Structure of PDB 6wyb Chain A

Receptor sequence
>6wybA (length=739) Species: 69014 (Thermococcus kodakarensis KOD1) [Search protein sequence]
MILDTDYITEDGKPVIRIFKKENGEFKIEYDRTFEPYLYALLKDDSAIEE
VKKITAERHGTVVTVKRVEKVQKKFLGRPVEVWKLYFTHPQDVPAIMDKI
REHPAVIDIYEYDIPFAIRYLIDKGLVPMEGDEELKLLAFDIETLYEFAE
GPILMISYADEEGARVITWDLPYVDVVSTEREMIKRFLRVVKEKDPDVLI
TYDGDNFDFAYLKKRCEKLGINFALGRDGSEPKIQRMGDRFAVEVKGRIH
FDLYPVIRRTINLPTYTLEAVYEAVFGQPKEKVYAEEITTAWETGENLER
VARYSMEDAKVTYELGKEFLPMEAQLSRLIGQSLWDVSRSSTGNLVEWFL
LRKAYERNELAPNKPDEKELARRHQSHEGGYIKEPERGLWENIVYLDFRS
LYPSIIITHNVSPDTLNREGCKEYDVAPQVGHRFCKDFPGFIPSLLGDLL
EERQKIKKRMKATIDPIERKLLDYRQRAIKILANSLYGYYGYARARWYCK
ECAESVIAWGREYLTMTIKEIEEKYGFKVIYSDTDGFFATIPGADAETVK
KKAMEFLKYINAKLPGALELEYEGFYKRGLFVTKKKYAVIDEEGKITTRG
LEIVRRDWSEIAKETQARVLEALLKDGDVEKAVRIVKEVTEKLSKYEVPP
IHKQITRDLKDYKATGPHVAVAKRLAARGVKIRPGTVISYIVLKGSGRIV
DRAIPFDEKYDAEYYIEKQVLPAVERILRAFGYRKEDLR
3D structure
PDB6wyb How a B family DNA polymerase has been evolved to copy RNA.
ChainA
Resolution2.5 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 rna A H384 T590 K592 K593 R709 I710 H377 T583 K585 K586 R698 I699
BS02 dna A D540 K592 R606 G607 V611 R612 Y673 K674 H679 D533 K585 R599 G600 V604 R605 Y662 K663 H668
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0006260 DNA replication
GO:0071897 DNA biosynthetic process

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Molecular Function
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Biological Process
External links
PDB RCSB:6wyb, PDBe:6wyb, PDBj:6wyb
PDBsum6wyb
PubMed32817521
UniProtD0VWU9

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