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2XMD
Biol. Unit 1
Info
Asym.Unit (197 KB)
Biol.Unit 1, α-C (1.4 MB)
Biol.Unit 1 (1.4 MB)
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(1)
Title
:
G117H MUTANT OF HUMAN BUTYRYLCHOLINESTERASE IN COMPLEX WITH ECHOTHIOPHATE
Authors
:
F. Nachon, E. Carletti, M. Wandhammer, Y. Nicolet, L. M. Schopfer, P. Ma O. Lockridge
Date
:
27 Jul 10 (Deposition) - 01 Dec 10 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A
Biol. Unit 1: A (8x)
Keywords
:
Glycoprotein, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Nachon, E. Carletti, M. Wandhammer, Y. Nicolet, L. M. Schopfer, P. Masson, O. Lockridge
X-Ray Crystallographic Snapshots Of Reaction Intermediates In The G117H Mutant Of Human Butyrylcholinesterase, A Nerve Agent Target Engineered Into A Catalytic Bioscavenge
Biochem. J. V. 434 73 2011
[
close entry info
]
Hetero Components
(6, 280)
Info
All Hetero Components
1a: BROMIDE ION (BRa)
2a: CALCIUM ION (CAa)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
3c: CHLORIDE ION (CLc)
3d: CHLORIDE ION (CLd)
4a: DIETHYL PHOSPHONATE (DEPa)
5a: ALPHA-L-FUCOSE (FUCa)
6a: BETA-L-FUCOSE (FULa)
6b: BETA-L-FUCOSE (FULb)
8a: N-ACETYL-D-GLUCOSAMINE (NAGa)
8b: N-ACETYL-D-GLUCOSAMINE (NAGb)
8c: N-ACETYL-D-GLUCOSAMINE (NAGc)
8d: N-ACETYL-D-GLUCOSAMINE (NAGd)
8e: N-ACETYL-D-GLUCOSAMINE (NAGe)
8f: N-ACETYL-D-GLUCOSAMINE (NAGf)
8g: N-ACETYL-D-GLUCOSAMINE (NAGg)
8h: N-ACETYL-D-GLUCOSAMINE (NAGh)
8i: N-ACETYL-D-GLUCOSAMINE (NAGi)
7a: SODIUM ION (NAa)
7b: SODIUM ION (NAb)
9a: SULFATE ION (SO4a)
10a: UNKNOWN ATOM OR ION (UNXa)
10b: UNKNOWN ATOM OR ION (UNXb)
10c: UNKNOWN ATOM OR ION (UNXc)
10d: UNKNOWN ATOM OR ION (UNXd)
10e: UNKNOWN ATOM OR ION (UNXe)
10f: UNKNOWN ATOM OR ION (UNXf)
10g: UNKNOWN ATOM OR ION (UNXg)
10h: UNKNOWN ATOM OR ION (UNXh)
10i: UNKNOWN ATOM OR ION (UNXi)
10j: UNKNOWN ATOM OR ION (UNXj)
10k: UNKNOWN ATOM OR ION (UNXk)
10l: UNKNOWN ATOM OR ION (UNXl)
10m: UNKNOWN ATOM OR ION (UNXm)
10n: UNKNOWN ATOM OR ION (UNXn)
10o: UNKNOWN ATOM OR ION (UNXo)
10p: UNKNOWN ATOM OR ION (UNXp)
10q: UNKNOWN ATOM OR ION (UNXq)
10r: UNKNOWN ATOM OR ION (UNXr)
10s: UNKNOWN ATOM OR ION (UNXs)
10t: UNKNOWN ATOM OR ION (UNXt)
10u: UNKNOWN ATOM OR ION (UNXu)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BR
-1
Ligand/Ion
BROMIDE ION
2
CA
-1
Ligand/Ion
CALCIUM ION
3
CL
-1
Ligand/Ion
CHLORIDE ION
4
DEP
8
Ligand/Ion
DIETHYL PHOSPHONATE
5
FUC
8
Ligand/Ion
ALPHA-L-FUCOSE
6
FUL
16
Ligand/Ion
BETA-L-FUCOSE
7
NA
-1
Ligand/Ion
SODIUM ION
8
NAG
72
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
9
SO4
8
Ligand/Ion
SULFATE ION
10
UNX
168
Ligand/Ion
UNKNOWN ATOM OR ION
[
close Hetero Component info
]
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
GLY A:116 , HIS A:117 , SER A:198 , ALA A:199 , TRP A:231 , HIS A:438 , HOH A:2113
BINDING SITE FOR RESIDUE DEP A1530
02
AC2
SOFTWARE
GLN A:316 , GLY A:413 , ASN A:414 , ASN A:415 , HOH A:2276
BINDING SITE FOR RESIDUE SO4 A1531
03
AC3
SOFTWARE
CYS A:400 , PRO A:401 , THR A:523 , HOH A:2194
BINDING SITE FOR RESIDUE CL A1533
04
AC4
SOFTWARE
TYR A:420 , HOH A:2272
BINDING SITE FOR RESIDUE CL A1534
05
AC5
SOFTWARE
LEU A:236
BINDING SITE FOR RESIDUE BR A1535
06
AC6
SOFTWARE
ASN A:57 , HOH A:2280
BINDING SITE FOR RESIDUE NAG A1560
07
AC7
SOFTWARE
ARG A:465 , LYS A:469 , ASN A:485 , HOH A:2281 , HOH A:2282
BINDING SITE FOR RESIDUE NAG A1561
08
AC8
SOFTWARE
ASN A:256 , HOH A:2283
BINDING SITE FOR RESIDUE NAG A1562
09
AC9
SOFTWARE
ASN A:106 , ASN A:188 , LYS A:190 , SER A:191 , ARG A:219 , LYS A:476 , HOH A:2232 , HOH A:2278 , HOH A:2279
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 106 RESIDUES 1557 TO 1559
10
BC1
SOFTWARE
ASN A:241 , ASN A:245 , LYS A:248 , PHE A:278 , VAL A:280 , PRO A:281 , HOH A:2284
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 241 RESIDUES 1563 TO 1565
11
BC2
SOFTWARE
SER A:338 , ASN A:341 , ASN A:342
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 341 RESIDUES 1554 TO 1556
[
close Site info
]
SAPs(SNPs)/Variants
(42, 336)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_072094 (K12R, chain A, )
02: VAR_040012 (T24M, chain A, )
03: VAR_040013 (F28I, chain A, )
04: VAR_040014 (Y33C, chain A, )
05: VAR_072730 (A34V, chain A, )
06: VAR_040015 (P37S, chain A, )
07: VAR_002360 (D70G, chain A, )
08: VAR_040016 (D70H, chain A, )
09: VAR_072095 (G75R, chain A, )
10: VAR_072096 (E90D, chain A, )
11: VAR_040017 (N96Y, chain A, )
12: VAR_072097 (I99M, chain A, )
13: VAR_040018 (P100S, chain A, )
14: VAR_040019 (G115D, chain A, )
15: VAR_040020 (L125F, chain A, )
16: VAR_040021 (Y128C, chain A, )
17: VAR_040022 (V142M, chain A, )
18: VAR_040023 (D170E, chain A, )
19: VAR_040024 (S198G, chain A, )
20: VAR_040025 (A199V, chain A, )
21: VAR_040026 (A201T, chain A, )
22: VAR_072098 (V204D, chain A, )
23: VAR_040027 (T243M, chain A, )
24: VAR_040028 (T250P, chain A, )
25: VAR_040029 (E255D, chain A, )
26: VAR_040030 (K267R, chain A, )
27: VAR_072099 (V294M, chain A, )
28: VAR_040031 (L307P, chain A, )
29: VAR_040032 (A328D, chain A, )
30: VAR_002362 (L330I, chain A, )
31: VAR_072100 (G333C, chain A, )
32: VAR_040033 (G365R, chain A, )
33: VAR_040034 (R386C, chain A, )
34: VAR_040035 (G390V, chain A, )
35: VAR_040036 (F418S, chain A, )
36: VAR_040037 (E460K, chain A, )
37: VAR_072101 (R470W, chain A, )
38: VAR_040038 (W471R, chain A, )
39: VAR_040039 (F474L, chain A, )
40: VAR_040040 (E497V, chain A, )
41: VAR_040041 (R515C, chain A, )
42: VAR_040042 (Q518L, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_072094
K
40
R
CHLE_HUMAN
Polymorphism
116047990
A
K
12
R
02
UniProt
VAR_040012
T
52
M
CHLE_HUMAN
Disease (BChE deficiency)
56309853
A
T
24
M
03
UniProt
VAR_040013
F
56
I
CHLE_HUMAN
Disease (BChE deficiency)
---
A
F
28
I
04
UniProt
VAR_040014
Y
61
C
CHLE_HUMAN
Disease (BChE deficiency)
---
A
Y
33
C
05
UniProt
VAR_072730
A
62
V
CHLE_HUMAN
Disease (BChE deficiency)
---
A
A
34
V
06
UniProt
VAR_040015
P
65
S
CHLE_HUMAN
Disease (BChE deficiency)
---
A
P
37
S
07
UniProt
VAR_002360
D
98
G
CHLE_HUMAN
Disease (BChE deficiency)
1799807
A
D
70
G
08
UniProt
VAR_040016
D
98
H
CHLE_HUMAN
Disease (BChE deficiency)
---
A
D
70
H
09
UniProt
VAR_072095
G
103
R
CHLE_HUMAN
Disease (BChE deficiency)
---
A
G
75
R
10
UniProt
VAR_072096
E
118
D
CHLE_HUMAN
Disease (BChE deficiency)
---
A
E
90
D
11
UniProt
VAR_040017
N
124
Y
CHLE_HUMAN
Disease (BChE deficiency)
---
A
N
96
Y
12
UniProt
VAR_072097
I
127
M
CHLE_HUMAN
Polymorphism
---
A
I
99
M
13
UniProt
VAR_040018
P
128
S
CHLE_HUMAN
Disease (BChE deficiency)
3732880
A
P
100
S
14
UniProt
VAR_040019
G
143
D
CHLE_HUMAN
Disease (BChE deficiency)
---
A
G
115
D
15
UniProt
VAR_040020
L
153
F
CHLE_HUMAN
Disease (BChE deficiency)
---
A
L
125
F
16
UniProt
VAR_040021
Y
156
C
CHLE_HUMAN
Disease (BChE deficiency)
---
A
Y
128
C
17
UniProt
VAR_040022
V
170
M
CHLE_HUMAN
Disease (BChE deficiency)
---
A
V
142
M
18
UniProt
VAR_040023
D
198
E
CHLE_HUMAN
Disease (BChE deficiency)
---
A
D
170
E
19
UniProt
VAR_040024
S
226
G
CHLE_HUMAN
Disease (BChE deficiency)
---
A
S
198
G
20
UniProt
VAR_040025
A
227
V
CHLE_HUMAN
Disease (BChE deficiency)
---
A
A
199
V
21
UniProt
VAR_040026
A
229
T
CHLE_HUMAN
Disease (BChE deficiency)
---
A
A
201
T
22
UniProt
VAR_072098
V
232
D
CHLE_HUMAN
Disease (BChE deficiency)
---
A
V
204
D
23
UniProt
VAR_040027
T
271
M
CHLE_HUMAN
Disease (BChE deficiency)
28933389
A
T
243
M
24
UniProt
VAR_040028
T
278
P
CHLE_HUMAN
Disease (BChE deficiency)
---
A
T
250
P
25
UniProt
VAR_040029
E
283
D
CHLE_HUMAN
Polymorphism
16849700
A
E
255
D
26
UniProt
VAR_040030
K
295
R
CHLE_HUMAN
Disease (BChE deficiency)
115624085
A
K
267
R
27
UniProt
VAR_072099
V
322
M
CHLE_HUMAN
Polymorphism
---
A
V
294
M
28
UniProt
VAR_040031
L
335
P
CHLE_HUMAN
Disease (BChE deficiency)
---
A
L
307
P
29
UniProt
VAR_040032
A
356
D
CHLE_HUMAN
Disease (BChE deficiency)
---
A
A
328
D
30
UniProt
VAR_002362
L
358
I
CHLE_HUMAN
Disease (BChE deficiency)
121918557
A
L
330
I
31
UniProt
VAR_072100
G
361
C
CHLE_HUMAN
Disease (BChE deficiency)
---
A
G
333
C
32
UniProt
VAR_040033
G
393
R
CHLE_HUMAN
Disease (BChE deficiency)
115129687
A
G
365
R
33
UniProt
VAR_040034
R
414
C
CHLE_HUMAN
Disease (BChE deficiency)
---
A
R
386
C
34
UniProt
VAR_040035
G
418
V
CHLE_HUMAN
Disease (BChE deficiency)
28933390
A
G
390
V
35
UniProt
VAR_040036
F
446
S
CHLE_HUMAN
Disease (BChE deficiency)
---
A
F
418
S
36
UniProt
VAR_040037
E
488
K
CHLE_HUMAN
Disease (BChE deficiency)
---
A
E
460
K
37
UniProt
VAR_072101
R
498
W
CHLE_HUMAN
Polymorphism
115017300
A
R
470
W
38
UniProt
VAR_040038
W
499
R
CHLE_HUMAN
Disease (BChE deficiency)
---
A
W
471
R
39
UniProt
VAR_040039
F
502
L
CHLE_HUMAN
Disease (BChE deficiency)
---
A
F
474
L
40
UniProt
VAR_040040
E
525
V
CHLE_HUMAN
Disease (BChE deficiency)
---
A
E
497
V
41
UniProt
VAR_040041
R
543
C
CHLE_HUMAN
Disease (BChE deficiency)
---
A
R
515
C
42
UniProt
VAR_040042
Q
546
L
CHLE_HUMAN
Disease (BChE deficiency)
---
A
Q
518
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 16)
Info
All PROSITE Patterns/Profiles
1: CARBOXYLESTERASE_B_2 (A:90-100)
2: CARBOXYLESTERASE_B_1 (A:185-200)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CARBOXYLESTERASE_B_2
PS00941
Carboxylesterases type-B signature 2.
CHLE_HUMAN
118-128
8
A:90-100
2
CARBOXYLESTERASE_B_1
PS00122
Carboxylesterases type-B serine active site.
CHLE_HUMAN
213-228
8
A:185-200
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2xmda_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
alpha/beta-Hydrolases
(971)
Superfamily
:
alpha/beta-Hydrolases
(971)
Family
:
Acetylcholinesterase-like
(219)
Protein domain
:
automated matches
(91)
Human (Homo sapiens) [TaxId: 9606]
(35)
1a
d2xmda_
A:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_COesterase_2xmdA01 (A:3-522)
View:
Select:
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Clans
(
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(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
AB_hydrolase
(347)
Family
:
COesterase
(79)
Homo sapiens (Human)
(38)
1a
COesterase-2xmdA01
A:3-522
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
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Sidechain
Hetero
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Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
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Asymmetric Unit 6
Asymmetric Unit 7
Asymmetric Unit 8
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