Structure of PDB 8b77 Chain A

Receptor sequence

>8b77A (length=1110) Species: 4932 (Saccharomyces cerevisiae)

ALSAQQLLNASKIDDIDSMMGFERYVPPQYNGRFDAKDIDQIPGRVGWLT
NMHATLVSQEQGISGVDFYFLDEEGGSFKSTVVYDPYFFIACNDESRVND
VEELVKKYLESCLKSLQIIRKEDLTMDNHLLGLQKTLIKLSFVNSNQLFE
ARKLLRPILQDNANNNVQRNIYNVKVDAKHLIEDIREYDVPYHVRVSIDK
DIRVGKWYKVTQQGFIEDTRKIAFADPVVMAFAIATTKPPLKFPDSAVDQ
IMMISYMIDGEGFLITNREIISEDIEDFEYTPKPEYPGFFTIFNENDEVA
LLQRFFEHIRDVRPTVISTFNGDFFDWPFIHNRSKIHGLDMFDEIGFAPD
AEGEYKSSYCSHMDCFRWVKRDSYLPQGSQGLKAVTQSKLGYNPIELDPE
LMTPYAFEKPQHLSEYSVSDAVATYYLYMKYVHPFIFSLCTIIPLNPDET
LRKGTGTLCEMLLMVQAYQHNILLPNKHTDPIERFYDGHLLESETYVGGH
VESLEAGVFRSDLKNEFKIDPSAIDELLQELPEALKFSVEVENKSSVDKV
TNFEEIKNQITQKLLELKENNIRNELPLIYHVDVASMYPNIMTTNRLQPD
SIKAERDCASCDFKTCARKLKWAWRGEFFPSKMDEYNMIKRALQNETFPL
SYADQVIHIKKRLTEYSRKVYHRVKVSEIVEREAIVCQRENPFYVDTVKS
FRDRRYEFKGLAKTWKGNLSKIDPSDKHARDEAKKMIVLYDSLQLAHKVI
LVSFYGYVMRKGSRWYSMEMAGITCLTGATIIQMARALVERVGRPLELDT
DGIWCILPKSFPETYFFTLENGKKLYLSYPCSMLNYRVHQKFTNHQYQEL
KDPLNYIYETHSENTIFFEVDGPYKAMILPSSKEEGKGIKKRYAVFNEDG
SLAELKGFELKRRGELQLIKNFQSDIFKVFLEGDTLEGCYSAVASVCNRW
LDVLDSHGLMLEDEDLVSLICENRSMSKTLKEYEGQKSTSITTARRLGDF
LGEDMVKDKGLQCKYIISSKPFNAPVTERAIPVAIFSADIPIKRSFLRRW
TLDPSLEDLDIRTIIDWGYYRERLGSAIQKIITIPAALQGVSNPVPRVEH
PDWLKRKIAT

3D structure

• PDB: 8b77 A sensor complements the steric gate when DNA polymerase epsilon discriminates ribonucleotides.
• 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 Q1062	P376 Q377 D799 T800 K891 Y893 K906 G907 K911 R912 R913 S977 Y983 Q986
BS02	dna	A	K510 G511 T512 G513 T514 T552 Y553 G555 V558 R686 V825 S829 G832 M835 R836 K837 I965 K966 K967 R968 R988 T1103 Y1145 R1149 K1156	K453 G454 T455 G456 T457 T495 Y496 G498 V501 R625 V749 S753 G756 M759 R760 K761 I889 K890 K891 R892 R912 T1027 Y1069 R1073 K1080
BS03	DTP	A	D640 V641 A642 S643 M644 Y645 R781 K824 V828 D877	D583 V584 A585 S586 M587 Y588 R705 K748 V752 D801
BS04	CA	A	D640 V641 D877	D583 V584 D801

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:8b77, PDBe:8b77, PDBj:8b77
• PDBsum: 8b77
• PubMed: 37819038
• UniProt: P21951|DPOE_YEAST DNA polymerase epsilon catalytic subunit A (Gene Name=POL2)