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Asym. Unit
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Asym.Unit (715 KB)
Biol.Unit 1 (358 KB)
Biol.Unit 2 (352 KB)
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(1)
Title
:
1-DEOXY-D-XYLULOSE 5-PHOSPHATE SYNTHASE (DXS) FROM DEINOCOCCUS RADIODURANS
Authors
:
S. Xiang, G. Usunow, G. Lange, M. Busch, L. Tong
Date
:
29 Nov 06 (Deposition) - 26 Dec 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Thiamin, Isoprenoid, Dxs, 1-Deoxy-D-Xylulose-5-Phosphate, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Xiang, G. Usunow, G. Lange, M. Busch, L. Tong
Crystal Structure Of 1-Deoxy-D-Xylulose 5-Phosphate Synthase, A Crucial Enzyme For Isoprenoids Biosynthesis.
J. Biol. Chem. V. 282 2676 2007
(for further references see the
PDB file header
)
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
2a: THIAMIN DIPHOSPHATE (TDPa)
2b: THIAMIN DIPHOSPHATE (TDPb)
2c: THIAMIN DIPHOSPHATE (TDPc)
2d: THIAMIN DIPHOSPHATE (TDPd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
MG
4
Ligand/Ion
MAGNESIUM ION
2
TDP
4
Ligand/Ion
THIAMIN DIPHOSPHATE
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:154 , ASN A:181 , ASN A:183 , MET A:185 , TDP A:1001
BINDING SITE FOR RESIDUE MG A 2001
2
AC2
SOFTWARE
ASP B:154 , ASN B:183 , MET B:185 , TDP B:1002
BINDING SITE FOR RESIDUE MG B 2002
3
AC3
SOFTWARE
ASP C:154 , ASN C:183 , MET C:185 , TDP C:1003
BINDING SITE FOR RESIDUE MG C 2003
4
AC4
SOFTWARE
ASP D:154 , ASN D:183 , MET D:185 , TDP D:1004
BINDING SITE FOR RESIDUE MG D 2004
5
AC5
SOFTWARE
SER A:54 , HIS A:82 , GLY A:123 , HIS A:124 , ALA A:125 , GLY A:153 , ASP A:154 , GLY A:155 , SER A:156 , ASN A:183 , MET A:185 , SER A:186 , ILE A:187 , LYS A:289 , MET A:349 , ILE A:371 , GLU A:373 , PHE A:398 , MG A:2001
BINDING SITE FOR RESIDUE TDP A 1001
6
AC6
SOFTWARE
SER B:54 , HIS B:82 , GLY B:123 , HIS B:124 , ALA B:125 , GLY B:153 , ASP B:154 , GLY B:155 , SER B:156 , ASN B:183 , MET B:185 , SER B:186 , ILE B:187 , LYS B:289 , MET B:349 , ILE B:371 , GLU B:373 , PHE B:398 , ARG B:401 , MG B:2002
BINDING SITE FOR RESIDUE TDP B 1002
7
AC7
SOFTWARE
SER C:54 , HIS C:82 , GLY C:123 , HIS C:124 , ALA C:125 , GLY C:153 , ASP C:154 , GLY C:155 , SER C:156 , ASN C:183 , SER C:186 , ILE C:371 , GLU C:373 , PHE C:398 , ARG C:401 , MG C:2003
BINDING SITE FOR RESIDUE TDP C 1003
8
AC8
SOFTWARE
SER D:54 , HIS D:82 , GLY D:123 , HIS D:124 , ALA D:125 , GLY D:153 , ASP D:154 , GLY D:155 , SER D:156 , ASN D:183 , MET D:185 , ILE D:187 , LYS D:289 , ILE D:371 , GLU D:373 , PHE D:398 , ARG D:401 , MG D:2004
BINDING SITE FOR RESIDUE TDP D 1004
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: TRANSKETOLASE_2 (A:428-444,B:428-444,C:428-444,D:42...)
;
View:
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRANSKETOLASE_2
PS00802
Transketolase signature 2.
DXS_DEIRA
428-444
4
A:428-444
B:428-444
C:428-444
D:428-444
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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all CATH domains
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Pfam Domains
(3, 12)
Info
all PFAM domains
1a: PFAM_DXP_synthase_N_2o1xD01 (D:17-287)
1b: PFAM_DXP_synthase_N_2o1xD02 (D:17-287)
1c: PFAM_DXP_synthase_N_2o1xD03 (D:17-287)
1d: PFAM_DXP_synthase_N_2o1xD04 (D:17-287)
2a: PFAM_Transket_pyr_2o1xD05 (D:321-486)
2b: PFAM_Transket_pyr_2o1xD06 (D:321-486)
2c: PFAM_Transket_pyr_2o1xD07 (D:321-486)
2d: PFAM_Transket_pyr_2o1xD08 (D:321-486)
3a: PFAM_Transketolase_C_2o1xD09 (D:497-614)
3b: PFAM_Transketolase_C_2o1xD10 (D:497-614)
3c: PFAM_Transketolase_C_2o1xD11 (D:497-614)
3d: PFAM_Transketolase_C_2o1xD12 (D:497-614)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
THDP-binding
(106)
Family
:
DXP_synthase_N
(2)
Deinococcus radiodurans
(1)
1a
DXP_synthase_N-2o1xD01
D:17-287
1b
DXP_synthase_N-2o1xD02
D:17-287
1c
DXP_synthase_N-2o1xD03
D:17-287
1d
DXP_synthase_N-2o1xD04
D:17-287
Family
:
Transket_pyr
(45)
Deinococcus radiodurans
(1)
2a
Transket_pyr-2o1xD05
D:321-486
2b
Transket_pyr-2o1xD06
D:321-486
2c
Transket_pyr-2o1xD07
D:321-486
2d
Transket_pyr-2o1xD08
D:321-486
Clan
:
no clan defined [family: Transketolase_C]
(40)
Family
:
Transketolase_C
(40)
Deinococcus radiodurans
(1)
3a
Transketolase_C-2o1xD09
D:497-614
3b
Transketolase_C-2o1xD10
D:497-614
3c
Transketolase_C-2o1xD11
D:497-614
3d
Transketolase_C-2o1xD12
D:497-614
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Asymmetric Unit 1
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Asym.Unit (715 KB)
Header - Asym.Unit
Biol.Unit 1 (358 KB)
Header - Biol.Unit 1
Biol.Unit 2 (352 KB)
Header - Biol.Unit 2
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