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3W1P
Asym. Unit
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Asym.Unit (117 KB)
Biol.Unit 1 (112 KB)
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Title
:
CRYSTAL STRUCTURE OF TRYPANOSOMA CRUZI DIHYDROOROTATE DEHYDROGENASE IN COMPLEX WITH 5-ETHENYL-2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID
Authors
:
D. K. Inaoka, M. Iida, T. Tabuchi, N. Lee, S. Matsuoka, T. Shiba, K. Sakam S. Suzuki, E. O. Balogun, T. Nara, T. Aoki, M. Inoue, T. Honma, A. Tanaka S. Harada, K. Kita
Date
:
19 Nov 12 (Deposition) - 20 Nov 13 (Release) - 20 Nov 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Rossmann Fold, Oxidoreductase, Dihydroorotate/Orotate Binding, Cytosol, Oxidoreductase-Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. K. Inaoka, M. Iida, T. Tabuchi, N. Lee, S. Matsuoka, T. Shiba, K. Sakamoto, S. Suzuki, E. O. Balogun, T. Nara, T. Aoki, M. Inoue, T. Honma, A. Tanaka, S. Harada, K. Kita
Crystal Structure Of Trypanosoma Cruzi Dihydroorotate Dehydrogenase In Complex With 5-Ethenyl-2, 6-Dioxo-1, 2, 3, 6-Tetrahydropyrimidine-4- Carboxylic Acid
To Be Published
[
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Hetero Components
(4, 11)
Info
All Hetero Components
1a: 5-ETHENYL-2,6-DIOXO-1,2,3,6-TETRAH... (EROa)
1b: 5-ETHENYL-2,6-DIOXO-1,2,3,6-TETRAH... (EROb)
2a: FLAVIN MONONUCLEOTIDE (FMNa)
2b: FLAVIN MONONUCLEOTIDE (FMNb)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
4a: COBALT HEXAMMINE(III) (NCOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ERO
2
Ligand/Ion
5-ETHENYL-2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID
2
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
3
GOL
6
Ligand/Ion
GLYCEROL
4
NCO
1
Ligand/Ion
COBALT HEXAMMINE(III)
[
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Sites
(11, 11)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA A:18 , ALA A:19 , GLY A:20 , LYS A:43 , SER A:44 , ASN A:67 , MET A:69 , ASN A:127 , LYS A:164 , VAL A:193 , ASN A:194 , GLY A:221 , GLY A:222 , ILE A:225 , CYS A:248 , GLY A:249 , GLY A:250 , GLY A:271 , THR A:272 , ERO A:403 , HOH A:509 , HOH A:518 , HOH A:529 , HOH A:786
BINDING SITE FOR RESIDUE FMN A 401
02
AC2
SOFTWARE
GLN A:275 , GLU A:276 , HOH A:753 , GLN B:275 , GLU B:276 , GLY B:278
BINDING SITE FOR RESIDUE NCO A 402
03
AC3
SOFTWARE
LYS A:43 , SER A:44 , ASN A:67 , MET A:69 , GLY A:70 , LEU A:71 , ASN A:127 , CYS A:130 , ASN A:132 , ASN A:194 , SER A:195 , FMN A:401
BINDING SITE FOR RESIDUE ERO A 403
04
AC4
SOFTWARE
CYS A:31 , ALA A:34 , SER A:35 , HOH A:533 , CYS B:31 , ALA B:34 , SER B:35 , PRO B:279 , HOH B:679
BINDING SITE FOR RESIDUE GOL A 404
05
AC5
SOFTWARE
ILE A:171 , ARG A:239 , HOH A:576 , HOH A:604 , HOH A:761 , HOH A:785 , LYS B:214 , PHE B:217
BINDING SITE FOR RESIDUE GOL A 405
06
AC6
SOFTWARE
THR A:176 , HOH A:554 , LEU B:80 , ARG B:112 , HOH B:583
BINDING SITE FOR RESIDUE GOL A 406
07
AC7
SOFTWARE
ALA B:18 , ALA B:19 , GLY B:20 , LYS B:43 , SER B:44 , ASN B:67 , ASN B:127 , LYS B:164 , VAL B:193 , ASN B:194 , GLY B:221 , GLY B:222 , ILE B:225 , CYS B:248 , GLY B:249 , GLY B:250 , GLY B:271 , THR B:272 , ERO B:402 , HOH B:505 , HOH B:517 , HOH B:523 , HOH B:782
BINDING SITE FOR RESIDUE FMN B 401
08
AC8
SOFTWARE
LYS B:43 , SER B:44 , ASN B:67 , MET B:69 , GLY B:70 , LEU B:71 , ASN B:127 , CYS B:130 , ASN B:132 , ASN B:194 , SER B:195 , FMN B:401
BINDING SITE FOR RESIDUE ERO B 402
09
AC9
SOFTWARE
LYS A:214 , GLN A:215 , PHE A:217 , HOH A:544 , ILE B:171 , ARG B:239 , HOH B:559 , HOH B:584 , HOH B:670
BINDING SITE FOR RESIDUE GOL B 403
10
BC1
SOFTWARE
LEU A:80 , ARG A:112 , HOH A:530 , HOH A:566 , THR B:176 , HOH B:542
BINDING SITE FOR RESIDUE GOL B 404
11
BC2
SOFTWARE
LEU B:4 , ASN B:5 , GLU B:302 , ARG B:305 , HOH B:658 , HOH B:683 , HOH B:685 , HOH B:745
BINDING SITE FOR RESIDUE GOL B 405
[
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]
SAPs(SNPs)/Variants
(8, 16)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_PYRD_TRYCC_001 (M0T, chain A/B, )
2: VAR_PYRD_TRYCC_002 (C1R, chain A/B, )
3: VAR_PYRD_TRYCC_003 (F61V, chain A/B, )
4: VAR_PYRD_TRYCC_004 (S84I, chain A/B, )
5: VAR_PYRD_TRYCC_005 (L96V, chain A/B, )
6: VAR_PYRD_TRYCC_006 (L220I, chain A/B, )
7: VAR_PYRD_TRYCC_007 (T283R, chain A/B, )
8: VAR_PYRD_TRYCC_008 (R299K, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_PYRD_TRYCC_001
*
M
2
T
PYRD_TRYCC
---
---
A/B
M
0
T
2
UniProt
VAR_PYRD_TRYCC_002
*
C
3
R
PYRD_TRYCC
---
---
A/B
C
1
R
3
UniProt
VAR_PYRD_TRYCC_003
*
F
63
V
PYRD_TRYCC
---
---
A/B
F
61
V
4
UniProt
VAR_PYRD_TRYCC_004
*
S
86
I
PYRD_TRYCC
---
---
A/B
S
84
I
5
UniProt
VAR_PYRD_TRYCC_005
*
L
98
V
PYRD_TRYCC
---
---
A/B
L
96
V
6
UniProt
VAR_PYRD_TRYCC_006
*
L
222
I
PYRD_TRYCC
---
---
A/B
L
220
I
7
UniProt
VAR_PYRD_TRYCC_007
*
T
285
R
PYRD_TRYCC
---
---
A/B
T
283
R
8
UniProt
VAR_PYRD_TRYCC_008
*
R
301
K
PYRD_TRYCC
---
---
A/B
R
299
K
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Sorry, no Info available
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Exons
(0, 0)
Info
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All Exon Boundaries
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3w1pa_ (A:)
1b: SCOP_d3w1pb_ (B:)
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Protein Domains
(
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(
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Organisms
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(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
FMN-linked oxidoreductases
(290)
Family
:
FMN-linked oxidoreductases
(242)
Protein domain
:
Dihydroorotate dehydrogenase
(90)
Trypanosoma cruzi [TaxId: 353153]
(49)
1a
d3w1pa_
A:
1b
d3w1pb_
B:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
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