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1N8P
Asym. Unit
Info
Asym.Unit (252 KB)
Biol.Unit 1 (246 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CYSTATHIONINE GAMMA-LYASE FROM YEAST
Authors
:
A. Messerschmidt, M. Worbs, C. Steegborn, M. C. Wahl, R. Huber, T. Claus
Date
:
21 Nov 02 (Deposition) - 04 Dec 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Three Open Alpha/Beta Structures, Lyase
(Keyword Search:
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Reference
:
A. Messerschmidt, M. Worbs, C. Steegborn, M. C. Wahl, R. Huber, B. Laber, T. Clausen
Determinants Of Enzymatic Specificity In The Cys-Met-Metabolism Plp-Dependent Enzymes Family: Crystal Structure Of Cystathionine Gamma-Lyase From Yeast And Intrafamiliar Structural Comparison
Biol. Chem. V. 384 373 2003
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
1b: PYRIDOXAL-5'-PHOSPHATE (PLPb)
1c: PYRIDOXAL-5'-PHOSPHATE (PLPc)
1d: PYRIDOXAL-5'-PHOSPHATE (PLPd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
PLP
4
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:78 , GLY A:79 , SER A:80 , TYR A:103 , ASP A:178 , PHE A:181 , SER A:200 , THR A:202 , LYS A:203 , VAL A:212 , TYR B:49 , ARG B:51
BINDING SITE FOR RESIDUE PLP A 400
2
AC2
SOFTWARE
TYR A:49 , ARG A:51 , SER B:78 , GLY B:79 , SER B:80 , TYR B:103 , ASP B:178 , THR B:180 , PHE B:181 , SER B:200 , THR B:202 , LYS B:203 , HOH B:409
BINDING SITE FOR RESIDUE PLP B 400
3
AC3
SOFTWARE
SER C:78 , GLY C:79 , SER C:80 , TYR C:103 , ASP C:178 , PHE C:181 , SER C:200 , THR C:202 , LYS C:203 , TYR D:49 , ARG D:51
BINDING SITE FOR RESIDUE PLP C 400
4
AC4
SOFTWARE
TYR C:49 , SER D:78 , GLY D:79 , SER D:80 , TYR D:103 , GLU D:145 , ASP D:178 , PHE D:181 , SER D:200 , LYS D:203
BINDING SITE FOR RESIDUE PLP D 400
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: CYS_MET_METAB_PP (A:195-209,B:195-209,C:195-209,D:19...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYS_MET_METAB_PP
PS00868
Cys/Met metabolism enzymes pyridoxal-phosphate attachment site.
CYS3_YEAST
196-210
4
A:195-209
B:195-209
C:195-209
D:195-209
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Exons
(1, 4)
Info
All Exons
Exon 1.1 (A:1-393 | B:1-393 | C:1-393 | D:1-...)
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YAL012W
1
YAL012W.1
I:130802-131986
1185
CYS3_YEAST
1-394
394
4
A:1-393
B:1-393
C:1-393
D:1-393
393
393
393
393
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SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1n8pa_ (A:)
1b: SCOP_d1n8pb_ (B:)
1c: SCOP_d1n8pc_ (C:)
1d: SCOP_d1n8pd_ (D:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
Cystathionine synthase-like
(64)
Protein domain
:
Cystathionine gamma-lyase (CYS3)
(1)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(1)
1a
d1n8pa_
A:
1b
d1n8pb_
B:
1c
d1n8pc_
C:
1d
d1n8pd_
D:
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1n8pA01 (A:6-253)
1b: CATH_1n8pB01 (B:6-253)
1c: CATH_1n8pC01 (C:6-253)
1d: CATH_1n8pD01 (D:6-253)
2a: CATH_1n8pA02 (A:254-393)
2b: CATH_1n8pB02 (B:254-393)
2c: CATH_1n8pC02 (C:254-393)
2d: CATH_1n8pD02 (D:254-393)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aspartate Aminotransferase; domain 2
(384)
Homologous Superfamily
:
Type I PLP-dependent aspartate aminotransferase-like (Major domain)
(384)
Baker's yeast (Saccharomyces cerevisiae)
(2)
1a
1n8pA01
A:6-253
1b
1n8pB01
B:6-253
1c
1n8pC01
C:6-253
1d
1n8pD01
D:6-253
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aspartate Aminotransferase, domain 1
(355)
Homologous Superfamily
:
Aspartate Aminotransferase, domain 1
(354)
Baker's yeast (Saccharomyces cerevisiae)
(2)
2a
1n8pA02
A:254-393
2b
1n8pB02
B:254-393
2c
1n8pC02
C:254-393
2d
1n8pD02
D:254-393
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Cys_Met_Meta_PP_1n8pD01 (D:9-389)
1b: PFAM_Cys_Met_Meta_PP_1n8pD02 (D:9-389)
1c: PFAM_Cys_Met_Meta_PP_1n8pD03 (D:9-389)
1d: PFAM_Cys_Met_Meta_PP_1n8pD04 (D:9-389)
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Clan
:
PLP_aminotran
(240)
Family
:
Cys_Met_Meta_PP
(15)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(1)
1a
Cys_Met_Meta_PP-1n8pD01
D:9-389
1b
Cys_Met_Meta_PP-1n8pD02
D:9-389
1c
Cys_Met_Meta_PP-1n8pD03
D:9-389
1d
Cys_Met_Meta_PP-1n8pD04
D:9-389
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