Structure of PDB 7kc0 Chain A Binding Site BS01

Receptor Information
>7kc0 Chain A (length=1004) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LSSFERKKLPTDFDPSLYDISFQQIDAEQSVLNGIKDENTSTVVRFFGVT
SEGHSVLCNVTGFKNYLYVPAPNSSDANDQEQINKFVHYLNETFDHAIDS
IEVVSKQSIWGYSGDTKLPFWKIYVTYPHMVNKLRTAFERGHLSFNSWFS
NGTTTYDNIAYTLRLMVDCGIVGMSWITLPKGKYSMIEPNNRVSSCQLEV
SINYRNLIAHPAEGDWSHTAPLRIMSFSISCAGRIGVFPEPEYDPVIQIA
NVVSIAGAKKPFIRNVFTLNTCSPITGSMIFSHATEEEMLSNWRNFIIKV
DPDVIIGYNTTNFDIPYLLNRAKALKVNDFPYFGRLKTVKQEIKESVFSS
KAYGTRETKNVNIDGRLQLDLLQFIQREYKLRSYTLNAVSAHFLGEQKED
VHYSIISDLQNGDSETRRRLAVYCLKDAYLPLRLMEKLMALVNYTEMARV
TGVPFSYLLARGQQIKVVSQLFRKCLEIDTVIPNMQSQASDDQYEGATVI
EPIRGYYDVPIATLDFNSLYPSIMMAHNLCYTTLCNKATVERLNLKIDED
YVITPNGDYFVTTKRRRGILPIILDELISARKRAKKDLRDEKDPFKRDVL
NGRQLALKISANSVYGFTGATVGKLPCLAISSSVTAYGRTMILKTKTAVQ
EKYCIKNGYKHDAVVVYGDTDSVMVKFGTTDLKEAMDLGTEAAKYVSTLF
KHPINLEFEKAYFPYLLINKKRYAGLFWTNPDKFDKLDQKGLASVRRDSC
SLVSIVMNKVLKKILIERNVDGALAFVRETINDILHNRVDISKLIISKTL
APNYTNPQPHAVLAERMKRREGVGPNVGDRVDYVIIGGNDKLYNRAEDPL
FVLENNIQVDSRYYLTNQLQNPIISIVAPIIGDKQANGMFVVKSIKINTG
SQKGGLMSFIKKVEACKSCKGPLRKGEGPLCSNCLARSGELYIKALYDVR
DLEEKYSRLWTQCQRCAGNLHSEVLCSNKNCDIFYMRVKVKKELQEKVEQ
LSKW
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7kc0 Structure of eukaryotic DNA polymerase delta bound to the PCNA clamp while encircling DNA.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		D762 D764 K833 G834 V838 R839 R840 D841 T892 Y897 T898 N899 Q901 H903 R923
Binding residue
(residue number reindexed from 1)		D669 D671 K740 G741 V745 R746 R747 D748 T799 Y804 T805 N806 Q808 H810 R830
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.11.-
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0004527 exonuclease activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0008296 3'-5'-DNA exonuclease activity
GO:0046872 metal ion binding
GO:0051539 4 iron, 4 sulfur cluster binding
GO:0060090 molecular adaptor activity
Biological Process
GO:0006259 DNA metabolic process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0006278 RNA-templated DNA biosynthetic process
GO:0006287 base-excision repair, gap-filling
GO:0006297 nucleotide-excision repair, DNA gap filling
GO:0006303 double-strand break repair via nonhomologous end joining
GO:0043137 DNA replication, removal of RNA primer
GO:0045004 DNA replication proofreading
GO:0045005 DNA-templated DNA replication maintenance of fidelity
GO:0071897 DNA biosynthetic process
Cellular Component
GO:0005634 nucleus
GO:0005657 replication fork
GO:0005829 cytosol
GO:0043231 intracellular membrane-bounded organelle
GO:0043625 delta DNA polymerase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7kc0, PDBe:7kc0, PDBj:7kc0
PDBsum7kc0
PubMed33203675
UniProtP15436|DPOD_YEAST DNA polymerase delta catalytic subunit (Gene Name=POL3)

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