Structure of PDB 4dqp Chain D Binding Site BS02

Receptor Information

>4dqp Chain D (length=579) Species: 235909 (Geobacillus kaustophilus HTA426)

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

Ligand information

>4dqp Chain F (length=12)

atgggagtcagg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4dqp Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides.
• Resolution: 1.74 Å
• Binding residue (original residue number in PDB): N527 N529 S530 K582 S585 T586 L610 T611 Q612 T613 S617 S618 T619 E620 N622 F710 G711 Y714 I716 S717 Y719 R771 F786 R789 M790 N793 Q797
• Binding residue (residue number reindexed from 1): N230 N232 S233 K285 S288 T289 L313 T314 Q315 T316 S320 S321 T322 E323 N325 F413 G414 Y417 I419 S420 Y422 R474 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:4dqp, PDBe:4dqp, PDBj:4dqp
• PDBsum: 4dqp
• PubMed: 22648417
• UniProt: Q5KWC1