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1MX5
Asym. Unit
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Asym.Unit (554 KB)
Biol.Unit 1 (276 KB)
Biol.Unit 2 (276 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN LIVER CARBOXYLESTERASE IN COMPLEXED WITH HOMATROPINE, A COCAINE ANALOGUE
Authors
:
S. Bencharit, C. L. Morton, Y. Xue, P. M. Potter, M. R. Redinbo
Date
:
01 Oct 02 (Deposition) - 08 Apr 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Esterase, Hydrolase, Cocaine
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Bencharit, C. L. Morton, Y. Xue, P. M. Potter, M. R. Redinbo
Structural Basis Of Heroin And Cocaine Metabolism By A Promiscuous Human Drug-Processing Enzyme
Nat. Struct. Biol. V. 10 349 2003
[
close entry info
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Hetero Components
(5, 24)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
2a: HOMOTROPINE (HTQa)
2b: HOMOTROPINE (HTQb)
2c: HOMOTROPINE (HTQc)
2d: HOMOTROPINE (HTQd)
2e: HOMOTROPINE (HTQe)
2f: HOMOTROPINE (HTQf)
2g: HOMOTROPINE (HTQg)
2h: HOMOTROPINE (HTQh)
2i: HOMOTROPINE (HTQi)
2j: HOMOTROPINE (HTQj)
2k: HOMOTROPINE (HTQk)
2l: HOMOTROPINE (HTQl)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
4b: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGb)
4c: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGc)
5a: O-SIALIC ACID (SIAa)
5b: O-SIALIC ACID (SIAb)
5c: O-SIALIC ACID (SIAc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
2
HTQ
12
Ligand/Ion
HOMOTROPINE
3
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
NDG
3
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5
SIA
3
Ligand/Ion
O-SIALIC ACID
[
close Hetero Component info
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Sites
(24, 24)
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)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:1079 , THR A:1081
BINDING SITE FOR RESIDUE NAG A 179
02
AC2
SOFTWARE
ASN B:2079 , THR B:2081 , HOH B:7845 , HOH B:8352 , HOH B:8385 , HOH B:8418 , HOH B:8690
BINDING SITE FOR RESIDUE NDG B 279
03
AC3
SOFTWARE
ASN C:3079 , THR C:3081 , HOH C:8384 , HOH C:8406
BINDING SITE FOR RESIDUE NAG C 379
04
AC4
SOFTWARE
ASN D:4079 , THR D:4081 , SER D:4082 , HOH D:8543
BINDING SITE FOR RESIDUE NDG D 479
05
AC5
SOFTWARE
NAG E:580 , ASN E:5079 , THR E:5081
BINDING SITE FOR RESIDUE NAG E 579
06
AC6
SOFTWARE
NAG E:579
BINDING SITE FOR RESIDUE NAG E 580
07
AC7
SOFTWARE
SIA F:682 , ASN F:6079 , HOH F:7844 , HOH F:8375
BINDING SITE FOR RESIDUE NDG F 679
08
AC8
SOFTWARE
LEU A:1051 , GLY A:1052 , ASN A:1079 , THR A:1081 , SER A:1082 , TYR A:1083 , PRO A:1084 , TYR A:1118 , ASP B:2182 , LYS B:2262 , THR B:2278 , SER B:2279
BINDING SITE FOR RESIDUE SIA A 182
09
AC9
SOFTWARE
LEU B:2051 , GLY B:2052 , ASN B:2079 , ALA B:2080 , THR B:2081 , SER B:2082 , TYR B:2083 , PRO B:2084 , PRO B:2085 , HOH B:8228 , LYS C:3262 , THR C:3278 , SER C:3279
BINDING SITE FOR RESIDUE SIA B 282
10
BC1
SOFTWARE
HOH D:7908 , NDG F:679 , GLY F:6052 , LYS F:6078 , ASN F:6079 , SER F:6082 , TYR F:6118 , HOH F:7827 , HOH F:8554
BINDING SITE FOR RESIDUE SIA F 682
11
BC2
SOFTWARE
HTQ A:111 , GLY A:1142 , GLY A:1143 , SER A:1221 , ALA A:1222
BINDING SITE FOR RESIDUE CL A 11
12
BC3
SOFTWARE
HTQ E:515 , GLY E:5142 , GLY E:5143 , SER E:5221 , ALA E:5222
BINDING SITE FOR RESIDUE CL E 15
13
BC4
SOFTWARE
CL A:11 , LEU A:1097 , PHE A:1101 , GLY A:1142 , GLY A:1143 , VAL A:1146 , SER A:1221 , VAL A:1254 , LEU A:1255 , LEU A:1304 , LEU A:1358 , ILE A:1359 , LEU A:1363 , PHE A:1426 , HIS A:1468
BINDING SITE FOR RESIDUE HTQ A 111
14
BC5
SOFTWARE
LEU B:2097 , GLY B:2142 , GLY B:2143 , VAL B:2146 , SER B:2221 , VAL B:2254 , LEU B:2255 , LEU B:2304 , LEU B:2318 , LEU B:2358 , ILE B:2359 , LEU B:2363 , MET B:2425
BINDING SITE FOR RESIDUE HTQ B 212
15
BC6
SOFTWARE
HOH C:13 , LEU C:3097 , GLY C:3142 , GLY C:3143 , VAL C:3146 , SER C:3221 , VAL C:3254 , LEU C:3304 , ILE C:3359 , LEU C:3363 , MET C:3425 , HIS C:3468
BINDING SITE FOR RESIDUE HTQ C 313
16
BC7
SOFTWARE
HOH D:14 , GLY D:4142 , GLY D:4143 , VAL D:4254 , LEU D:4255 , LEU D:4304 , LEU D:4318 , LEU D:4358 , LEU D:4363 , MET D:4364 , MET D:4425 , PHE D:4426
BINDING SITE FOR RESIDUE HTQ D 414
17
BC8
SOFTWARE
CL E:15 , LEU E:5097 , GLY E:5142 , GLY E:5143 , VAL E:5146 , SER E:5221 , VAL E:5254 , LEU E:5255 , LEU E:5304 , LEU E:5358 , ILE E:5359 , LEU E:5363 , MET E:5425 , HIS E:5468
BINDING SITE FOR RESIDUE HTQ E 515
18
BC9
SOFTWARE
HOH F:16 , GLY F:6142 , GLY F:6143 , VAL F:6146 , SER F:6221 , ALA F:6222 , VAL F:6254 , LEU F:6255 , LEU F:6304 , ILE F:6359 , LEU F:6363 , MET F:6425 , PHE F:6426
BINDING SITE FOR RESIDUE HTQ F 616
19
CC1
SOFTWARE
GLY A:1356 , TRP A:1357 , PRO A:1360 , MET A:1361 , TYR A:1366 , LEU A:1368 , SER A:1369 , GLU A:1370 , LYS A:1414 , HOH A:8638
BINDING SITE FOR RESIDUE HTQ A 1
20
CC2
SOFTWARE
PRO B:2070 , GLY B:2356 , PRO B:2360 , LEU B:2368 , SER B:2369 , LYS B:2414 , LEU B:2418 , PRO B:2461 , VAL B:2464 , HOH B:8633 , HOH B:8669
BINDING SITE FOR RESIDUE HTQ B 2
21
CC3
SOFTWARE
GLY C:3356 , TRP C:3357 , LEU C:3368 , SER C:3369 , GLY C:3371 , LYS C:3414 , LEU C:3418 , PRO C:3461 , VAL C:3464 , HOH C:7984 , HOH C:8335
BINDING SITE FOR RESIDUE HTQ C 3
22
CC4
SOFTWARE
GLY D:4356 , TRP D:4357 , PRO D:4360 , LEU D:4368 , SER D:4369 , LYS D:4414 , LEU D:4418 , PRO D:4461 , VAL D:4464 , HOH D:8065
BINDING SITE FOR RESIDUE HTQ D 4
23
CC5
SOFTWARE
GLY E:5356 , TRP E:5357 , PRO E:5360 , MET E:5361 , TYR E:5366 , LEU E:5368 , SER E:5369 , GLY E:5371 , LYS E:5414 , PRO E:5461
BINDING SITE FOR RESIDUE HTQ E 5
24
CC6
SOFTWARE
GLY F:6356 , TRP F:6357 , PRO F:6360 , MET F:6361 , TYR F:6366 , LEU F:6368 , SER F:6369 , GLY F:6371 , LYS F:6414
BINDING SITE FOR RESIDUE HTQ F 6
[
close Site info
]
SAPs(SNPs)/Variants
(4, 24)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_014314 (S6075N, chain A/B/C/D/E/F, )
2: VAR_046954 (G6143E, chain A/B/C/D/E/F, )
3: VAR_014594 (R6199H, chain A/B/C/D/E/F, )
4: VAR_014595 (D6203E, chain A/B/C/D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_014314
S
75
N
EST1_HUMAN
Polymorphism
2307240
A
B
C
D
E
F
S
1075
2075
3075
4075
5075
6075
N
2
UniProt
VAR_046954
G
143
E
EST1_HUMAN
Polymorphism
71647871
A
B
C
D
E
F
G
1143
2143
3143
4143
5143
6143
E
3
UniProt
VAR_014594
R
199
H
EST1_HUMAN
Polymorphism
2307243
A
B
C
D
E
F
R
1199
2199
3199
4199
5199
6199
H
4
UniProt
VAR_014595
D
203
E
EST1_HUMAN
Polymorphism
2307227
A
B
C
D
E
F
D
1203
2203
3203
4203
5203
6203
E
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: CARBOXYLESTERASE_B_2 (A:1114-1124,B:2114-2124,C:3114-312...)
2: CARBOXYLESTERASE_B_1 (A:1208-1223,B:2208-2223,C:3208-322...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CARBOXYLESTERASE_B_2
PS00941
Carboxylesterases type-B signature 2.
EST1_HUMAN
114-124
6
A:1114-1124
B:2114-2124
C:3114-3124
D:4114-4124
E:5114-5124
F:6114-6124
2
CARBOXYLESTERASE_B_1
PS00122
Carboxylesterases type-B serine active site.
EST1_HUMAN
208-223
6
A:1208-1223
B:2208-2223
C:3208-3223
D:4208-4223
E:5208-5223
F:6208-6223
[
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Exons
(0, 0)
Info
All Exons
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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, 6)
Info
All SCOP Domains
1a: SCOP_d1mx5a_ (A:)
1b: SCOP_d1mx5e_ (E:)
1c: SCOP_d1mx5f_ (F:)
1d: SCOP_d1mx5b_ (B:)
1e: SCOP_d1mx5c_ (C:)
1f: SCOP_d1mx5d_ (D:)
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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
:
Mammalian carboxylesterase (liver carboxylesterase I)
(7)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d1mx5a_
A:
1b
d1mx5e_
E:
1c
d1mx5f_
F:
1d
d1mx5b_
B:
1e
d1mx5c_
C:
1f
d1mx5d_
D:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1mx5B00 (B:2022-2553)
1b: CATH_1mx5C00 (C:3022-3553)
1c: CATH_1mx5E00 (E:5022-5553)
1d: CATH_1mx5F00 (F:6022-6553)
1e: CATH_1mx5A00 (A:1021-1553)
1f: CATH_1mx5D00 (D:4021-4553)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1820, no name defined]
(692)
Human (Homo sapiens)
(118)
1a
1mx5B00
B:2022-2553
1b
1mx5C00
C:3022-3553
1c
1mx5E00
E:5022-5553
1d
1mx5F00
F:6022-6553
1e
1mx5A00
A:1021-1553
1f
1mx5D00
D:4021-4553
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_COesterase_1mx5F01 (F:6022-6547)
1b: PFAM_COesterase_1mx5F02 (F:6022-6547)
1c: PFAM_COesterase_1mx5F03 (F:6022-6547)
1d: PFAM_COesterase_1mx5F04 (F:6022-6547)
1e: PFAM_COesterase_1mx5F05 (F:6022-6547)
1f: PFAM_COesterase_1mx5F06 (F:6022-6547)
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Clan
:
AB_hydrolase
(347)
Family
:
COesterase
(79)
Homo sapiens (Human)
(38)
1a
COesterase-1mx5F01
F:6022-6547
1b
COesterase-1mx5F02
F:6022-6547
1c
COesterase-1mx5F03
F:6022-6547
1d
COesterase-1mx5F04
F:6022-6547
1e
COesterase-1mx5F05
F:6022-6547
1f
COesterase-1mx5F06
F:6022-6547
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