Structure of PDB 3k5m Chain A Binding Site BS04

Receptor Information
>3k5m Chain A (length=768) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PHMAQAGFILTRHWRDTPQGTEVSFWLATDNGPLQVTLAPQESVAFIPAD
QVPRAQHILQGEQGFRLTPLALKDFHRQPVYGLYCRAHRQLMNYEKRLRE
GGVTVYEADVRPPERYLMERFITSPVWVEGDMHNGTIVNARLKPHPDYRP
PLKWVSIDIETTRHGELYCIGLEGCGQRIVYMLGPENGDASSLDFELEYV
ASRPQLLEKLNAWFANYDPDVIIGWNVVQFDLRMLQKHAERYRLPLRLGR
DNSELEWREHKNGFFAQAKGRLIIDGIEALKSAFWNFSSFSLETVAQELL
GEGSIDNPWDRMDEIDRRFAEDKPALATYNLKNCELVTQIFHKTEIMPFL
LERATVNGLPVDRHGGSVAAFGHLYFPRMHRAGYVAPNLGEVPPHASPGG
YVMDSRPGLYDSVLVLDYKSLYPSIIRTFLIDPVGLVEGMAQPDPEHSTE
GFLDAWFSREKHCLPEIVTNIWHGRDEAKRQGNKPLSQALKIIMNAFYGV
LGTTACRFFDPRLASSITMRGHQIMRQTKALIEAQGYDVIYGDTDSTFVW
LKGAHSEEEAAKIGRALVQHVNAWWAETLQKQRLTSALELEYETHFCRFL
MPTIRGADTGSKKRYAGLIQEGDKQRMVFKGLETVRTDWTPLAQQFQQEL
YLRIFRNEPYQEYVRETIDKLMAGELDARLVYRKRLRRPLSEYQRNVPPH
VRAARLADEENQKRGRPLQYQNRGTIKYVWTTNGPEPLDYQRSPLDYEHY
LTRQLQPVAEGILPFIED
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain3k5m Chain A Residue 1001 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3k5m Structural insight into translesion synthesis by DNA Pol II.
Resolution2.04 Å
Binding residue
(original residue number in PDB)		D419 Y420 D547
Binding residue
(residue number reindexed from 1)		D417 Y418 D545
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0008296 3'-5'-DNA exonuclease activity
Biological Process
GO:0006261 DNA-templated DNA replication
GO:0006281 DNA repair
GO:0006974 DNA damage response
GO:0009432 SOS response
GO:0045004 DNA replication proofreading
GO:0071897 DNA biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:3k5m, PDBe:3k5m, PDBj:3k5m
PDBsum3k5m
PubMed20064374
UniProtP21189|DPO2_ECOLI DNA polymerase II (Gene Name=polB)

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