PDB entry 5x30

View 5x30 on RCSB PDB site
Description: Crystal structure of Pseudomonas putida methionine gamma-lyase C116H mutant with L-homocysteine intermediates.
Class: lyase
Keywords: Pyridoxal 5'-phosphate, LYASE
Deposited on 2017-02-02, released 2017-04-12
The last revision prior to the SCOPe 2.08 freeze date was dated 2017-06-07, with a file datestamp of 2017-06-02.
Experiment type: XRAY
Resolution: 1.7 Å
R-factor: N/A
AEROSPACI score: 0.4 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: L-methionine gamma-lyase
    Species: Pseudomonas putida [TaxId:303]
    Gene: mdeA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P13254 (Start-397)
      • engineered mutation (115)
    Domains in SCOPe 2.08: d5x30a_
  • Chain 'B':
    Compound: L-methionine gamma-lyase
    Species: Pseudomonas putida [TaxId:303]
    Gene: mdeA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P13254 (Start-397)
      • engineered mutation (115)
    Domains in SCOPe 2.08: d5x30b_
  • Chain 'C':
    Compound: L-methionine gamma-lyase
    Species: Pseudomonas putida [TaxId:303]
    Gene: mdeA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P13254 (Start-397)
      • engineered mutation (115)
    Domains in SCOPe 2.08: d5x30c_
  • Chain 'D':
    Compound: L-methionine gamma-lyase
    Species: Pseudomonas putida [TaxId:303]
    Gene: mdeA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P13254 (0-397)
      • engineered mutation (115)
    Domains in SCOPe 2.08: d5x30d_
  • Heterogens: HCS, 4LM, H2S, 7XF, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5x30A (A:)
mhgsnklpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfys
risnptlnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaf
lhhgigefgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhg
atvvvdntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglk
dmtgavlsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqy
tlarqqmsqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssyt
peerahygiseglvrlsvglediddlladvqqalkasa

    Sequence, based on observed residues (ATOM records): (download) 
    >5x30A (A:)
lpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfysrisnpt
lnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaflhhgig
efgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhgatvvvd
ntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglkdmtgav
lsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqytlarqq
msqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssytpeerah
ygiseglvrlsvglediddlladvqqalkasa

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5x30B (B:)
mhgsnklpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfys
risnptlnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaf
lhhgigefgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhg
atvvvdntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglk
dmtgavlsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqy
tlarqqmsqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssyt
peerahygiseglvrlsvglediddlladvqqalkasa

    Sequence, based on observed residues (ATOM records): (download) 
    >5x30B (B:)
lpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfysrisnpt
lnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaflhhgig
efgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhgatvvvd
ntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglkdmtgav
lsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqytlarqq
msqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssytpeerah
ygiseglvrlsvglediddlladvqqalkasa

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5x30C (C:)
mhgsnklpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfys
risnptlnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaf
lhhgigefgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhg
atvvvdntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglk
dmtgavlsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqy
tlarqqmsqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssyt
peerahygiseglvrlsvglediddlladvqqalkasa

    Sequence, based on observed residues (ATOM records): (download) 
    >5x30C (C:)
klpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfysrisnp
tlnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaflhhgi
gefgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhgatvvv
dntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglkdmtga
vlsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqytlarq
qmsqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssytpeera
hygiseglvrlsvglediddlladvqqalkasa

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >5x30D (D:)
mhgsnklpgfatraihhgydpqdhggalvppvyqtatftfptveygaacfageqaghfys
risnptlnllearmasleggeaglalasgmgaitstlwtllrpgdevllgntlyghtfaf
lhhgigefgvklrhvdmadlqaleaamtpatrviyfespanpnmhmadiagvakiarkhg
atvvvdntyctpylqrplelgadlvvhsatkylsghgditagivvgsqalvdrirlqglk
dmtgavlsphdaallmrgiktlnlrmdrhcanaqvlaeflarqpqvelihypglasfpqy
tlarqqmsqpggmiafelkggigagrrfmnalqlfsravslgdaeslaqhpasmthssyt
peerahygiseglvrlsvglediddlladvqqalkasa