Structure of PDB 4dse Chain A

Receptor sequence

>4dseA (length=546) Species: 235909 (Geobacillus kaustophilus HTA426)

AKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFFL
RPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLL
AAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAEH
LVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVD
TKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPV
LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR
PATKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESD
WLIFAADYSQIELRVLAHIAEDDNLMEAFRRNYGGISDYGLAQNLNISRK
EAAEFIERYFESFPGVKRYMENIVQEAKQKGYVTTLLHRRRYLPDITSRN
FNVRSFAERMAMNTPIQGSAADIIKKAMIDLNARLKEERLQAHLLLQVHD
ELILEAPKEEMERLCRLVPEVMEQAVTLRVPLKVDYHYGSTWYDAK

3D structure

• PDB: 4dse Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides.
• Chain: A
• Resolution: 1.67 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	T550 K551 T552 T556 A558 R578 Y587 R615 N625 I626 P627 I628 R629 V828 H829 D830	T254 K255 T256 T260 A262 R282 Y291 R319 N329 I330 P331 I332 R333 V498 H499 D500
BS02	dna	A	N527 N529 S530 K582 S585 T586 T611 Q612 T613 R615 S617 S618 T619 E620 N622 R771 R789 M790 N793 Q797	N231 N233 S234 K286 S289 T290 T315 Q316 T317 R319 S321 S322 T323 E324 N326 R441 R459 M460 N463 Q467

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