Structure of PDB 2pzs Chain A

Receptor sequence

>2pzsA (length=571) Species: 10756 (Salasvirus phi29)

PRKMYSCAFETTTKVEDCRVWAYGYMNIEDHSEYKIGNSLDEFMAWVLKV
QADLYFHNLKFAGAFIINWLERNGFKWSADGLPNTYNTIISRMGQWYMID
ICLGYKGKRKIHTVIYDSLKKLPFPVKKIAKDFKLTVLKGDIDYHKERPV
GYKITPEEYAYIKNDIQIIAEALLIQFKQGLDRMTAGSDSLKGFKDIITT
KKFKKVFPTLSLGLDKEVRYAYRGGFTWLNDRFKEKEIGEGMVFDVNSLY
PAQMYSRLLPYGEPIVFEGKYVWDEDYPLHIQHIRCEFELKEGYIPTIQI
KRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDLYNVEYISGLKFK
ATTGLFKDFIDKWTYIKTTSEGAIKQLAKLMLNSLYGKFASNPDVTGKVP
YLKENGALGFRLGEEETKDPVYTPMGVFITAWARYTTITAAQACYDRIIY
CDTDSIHLTGTEIPDVIKDIVDPKKLGYWAHESTFKRAKYLRQKTYIQDI
YMKEVDGKLVEGSPDDYTDIKFSVKCAGMTDKIKKEVTFENFKVGFSRKM
KPKPVQVPGGVVLVDDTFTIK

3D structure

• PDB: 2pzs Structures of phi29 DNA polymerase complexed with substrate: the mechanism of translocation in B-family polymerases
• Chain: A
• Resolution: 2.6 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.
  3.1.11.-

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	K64 R306 S307 D456 T457 D458 K498 Y500 K529 G532 M533 K538 P558	K60 R302 S303 D452 T453 D454 K494 Y496 K525 G528 M529 K534 P554
BS02	dna	A	I93 Y101 M188 T189 S192 Y226 R227 G228 Q303 K305 N313 G391 K392 S395 N396 K422 R496 Q497 K498 T571 F572 T573 K575	I89 Y97 M184 T185 S188 Y222 R223 G224 Q299 K301 N309 G387 K388 S391 N392 K418 R492 Q493 K494 T567 F568 T569 K571

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0001882 nucleoside binding
• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0004527 exonuclease activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006260 DNA replication
• GO:0039693 viral DNA genome replication

External links

• PDB: RCSB:2pzs, PDBe:2pzs, PDBj:2pzs
• PDBsum: 2pzs
• PubMed: 17611604
• UniProt: P03680|DPOL_BPPH2 DNA polymerase (Gene Name=2)