Structure of PDB 3pv8 Chain D Binding Site BS02

Receptor Information

>3pv8 Chain D (length=579) Species: 1462 (Geobacillus kaustophilus)

KMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFFLR
PETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLLA
AYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAEHL
VRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVDT
KRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPVL
KKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVRP
ATKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESDW
LIFAADYSQIELRVLAHIAEDDNLMEAFRRDLDIHTKTAMDIFQVSEDEV
TPNMRRQAKAVNYGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVK
RYMENIVQEAKQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQ
GSAADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLCRL
VPEVMEQAVTLRVPLKVDYHYGSTWYDAK

Ligand information

>3pv8 Chain F (length=12)

ataagagtcagg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3pv8 Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis.
• Resolution: 1.52 Å
• Binding residue (original residue number in PDB): N527 N529 S530 Q533 K582 S585 T586 T611 Q612 T613 S617 S618 T619 E620 N622 G711 Y714 I716 S717 Y719 G720 R729 R771 F781 F786 R789 M790 N793 Q797
• Binding residue (residue number reindexed from 1): N230 N232 S233 Q236 K285 S288 T289 T314 Q315 T316 S320 S321 T322 E323 N325 G414 Y417 I419 S420 Y422 G423 R432 R474 F484 F489 R492 M493 N496 Q500

Enzymatic activity

• 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:0008408 3'-5' exonuclease activity

Biological Process

• GO:0006139 nucleobase-containing compound metabolic process
• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication

External links

• PDB: RCSB:3pv8, PDBe:3pv8, PDBj:3pv8
• PDBsum: 3pv8
• PubMed: 22006298
• UniProt: Q5KWC1