Structure of PDB 6p5c Chain A Binding Site BS01

Receptor Information

>6p5c Chain A (length=581) Species: 1422 (Geobacillus stearothermophilus)

MAKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFF
LRPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLL
LAAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAE
HLVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKV
DTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLP
VLKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVV
RPDTKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSES
DWLIFAADYSQIELRVLAHIAEDDNLMEAFRRDLDIHTKTAMDIFQVSED
EVTPNMRRQAKAVNFGIVYGMSDYGLAQNLNISRKEAAEFIERYFESFPG
VKRYMENIVQEAKQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTP
IQGSAADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLC
RLVPEVMEQAVTLRVPLKVDYHYGSTWYDAK

Ligand information

>6p5c Chain B (length=9)

cgatcacgc

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6p5c The importance of Ile716 toward the mutagenicity of 8-Oxo-2'-deoxyguanosine with Bacillus fragment DNA polymerase.
• Resolution: 2.2 Å
• Binding residue (original residue number in PDB): K551 S555 T556 A558 R578 K582 Y587 R615 Q624 N625 I626 P627 I628 R629 V828 H829 D830
• Binding residue (residue number reindexed from 1): K256 S260 T261 A263 R283 K287 Y292 R320 Q329 N330 I331 P332 I333 R334 V533 H534 D535

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

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:0004518 nuclease activity
• GO:0008408 3'-5' exonuclease activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006139 nucleobase-containing compound metabolic process
• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication
• GO:0006281 DNA repair
• GO:0006302 double-strand break repair
• GO:0006974 DNA damage response
• GO:0071897 DNA biosynthetic process

External links

• PDB: RCSB:6p5c, PDBe:6p5c, PDBj:6p5c
• PDBsum: 6p5c
• PubMed: 32113909
• UniProt: D9N168