Structure of PDB 7r3y Chain B

Receptor sequence

>7r3yB (length=1102) Species: 4932 (Saccharomyces cerevisiae)

ALSAQQLLNASKIDDIDSMMGFERYVPPQYNGRFDAKDIDQIPGRVGWLT
NMHATLVSQEQGISGVDFYFLDEEGGSFKSTVVYDPYFFIACNDESRVND
VEELVKKYLESCLKSLQIIRKEDLTMDNHLLGLQKTLIKLSFVNSNQLFE
ARKLLRPILQDNANNNVQRNIYNVDAKHLIEDIREYDVPYHVRVSIDKDI
RVGKWYKVTQQGFIEDTRKIAFADPVVMAFDIETTKPPLKFPDSAVDQIM
MISYMIDGEGFLITNREIISEDIEDFEYTPKPEYPGFFTIFNENDEVALL
QRFFEHIRDVRPTVISTFNGDFFDWPFIHNRSKIHGLDMFDEIGFAPDAE
GEYKSSYCSHMDCFRWLKRDSYLPQGSQGLKAVTQSKLGYNPIELDPELM
TPYAFEKPQHLSEYSVSDAVATYYLYMKYVHPFIFSLCTIIPLNPDETLR
KGTGTLCEMLLMVQAYQHNILLPNKHTDPIERFYDGHLLESETYVGGHVE
SLEAGVFRSDLKNEFKIDPSAIDELLQELPEALKFSVEVENKSSVDKVTN
FEEIKNQITQKLLELKENNIRNELPLIYHVDVASMYPNIMTTNRLQPDSI
TCARKLKWAWRGEFFPSKMDEYNMIKRALQNETFPNLTFDELSYADQVIH
IKKRLTEYSRKVYHRVKVSEIVEREAIVCQRENPFYVDTVKSFRDRRYEF
KGLAKTWKGNLSKIDPSDKHARDEAKKMIVLYDSLQLAHKVILNSFYGYV
MRKGSRWYSMEMAGITCLTGATIIQMARALVERVGRPLELDTDGIWCILP
KSFPETYFFTLENGKKLYLSYPCSMLNYRVHQKFTNHQYQELKDPLNYIY
ETHSENTIFFEVDGPYKAMILPSSKEEGKGIKKRYAVFNEDGSLAELKGF
ELKRRGELQLIKNFQSDIFKVFLEGDTLEGCYSAVASVCNRWLDVLDSHG
LMLEDEDLVSLICENRSMSKTLKEYEGQKSTSITTARRLGDFLGEDMVKD
KGLQCKYIISSKPFNAPVTERAIPVAIFSADIPIKRSFLRRWTLDPSLED
LDIRTIIDWGYYRERLGSAIQKIITIPAALQGVSNPVPRVEHPDWLKRKI
AT

3D structure

• PDB: 7r3y Enhanced polymerase activity permits efficient synthesis by cancer-associated DNA polymerase ε variants at low dNTP levels.
• Chain: B
• Resolution: 2.6 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	S948 L951 M952
BS02	dna	B	D1028 D1031	D944 D947
BS03	dna	B	P433 Q434 G435 K751 D875 T876 K967 Y969 K982 G983 R988 R989 S1053 Y1059 Q1062	P374 Q375 G376 K667 D791 T792 K883 Y885 K898 G899 R904 R905 S969 Y975 Q978
BS04	dna	B	K510 G511 T512 G513 T514 T552 Y553 G555 G556 R686 S829 G832 M835 R836 K837 I965 K966 K967 R988 T1103 Y1145 R1149	K451 G452 T453 G454 T455 T493 Y494 G496 G497 R611 S745 G748 M751 R752 K753 I881 K882 K883 R904 T1019 Y1061 R1065
BS05	DTP	B	D640 V641 A642 S643 M644 Y645 R781 K824 N828 D877	D581 V582 A583 S584 M585 Y586 R697 K740 N744 D793
BS06	CA	B	D640 V641 D877	D581 V582 D793
BS07	CA	B	D290 E292 D477	D231 E233 D418

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:7r3y, PDBe:7r3y, PDBj:7r3y
• PDBsum: 7r3y
• PubMed: 35822874
• UniProt: P21951|DPOE_YEAST DNA polymerase epsilon catalytic subunit A (Gene Name=POL2)