Structure of PDB 8b76 Chain A

Receptor sequence

>8b76A (length=1118) Species: 4932 (Saccharomyces cerevisiae)

NNYALSAQQLLNASKIDDIDSMMGFERYVPPQYNGRFDAKDIDQIPGRVG
WLTNMHATLVSQNQGISGVDFYFLDEEGGSFKSTVVYDPYFFIACNDESR
VNDVEELVKKYLESCLKSLQIIRKEDLTMDNHLLGLQKTLIKLSFVNSNQ
LFEARKLLRPILQDNANNNVQRNIYNVVDAKHLIEDIREYDVPYHVRVSI
DKDIRVGKWYKVTQQGFIEDTRKIAFADPVVMAFDIETTKPPLKFPDSAV
DQIMMISYMIDGEGFLITNREIISEDIEDFEYTPKPEYPGFFTIFNENDE
VALLQRFFEHIRDVRPTVISTFNGDFFDWPFIHNRSKIHGLDMFDEIGFA
PDAEGEYKSSYCSHMDCFRWVKRDSYLPQGSQGLKAVTQSKLGYNPIELD
PELMTPYAFEKPQHLSEYSVSDAVATYYLYMKYVHPFIFSLCTIIPLNPD
ETLRKGTGTLCEMLLMVQAYQHNILLPNKHTDPIERFYDGHLLESETYVG
GHVESLEAGVFRSDLKNEFKIDPSAIDELLQELPEALKFSVEVENKSSVD
KVTNFEEIKNQITQKLLELKENNIRNELPLIYHVDVASGYPNIMTTNRLQ
PDSIKAERDCTCARKLKWAWRGEFFPSKMDEYNMIKRALQNETFPNKNKK
KVLTFDELSYADQVIHIKKRLTEYSRKVYHRVKVSEIVEREAIVCQRENP
FYVDTVKSFRDRRYEFKGLAKTWKGNLSKIDPSDKHARDEAKKMIVLYDS
LQLAHKVILNSFYGYVMRKGSRWYSMEMAGITCLTGATIIQMARALVERV
GRPLELDTDGIWCILPKSFPETYFFTLENGKKLYLSYPCSMLNYRVHQKF
TNHQYQELKDPLNYIYETHSENTIFFEVDGPYKAMILPSSKEEGKGIKKR
YAVFNEDGSLAELKGFELKRRGELQLIKNFQSDIFKVFLEGDTLEGCYSA
VASVCNRWLDVLDSHGLMLEDEDLVSLICENRSMSKTLKEYEGQKSTSIT
TARRLGDFLGEDMVKDKGLQCKYIISSKPFNAPVTERAIPVAIFSADIPI
KRSFLRRWTLDPSLEDLDIRTIIDWGYYRERLGSAIQKIITIPAALQGVS
NPVPRVEHPDWLKRKIAT

3D structure

• PDB: 8b76 A sensor complements the steric gate when DNA polymerase epsilon discriminates ribonucleotides.
• Chain: A
• 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	A	P433 Q434 D875 T876 K967 Y969 K982 G983 K987 R988 R989 S1051 M1052 S1053 Y1059 Q1062	P378 Q379 D807 T808 K899 Y901 K914 G915 K919 R920 R921 S983 M984 S985 Y991 Q994
BS02	dna	A	K510 G511 T512 G513 T514 T552 Y553 G555 G556 R686 S829 G832 M835 R836 K837 I965 K966 K967 R968 R988 K1063 T1103 Y1145 R1149 K1156	K455 G456 T457 G458 T459 T497 Y498 G500 G501 R621 S761 G764 M767 R768 K769 I897 K898 K899 R900 R920 K995 T1035 Y1077 R1081 K1088
BS03	CA	A	D290 E292 D477	D235 E237 D422
BS04	CA	A	D640 V641 D877	D585 V586 D809
BS05	TTP	A	D640 V641 A642 S643 G644 Y645 R781 K785 K824 N828 D877	D585 V586 A587 S588 G589 Y590 R713 K717 K756 N760 D809

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:8b76, PDBe:8b76, PDBj:8b76
• PDBsum: 8b76
• PubMed: 37819038
• UniProt: P21951|DPOE_YEAST DNA polymerase epsilon catalytic subunit A (Gene Name=POL2)