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Getting 'Biological Unit' information from database.
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3W0T
Asym. Unit
Info
Asym.Unit (144 KB)
Biol.Unit 1 (71 KB)
Biol.Unit 2 (71 KB)
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(1)
Title
:
HUMAN GLYOXALASE I WITH AN N-HYDROXYPYRIDONE DERIVATIVE INHIBITOR
Authors
:
T. A. Fukami, M. Irie, T. Matsuura
Date
:
02 Nov 12 (Deposition) - 06 Nov 13 (Release) - 06 Nov 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.35
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Glyoxalase, Lyase-Lyase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Koyano, T. Aoki, S. Yamamoto, T. Kobayashi, T. Miura, K. Ohara, T. A. Fukami, M. Irie, H. Sakamoto
N-Hydroxypyridone-Based Glyoxalase I Inhibitors Mimicking Binding Interactions Of The Substrate
To Be Published
[
close entry info
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Hetero Components
(3, 11)
Info
All Hetero Components
1a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
1b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
1c: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEc)
2a: N-[3-(1-HYDROXY-6-OXO-4-PHENYL-1,6... (HPUa)
2b: N-[3-(1-HYDROXY-6-OXO-4-PHENYL-1,6... (HPUb)
2c: N-[3-(1-HYDROXY-6-OXO-4-PHENYL-1,6... (HPUc)
2d: N-[3-(1-HYDROXY-6-OXO-4-PHENYL-1,6... (HPUd)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPE
3
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2
HPU
4
Ligand/Ion
N-[3-(1-HYDROXY-6-OXO-4-PHENYL-1,6-DIHYDROPYRIDIN-2-YL)PHENYL]METHANESULFONAMIDE
3
ZN
4
Ligand/Ion
ZINC ION
[
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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
GLN A:33 , GLU A:99 , HIS B:126 , GLU B:172 , HPU B:204
BINDING SITE FOR RESIDUE ZN A 201
02
AC2
SOFTWARE
HIS A:126 , MET A:157 , GLU A:172 , MET A:179 , HOH A:473 , GLN B:33 , MET B:35 , CYS B:60 , PHE B:67 , LEU B:69 , LEU B:92 , GLU B:99 , ZN B:201 , HOH B:1024 , HOH B:1048
BINDING SITE FOR RESIDUE HPU A 202
03
AC3
SOFTWARE
HIS A:126 , GLU A:172 , HPU A:202 , GLN B:33 , GLU B:99
BINDING SITE FOR RESIDUE ZN B 201
04
AC4
SOFTWARE
MET A:65 , LYS B:150 , GLY B:155 , LYS B:156 , MET B:157 , HPU B:204 , HOH B:1197 , HOH B:1213 , GLU D:110 , HOH D:526 , HOH D:546
BINDING SITE FOR RESIDUE EPE B 202
05
AC5
SOFTWARE
SER B:20 , ASP B:21 , HOH B:1196
BINDING SITE FOR RESIDUE EPE B 203
06
AC6
SOFTWARE
GLN A:33 , MET A:35 , CYS A:60 , PHE A:67 , LEU A:69 , GLU A:99 , ZN A:201 , HOH A:337 , HIS B:126 , MET B:157 , LEU B:160 , GLU B:172 , MET B:179 , MET B:183 , EPE B:202 , HOH B:1065 , HOH B:1154 , HOH B:1197
BINDING SITE FOR RESIDUE HPU B 204
07
AC7
SOFTWARE
GLN C:33 , GLU C:99 , HIS D:126 , GLU D:172 , HPU D:203
BINDING SITE FOR RESIDUE ZN C 201
08
AC8
SOFTWARE
HIS C:126 , GLU C:172 , MET C:179 , MET C:183 , HOH C:450 , HOH C:468 , GLN D:33 , MET D:35 , CYS D:60 , PHE D:67 , LEU D:69 , GLU D:99 , ZN D:201 , HOH D:325 , HOH D:335
BINDING SITE FOR RESIDUE HPU C 202
09
AC9
SOFTWARE
HIS C:126 , GLU C:172 , HPU C:202 , GLN D:33 , GLU D:99
BINDING SITE FOR RESIDUE ZN D 201
10
BC1
SOFTWARE
GLU B:83 , CYS D:19 , SER D:20 , ASP D:21 , HOH D:472
BINDING SITE FOR RESIDUE EPE D 202
11
BC2
SOFTWARE
GLU B:2 , PRO B:3 , GLN C:33 , MET C:35 , CYS C:60 , PHE C:62 , LEU C:69 , PHE C:71 , GLU C:99 , ZN C:201 , HOH C:327 , HIS D:126 , GLU D:172 , MET D:179 , MET D:183 , HOH D:374
BINDING SITE FOR RESIDUE HPU D 203
[
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SAPs(SNPs)/Variants
(2, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_031078 (C18Y, chain A/B/C/D, )
2: VAR_013481 (E110A, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_031078
C
19
Y
LGUL_HUMAN
Polymorphism
17855424
A/B/C/D
C
18
Y
2
UniProt
VAR_013481
E
111
A
LGUL_HUMAN
Polymorphism
4746
A/B/C/D
E
110
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: VOC (A:30-176,B:30-176,C:30-176,D:30-17...)
2: GLYOXALASE_I_1 (A:33-54,B:33-54,C:33-54,D:33-54)
3: GLYOXALASE_I_2 (A:117-133,B:117-133,C:117-133,D:11...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
VOC
PS51819
Vicinal oxygen chelate (VOC) domain profile.
LGUL_HUMAN
31-177
4
A:30-176
B:30-176
C:30-176
D:30-176
2
GLYOXALASE_I_1
PS00934
Glyoxalase I signature 1.
LGUL_HUMAN
34-55
4
A:33-54
B:33-54
C:33-54
D:33-54
3
GLYOXALASE_I_2
PS00935
Glyoxalase I signature 2.
LGUL_HUMAN
118-134
4
A:117-133
B:117-133
C:117-133
D:117-133
[
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Exons
(6, 24)
Info
All Exons
Exon 1.1 (A:8-27 | B:2-27 | C:8-27 | D:8-27)
Exon 1.2 (A:28-55 | B:28-55 | C:28-55 | D:28...)
Exon 1.3 (A:55-102 | B:55-102 | C:55-102 | D...)
Exon 1.4b (A:102-125 | B:102-125 | C:102-125 ...)
Exon 1.5 (A:125-155 | B:125-155 | C:125-155 ...)
Exon 1.6 (A:155-183 | B:155-183 | C:155-183 ...)
View:
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4b
5: Boundary 1.4b/1.5
6: Boundary 1.5/1.6
7: Boundary 1.6/-
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
1.1
ENST00000373365
1
ENSE00001460407
chr6:
38670917-38670747
171
LGUL_HUMAN
1-28
28
4
A:8-27
B:2-27
C:8-27
D:8-27
20
26
20
20
1.2
ENST00000373365
2
ENSE00000750279
chr6:
38654750-38654668
83
LGUL_HUMAN
29-56
28
4
A:28-55
B:28-55
C:28-55
D:28-55
28
28
28
28
1.3
ENST00000373365
3
ENSE00000750268
chr6:
38652290-38652150
141
LGUL_HUMAN
56-103
48
4
A:55-102
B:55-102
C:55-102
D:55-102
48
48
48
48
1.4b
ENST00000373365
4b
ENSE00000750246
chr6:
38650651-38650584
68
LGUL_HUMAN
103-126
24
4
A:102-125
B:102-125
C:102-125
D:102-125
24
24
24
24
1.5
ENST00000373365
5
ENSE00002145874
chr6:
38649877-38649788
90
LGUL_HUMAN
126-156
31
4
A:125-155
B:125-155
C:125-155
D:125-155
31
31
31
31
1.6
ENST00000373365
6
ENSE00002199029
chr6:
38645159-38643719
1441
LGUL_HUMAN
156-184
29
4
A:155-183
B:155-183
C:155-183
D:155-183
29
29
29
29
[
close EXON info
]
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3w0ta_ (A:)
1b: SCOP_d3w0tb_ (B:)
1c: SCOP_d3w0tc_ (C:)
1d: SCOP_d3w0td_ (D:)
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Protein Domains
(
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(
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
(136)
Superfamily
:
Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
(136)
Family
:
Glyoxalase I (lactoylglutathione lyase)
(16)
Protein domain
:
automated matches
(6)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d3w0ta_
A:
1b
d3w0tb_
B:
1c
d3w0tc_
C:
1d
d3w0td_
D:
[
close SCOP info
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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
View:
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Label:
Sorry, no Info available
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Chain D
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