PDB entry 4d9b

View 4d9b on RCSB PDB site
Description: Pyridoxamine 5' phosphate (PMP) bound form of Salmonella typhimurium D-Cysteine desulfhydrase obtained after co-crystallization with D-cycloserine
Class: Lyase
Keywords: Fold type II PLP-dependent enzyme or tryptophan synthase beta subunit like family, PLP dependent enzyme, lyase
Deposited on 2012-01-11, released 2012-05-30
The last revision prior to the SCOPe 2.06 freeze date was dated 2012-05-30, with a file datestamp of 2012-05-25.
Experiment type: XRAY
Resolution: 1.67 Å
R-factor: 0.172
AEROSPACI score: 0.57 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: D-Cysteine desulfhydrase
    Species: Salmonella typhimurium [TaxId:90371]
    Gene: dcyD, STM1953
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4d9ba_
  • Chain 'B':
    Compound: D-Cysteine desulfhydrase
    Species: Salmonella typhimurium [TaxId:90371]
    Gene: dcyD, STM1953
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4d9bb_
  • Chain 'C':
    Compound: D-Cysteine desulfhydrase
    Species: Salmonella typhimurium [TaxId:90371]
    Gene: dcyD, STM1953
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4d9bc_
  • Chain 'D':
    Compound: D-Cysteine desulfhydrase
    Species: Salmonella typhimurium [TaxId:90371]
    Gene: dcyD, STM1953
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4d9bd_
  • Heterogens: BEN, PMP, EDO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >4d9bA (A:)
mrgshhhhhhgmasmplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpia
mggnklrkleflvadalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigtt
aenyltngnrllldlfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalga
mgyvesaleiaqqceevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvae
qkpkvialqqaiagqlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpv
ytgkamaglidgisqkrfnddgpilfihtggapalfayhphv

    Sequence, based on observed residues (ATOM records): (download) 
    >4d9bA (A:)
mplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpiamggnklrkleflva
dalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigttaenyltngnrllld
lfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalgamgyvesaleiaqqc
eevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvaeqkpkvialqqaiag
qlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpvytgkamaglidgis
qkrfnddgpilfihtggapalfayhphv

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >4d9bB (B:)
mrgshhhhhhgmasmplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpia
mggnklrkleflvadalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigtt
aenyltngnrllldlfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalga
mgyvesaleiaqqceevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvae
qkpkvialqqaiagqlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpv
ytgkamaglidgisqkrfnddgpilfihtggapalfayhphv

    Sequence, based on observed residues (ATOM records): (download) 
    >4d9bB (B:)
mplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpiamggnklrkleflva
dalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigttaenyltngnrllld
lfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalgamgyvesaleiaqqc
eevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvaeqkpkvialqqaiag
qlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpvytgkamaglidgis
qkrfnddgpilfihtggapalfayhphv

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >4d9bC (C:)
mrgshhhhhhgmasmplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpia
mggnklrkleflvadalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigtt
aenyltngnrllldlfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalga
mgyvesaleiaqqceevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvae
qkpkvialqqaiagqlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpv
ytgkamaglidgisqkrfnddgpilfihtggapalfayhphv

    Sequence, based on observed residues (ATOM records): (download) 
    >4d9bC (C:)
trfprlefigaptpleylprlsdylgreiyikrddvtpiamggnklrkleflvadalreg
adtlitagaiqsnhvrqtaavaaklglhcvallenpigttaenyltngnrllldlfntqi
emcdaltdpdaqlqtlatrieaqgfrpyvipvggssalgamgyvesaleiaqqceevvgl
ssvvvasgsagthaglavglehlmpdveligvtvsrsvaeqkpkvialqqaiagqlalta
tadihlwddyfapgygvpndagmeavkllaslegvlldpvytgkamaglidgisqkrfnd
dgpilfihtggapalfayhphv

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >4d9bD (D:)
mrgshhhhhhgmasmplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpia
mggnklrkleflvadalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigtt
aenyltngnrllldlfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalga
mgyvesaleiaqqceevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvae
qkpkvialqqaiagqlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpv
ytgkamaglidgisqkrfnddgpilfihtggapalfayhphv

    Sequence, based on observed residues (ATOM records): (download) 
    >4d9bD (D:)
mplhhltrfprlefigaptpleylprlsdylgreiyikrddvtpiamggnklrkleflva
dalregadtlitagaiqsnhvrqtaavaaklglhcvallenpigttaenyltngnrllld
lfntqiemcdaltdpdaqlqtlatrieaqgfrpyvipvggssalgamgyvesaleiaqqc
eevvglssvvvasgsagthaglavglehlmpdveligvtvsrsvaeqkpkvialqqaiag
qlaltatadihlwddyfapgygvpndagmeavkllaslegvlldpvytgkamaglidgis
qkrfnddgpilfihtggapalfayhphv