Structure of PDB 6i8a Chain B

Receptor sequence

>6i8aB (length=1094) Species: 559292 (Saccharomyces cerevisiae S288C)

NYALSAQQLLNASKIDDIDSMMGFERYVPPQYNGRFDAKDIDQIPGRVGW
LTNMHATLVSQQGISGVDFYFLDEEGGSFKSTVVYDPYFFIACNDESRVN
DVEELVKKYLESCLKSLQIIRKEDLTMDNHLLGLQKTLIKLSFVNSNQLF
EARKLLRPILQDNANNNVQRNIYNVDAKHLIEDIREYDVPYHVRVSIDKD
IRVGKWYKVTQQGFIEDTRKIAFADPVVMAFDIETTKPPLKFRDSAVDQI
MMISYMIDGEGFLITNREIISEDIEDFEYTPKPEYPGFFTIFNENDEVAL
LQRFFEHIRDVRPTVISTFNGDFFDWPFIHNRSKIHGLDMFDEIGFAPDA
EGEYKSSYCSHMDCFRWVKRDSYLPQGSQGLKAVTQSKLGYNPIELDPEL
MTPYAFEKPQHLSEYSVSDAVATYYLYMKYVHPFIFSLCTIIPLNPDETL
RKGTGTLCEMLLMVQAYQHNILLPNKHTDPIERFYDGHLLESETYVGGHV
ESLEAGVFRSDLKNEFKIDPSAIDELLQELPEALKFSVEVENKSSVDKVT
NFEEIKNQITQKLLELKENNIRNELPLIYHVDVASMYPNIMTTNRLQPDS
IKTCARKLKWAWRGEFFPSKMDEYNMIKRALQNETFPNKTFDELSYADQV
IHIKKRLTEYVSEIVEREAIVCQRENPFYVDTVKSFRDRRYEFKGLAKTW
KGNLSKIDPSDKHARDEAKKMIVLYDSLQLAHKVILNSFYGYVMRKGSRW
YSMEMAGITCLTGATIIQMARALVERVGRPLELDTDGIWCILPKSFPETY
FFTLENGKKLYLSYPCSMLNYRVHQKFTNHQYQELKDPLNYIYETHSENT
IFFEVDGPYKAMILPSSKEEGKGIKKRYAVFNEDGSLAELKGFELKRRGE
LQLIKNFQSDIFKVFLEGDTLEGCYSAVASVCNRWLDVLDSHGLMLEDED
LVSLICENRSMSKTLKEYEGQKSTSITTARRLGDFLGEDMVKDKGLQCKY
IISSKPFNAPVTERAIPVAIFSADIPIKRSFLRRWTLDPSLEDLDIRTII
DWGYYRERLGSAIQKIITIPAALQGVSNPVPRVEHPDWLKRKIA

3D structure

• PDB: 6i8a Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase epsilon.
• Chain: B
• Resolution: 2.652 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	B	S1032 L1035 M1036	S941 L944 M945
BS02	dna	B	D1028 D1031 S1032 R1173	D937 D940 S941 R1082
BS03	dna	B	P433 Q434 G435 D875 T876 K967 Y969 K982 G983 K987 R988 R989 S1053 Y1059 Q1062	P375 Q376 G377 D784 T785 K876 Y878 K891 G892 K896 R897 R898 S962 Y968 Q971
BS04	dna	B	K510 T512 G513 T514 T552 Y553 G555 G556 V558 R686 V825 S829 G832 R836 K837 I965 K966 K967 T1103 Y1145 R1149 K1156	K452 T454 G455 T456 T494 Y495 G497 G498 V500 R613 V734 S738 G741 R745 K746 I874 K875 K876 T1012 Y1054 R1058 K1065
BS05	DTP	B	D640 S643 Y645 R781 K824 N828 D877	D582 S585 Y587 R690 K733 N737 D786
BS06	CA	B	D640 V641 D877	D582 V583 D786
BS07	CA	B	D290 E292 D477	D232 E234 D419
BS08	FE	B	C677 C763	C604 C672

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:6i8a, PDBe:6i8a, PDBj:6i8a
• PDBsum: 6i8a
• PubMed: 30670696
• UniProt: P21951|DPOE_YEAST DNA polymerase epsilon catalytic subunit A (Gene Name=POL2)