SCOPe 2.08: Structural Classification of Proteins

PDB entry 2w93

View 2w93 on RCSB PDB site
Description: Crystal structure of the Saccharomyces cerevisiae pyruvate decarboxylase variant E477Q in complex with the surrogate pyruvamide
Class: lyase
Keywords: substrate activation, substrate regulation, lyase, nucleus, cytoplasm, magnesium, acetylation, phosphoprotein, allosteric enzyme, thiamine pyrophosphate, phenylalanine catabolism, tryptophan catabolism, pyruvate decarboxylase, branched-chain amino acid catabolism, metal-binding, thiohemiketal, decarboxylase
Deposited on 2009-01-21, released 2009-02-03
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-07-24, with a file datestamp of 2019-07-19.
Experiment type: XRAY
Resolution: 1.6 Å
R-factor: N/A
AEROSPACI score: 0.44 (click here for full SPACI score report)

Chains and heterogens:

Chain 'A':
Compound: pyruvate decarboxylase isozyme 1
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P06169
  - conflict (105)
  - conflict (335)
  - engineered mutation (476)
  - conflict (537)
Domains in SCOPe 2.08: d2w93a1, d2w93a2, d2w93a3
Chain 'B':
Compound: pyruvate decarboxylase isozyme 1
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P06169 (Start-562)
  - conflict (105)
  - conflict (335)
  - engineered mutation (476)
  - conflict (537)
Domains in SCOPe 2.08: d2w93b1, d2w93b2, d2w93b3
Chain 'C':
Compound: pyruvate decarboxylase isozyme 1
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P06169
  - conflict (105)
  - conflict (335)
  - engineered mutation (476)
  - conflict (537)
Domains in SCOPe 2.08: d2w93c1, d2w93c2, d2w93c3
Chain 'D':
Compound: pyruvate decarboxylase isozyme 1
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P06169 (Start-562)
  - conflict (105)
  - conflict (335)
  - engineered mutation (476)
  - conflict (537)
Domains in SCOPe 2.08: d2w93d1, d2w93d2, d2w93d3
Heterogens: TPP, MG, PY0, HOH

PDB Chain Sequences:

Chain 'A':
Sequence, based on SEQRES records: (download)

>2w93A (A:)
mseitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadg
yarikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgng
dftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakl
lqtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqf
pafvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsys
yktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavp
astplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttg
atlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqkli
hgpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievml
pvfdapqnlveqakltaatnakq

Sequence, based on observed residues (ATOM records): (download)

>2w93A (A:)
seitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadgy
arikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgngd
ftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakll
qtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqfp
afvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgaltknivefhsdhmk
irnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavpastplkqewmwnqlg
nflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttgatlgaafaaeeidpk
krvilfigdgslqltvqeistmirwglkpylfvlnndgytiqklihgpkaqyneiqgwdh
lsllptfgakdyethrvattgewdkltqdksfndnskirmievmlpvfdapqnlveqakl
taat

Chain 'B':
Sequence, based on SEQRES records: (download)

>2w93B (B:)
mseitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadg
yarikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgng
dftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakl
lqtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqf
pafvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsys
yktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavp
astplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttg
atlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqkli
hgpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievml
pvfdapqnlveqakltaatnakq

Sequence, based on observed residues (ATOM records): (download)

>2w93B (B:)
seitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadgy
arikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgngd
ftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakll
qtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqfp
afvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsysy
ktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavpa
stplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttga
tlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqklih
gpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievmlp
vfdapqnlveqakltaatnakq

Chain 'C':
Sequence, based on SEQRES records: (download)

>2w93C (C:)
mseitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadg
yarikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgng
dftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakl
lqtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqf
pafvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsys
yktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavp
astplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttg
atlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqkli
hgpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievml
pvfdapqnlveqakltaatnakq

Sequence, based on observed residues (ATOM records): (download)

>2w93C (C:)
seitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadgy
arikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgngd
ftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakll
qtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqfp
afvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsysy
ktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavpa
stplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttga
tlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqklih
gpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievmlp
vfdapqnlveqakltaa

Chain 'D':
Sequence, based on SEQRES records: (download)

>2w93D (D:)
mseitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadg
yarikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgng
dftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakl
lqtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqf
pafvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsys
yktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavp
astplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttg
atlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqkli
hgpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievml
pvfdapqnlveqakltaatnakq

Sequence, based on observed residues (ATOM records): (download)

>2w93D (D:)
seitlgkylferlkqvnvntvfglpgdfnlslldkiyevegmrwagnanelnaayaadgy
arikgmsciittfgvgelsalngiagsyaehvgvlhvvgvpsissqakqlllhhtlgngd
ftvfhrmsanisettamitdiatapaeidrcirttyvtqrpvylglpanlvdlnvpakll
qtpidmslkpndaesekevidtilalvkdaknpviladaccsrhdvkaetkklidltqfp
afvtpmgkgsideqhpryggvyvgtlskpevkeavesadlilsvgallsdfntgsfsysy
ktknivefhsdhmkirnatfpgvqmkfvlqklltniadaakgykpvavpartpanaavpa
stplkqewmwnqlgnflqegdvviaetgtsafginqttfpnntygisqvlwgsigfttga
tlgaafaaeeidpkkrvilfigdgslqltvqeistmirwglkpylfvlnndgytiqklih
gpkaqyneiqgwdhlsllptfgakdyethrvattgewdkltqdksfndnskirmievmlp
vfdapqnlveqakltaatnakq