Structure of PDB 5m1s Chain D Binding Site BS01

Receptor Information

>5m1s Chain D (length=229) Species: 83333 (Escherichia coli K-12)

RQIVLDTETTGMNQIGAHYEGHKIIEIGAVEVVNRRLTGNNFHVYLKPDR
LVDPEAFGVHGIADEFLLDKPTFAEVADEFMDYIRGAELVIHNAAFDIGF
MDYEFSLLKRDIPKTNTFCKVTDSLAVARKMFPGKRNSLDALCARYEIDN
SKRTLHGALLDAQILAEVYLAMTGGQLSLPLAMEGETIQRIVRQASKLRV
VFATDEEIAAHEARLDLVQKKGGSCLWRA

Ligand information

>5m1s Chain P (length=17)

tagtactaggacgaagt

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5m1s Self-correcting mismatches during high-fidelity DNA replication.
• Resolution: 6.7 Å
• Binding residue (original residue number in PDB): D12 E14 M18 E61 V65 H66 S144 L145 G163
• Binding residue (residue number reindexed from 1): D6 E8 M12 E55 V59 H60 S138 L139 G157

Enzymatic activity

• Catalytic site (original residue number in PDB): D12 E14 E61 H162 D167
• Catalytic site (residue number reindexed from 1): D6 E8 E55 H156 D161
• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

Gene Ontology

Molecular Function

• 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:0008408 3'-5' exonuclease activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006259 DNA metabolic process
• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication
• GO:0006272 leading strand elongation
• GO:0006273 lagging strand elongation
• GO:0045004 DNA replication proofreading
• GO:0071897 DNA biosynthetic process

Cellular Component

• GO:0005829 cytosol
• GO:0009360 DNA polymerase III complex
• GO:0030894 replisome
• GO:0044776 DNA polymerase III, core complex

External links

• PDB: RCSB:5m1s, PDBe:5m1s, PDBj:5m1s
• PDBsum: 5m1s
• PubMed: 28067916
• UniProt: P03007|DPO3E_ECOLI DNA polymerase III subunit epsilon (Gene Name=dnaQ)