Structure of PDB 6h1v Chain A

Receptor sequence

>6h1vA (length=1114) Species: 559292 (Saccharomyces cerevisiae S288C)

ALSAQQLLNASKIDDIDSMMGFERYVPPQYNGRFDAKDIDQIPGRVGWLT
NMHATLVSQENQGISGVDFYFLDEEGGSFKSTVVYDPYFFIACNDESRVN
DVEELVKKYLESCLKSLQIIRKEDLTMDNHLLGLQKTLIKLSFVNSNQLF
EARKLLRPILQDNANNNVQRNIYNVDAKHLIEDIREYDVPYHVRVSIDKD
IRVGKWYKVTQQGFIEDTRKIAFADPVVMAFAIATTKPPLKFPDSAVDQI
MMISYMIDGEGFLITNREIISEDIEDFEYTPKPEYPGFFTIFNENDEVAL
LQRFFEHIRDVRPTVISTFNGDFFDWPFIHNRSKIHGLDMFDEIGFAPDA
EGEYKSSYCSHMDCFRWVKRDSYLPQGSQGLKAVTQSKLGYNPIELDPEL
MTPYAFEKPQHLSEYSVSDAVATYYLYMKYVHPFIFSLCTIIPLNPDETL
RKGTGTLCEMLLMVQAYQHNILLPNKHTDPIERFYDGHLLESETYVGGHV
ESLEAGVFRSDLKNEFKIDPSAIDELLQELPEALKFSVEVENKSSVDKVT
NFEEIKNQITQKLLELKENNIRNELPLIYHVDVASMYPNIMTTNRLQPDS
IKAERDCKTCARKLKWAWRGEFFPSKMDEYNMIKRALQNETFPNKKVLTF
DELSYADQVIHIKKRLTEYSRKVYHRVKVSEIVEREAIVCQRENPFYVDT
VKSFRDRRYEFKGLAKTWKGNLSKIDPSDKHARDEAKKMIVLYDSLQLAH
KVILNSFYGYVMRKGSRWYSMEMAGITCLTGATIIQMARALVERVGRPLE
LDTDGIWCILPKSFPETYFFTLENGKKLYLSYPCSMLNYRVHQKFTNHQY
QELKDPLNYIYETHSENTIFFEVDGPYKAMILPSSKEEGKGIKKRYAVFN
EDGSLAELKGFELKRRGELQLIKNFQSDIFKVFLEGDTLEGCYSAVASVC
NRWLDVLDSHGLMLEDEDLVSLICENRSMSKTLKEYEGQKSTSITTARRL
GDFLGEDMVKDKGLQCKYIISSKPFNAPVTERAIPVAIFSADIPIKRSFL
RRWTLDPSLEDLDIRTIIDWGYYRERLGSAIQKIITIPAALQGVSNPVPR
VEHPDWLKRKIATK

3D structure

• PDB: 6h1v Structural evidence for an essential Fe-S cluster in the catalytic core domain of DNA polymerase ε.
• Chain: A
• Resolution: 2.7 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.
  3.1.11.-

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	dna	A	P433 Q434 D875 T876 K967 Y969 K982 G983 K987 R988 R989 S1053 Y1059	P375 Q376 D802 T803 K894 Y896 K909 G910 K914 R915 R916 S980 Y986
BS02	dna	A	K510 G511 T512 G513 T514 T552 Y553 V554 G555 R686 S829 G832 M835 R836 K837 K963 K966 K967 R968 R988 T1065 T1103 Y1145 R1149	K452 G453 T454 G455 T456 T494 Y495 V496 G497 R619 S756 G759 M762 R763 K764 K890 K893 K894 R895 R915 T992 T1030 Y1072 R1076
BS03	SF4	A	C665 C677 A678 C763	C607 C610 A611 C690
BS04	DTP	A	D640 V641 S643 M644 Y645 R781 K785 K824 N828 D877	D582 V583 S585 M586 Y587 R708 K712 K751 N755 D804
BS05	MG	A	D640 V641 D877	D582 V583 D804

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity

Biological Process

• GO:0006260 DNA replication
• GO:0006281 DNA repair

Cellular Component

• GO:0008622 epsilon DNA polymerase complex

External links

• PDB: RCSB:6h1v, PDBe:6h1v, PDBj:6h1v
• PDBsum: 6h1v
• PubMed: 30968138
• UniProt: P21951|DPOE_YEAST DNA polymerase epsilon catalytic subunit A (Gene Name=POL2)