Structure of PDB 4dqp Chain A Binding Site BS02

Receptor Information

>4dqp Chain A (length=576) Species: 235909 (Geobacillus kaustophilus HTA426)

AKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFFL
RPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLL
AAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAEH
LVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVD
TKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPV
LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR
PATKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESD
WLIFAADYSQIELRVLAHIAEDDNLMEAFDIHTKTAMDIFQVSEDEVTPN
MRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYM
ENIVQEAKQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSA
ADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPE
VMEQAVTLRVPLKVDYHYGSTWYDAK

Ligand information

>4dqp Chain C (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 T611 Q612 T613 R615 S617 S618 T619 E620 N622 G711 Y714 I716 S717 Y719 G720 R771 F781 N782 F786 R789 N793 Q797
• Binding residue (residue number reindexed from 1): N231 N233 S234 K286 S289 T290 T315 Q316 T317 R319 S321 S322 T323 E324 N326 G411 Y414 I416 S417 Y419 G420 R471 F481 N482 F486 R489 N493 Q497

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