARVITWKNVDLPYVDVVSTEREMIKRFLRVVKEKDPDVLITYNGDNFDFAYLKKRCEKLGINFALGRDGSEPKIQRMGDRFAVEVKGRIHFDLYPVIRRTINLPTYTLEAVYEAVFGQPKEKVYAEEITTAWETGENLERVARYSMEDAKVTYELGKEFLPMEAQLSRLIGQSLWDVSRSSTGNLVEWFLLRKAYERNELAPNKPDEKELARRRQKYEGGYVKEPERGLWENIVYLDFRSLYPSIIITHNVSPDTLNREGCGEYDVAPQVGHRFCKDLPGFIPSLLGDLLEERQKIKKKMKATIDPIERKLLDYRQRLIKILANSVYGHMGFENARWYCKECAESVTAWGREYLTMTIKEIEEKYGFKVIYSDTDGFFATIPGADAETVKKKAMEFLKYINAKLPGALELEYEGFYKRGFFVTKKKYAVIDEEGKITTRGLEIVRRDWSEIAKETQARVLEALLKDGDVEKAVRIVKEVTEKLSKYEVPPEKLVIHKQITRDLKDYKATGPHVAVAKRLAARGVKIRPGTVISYIVLKGSGRIGDRAIPFDEFDPTKHRYDAEYYIEKQVLPAVERILRAFGYRKEDLRYQKTRQVGLSAWLKPKGT
DNA #2 13 bases

(DG)(DA)(DC)(DC)(DA)(DC)(DG)(DG)(DC)(DC)(DA)(DC)(DA)

GACCACGGCCACA
DNA #3 16 bases

(DA)(DA)(DC)(6HT)(DG)(DT)(DG)(DG)(DC)(DC)(DG)(DT)(DG)(DG)(DT)(DC)

AACTGTGGCCGTGGTC
Non polymer #4 6BX

InChI=1S/C7H15NO5S/c9-7(6-14(10,11)12)5-8-1-3-13-4-2-8/h7,9H,1-6H2,(H,10,11,12)/t7-/m0/s1

C1COCCN1C[C@@H](CS(=O)(=O)O)O
Non polymer #5 MG

InChI=1S/Mg/q+2

[Mg+2]
Non polymer #6 NA

InChI=1S/Na/q+1

[Na+]
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Reference