PDB entry 2y28

View 2y28 on RCSB PDB site
Description: crystal structure of Se-Met AmpD derivative
Class: hydrolase
Keywords: hydrolase, peptidoglycan amidase, amidase_2 family, activation mechanism
Deposited on 2010-12-14, released 2011-07-20
The last revision prior to the SCOPe 2.08 freeze date was dated 2011-12-28, with a file datestamp of 2011-12-23.
Experiment type: XRAY
Resolution: 1.8 Å
R-factor: 0.1835
AEROSPACI score: 0.51 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 1,6-anhydro-n-acetylmuramyl-l-alanine amidase ampd
    Species: Citrobacter freundii [TaxId:546]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2y28a_
  • Chain 'B':
    Compound: 1,6-anhydro-n-acetylmuramyl-l-alanine amidase ampd
    Species: Citrobacter freundii [TaxId:546]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2y28b_
  • Chain 'C':
    Compound: 1,6-anhydro-n-acetylmuramyl-l-alanine amidase ampd
    Species: Citrobacter freundii [TaxId:546]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2y28c_
  • Heterogens: ZN, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >2y28A (A:)
    mlldegwlaearrvpsphydcrpddenpsllvvhnislppgefggpwidalftgtidpna
    hpyfagiahlrvsahclirrdgeivqyvpfdkrawhagvssyqgrercndfsigielegt
    dtlaytdaqyqqlaavtnalitrypaiannmtghcniaperktdpgpsfdwarfralvtp
    sshkemt
    

    Sequence, based on observed residues (ATOM records): (download)
    >2y28A (A:)
    mlldegwlaearrvpsphydcrpddenpsllvvhnislppgefggpwidalftgtidpna
    hpyfagiahlrvsahclirrdgeivqyvpfdkrawhagvssyqgrercndfsigielegt
    dtlaytdaqyqqlaavtnalitrypaiannmtghcniaperktdpgpsfdwarfralvtp
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >2y28B (B:)
    mlldegwlaearrvpsphydcrpddenpsllvvhnislppgefggpwidalftgtidpna
    hpyfagiahlrvsahclirrdgeivqyvpfdkrawhagvssyqgrercndfsigielegt
    dtlaytdaqyqqlaavtnalitrypaiannmtghcniaperktdpgpsfdwarfralvtp
    sshkemt
    

    Sequence, based on observed residues (ATOM records): (download)
    >2y28B (B:)
    mlldegwlaearrvpsphydcrpddenpsllvvhnislppgefggpwidalftgtidpna
    hpyfagiahlrvsahclirrdgeivqyvpfdkrawhagvssyqgrercndfsigielegt
    dtlaytdaqyqqlaavtnalitrypaiannmtghcniaperktdpgpsfdwarfralv
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >2y28C (C:)
    mlldegwlaearrvpsphydcrpddenpsllvvhnislppgefggpwidalftgtidpna
    hpyfagiahlrvsahclirrdgeivqyvpfdkrawhagvssyqgrercndfsigielegt
    dtlaytdaqyqqlaavtnalitrypaiannmtghcniaperktdpgpsfdwarfralvtp
    sshkemt
    

    Sequence, based on observed residues (ATOM records): (download)
    >2y28C (C:)
    mlldegwlaearrvpsphydcrpddenpsllvvhnislppgefggpwidalftgtidpna
    hpyfagiahlrvsahclirrdgeivqyvpfdkrawhagvssyqgrercndfsigielegt
    dtlaytdaqyqqlaavtnalitrypaiannmtghcniaperktdpgpsfdwarfralvt