PDB entry 4oxd

View 4oxd on RCSB PDB site
Description: structure of the ldcb ld-carboxypeptidase reveals the molecular basis of peptidoglycan recognition
Deposited on 2014-02-05, released 2014-05-21
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: N/A
AEROSPACI score: 0.25 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: LdcB LD-carboxypeptidase
    Species: Streptococcus pneumoniae [TaxId:171101]
    Gene: spr0554
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8DQQ1 (4-End)
      • expression tag (1-3)
  • Chain 'B':
    Compound: LdcB LD-carboxypeptidase
    Species: Streptococcus pneumoniae [TaxId:171101]
    Gene: spr0554
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8DQQ1 (4-End)
      • expression tag (1-3)
  • Chain 'C':
    Compound: LdcB LD-carboxypeptidase
    Species: Streptococcus pneumoniae [TaxId:171101]
    Gene: spr0554
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: LdcB LD-carboxypeptidase
    Species: Streptococcus pneumoniae [TaxId:171101]
    Gene: spr0554
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8DQQ1 (4-End)
      • expression tag (2-3)
  • Chain 'E':
    Compound: LdcB LD-carboxypeptidase
    Species: Streptococcus pneumoniae [TaxId:171101]
    Gene: spr0554
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8DQQ1 (4-End)
      • expression tag (2-3)
  • Chain 'H':
    Compound: mub-ala-zgl-lys-dsg
    Species: Lactobacillus acidophilus [TaxId:1579]
    Database cross-references and differences (RAF-indexed):
    • PDB 4OXD (0-4)
  • Heterogens: ZN, MG, LYS, CL, 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:
    >4oxdA (A:)
gshmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfp
isdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtdgdlvte
ekaaqwlldhaadygfvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygf
eggdyvd

    Sequence, based on observed residues (ATOM records):
    >4oxdA (A:)
shmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfpi
sdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtdgdlvtee
kaaqwlldhaadygfvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygfe
ggdyv

  • Chain 'B':
    Sequence, based on SEQRES records:
    >4oxdB (B:)
gshmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfp
isdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtdgdlvte
ekaaqwlldhaadygfvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygf
eggdyvd

    Sequence, based on observed residues (ATOM records):
    >4oxdB (B:)
shmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfpi
sdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtddlvteek
aaqwlldhaadygfvvrylkgetgymaeewhlryvgkeakeiaesglsleeyygfeggdy
v

  • Chain 'C':
    Sequence, based on SEQRES records:
    >4oxdC (C:)
gshmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfp
isdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtdgdlvte
ekaaqwlldhaadygfvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygf
eggdyvd

    Sequence, based on observed residues (ATOM records):
    >4oxdC (C:)
evvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfpisdh
ysgfrsyetqtklysarpgysehqtglafdvigtdgdlvteekaaqwlldhaadygfvvr
ylkgkeketgymaeewhlryvgkeakeiaesglsleeyygfeggdyv

  • Chain 'D':
    Sequence, based on SEQRES records:
    >4oxdD (D:)
gshmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfp
isdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtdgdlvte
ekaaqwlldhaadygfvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygf
eggdyvd

    Sequence, based on observed residues (ATOM records):
    >4oxdD (D:)
hmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfpis
dhysgfrsyetqtklyqdsarpgysehqtglafdvigtdgdlvteekaaqwlldhaadyg
fvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygfeggdyv

  • Chain 'E':
    Sequence, based on SEQRES records:
    >4oxdE (E:)
gshmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfp
isdhysgfrsyetqtklyqdyvnqdgkeaadrysarpgysehqtglafdvigtdgdlvte
ekaaqwlldhaadygfvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygf
eggdyvd

    Sequence, based on observed residues (ATOM records):
    >4oxdE (E:)
hmevvnkgdyysiqgkydeiivankhyplskdynpgenptakaelvklikamqeagfpis
dhysgfrsyetqtklyqdaadrysarpgysehqtglafdvigtdgekaaqwlldhaadyg
fvvrylkgkeketgymaeewhlryvgkeakeiaesglsleeyygfeggdyv

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records:
    >4oxdH (H:)
xaxkn