Structure of PDB 3q4k Chain A Binding Site BS01

Receptor Information
>3q4k Chain A (length=356) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKFTVEREHLLKPLQQVSTLPILGNLLLQVADGTLSLTGTDLEMEMVARV
ALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFS
LSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNG
MLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRML
DGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPPDKHLEAG
CDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVT
YSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAY
VVMPMR
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]
PDB3q4k Structure-based design of short peptide ligands binding onto the E. coli processivity ring.
Resolution2.6 Å
Binding residue
(original residue number in PDB)		T172 G174 H175 R176 P242 Y244 V247 M362 P363 M364 R365
Binding residue
(residue number reindexed from 1)		T165 G167 H168 R169 P235 Y237 V240 M353 P354 M355 R356
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0005515 protein binding
GO:0008408 3'-5' exonuclease activity
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
Biological Process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0006271 DNA strand elongation involved in DNA replication
GO:0006974 DNA damage response
GO:0030174 regulation of DNA-templated DNA replication initiation
GO:0032297 negative regulation of DNA-templated DNA replication initiation
GO:0042276 error-prone translesion synthesis
GO:0044787 bacterial-type DNA replication
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0009360 DNA polymerase III complex
GO:0030894 replisome
GO:1990078 replication inhibiting complex
GO:1990085 Hda-beta clamp complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:3q4k, PDBe:3q4k, PDBj:3q4k
PDBsum3q4k
PubMed21619076
UniProtP0A988|DPO3B_ECOLI Beta sliding clamp (Gene Name=dnaN)

[Back to BioLiP]