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2E6F
Asym. Unit
Info
Asym.Unit (119 KB)
Biol.Unit 1 (114 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF TRYPANOSOMA CRUZI DIHYDROOROTATE DEHYDROGENASE IN COMPLEX WITH OXONATE
Authors
:
D. K. Inaoka, H. Shimizu, K. Sakamoto, T. Shiba, G. Kurisu, T. Nara, T. Ao S. Harada, K. Kita
Date
:
26 Dec 06 (Deposition) - 15 Jan 08 (Release) - 16 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.26
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Chagas Disease, Pyrimidine Biosynthesis, Dihydroorotate Dehydrogenase, Fumarate Reductase, Energy Metabolism, Redox Homeostasis, Flavoprotein, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. K. Inaoka, H. Shimizu, K. Sakamoto, T. Shiba, G. Kurisu, T. Nara, T. Aoki, S. Harada, K. Kita
Crystal Structure Of Trypanosoma Cruzi Dihydroorotate Dehydrogenase In Complex With Oxonate
To Be Published
[
close entry info
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Hetero Components
(4, 10)
Info
All Hetero Components
1a: FLAVIN MONONUCLEOTIDE (FMNa)
1b: FLAVIN MONONUCLEOTIDE (FMNb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
3a: COBALT HEXAMMINE(III) (NCOa)
4a: OXONIC ACID (OXCa)
4b: OXONIC ACID (OXCb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
2
GOL
5
Ligand/Ion
GLYCEROL
3
NCO
1
Ligand/Ion
COBALT HEXAMMINE(III)
4
OXC
2
Ligand/Ion
OXONIC ACID
[
close Hetero Component info
]
Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:275 , GLU A:276 , GLY A:278 , HOH A:1366 , HOH A:1548 , HOH A:1695 , GLN B:275 , GLU B:276 , GLY B:278 , HOH B:2550
BINDING SITE FOR RESIDUE NCO A 1351
02
AC2
SOFTWARE
ALA A:18 , ALA A:19 , GLY A:20 , LYS A:43 , SER A:44 , ASN A:67 , 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 , OXC A:1352 , HOH A:1378 , HOH A:1417 , HOH A:1418
BINDING SITE FOR RESIDUE FMN A 1350
03
AC3
SOFTWARE
LYS A:43 , ASN A:67 , MET A:69 , GLY A:70 , LEU A:71 , ASN A:127 , CYS A:130 , PRO A:131 , ASN A:132 , ASN A:194 , SER A:195 , FMN A:1350
BINDING SITE FOR RESIDUE OXC A 1352
04
AC4
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 , OXC B:2352 , HOH B:2367 , HOH B:2376 , HOH B:2413
BINDING SITE FOR RESIDUE FMN B 2350
05
AC5
SOFTWARE
LYS B:43 , ASN B:67 , MET B:69 , GLY B:70 , LEU B:71 , ASN B:127 , CYS B:130 , PRO B:131 , ASN B:132 , ASN B:194 , SER B:195 , FMN B:2350
BINDING SITE FOR RESIDUE OXC B 2352
06
AC6
SOFTWARE
CYS A:31 , ALA A:34 , SER A:35 , HOH A:1615 , HOH A:1648 , CYS B:31 , ALA B:34 , SER B:35
BINDING SITE FOR RESIDUE GOL A 1361
07
AC7
SOFTWARE
ILE A:171 , ARG A:239 , HOH A:1481 , HOH A:1570 , HOH A:1737 , LYS B:214 , GLN B:215 , PHE B:217 , HOH B:2608
BINDING SITE FOR RESIDUE GOL A 1362
08
AC8
SOFTWARE
LYS A:214 , GLN A:215 , PHE A:217 , HOH A:1422 , HOH A:1445 , HOH A:1724 , HOH A:1725 , ILE B:171 , ARG B:239
BINDING SITE FOR RESIDUE GOL A 1363
09
AC9
SOFTWARE
THR A:176 , LEU B:80 , ARG B:112 , HOH B:2384 , HOH B:2450
BINDING SITE FOR RESIDUE GOL A 1364
10
BC1
SOFTWARE
LEU A:80 , ARG A:112 , HOH A:1403 , HOH A:1489 , ASP B:175 , THR B:176 , HOH B:2420
BINDING SITE FOR RESIDUE GOL B 1365
[
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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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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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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_d2e6fa_ (A:)
1b: SCOP_d2e6fb_ (B:)
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(
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(
)
Protein Domains
(
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(
)
Organisms
(
)
(
)
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
:
automated matches
(40)
Trypanosoma cruzi [TaxId: 5693]
(7)
1a
d2e6fa_
A:
1b
d2e6fb_
B:
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2e6fA01 (A:0-52,A:71-195,A:222-311)
1b: CATH_2e6fB01 (B:0-52,B:71-195,B:222-311)
2a: CATH_2e6fA02 (A:53-70,A:196-221)
2b: CATH_2e6fB02 (B:53-70,B:196-221)
View:
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(
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(
)
Topologies
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Trypanosoma cruzi. Organism_taxid: 5693. Strain: talahuen.
(4)
1a
2e6fA01
A:0-52,A:71-195,A:222-311
1b
2e6fB01
B:0-52,B:71-195,B:222-311
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Dihydroorotate Dehydrogenase A; chain A, domain 2
(22)
Homologous Superfamily
:
Dihydroorotate Dehydrogenase A, chain A, domain 2
(22)
Trypanosoma cruzi. Organism_taxid: 5693. Strain: talahuen.
(4)
2a
2e6fA02
A:53-70,A:196-221
2b
2e6fB02
B:53-70,B:196-221
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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