PDB entry 2v3w

View 2v3w on RCSB PDB site
Description: Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida
Class: lyase
Keywords: lyase, calcium, magnesium, flavoprotein, thiamine pyrophosphate, rational protein design, aromatic hydrocarbons catabolism, thdp-dependent, mandelate pathway, metal-binding, decarboxylase, carboligation
Deposited on 2007-06-25, released 2008-01-22
The last revision prior to the SCOPe 2.08 freeze date was dated 2018-01-17, with a file datestamp of 2018-01-12.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: N/A
AEROSPACI score: 0.27 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Benzoylformate decarboxylase
    Species: Pseudomonas putida [TaxId:303]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20906
      • engineered mutation (460)
    Domains in SCOPe 2.08: d2v3wa1, d2v3wa2, d2v3wa3
  • Chain 'B':
    Compound: Benzoylformate decarboxylase
    Species: Pseudomonas putida [TaxId:303]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20906
      • engineered mutation (460)
    Domains in SCOPe 2.08: d2v3wb1, d2v3wb2, d2v3wb3
  • Chain 'C':
    Compound: Benzoylformate decarboxylase
    Species: Pseudomonas putida [TaxId:303]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20906
      • engineered mutation (460)
    Domains in SCOPe 2.08: d2v3wc1, d2v3wc2, d2v3wc3
  • Chain 'D':
    Compound: Benzoylformate decarboxylase
    Species: Pseudomonas putida [TaxId:303]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20906
      • engineered mutation (460)
    Domains in SCOPe 2.08: d2v3wd1, d2v3wd2, d2v3wd3
  • Heterogens: MG, SO4, TPP, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2v3wA (A:)
masvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqa
srkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlpr
plvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvs
ssvrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprc
pfptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtc
dpleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfd
tlndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeper
qviavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpg
idfralakgygvqalkadnleqlkgslqealsakgpvlievstvspvk

    Sequence, based on observed residues (ATOM records): (download) 
    >2v3wA (A:)
asvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqas
rkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlprp
lvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvss
svrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprcp
fptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtcd
pleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfdt
lndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeperq
viavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpgi
dfralakgygvqalkadnleqlkgslqealsakgpvlievstvspv

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2v3wB (B:)
masvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqa
srkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlpr
plvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvs
ssvrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprc
pfptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtc
dpleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfd
tlndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeper
qviavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpg
idfralakgygvqalkadnleqlkgslqealsakgpvlievstvspvk

    Sequence, based on observed residues (ATOM records): (download) 
    >2v3wB (B:)
asvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqas
rkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlprp
lvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvss
svrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprcp
fptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtcd
pleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfdt
lndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeperq
viavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpgi
dfralakgygvqalkadnleqlkgslqealsakgpvlievstvspv

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >2v3wC (C:)
masvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqa
srkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlpr
plvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvs
ssvrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprc
pfptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtc
dpleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfd
tlndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeper
qviavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpg
idfralakgygvqalkadnleqlkgslqealsakgpvlievstvspvk

    Sequence, based on observed residues (ATOM records): (download) 
    >2v3wC (C:)
asvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqas
rkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlprp
lvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvss
svrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprcp
fptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtcd
pleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfdt
lndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeperq
viavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpgi
dfralakgygvqalkadnleqlkgslqealsakgpvlievstvspv

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >2v3wD (D:)
masvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqa
srkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlpr
plvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvs
ssvrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprc
pfptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtc
dpleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfd
tlndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeper
qviavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpg
idfralakgygvqalkadnleqlkgslqealsakgpvlievstvspvk

    Sequence, based on observed residues (ATOM records): (download) 
    >2v3wD (D:)
asvhgttyellrrqgidtvfgnpgsnelpflkdfpedfryilalqeacvvgiadgyaqas
rkpafinlhsaagtgnamgalsnawnshsplivtagqqtramigvealltnvdaanlprp
lvkwsyepasaaevphamsraihmasmapqgpvylsvpyddwdkdadpqshhlfdrhvss
svrlndqdldilvkalnsasnpaivlgpdvdaananadcvmlaerlkapvwvapsaprcp
fptrhpcfrglmpagiaaisqlleghdvvlvigapvfryhqydpgqylkpgtrlisvtcd
pleaarapmgdaivadigamasalanlveessrqlptaapepakvdqdagrlhpetvfdt
lndmapenaiylneststtaqmwqrlnmrnpgsyyfcaagglgfalpaaigvqlaeperq
viavigdgsanysisalwtaaqyniptifvimnngtygaarwfagvleaenvpgldvpgi
dfralakgygvqalkadnleqlkgslqealsakgpvlievstvspv