Structure of PDB 6fwk Chain B

Receptor sequence

>6fwkB (length=1099) Species: 559292 (Saccharomyces cerevisiae S288C)

YALSAQQLLNASKIDDIDSMMGFERYVPPQYNGRFDAKDIDQIPGRVGWL
TNMHATLVSQENQGISGVDFYFLDEEGGSFKSTVVYDPYFFIACNDESRV
NDVEELVKKYLESCLKSLQIIRKEDLTMDNHLLGLQKTLIKLSFVNSNQL
FEARKLLRPILQDNANNNVQRNIYNVVDAKHLIEDIREYDVPYHVRVSID
KDIRVGKWYKVTQQGFIEDTRKIAFADPVVMAFDIETTKPPLKFPDSAVD
QIMMISYMIDGEGFLITNREIISEDIEDFEYTPKPEYPGFFTIFNENDEV
ALLQRFFEHIRDVRPTVISTFNGDFFDWPFIHNRSKIHGLDMFDEIGFAP
DAEGEYKSSYCSHMDCFRWVKRDSYLPQGSQGLKAVTQSKLGYNPIELDP
ELMTPYAFEKPQHLSEYSVSDAVATYYLYMKYVHPFIFSLCTIIPLNPDE
TLRKGTGTLCEMLLMVQAYQHNILLPNKHTDPIERFYDGHLLESETYVGG
HVESLEAGVFRSDLKNEFKIDPSAIDELLQELPEALKFSVEVENKSSVDK
VTNFEEIKNQITQKLLELKENNIRNELPLIYHVDVASGYPNIMTTNRLQP
DSIKTCARKLKWAWRGEFFPSKMDEYNMIKRALQNETFPNLTFDELSYAD
QVIHIKKRLTEYSRKVSEIVEREAIVCQRENPFYVDTVKSFRDRRYEFKG
LAKTWKGNLSKIDPSDKHARDEAKKMIVLYDSLQLAHKVILNSFYGYVMR
KGSRWYSMEMAGITCLTGATIIQMARALVERVGRPLELDTDGIWCILPKS
FPETYFFTLENGKKLYLSYPCSMLNYRVHQKFTNHQYQELKDPLNYIYET
HSENTIFFEVDGPYKAMILPSSKEEGKGIKKRYAVFNEDGSLAELKGFEL
KRRGELQLIKNFQSDIFKVFLEGDTLEGCYSAVASVCNRWLDVLDSHGLM
LEDEDLVSLICENRSMSKTLKEYEGQKSTSITTARRLGDFLGEDMVKDKG
LQCKYIISSKPFNAPVTERAIPVAIFSADIPIKRSFLRRWTLDPSLEDLD
IRTIIDWGYYRERLGSAIQKIITIPAALQGVSNPVPRVEHPDWLKRKIA

3D structure

• PDB: 6fwk Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase epsilon.
• Chain: B
• Resolution: 2.503 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	S946 L949 M950
BS02	dna	B	D1028 D1031 R1173	D942 D945 R1087
BS03	dna	B	P433 Q434 D875 T876 K967 Y969 K982 G983 K987 R988 R989 S1053 Y1059 Q1062	P377 Q378 D789 T790 K881 Y883 K896 G897 K901 R902 R903 S967 Y973 Q976
BS04	dna	B	K510 G511 T512 G513 T514 T552 Y553 V554 G555 G556 V558 R686 S829 G832 M835 R836 K837 I965 K966 K967 R968 R988 K1063 V1102 T1103 Y1145 K1156	K454 G455 T456 G457 T458 T496 Y497 V498 G499 G500 V502 R615 S743 G746 M749 R750 K751 I879 K880 K881 R882 R902 K977 V1016 T1017 Y1059 K1070
BS05	DTP	B	V641 A642 S643 G644 Y645 R781 K824 N828 D877	V585 A586 S587 G588 Y589 R695 K738 N742 D791
BS06	CA	B	D640 V641 D877	D584 V585 D791
BS07	CA	B	D290 E292 D477	D234 E236 D421
BS08	CA	B	D290 D383	D234 D327
BS09	FE	B	C677 C763	C606 C677

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