Structure of PDB 4ds5 Chain D Binding Site BS02

Receptor Information

>4ds5 Chain D (length=561) Species: 235909 (Geobacillus kaustophilus HTA426)

LAKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFF
LRPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLL
LAAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAE
HLVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKV
DTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLP
VLKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVV
RPATKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSES
DWLIFAADYSQIELRVLAHIAEDDNLMEAFRRDLDIHTKTKAVNFGIVYG
ISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEAKQKGYVTT
LLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLNARL
KEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPLKVD
YHYGSTWYDAK

Ligand information

>4ds5 Chain F (length=9)

ggagtcagg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4ds5 Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides.
• Resolution: 1.68 Å
• Binding residue (original residue number in PDB): N527 N529 S530 Q533 K582 S585 T586 T611 Q612 T613 R615 S617 S618 T619 E620 N622 R771 R789 N793 Q797
• Binding residue (residue number reindexed from 1): N232 N234 S235 Q238 K287 S290 T291 T316 Q317 T318 R320 S322 S323 T324 E325 N327 R456 R474 N478 Q482

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:4ds5, PDBe:4ds5, PDBj:4ds5
• PDBsum: 4ds5
• PubMed: 22648417
• UniProt: Q5KWC1