PDB entry 3k9f

View 3k9f on RCSB PDB site
Description: Detailed structural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases
Class: isomerase/DNA
Keywords: quinolone, topoisomerase, DNA, protein-DNA cleavage complex, streptococcus pneumoniae, levofloxacin, cell membrane, DNA-binding, isomerase, membrane, ATP-binding, nucleotide-binding, isomerase-DNA complex
Deposited on 2009-10-15, released 2009-10-27
The last revision prior to the SCOPe 2.03 freeze date was dated 2010-07-14, with a file datestamp of 2010-07-09.
Experiment type: XRAY
Resolution: 2.9 Å
R-factor: 0.187
AEROSPACI score: 0.27 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA topoisomerase 4 subunit A
    Species: Streptococcus pneumoniae [TaxId:1313]
    Gene: parC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3k9fa_
  • Chain 'B':
    Compound: DNA topoisomerase 4 subunit A
    Species: Streptococcus pneumoniae [TaxId:1313]
    Gene: parC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3k9fb_
  • Chain 'C':
    Compound: DNA topoisomerase 4 subunit B
    Species: Streptococcus pneumoniae [TaxId:1313]
    Gene: parE
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: DNA topoisomerase 4 subunit B
    Species: Streptococcus pneumoniae [TaxId:1313]
    Gene: parE
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: DNA (5'-d(*ap*cp*cp*ap*ap*gp*gp*t*cp*ap*tp*gp*ap*ap*t)-3')
  • Chain 'F':
    Compound: DNA (5'-d(p*ap*gp*tp*cp*ap*tp*tp*cp*ap*tp*gp*ap*cp*cp*tp*tp*gp*gp*t)-3')
  • Chain 'G':
    Compound: DNA (5'-d(*cp*tp*gp*tp*tp*tp*tp*a*cp*gp*tp*gp*cp*ap*t)-3')
  • Chain 'H':
    Compound: DNA (5'-d(p*gp*ap*cp*tp*ap*tp*gp*cp*ap*cp*gp*tp*ap*ap*ap*ap*cp*ap*g)-3')
  • Heterogens: MG, LFX, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3k9fA (A:)
msniqnmsledimgerfgryskyiiqdralpdirdglkpvqrrilysmnkdsntfdksyr
ksaksvgnimgnfhphgdssiydamvrmsqnwknreilvemhgnngsmdgdppaamryte
arlseiagyllqdiekktvpfawnfddtekeptvlpaafpnllvngstgisagyatdipp
hnlaevidaavymidhptakidklmeflpgpdfptgaiiqgrdeikkayetgkgrvvvrs
kteieklkggkeqiviteipyeinkanlvkkiddvrvnnkvagiaevrdesdrdglriai
elkkdantelvlnylfkytdlqinynfnmvaidnftprqvgivpilssyiahrrevilar
srfdkekaekrlhiveglirvisildevialirasenkadakenlkvsydfteeqaeaiv
tlqlyrltntdvvvlqeeeaelrekiamlaaiigdertmynlmkkelrevkkkfatprls
sledtakalehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >3k9fA (A:)
niqnmsledimgerfgryskyiiqdralpdirdglkpvqrrilysmnkdsntfdksyrks
aksvgnimgnfhphgdssiydamvrmsqnwknreilvemhgnngsmdgdppaamrytear
lseiagyllqdiekktvpfawnfddtekeptvlpaafpnllvngstgisagyatdipphn
laevidaavymidhptakidklmeflpgpdfptgaiiqgrdeikkayetgkgrvvvrskt
eieklkggkeqiviteipyeinkanlvkkiddvrvnnkvagiaevrdesdrdglriaiel
kkdantelvlnylfkytdlqinynfnmvaidnftprqvgivpilssyiahrrevilarsr
fdkekaekrlhiveglirvisildevialirasenkadakenlkvsydfteeqaeaivtl
qlyrltntdvvvlqeeeaelrekiamlaaiigdertmynlmkkelrevkkkfatprlssl
e

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3k9fB (B:)
msniqnmsledimgerfgryskyiiqdralpdirdglkpvqrrilysmnkdsntfdksyr
ksaksvgnimgnfhphgdssiydamvrmsqnwknreilvemhgnngsmdgdppaamryte
arlseiagyllqdiekktvpfawnfddtekeptvlpaafpnllvngstgisagyatdipp
hnlaevidaavymidhptakidklmeflpgpdfptgaiiqgrdeikkayetgkgrvvvrs
kteieklkggkeqiviteipyeinkanlvkkiddvrvnnkvagiaevrdesdrdglriai
elkkdantelvlnylfkytdlqinynfnmvaidnftprqvgivpilssyiahrrevilar
srfdkekaekrlhiveglirvisildevialirasenkadakenlkvsydfteeqaeaiv
tlqlyrltntdvvvlqeeeaelrekiamlaaiigdertmynlmkkelrevkkkfatprls
sledtakalehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >3k9fB (B:)
niqnmsledimgerfgryskyiiqdralpdirdglkpvqrrilysmnkdsntfdksyrks
aksvgnimgnfhphgdssiydamvrmsqnwknreilvemhgnngsmdgdppaamrytear
lseiagyllqdiekktvpfawnfddtekeptvlpaafpnllvngstgisagyatdipphn
laevidaavymidhptakidklmeflpgpdfptgaiiqgrdeikkayetgkgrvvvrskt
eieklkggkeqiviteipyeinkanlvkkiddvrvnnkvagiaevrdesdrdglriaiel
kkdantelvlnylfkytdlqinynfnmvaidnftprqvgivpilssyiahrrevilarsr
fdkekaekrlhiveglirvisildevialirasenkadakenlkvsydfteeqaeaivtl
qlyrltntdvvvlqeeeaelrekiamlaaiigdertmynlmkkelrevkkkfatprlssl
e

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    No sequence available.

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    No sequence available.