Structure of PDB 4dqq Chain A Binding Site BS02

Receptor Information

>4dqq Chain A (length=580) Species: 235909 (Geobacillus kaustophilus HTA426)

AKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFFL
RPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLL
AAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAEH
LVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVD
TKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPV
LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR
PATKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESD
WLIFAADYSQIALRVLAHIAEDDNLMEAFRRDLDIHTKTAMDIFQVSEDE
VTPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGV
KRYMENIVQEAKQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPI
QGSAADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLCR
LVPEVMEQAVTLRVPLKVDYHYGSTWYDAK

Ligand information

>4dqq Chain C (length=11)

tgggagtcagg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4dqq Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides.
• Resolution: 1.595 Å
• Binding residue (original residue number in PDB): N527 N529 S530 K582 S585 T586 T611 Q612 T613 R615 S617 S618 T619 E620 N622 Y714 I716 S717 Y719 G720 R771 F786 R789 M790 N793 Q797
• Binding residue (residue number reindexed from 1): N231 N233 S234 K286 S289 T290 T315 Q316 T317 R319 S321 S322 T323 E324 N326 Y418 I420 S421 Y423 G424 R475 F490 R493 M494 N497 Q501

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:4dqq, PDBe:4dqq, PDBj:4dqq
• PDBsum: 4dqq
• PubMed: 22648417
• UniProt: Q5KWC1