PDB entry 4dqq

View 4dqq on RCSB PDB site
Description: Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mg2+
Class: transferase/DNA
Keywords: DNA Polymerase I, protein-DNA complex, rCTP-dG, TRANSFERASE-DNA complex
Deposited on 2012-02-16, released 2012-06-06
The last revision prior to the SCOPe 2.08 freeze date was dated 2012-11-21, with a file datestamp of 2012-11-16.
Experiment type: XRAY
Resolution: 1.59 Å
R-factor: 0.161
AEROSPACI score: 0.62 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA polymerase
    Species: Geobacillus kaustophilus [TaxId:235909]
    Gene: polA, GK2730
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q5KWC1 (Start-591)
      • engineered mutation (313)
      • engineered mutation (373)
      • see remark 999 (538)
    Domains in SCOPe 2.08: d4dqqa1, d4dqqa2
  • Chain 'B':
    Compound: DNA (5'-d(*cp*cp*tp*gp*ap*cp*tp*cp*(doc))-3')
  • Chain 'C':
    Compound: DNA (5'-d(*cp*ap*tp*gp*gp*gp*ap*gp*tp*cp*ap*gp*g)-3')
  • Chain 'D':
    Compound: DNA polymerase
    Species: Geobacillus kaustophilus [TaxId:235909]
    Gene: polA, GK2730
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q5KWC1 (Start-591)
      • engineered mutation (313)
      • engineered mutation (373)
      • see remark 999 (538)
    Domains in SCOPe 2.08: d4dqqd1, d4dqqd2
  • Chain 'E':
    Compound: DNA (5'-d(*cp*cp*tp*gp*ap*cp*tp*cp*(doc))-3')
  • Chain 'F':
    Compound: DNA (5'-d(*cp*ap*tp*gp*gp*gp*ap*gp*tp*cp*ap*gp*g)-3')
  • Heterogens: CTP, SO4, MPD, MES, MG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >4dqqA (A:)
mespsseeekplakmaftladrvteemladkaalvvevveenyhdapivgiavvnehgrf
flrpetaladpqfvawlgdetkkksmfdskraavalkwkgielcgvsfdlllaaylldpa
qgvddvaaaakmkqyeavrpdeavygkgakravpdepvlaehlvrkaaaiwelerpflde
lrrneqdrllveleqplssilaemefagvkvdtkrleqmgkelaeqlgtveqriyelagq
efninspkqlgvilfeklqlpvlkktktgystsadvleklapyheivenilhyrqlgklq
styiegllkvvrpatkkvhtifnqaltqtgrlsstepnlqnipirleegrkirqafvpse
sdwlifaadysqialrvlahiaeddnlmeafrrdldihtktamdifqvsedevtpnmrrq
akavnfgivygisdyglaqnlnisrkeaaefieryfesfpgvkrymenivqeakqkgyvt
tllhrrrylpditsrnfnvrsfaermamntpiqgsaadiikkamidlnarlkeerlqahl
llqvhdelileapkeemerlcrlvpevmeqavtlrvplkvdyhygstwydak

    Sequence, based on observed residues (ATOM records): (download) 
    >4dqqA (A:)
akmaftladrvteemladkaalvvevveenyhdapivgiavvnehgrfflrpetaladpq
fvawlgdetkkksmfdskraavalkwkgielcgvsfdlllaaylldpaqgvddvaaaakm
kqyeavrpdeavygkgakravpdepvlaehlvrkaaaiwelerpfldelrrneqdrllve
leqplssilaemefagvkvdtkrleqmgkelaeqlgtveqriyelagqefninspkqlgv
ilfeklqlpvlkktktgystsadvleklapyheivenilhyrqlgklqstyiegllkvvr
patkkvhtifnqaltqtgrlsstepnlqnipirleegrkirqafvpsesdwlifaadysq
ialrvlahiaeddnlmeafrrdldihtktamdifqvsedevtpnmrrqakavnfgivygi
sdyglaqnlnisrkeaaefieryfesfpgvkrymenivqeakqkgyvttllhrrrylpdi
tsrnfnvrsfaermamntpiqgsaadiikkamidlnarlkeerlqahlllqvhdelilea
pkeemerlcrlvpevmeqavtlrvplkvdyhygstwydak

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >4dqqD (D:)
mespsseeekplakmaftladrvteemladkaalvvevveenyhdapivgiavvnehgrf
flrpetaladpqfvawlgdetkkksmfdskraavalkwkgielcgvsfdlllaaylldpa
qgvddvaaaakmkqyeavrpdeavygkgakravpdepvlaehlvrkaaaiwelerpflde
lrrneqdrllveleqplssilaemefagvkvdtkrleqmgkelaeqlgtveqriyelagq
efninspkqlgvilfeklqlpvlkktktgystsadvleklapyheivenilhyrqlgklq
styiegllkvvrpatkkvhtifnqaltqtgrlsstepnlqnipirleegrkirqafvpse
sdwlifaadysqialrvlahiaeddnlmeafrrdldihtktamdifqvsedevtpnmrrq
akavnfgivygisdyglaqnlnisrkeaaefieryfesfpgvkrymenivqeakqkgyvt
tllhrrrylpditsrnfnvrsfaermamntpiqgsaadiikkamidlnarlkeerlqahl
llqvhdelileapkeemerlcrlvpevmeqavtlrvplkvdyhygstwydak

    Sequence, based on observed residues (ATOM records): (download) 
    >4dqqD (D:)
ekplakmaftladrvteemladkaalvvevveenyhdapivgiavvnehgrfflrpetal
adpqfvawlgdetkkksmfdskraavalkwkgielcgvsfdlllaaylldpaqgvddvaa
aakmkqyeavrpdeavygkgakravpdepvlaehlvrkaaaiwelerpfldelrrneqdr
llveleqplssilaemefagvkvdtkrleqmgkelaeqlgtveqriyelagqefninspk
qlgvilfeklqlpvlkktktgystsadvleklapyheivenilhyrqlgklqstyiegll
kvvrpatkkvhtifnqaltqtgrlsstepnlqnipirleegrkirqafvpsesdwlifaa
dysqialrvlahiaeddnlmeafrrdldihtktamdifqvsedevtpnmrrqakavnfgi
vygisdyglaqnlnisrkeaaefieryfesfpgvkrymenivqeakqkgyvttllhrrry
lpditsrnfnvrsfaermamntpiqgsaadiikkamidlnarlkeerlqahlllqvhdel
ileapkeemerlcrlvpevmeqavtlrvplkvdyhygstwydak

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.