PDB entry 3k5m

View 3k5m on RCSB PDB site
Description: Crystal structure of E.coli Pol II-abasic DNA-ddGTP Lt(-2, 2) ternary complex
Class: transferase/DNA
Keywords: DNA damage, DNA repair, DNA-binding, DNA-directed DNA polymerase, Nucleotidyltransferase, SOS response, Transferase
Deposited on 2009-10-07, released 2010-02-02
The last revision prior to the SCOPe 2.04 freeze date was dated 2010-02-02, with a file datestamp of 2010-01-29.
Experiment type: XRAY
Resolution: 2.04 Å
R-factor: 0.243
AEROSPACI score: 0.37 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA polymerase II
    Species: Escherichia coli [TaxId:562]
    Gene: b0060, dinA, JW0059, polB
    Database cross-references and differences (RAF-indexed):
    • Uniprot P21189 (3-End)
      • expression tag (1-2)
      • engineered (337)
    Domains in SCOPe 2.04: d3k5ma1, d3k5ma2
  • Chain 'P':
    Compound: DNA (5'-d(*gp*tp*gp*cp*cp*tp*ap*gp*cp*gp*tp*ap*g)-3')
  • Chain 'T':
    Compound: DNA (5'-d(*ap*gp*tp*cp*cp*tp*gp*(3dr)p*ap*cp*gp*cp*tp*ap*gp*gp*cp*ap*cp*a)-3')
  • Heterogens: DG3, CA, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3k5mA (A:)
gphmaqagfiltrhwrdtpqgtevsfwlatdngplqvtlapqesvafipadqvpraqhil
qgeqgfrltplalkdfhrqpvyglycrahrqlmnyekrlreggvtvyeadvrpperylme
rfitspvwvegdmhngtivnarlkphpdyrpplkwvsidiettrhgelyciglegcgqri
vymlgpengdassldfeleyvasrpqlleklnawfanydpdviigwnvvqfdlrmlqkha
eryrlplrlgrdnselewrehgfkngvffaqakgrliidgiealksafwnfssfsletva
qellgegksidnpwdrmdeidrrfaedkpalatynlkncelvtqifhkteimpfllerat
vnglpvdrhggsvaafghlyfprmhragyvapnlgevpphaspggyvmdsrpglydsvlv
ldykslypsiirtflidpvglvegmaqpdpehstegfldawfsrekhclpeivtniwhgr
deakrqgnkplsqalkiimnafygvlgttacrffdprlassitmrghqimrqtkalieaq
gydviygdtdstfvwlkgahseeeaakigralvqhvnawwaetlqkqrltsaleleyeth
fcrflmptirgadtgskkryagliqegdkqrmvfkgletvrtdwtplaqqfqqelylrif
rnepyqeyvretidklmageldarlvyrkrlrrplseyqrnvpphvraarladeenqkrg
rplqyqnrgtikyvwttngpepldyqrspldyehyltrqlqpvaegilpfiednfatlmt
gqlglf

    Sequence, based on observed residues (ATOM records): (download) 
    >3k5mA (A:)
phmaqagfiltrhwrdtpqgtevsfwlatdngplqvtlapqesvafipadqvpraqhilq
geqgfrltplalkdfhrqpvyglycrahrqlmnyekrlreggvtvyeadvrpperylmer
fitspvwvegdmhngtivnarlkphpdyrpplkwvsidiettrhgelyciglegcgqriv
ymlgpengdassldfeleyvasrpqlleklnawfanydpdviigwnvvqfdlrmlqkhae
ryrlplrlgrdnselewrehkngffaqakgrliidgiealksafwnfssfsletvaqell
gegsidnpwdrmdeidrrfaedkpalatynlkncelvtqifhkteimpflleratvnglp
vdrhggsvaafghlyfprmhragyvapnlgevpphaspggyvmdsrpglydsvlvldyks
lypsiirtflidpvglvegmaqpdpehstegfldawfsrekhclpeivtniwhgrdeakr
qgnkplsqalkiimnafygvlgttacrffdprlassitmrghqimrqtkalieaqgydvi
ygdtdstfvwlkgahseeeaakigralvqhvnawwaetlqkqrltsaleleyethfcrfl
mptirgadtgskkryagliqegdkqrmvfkgletvrtdwtplaqqfqqelylrifrnepy
qeyvretidklmageldarlvyrkrlrrplseyqrnvpphvraarladeenqkrgrplqy
qnrgtikyvwttngpepldyqrspldyehyltrqlqpvaegilpfied

  • Chain 'P':
    No sequence available.

  • Chain 'T':
    No sequence available.