SCOPe 2.08: Structural Classification of Proteins

PDB entry 1y2m

View 1y2m on RCSB PDB site
Description: Crystal structure of phenylalanine ammonia-lyase from yeast Rhododporidium toruloides
Class: lyase
Keywords: Alpha helices, LYASE
Deposited on 2004-11-22, released 2005-11-01
The last revision prior to the SCOPe 2.08 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 1.6 Å
R-factor: 0.159
AEROSPACI score: 0.61 (click here for full SPACI score report)

Chains and heterogens:

Chain 'A':
Compound: phenylalanine ammonia-lyase
Species: Rhodosporidium toruloides [TaxId:5286]
Database cross-references and differences (RAF-indexed):
- Uniprot P11544
  - modified residue (50)
  - modified residue (168)
  - modified residue (249)
  - modified residue (277)
  - modified residue (287)
  - modified residue (298)
  - modified residue (303)
  - modified residue (421)
  - modified residue (442)
  - modified residue (447)
  - modified residue (496)
  - modified residue (563)
  - modified residue (713)
Domains in SCOPe 2.08: d1y2ma_
Chain 'B':
Compound: phenylalanine ammonia-lyase
Species: Rhodosporidium toruloides [TaxId:5286]
Database cross-references and differences (RAF-indexed):
- Uniprot P11544 (Start-715)
  - modified residue (50)
  - modified residue (106)
  - modified residue (168)
  - modified residue (249)
  - modified residue (277)
  - modified residue (287)
  - modified residue (298)
  - modified residue (303)
  - modified residue (421)
  - modified residue (442)
  - modified residue (447)
  - modified residue (496)
  - modified residue (563)
  - modified residue (713)
Domains in SCOPe 2.08: d1y2mb_
Chain 'C':
Compound: phenylalanine ammonia-lyase
Species: Rhodosporidium toruloides [TaxId:5286]
Database cross-references and differences (RAF-indexed):
- Uniprot P11544 (Start-715)
  - modified residue (50)
  - modified residue (168)
  - modified residue (249)
  - modified residue (277)
  - modified residue (287)
  - modified residue (298)
  - modified residue (303)
  - modified residue (421)
  - modified residue (442)
  - modified residue (447)
  - modified residue (496)
  - modified residue (563)
  - modified residue (713)
Domains in SCOPe 2.08: d1y2mc_
Chain 'D':
Compound: phenylalanine ammonia-lyase
Species: Rhodosporidium toruloides [TaxId:5286]
Database cross-references and differences (RAF-indexed):
- Uniprot P11544 (Start-715)
  - modified residue (50)
  - modified residue (168)
  - modified residue (249)
  - modified residue (277)
  - modified residue (287)
  - modified residue (298)
  - modified residue (303)
  - modified residue (421)
  - modified residue (442)
  - modified residue (447)
  - modified residue (496)
  - modified residue (563)
  - modified residue (713)
Domains in SCOPe 2.08: d1y2md_
Heterogens: HOH

PDB Chain Sequences:

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

>1y2mA (A:)
mapsldsishsfangvasakqavngastnlavagshlpttqvtqvdivekmlaaptdstl
eldgyslnlgdvvsaarkgrpvrvkdsdeirskidksveflrsqlsmsvygvttgfggsa
dtrtedaislqkallehqlcgvlpssfdsfrlgrglenslplevvrgamtirvnsltrgh
savrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaaisghpdskvhvvhegk
ekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhdahmlsllsqsltamt
veamvghagsfhpflhdvtrphptqievagnirkllegsrfavhheeevkvkddegilrq
dryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhggnfqaaavan
tmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgldiaaaaytse
lghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlycvlqaidlrai
efefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtnsydlvprwhda
fsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaastsspalsylsp
rtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnvllkmla

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

>1y2mA (A:)
astnlavagshlpttqvtqvdivekmlaaptdstleldgyslnlgdvvsaarkgrpvrvk
dsdeirskidksveflrtedaislqkallehqlcgvlpssfdsfrlgrglenslplevvr
gamtirvnsltrghsavrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaais
ghpdskvhvvhegkekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhda
hmlsllsqsltamtveamvghagsfhpflhdvtrphptqievagnirkllegsrfavhhe
eevdegilrqdryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhg
gnfqaaavantmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgl
diaaaaytselghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlyc
vlqaidlraiefefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtns
ydlvprwhdafsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaast
sspalsylsprtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnv
llkml

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

>1y2mB (B:)
mapsldsishsfangvasakqavngastnlavagshlpttqvtqvdivekmlaaptdstl
eldgyslnlgdvvsaarkgrpvrvkdsdeirskidksveflrsqlsmsvygvttgfggsa
dtrtedaislqkallehqlcgvlpssfdsfrlgrglenslplevvrgamtirvnsltrgh
savrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaaisghpdskvhvvhegk
ekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhdahmlsllsqsltamt
veamvghagsfhpflhdvtrphptqievagnirkllegsrfavhheeevkvkddegilrq
dryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhggnfqaaavan
tmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgldiaaaaytse
lghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlycvlqaidlrai
efefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtnsydlvprwhda
fsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaastsspalsylsp
rtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnvllkmla

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

>1y2mB (B:)
astnlavagttqvtqvdivekmlaaptdstleldgyslnlgdvvsaarkgrpvrvkdsde
irskidksveflrsqlsmstedaislqkallehqlcgvlpssfdsfrlgrglenslplev
vrgamtirvnsltrghsavrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaa
isghpdskvhvvhegkekilyareamalfnlepvvlgpkeglglvngtavsasmatlalh
dahmlsllsqsltamtveamvghagsfhpflhdvtrphptqievagnirkllegsrfavh
heeevkdegilrqdryplrtspqwlgplvsdlihahavltieagqsttdnplidvenkts
hhggnfqaaavantmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhc
kgldiaaaaytselghlanpvtthvqpaemanqavnslalisarrttesndvlslllath
lycvlqaidlraiefefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleq
tnsydlvprwhdafsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsa
astsspalsylsprtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgri
nnvllkmla

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

>1y2mC (C:)
mapsldsishsfangvasakqavngastnlavagshlpttqvtqvdivekmlaaptdstl
eldgyslnlgdvvsaarkgrpvrvkdsdeirskidksveflrsqlsmsvygvttgfggsa
dtrtedaislqkallehqlcgvlpssfdsfrlgrglenslplevvrgamtirvnsltrgh
savrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaaisghpdskvhvvhegk
ekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhdahmlsllsqsltamt
veamvghagsfhpflhdvtrphptqievagnirkllegsrfavhheeevkvkddegilrq
dryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhggnfqaaavan
tmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgldiaaaaytse
lghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlycvlqaidlrai
efefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtnsydlvprwhda
fsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaastsspalsylsp
rtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnvllkmla

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

>1y2mC (C:)
astnlavagshlpttqvtqvdivekmlaaptdstleldgyslnlgdvvsaarkgrpvrvk
dsdeirskidksveflrsedaislqkallehqlcgvlpssfdsfrlgrglenslplevvr
gamtirvnsltrghsavrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaais
ghpdskvhvvhegkekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhda
hmlsllsqsltamtveamvghagsfhpflhdvtrphptqievagnirkllegsrfavhhe
edegilrqdryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhggn
fqaaavantmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgldi
aaaaytselghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlycvl
qaidlraiefefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtnsyd
lvprwhdafsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaastss
palsylsprtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnvll
kmla

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

>1y2mD (D:)
mapsldsishsfangvasakqavngastnlavagshlpttqvtqvdivekmlaaptdstl
eldgyslnlgdvvsaarkgrpvrvkdsdeirskidksveflrsqlsmsvygvttgfggsa
dtrtedaislqkallehqlcgvlpssfdsfrlgrglenslplevvrgamtirvnsltrgh
savrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaaisghpdskvhvvhegk
ekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhdahmlsllsqsltamt
veamvghagsfhpflhdvtrphptqievagnirkllegsrfavhheeevkvkddegilrq
dryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhggnfqaaavan
tmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgldiaaaaytse
lghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlycvlqaidlrai
efefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtnsydlvprwhda
fsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaastsspalsylsp
rtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnvllkmla

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

>1y2mD (D:)
astnlavttqvtqvdivekmlaaptdstleldgyslnlgdvvsaarkgrpvrvkdsdeir
skidksveflrstedaislqkallehqlcgvlpssfdsfrlgrglenslplevvrgamti
rvnsltrghsavrlvvlealtnflnhgitpivplrgtisasgdlsplsyiaaaisghpds
kvhvvhegkekilyareamalfnlepvvlgpkeglglvngtavsasmatlalhdahmlsl
lsqsltamtveamvghagsfhpflhdvtrphptqievagnirkllegsrfavhheeevde
gilrqdryplrtspqwlgplvsdlihahavltieagqsttdnplidvenktshhggnfqa
aavantmektrlglaqigklnftqltemlnagmnrglpsclaaedpslsyhckgldiaaa
aytselghlanpvtthvqpaemanqavnslalisarrttesndvlslllathlycvlqai
dlraiefefkkqfgpaivslidqhfgsamtgsnlrdelvekvnktlakrleqtnsydlvp
rwhdafsfaagtvvevlsstslslaavnawkvaaaesaisltrqvretfwsaastsspal
sylsprtqilyafvreelgvkarrgdvflgkqevtigsnvskiyeaiksgrinnvllkml
a