PDB entry 6pcm

View 6pcm on RCSB PDB site
Description: crystal structure of mycobacterium smegmatis topoisomerase i with ssdna bound to both n- and c-terminal domains
Deposited on 2019-06-17, released 2020-03-25
The last revision was dated 2020-05-13, with a file datestamp of 2020-05-08.
Experiment type: XRAY
Resolution: 3.11 Å
R-factor: N/A
AEROSPACI score: 0.12 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA topoisomerase 1
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: topA, MSMEG_6157, MSMEI_5999
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: DNA topoisomerase 1
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: topA, MSMEG_6157, MSMEI_5999
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: DNA (5'-d(p*ap*gp*tp*gp*ap*gp*cp*gp*ap*gp*cp*tp*tp*cp*cp*gp*cp*tp*tp*gp*ap*cp*tp*t)-3')
    Species: Mycolicibacterium smegmatis, synthetic [TaxId:1772]
  • Chain 'D':
    Compound: DNA (5'-d(p*ap*gp*tp*gp*ap*gp*cp*gp*ap*gp*cp*tp*tp*cp*cp*gp*cp*tp*tp*gp*ap*cp*tp*t)-3')
    Species: Mycolicibacterium smegmatis, synthetic [TaxId:1772]
  • Heterogens: SO4

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6pcmA (A:)
snamaggdrgsggtgnvrrlvivesptkarkiagylgsnyvvessrghirdlprnaadvp
akfksepwarlgvnvdqnfeplyivspekkstvtelkgllkdvdelylatdgdregeaia
whlletlkprvpvkrmvfheitepairnaaenprdldialvdaqetrrildrlygyevsp
vlwkkvapklsagrvqsvatriivqrerermafhsasywdvtaeldasvsdpsasppkft
aklntvdgrrvatgrdfdslgqlkrpdevlvldeasagalasglrgaqlavtsveqkpyt
rrpyapfmtstlqqeaarklrfssertmsiaqrlyengyitymrtdsttlsesainaart
qarqlygeeyvhpsprqytrkvknaqeaheairpagdvfqtpgqlhsaldtdefrlyeli
wqrtvasqmadargttlslriggsassgeqvvfnasgrtitfpgflkayvesidelagge
sddaesrlpnltqgqrvdaadlsadghqtspparyteaslikaleelgigrpstyssiik
tiqdrgyvqkkgsalvpswvafavvglleqhfgrlvdydftaamedeldeiangqeqrtn
wlnnfyfggehgvegsiaragglkqlvggnlegidarevnsikvfddsegrpvyvrvgrn
gpylermvddpdnpgeqkpqranlkedltpdeltpelaeklfatpqegrslgidpetghe
ivakdgrfgpyvtevlpepedggddgtagtpakkgkkptgpkprtgslfrsmdletvtle
dalkllslprvvgvdpttneeitaqngrygpylkrgtdsrslatedqiftitldealkiy
ae

    Sequence, based on observed residues (ATOM records):
    >6pcmA (A:)
nvrrlvivesptkarkiagylgsnyvvessrghirdlprnaadvpakfksepwarlgvnv
dqnfeplyivspekkstvtelkgllkdvdelylatdgdregeaiawhlletlkprvpvkr
mvfheitepairnaaenprdldialvdaqetrrildrlygyevspvlwkkvapklsagrv
qsvatriivqrerermafhsasywdvtaeldasvsdpsppkftaklntvdgrrvatgrdf
dslgqlkrpdevlvldeasagalasglrgaqlavtsveqkpytrrpyapfmtstlqqeaa
rklrfssertmsiaqrlyengyitymrtdsttlsesainaartqarqlygeeyvhpsprq
ytrkvknaqeaheairpagdvfqtpgqlhsaldtdefrlyeliwqrtvasqmadargttl
slriggsassgeqvvfnasgrtitfpgflkayvsddaesrlpnltqgqrvdadlsadghq
tspparyteaslikaleelgigrpstyssiiktiqdrgyvqkkgsalvpswvafavvgll
eqhfgrlvdydftaamedeldeiangqeqrtnwlnnfyfggehgvegsiaragglkqlvg
gnlegidarevnsikvfddsegrpvyvrvgrngpylermvddpdnpgeqkpqranlkedl
tpdeltpelaeklfatpqegrslgidpetgheivakdgrfgpyvtevlpetgpkprtgsl
frsmdletvtledalkllslprvvgvdpttneeitaqngrygpylkrgtdsrslatedqi
ftitldealkiya

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6pcmB (B:)
snamaggdrgsggtgnvrrlvivesptkarkiagylgsnyvvessrghirdlprnaadvp
akfksepwarlgvnvdqnfeplyivspekkstvtelkgllkdvdelylatdgdregeaia
whlletlkprvpvkrmvfheitepairnaaenprdldialvdaqetrrildrlygyevsp
vlwkkvapklsagrvqsvatriivqrerermafhsasywdvtaeldasvsdpsasppkft
aklntvdgrrvatgrdfdslgqlkrpdevlvldeasagalasglrgaqlavtsveqkpyt
rrpyapfmtstlqqeaarklrfssertmsiaqrlyengyitymrtdsttlsesainaart
qarqlygeeyvhpsprqytrkvknaqeaheairpagdvfqtpgqlhsaldtdefrlyeli
wqrtvasqmadargttlslriggsassgeqvvfnasgrtitfpgflkayvesidelagge
sddaesrlpnltqgqrvdaadlsadghqtspparyteaslikaleelgigrpstyssiik
tiqdrgyvqkkgsalvpswvafavvglleqhfgrlvdydftaamedeldeiangqeqrtn
wlnnfyfggehgvegsiaragglkqlvggnlegidarevnsikvfddsegrpvyvrvgrn
gpylermvddpdnpgeqkpqranlkedltpdeltpelaeklfatpqegrslgidpetghe
ivakdgrfgpyvtevlpepedggddgtagtpakkgkkptgpkprtgslfrsmdletvtle
dalkllslprvvgvdpttneeitaqngrygpylkrgtdsrslatedqiftitldealkiy
ae

    Sequence, based on observed residues (ATOM records):
    >6pcmB (B:)
nvrrlvivesptkarkiagylgsnyvvessrghirdlprnaadvpakfksepwarlgvnv
dqnfeplyivspekkstvtelkgllkdvdelylatdgdregeaiawhlletlkprvpvkr
mvfheitepairnaaenprdldialvdaqetrrildrlygyevspvlwkkvapklsagrv
qsvatriivqrerermafhsasywdvtaeldasvsdpsasppkftaklntvdgrrvatgr
dfdslgqlkrpdevlvldeasagalasglrgaqlavtsveqkpytrrpyapfmtstlqqe
aarklrfssertmsiaqrlyengyitymrtdsttlsesainaartqarqlygeeyvhpsp
rqytrkvnaqeaheairpagdvfqtpgqlhsaldtdefrlyeliwqrtvasqmadargtt
lslriggsassgeqvvfnasgrtitfpgflkayvsrlpnltqgqrvdaadlsadghqtsp
paryteaslikaleelgigrpstyssiiktiqdrgyvqkkgsalvpswvafavvglleqh
fgrlvdydftaamedeldeiangqeqrtnwlnnfyfggehgvegsiaragglkqlvggnl
egidarevnsikvfddsegrpvyvrvgrngpylermvddpdnqkpqranlkedltpdelt
pelaeklfatpqegrslgidpetgheivakdgrfgpyvtevlpetgpkprtgslfrsmdl
etvtledalkllslprvttneeitaqngrygpylkrgtdsrslatedqiftitldealki
yae

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    No sequence available.