Structure of PDB 2pyl Chain A Binding Site BS02

Receptor Information
>2pyl Chain A (length=571) Species: 10756 (Salasvirus phi29) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PRKMYSCAFETTTKVEDCRVWAYGYMNIEDHSEYKIGNSLDEFMAWVLKV
QADLYFHNLKFAGAFIINWLERNGFKWSADGLPNTYNTIISRMGQWYMID
ICLGYKGKRKIHTVIYDSLKKLPFPVKKIAKDFKLTVLKGDIDYHKERPV
GYKITPEEYAYIKNDIQIIAEALLIQFKQGLDRMTAGSDSLKGFKDIITT
KKFKKVFPTLSLGLDKEVRYAYRGGFTWLNDRFKEKEIGEGMVFDVNSLY
PAQMYSRLLPYGEPIVFEGKYVWDEDYPLHIQHIRCEFELKEGYIPTIQI
KRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDLYNVEYISGLKFK
ATTGLFKDFIDKWTYIKTTSEGAIKQLAKLMLNSLYGKFASNPDVTGKVP
YLKENGALGFRLGEEETKDPVYTPMGVFITAWARYTTITAAQACYDRIIY
CDTDSIHLTGTEIPDVIKDIVDPKKLGYWAHESTFKRAKYLRQKTYIQDI
YMKEVDGKLVEGSPDDYTDIKFSVKCAGMTDKIKKEVTFENFKVGFSRKM
KPKPVQVPGGVVLVDDTFTIK
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB2pyl Structures of phi29 DNA polymerase complexed with substrate: the mechanism of translocation in B-family polymerases
Resolution2.2 Å
Binding residue
(original residue number in PDB)		I93 Y101 T189 S192 Y226 R227 G228 Q303 K305 N313 N387 S388 G391 K392 A394 N396 V399 R496 Q497 K498 F572 T573 I574 K575
Binding residue
(residue number reindexed from 1)		I89 Y97 T185 S188 Y222 R223 G224 Q299 K301 N309 N383 S384 G387 K388 A390 N392 V395 R492 Q493 K494 F568 T569 I570 K571
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.11.-
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

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:2pyl, PDBe:2pyl, PDBj:2pyl
PDBsum2pyl
PubMed17611604
UniProtP03680|DPOL_BPPH2 DNA polymerase (Gene Name=2)

[Back to BioLiP]