PDB entry 3shd

View 3shd on RCSB PDB site
Description: Crystal structure of Nudix hydrolase Orf153, ymfB, from Escherichia coli K-1
Class: Hydrolase
Keywords: Nudix fold, Nudix motif, Hydrolase, (d)NDP/(d)NTP binding, dephosphorylation
Deposited on 2011-06-16, released 2012-06-27
The last revision prior to the SCOPe 2.08 freeze date was dated 2012-06-27, with a file datestamp of 2012-06-22.
Experiment type: XRAY
Resolution: 2.5 Å
R-factor: 0.23
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shda_
  • Chain 'B':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdb_
  • Chain 'C':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdc_
  • Chain 'D':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdd_
  • Chain 'E':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shde_
  • Chain 'F':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdf_
  • Chain 'G':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdg_
  • Chain 'H':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdh_
  • Chain 'I':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdi_
  • Chain 'J':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdj_
  • Chain 'K':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdk_
  • Chain 'L':
    Compound: Phosphatase nudJ
    Species: Escherichia coli [TaxId:405955]
    Gene: nudJ, Ecok1_10240, APECO1_216
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3shdl_
  • Heterogens: MN, SO4, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3shdA (A:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdA (A:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3shdB (B:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdB (B:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3shdC (C:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdC (C:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3shdD (D:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdD (D:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >3shdE (E:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdE (E:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >3shdF (F:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdF (F:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >3shdG (G:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdG (G:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >3shdH (H:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdH (H:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >3shdI (I:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdI (I:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >3shdJ (J:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdJ (J:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >3shdK (K:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdK (K:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >3shdL (L:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftkgvi

    Sequence, based on observed residues (ATOM records): (download) 
    >3shdL (L:)
mfkphvtvacvvhaegkflvveetingkalwnqpaghleadetlveaaarelweetgisa
qpqhfirmhqwiapdktpflrflfaieleqicptqphdsdidccrwvsaeeilqasnlrs
plvaesircyqsgqryplemigdfnwpftk