PDB entry 6pku

View 6pku on RCSB PDB site
Description: guinea pig n-acetylglucosamine-1-phosphodiester alpha-n- acetylglucosaminidase (nagpa) catalytic domain (c51s c221s) in complex with n-acetyl-alpha-d-glucosamine (alpha-glcnac) and mannose 6-phosphate (m6p)
Deposited on 2019-06-29, released 2020-02-19
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: XRAY
Resolution: 1.95 Å
R-factor: N/A
AEROSPACI score: 0.41 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase (NAGPA)
    Species: Cavia porcellus [TaxId:10141]
    Gene: nagpa
    Database cross-references and differences (RAF-indexed):
    • Uniprot H0VTT5 (Start-299)
      • engineered mutation (193)
  • Chain 'B':
    Compound: N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase (NAGPA)
    Species: Cavia porcellus [TaxId:10141]
    Gene: nagpa
    Database cross-references and differences (RAF-indexed):
    • Uniprot H0VTT5 (Start-299)
      • engineered mutation (193)
  • Chain 'C':
    Compound: N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase (NAGPA)
    Species: Cavia porcellus [TaxId:10141]
    Gene: nagpa
    Database cross-references and differences (RAF-indexed):
    • Uniprot H0VTT5 (Start-299)
      • engineered mutation (193)
  • Chain 'D':
    Compound: N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase (NAGPA)
    Species: Cavia porcellus [TaxId:10141]
    Gene: nagpa
    Database cross-references and differences (RAF-indexed):
    • Uniprot H0VTT5 (Start-299)
      • engineered mutation (193)
  • Heterogens: M6P, NDG, NAG, HOH

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:
    >6pkuA (A:)
drhhhhhhgsgpyprarlrpvrdstpvhtgslkhenwppppaapgagppavrtfvshfgg
ravsghltraaaplrtfsvlepggpggcsqkrratveetaqaaacriaqnggffrmntge
clgnvvsdgrrvsssgglqnaqfgirrdgtlvtgylseeevldtenpfvqllsgvvwlir
ngsiyinesqatesdetqetgsfskfvnvmsartaighdrdgqlvlfhadgqteqrginl
wemaefllrqgvvnainldgggsatfvlngtlasypsdhcqdnmwrcprrvstvvcvhep

    Sequence, based on observed residues (ATOM records):
    >6pkuA (A:)
lkhenwpppgppavrtfvshfggravsghltraaaplrtfsvlepggpggcsqkrratve
etaqaaacriaqnggffrmntgeclgnvvsdgrrvsssgglqnaqfgirrdgtlvtgyls
eeevldtenpfvqllsgvvwlirngsiyinesqatesdetqetgsfskfvnvmsartaig
hdrdgqlvlfhadgqteqrginlwemaefllrqgvvnainldgggsatfvlngtlasyps
dhcqdnmwrcprrvstvvcvhep

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6pkuB (B:)
drhhhhhhgsgpyprarlrpvrdstpvhtgslkhenwppppaapgagppavrtfvshfgg
ravsghltraaaplrtfsvlepggpggcsqkrratveetaqaaacriaqnggffrmntge
clgnvvsdgrrvsssgglqnaqfgirrdgtlvtgylseeevldtenpfvqllsgvvwlir
ngsiyinesqatesdetqetgsfskfvnvmsartaighdrdgqlvlfhadgqteqrginl
wemaefllrqgvvnainldgggsatfvlngtlasypsdhcqdnmwrcprrvstvvcvhep

    Sequence, based on observed residues (ATOM records):
    >6pkuB (B:)
lkhenwppppgppavrtfvshfggravsghltraaaplrtfsvlepggpggcsqkrratv
eetaqaaacriaqnggffrmntgeclgnvvsdgrrvsssgglqnaqfgirrdgtlvtgyl
seeevldtenpfvqllsgvvwlirngsiyinesqatesdetqetgsfskfvnvmsartai
ghdrdgqlvlfhadgqteqrginlwemaefllrqgvvnainldgggsatfvlngtlasyp
sdhcqdnmwrcprrvstvvcvhep

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6pkuC (C:)
drhhhhhhgsgpyprarlrpvrdstpvhtgslkhenwppppaapgagppavrtfvshfgg
ravsghltraaaplrtfsvlepggpggcsqkrratveetaqaaacriaqnggffrmntge
clgnvvsdgrrvsssgglqnaqfgirrdgtlvtgylseeevldtenpfvqllsgvvwlir
ngsiyinesqatesdetqetgsfskfvnvmsartaighdrdgqlvlfhadgqteqrginl
wemaefllrqgvvnainldgggsatfvlngtlasypsdhcqdnmwrcprrvstvvcvhep

    Sequence, based on observed residues (ATOM records):
    >6pkuC (C:)
lkhenwpppgppavrtfvshfggravsghltraaaplrtfsvlepggpggcsqkrratve
etaqaaacriaqnggffrmntgeclgnvvsdgrrvsssgglqnaqfgirrdgtlvtgyls
eeevldtenpfvqllsgvvwlirngsiyinesqatesdetqetgsfskfvnvmsartaig
hdrdgqlvlfhadgqteqrginlwemaefllrqgvvnainldgggsatfvlngtlasyps
dhcqdnmwrcprrvstvvcvhep

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6pkuD (D:)
drhhhhhhgsgpyprarlrpvrdstpvhtgslkhenwppppaapgagppavrtfvshfgg
ravsghltraaaplrtfsvlepggpggcsqkrratveetaqaaacriaqnggffrmntge
clgnvvsdgrrvsssgglqnaqfgirrdgtlvtgylseeevldtenpfvqllsgvvwlir
ngsiyinesqatesdetqetgsfskfvnvmsartaighdrdgqlvlfhadgqteqrginl
wemaefllrqgvvnainldgggsatfvlngtlasypsdhcqdnmwrcprrvstvvcvhep

    Sequence, based on observed residues (ATOM records):
    >6pkuD (D:)
lkhenwpppgppavrtfvshfggravsghltraaaplrtfsvlepggpggcsqkrratve
etaqaaacriaqnggffrmntgeclgnvvsdgrrvsssgglqnaqfgirrdgtlvtgyls
eeevldtenpfvqllsgvvwlirngsiyinesqatesdetqetgsfskfvnvmsartaig
hdrdgqlvlfhadgqteqrginlwemaefllrqgvvnainldgggsatfvlngtlasyps
dhcqdnmwrcprrvstvvcvhep