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3HJO
Asym. Unit
Info
Asym.Unit (84 KB)
Biol.Unit 1 (78 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF GLUTATHIONE TRANSFERASE PI Y108V MUTANT IN COMPLEX WITH THE GLUTATHIONE CONJUGATE OF ETHACRYNIC ACID
Authors
:
L. J. Parker
Date
:
22 May 09 (Deposition) - 22 Sep 09 (Release) - 21 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Transferase, Glutathione, Detoxification, Ethacrynic Acid, Ethacrynic Acid-Glutathione Conjugate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Quesada-Soriano, L. J. Parker, A. Primavera, J. M. Casas-Solvas, A. Vargas-Berenguel, C. Baron, C. J. Morton, A. P. Mazzetti, M. Lo Bello, M. W. Parker, L. Garcia-Fuentes
Influence Of The H-Site Residue 108 On Human Glutathione Transferase P1-1 Ligand Binding: Structure-Thermodynamic Relationships And Thermal Stability.
Protein Sci. V. 18 2454 2009
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Hetero Components
(4, 12)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
2a: CARBONATE ION (CO3a)
2b: CARBONATE ION (CO3b)
3a: ETHACRYNIC ACID (EAAa)
3b: ETHACRYNIC ACID (EAAb)
4a: GLUTATHIONE (GSHa)
4b: GLUTATHIONE (GSHb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
6
Ligand/Ion
CALCIUM ION
2
CO3
2
Ligand/Ion
CARBONATE ION
3
EAA
2
Ligand/Ion
ETHACRYNIC ACID
4
GSH
2
Ligand/Ion
GLUTATHIONE
[
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Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:7 , PHE A:8 , ARG A:13 , TRP A:38 , LYS A:44 , GLN A:51 , LEU A:52 , PRO A:53 , GLN A:64 , SER A:65 , EAA A:211 , HOH A:245 , HOH A:308 , HOH A:366 , HOH A:374 , ASP B:98
BINDING SITE FOR RESIDUE GSH A 210
02
AC2
SOFTWARE
TYR A:7 , PHE A:8 , VAL A:10 , VAL A:35 , ILE A:104 , GLY A:205 , GSH A:210
BINDING SITE FOR RESIDUE EAA A 211
03
AC3
SOFTWARE
TRP A:28 , HOH A:391 , HOH A:392 , HOH A:425 , HOH A:426 , HOH A:427 , ASP B:171
BINDING SITE FOR RESIDUE CA A 212
04
AC4
SOFTWARE
GLY A:77 , GLN A:147 , HOH A:327 , HOH A:414 , HOH A:415 , HOH A:416
BINDING SITE FOR RESIDUE CA A 213
05
AC5
SOFTWARE
ASP A:171 , HOH A:310 , HOH A:407 , HOH A:418 , GLU B:30 , HOH B:286 , HOH B:364
BINDING SITE FOR RESIDUE CA A 214
06
AC6
SOFTWARE
ASP A:171 , TRP B:28 , HOH B:391 , HOH B:405
BINDING SITE FOR RESIDUE CA A 215
07
AC7
SOFTWARE
PHE A:142 , GLN A:147 , ILE A:148 , ARG A:186 , HOH A:343 , HOH A:394
BINDING SITE FOR RESIDUE CO3 A 216
08
AC8
SOFTWARE
ASP A:98 , TYR B:7 , PHE B:8 , ARG B:13 , TRP B:38 , LYS B:44 , GLN B:51 , LEU B:52 , PRO B:53 , GLN B:64 , SER B:65 , EAA B:211 , HOH B:236 , HOH B:245 , HOH B:274 , HOH B:287 , HOH B:401
BINDING SITE FOR RESIDUE GSH B 210
09
AC9
SOFTWARE
PHE B:8 , VAL B:10 , VAL B:35 , ASN B:204 , GLY B:205 , GSH B:210 , HOH B:260 , HOH B:319
BINDING SITE FOR RESIDUE EAA B 211
10
BC1
SOFTWARE
GLY B:77 , GLN B:147 , HOH B:223 , HOH B:285 , HOH B:348 , HOH B:377 , HOH B:415
BINDING SITE FOR RESIDUE CA B 212
11
BC2
SOFTWARE
GLU A:30 , HOH A:434 , ASP B:171 , HOH B:238 , HOH B:240 , HOH B:295 , HOH B:473
BINDING SITE FOR RESIDUE CA B 213
12
BC3
SOFTWARE
PHE B:142 , GLN B:147 , ILE B:148 , ARG B:186 , HOH B:417 , HOH B:469
BINDING SITE FOR RESIDUE CO3 B 214
[
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SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_014499 (I104V, chain A/B, )
2: VAR_014500 (A113V, chain A/B, )
3: VAR_049493 (G168D, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_014499
I
105
V
GSTP1_HUMAN
Polymorphism
1695
A/B
I
104
V
2
UniProt
VAR_014500
A
114
V
GSTP1_HUMAN
Polymorphism
1138272
A/B
A
113
V
3
UniProt
VAR_049493
G
169
D
GSTP1_HUMAN
Polymorphism
41462048
A/B
G
168
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: GST_NTER (A:1-80,B:1-80)
2: GST_CTER (A:82-203,B:82-203)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GST_NTER
PS50404
Soluble glutathione S-transferase N-terminal domain profile.
GSTP1_HUMAN
2-81
2
A:1-80
B:1-80
2
GST_CTER
PS50405
Soluble glutathione S-transferase C-terminal domain profile.
GSTP1_HUMAN
83-204
2
A:82-203
B:82-203
[
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Exons
(6, 12)
Info
All Exons
Exon 1.2c (A:1-12 | B:1-12)
Exon 1.2f (A:12-47 | B:12-47)
Exon 1.2g (A:48-77 | B:48-77)
Exon 1.2k (A:77-111 | B:77-111)
Exon 1.3a (A:112-147 | B:112-147)
Exon 1.3j (A:148-209 | B:148-209)
View:
Select:
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All Exon Boundaries
1: Boundary 1.1a/1.2c
2: Boundary 1.2c/1.2f
3: Boundary 1.2f/1.2g
4: Boundary 1.2g/1.2k
5: Boundary 1.2k/1.3a
6: Boundary 1.3a/1.3j
7: Boundary 1.3j/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1a
ENST00000398606
1a
ENSE00001533853
chr11:
67351066-67351315
250
GSTP1_HUMAN
1-1
1
0
-
-
1.2c
ENST00000398606
2c
ENSE00001697646
chr11:
67351605-67351640
36
GSTP1_HUMAN
1-13
13
2
A:1-12
B:1-12
12
12
1.2f
ENST00000398606
2f
ENSE00001117031
chr11:
67351935-67352041
107
GSTP1_HUMAN
13-48
36
2
A:12-47
B:12-47
36
36
1.2g
ENST00000398606
2g
ENSE00001117029
chr11:
67352156-67352243
88
GSTP1_HUMAN
49-78
30
2
A:48-77
B:48-77
30
30
1.2k
ENST00000398606
2k
ENSE00001117028
chr11:
67352609-67352712
104
GSTP1_HUMAN
78-112
35
2
A:77-111
B:77-111
35
35
1.3a
ENST00000398606
3a
ENSE00001117027
chr11:
67353575-67353682
108
GSTP1_HUMAN
113-148
36
2
A:112-147
B:112-147
36
36
1.3j
ENST00000398606
3j
ENSE00001921020
chr11:
67353860-67354131
272
GSTP1_HUMAN
149-210
62
2
A:148-209
B:148-209
62
62
[
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]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3hjoa2 (A:79-209)
1b: SCOP_d3hjob2 (B:79-209)
2a: SCOP_d3hjoa1 (A:1-78)
2b: SCOP_d3hjob1 (B:1-78)
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Protein Domains
(
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(
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Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
GST C-terminal domain-like
(353)
Superfamily
:
GST C-terminal domain-like
(353)
Family
:
Glutathione S-transferase (GST), C-terminal domain
(263)
Protein domain
:
Class pi GST
(65)
Human (Homo sapiens) [TaxId: 9606]
(52)
1a
d3hjoa2
A:79-209
1b
d3hjob2
B:79-209
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Thioredoxin fold
(994)
Superfamily
:
Thioredoxin-like
(992)
Family
:
Glutathione S-transferase (GST), N-terminal domain
(216)
Protein domain
:
Class pi GST
(61)
Human (Homo sapiens) [TaxId: 9606]
(49)
2a
d3hjoa1
A:1-78
2b
d3hjob1
B:1-78
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_3hjoA01 (A:1-78,A:187-208)
1b: CATH_3hjoB01 (B:1-78,B:187-208)
2a: CATH_3hjoA02 (A:79-186)
2b: CATH_3hjoB02 (B:79-186)
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Organisms
(
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(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Glutaredoxin
(620)
Homologous Superfamily
:
Glutaredoxin
(617)
Human (Homo sapiens)
(186)
1a
3hjoA01
A:1-78,A:187-208
1b
3hjoB01
B:1-78,B:187-208
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
(267)
Homologous Superfamily
:
[code=1.20.1050.10, no name defined]
(249)
Human (Homo sapiens)
(119)
2a
3hjoA02
A:79-186
2b
3hjoB02
B:79-186
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Asymmetric Unit 1
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Asym.Unit (84 KB)
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