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2BHL
Biol. Unit 1
Info
Asym.Unit (167 KB)
Biol.Unit 1 (320 KB)
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(1)
Title
:
X-RAY STRUCTURE OF HUMAN GLUCOSE-6-PHOSPHATE DEHYDROGENASE (DELETION VARIANT) COMPLEXED WITH GLUCOSE-6-PHOSPHATE
Authors
:
M. Kotaka, S. Gover, V. M. S. Lam, M. J. Adams
Date
:
13 Jan 05 (Deposition) - 25 Apr 05 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Oxidoreductase, Oxidoreductase (Choh(D)-Nadp), Glucose Metabolism
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Kotaka, S. Gover, L. Vandeputte-Rutten, S. W. N. Au, V. M. S. Lam, M. J. Adams
Structural Studies Of Glucose-6-Phosphate And Nadp+ Binding To Human Glucose-6-Phosphate Dehydrogenase
Acta Crystallogr. , Sect. D V. 61 495 2005
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 16)
Info
All Hetero Components
1a: BETA-D-GLUCOSE-6-PHOSPHATE (BG6a)
1b: BETA-D-GLUCOSE-6-PHOSPHATE (BG6b)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BG6
4
Ligand/Ion
BETA-D-GLUCOSE-6-PHOSPHATE
2
GOL
12
Ligand/Ion
GLYCEROL
[
close Hetero Component info
]
Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:171 , HIS A:201 , TYR A:202 , LYS A:205 , GLU A:239 , ASP A:258 , HIS A:263 , LYS A:360 , ARG A:365 , GLN A:395
BINDING SITE FOR RESIDUE BG6 A1510
2
AC2
SOFTWARE
LYS B:171 , HIS B:201 , TYR B:202 , LYS B:205 , GLU B:239 , ASP B:258 , HIS B:263 , LYS B:360 , ARG B:365 , GLN B:395
BINDING SITE FOR RESIDUE BG6 B1508
3
AC3
SOFTWARE
SER A:296 , GLU A:297 , VAL A:298 , GLN A:299 , ASN A:302 , VAL A:341 , TYR A:343
BINDING SITE FOR RESIDUE GOL A1506
4
AC4
SOFTWARE
ALA A:300 , VAL A:303 , LEU A:305 , GLN A:471 , PRO A:477
BINDING SITE FOR RESIDUE GOL A1507
5
AC5
SOFTWARE
GLU A:347 , ARG B:215 , PHE B:216 , PHE B:221 , TRP B:225
BINDING SITE FOR RESIDUE GOL A1508
6
AC6
SOFTWARE
ARG A:215 , PHE A:216 , GLY A:222 , TRP A:225 , ARG A:348 , GLU B:347
BINDING SITE FOR RESIDUE GOL A1509
7
AC7
SOFTWARE
TRP B:54 , ARG B:57 , LYS B:89 , LYS B:432 , GLU B:438
BINDING SITE FOR RESIDUE GOL B1506
8
AC8
SOFTWARE
GLY B:163 , TRP B:164 , ARG B:192 , GLN B:195
BINDING SITE FOR RESIDUE GOL B1507
[
close Site info
]
SAPs(SNPs)/Variants
(64, 256)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_002451 (H32R, chain A/B, )
02: VAR_002453 (A44G, chain A/B, )
03: VAR_002454 (I48T, chain A/B, )
04: VAR_002455 (D58N, chain A/B, )
05: VAR_002456 (V68M, chain A/B, )
06: VAR_002457 (Y70H, chain A/B, )
07: VAR_002458 (L75P, chain A/B, )
08: VAR_002460 (R81C, chain A/B, )
09: VAR_002459 (R81H, chain A/B, )
10: VAR_002461 (S106C, chain A/B, )
11: VAR_002462 (N126D, chain A/B, )
12: VAR_002463 (L128P, chain A/B, )
13: VAR_002464 (G131V, chain A/B, )
14: VAR_002465 (E156K, chain A/B, )
15: VAR_002467 (G163D, chain A/B, )
16: VAR_002466 (G163S, chain A/B, )
17: VAR_002468 (N165D, chain A/B, )
18: VAR_002469 (R166H, chain A/B, )
19: VAR_002470 (D176G, chain A/B, )
20: VAR_002471 (D181V, chain A/B, )
21: VAR_002472 (R182W, chain A/B, )
22: VAR_002473 (S188F, chain A/B, )
23: VAR_002474 (R198C, chain A/B, )
24: VAR_002475 (R198P, chain A/B, )
25: VAR_002476 (M212V, chain A/B, )
26: VAR_002477 (V213L, chain A/B, )
27: VAR_002478 (F216L, chain A/B, )
28: VAR_002480 (R227L, chain A/B, )
29: VAR_002479 (R227Q, chain A/B, )
30: VAR_002482 (R257G, chain A/B, )
31: VAR_002483 (E274K, chain A/B, )
32: VAR_002484 (S278F, chain A/B, )
33: VAR_002485 (T279S, chain A/B, )
34: VAR_002486 (D282H, chain A/B, )
35: VAR_002487 (R285H, chain A/B, )
36: VAR_002488 (V291M, chain A/B, )
37: VAR_002489 (E317K, chain A/B, )
38: VAR_020535 (Y322H, chain A/B, )
39: VAR_002490 (L323P, chain A/B, )
40: VAR_002491 (A335T, chain A/B, )
41: VAR_002492 (L342F, chain A/B, )
42: VAR_002493 (P353S, chain A/B, )
43: VAR_002494 (N363K, chain A/B, )
44: VAR_002495 (C385R, chain A/B, )
45: VAR_002496 (K386E, chain A/B, )
46: VAR_002498 (R387C, chain A/B, )
47: VAR_002497 (R387H, chain A/B, )
48: VAR_002499 (R393H, chain A/B, )
49: VAR_002500 (V394L, chain A/B, )
50: VAR_002501 (P396L, chain A/B, )
51: VAR_002502 (E398K, chain A/B, )
52: VAR_002503 (G410C, chain A/B, )
53: VAR_002504 (G410D, chain A/B, )
54: VAR_002505 (E416K, chain A/B, )
55: VAR_002506 (R439P, chain A/B, )
56: VAR_002507 (L440F, chain A/B, )
57: VAR_002508 (G447R, chain A/B, )
58: VAR_002509 (Q449H, chain A/B, )
59: VAR_002510 (R454C, chain A/B, )
60: VAR_002511 (R454H, chain A/B, )
61: VAR_002512 (R459L, chain A/B, )
62: VAR_002513 (R459P, chain A/B, )
63: VAR_002514 (R463H, chain A/B, )
64: VAR_002515 (G488V, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_002451
H
32
R
G6PD_HUMAN
Disease (NSHA)
---
A/B
H
32
R
02
UniProt
VAR_002453
A
44
G
G6PD_HUMAN
Disease (NSHA)
---
A/B
A
44
G
03
UniProt
VAR_002454
I
48
T
G6PD_HUMAN
Disease (NSHA)
---
A/B
I
48
T
04
UniProt
VAR_002455
D
58
N
G6PD_HUMAN
Disease (NSHA)
---
A/B
D
58
N
05
UniProt
VAR_002456
V
68
M
G6PD_HUMAN
Disease (NSHA)
1050828
A/B
V
68
M
06
UniProt
VAR_002457
Y
70
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
Y
70
H
07
UniProt
VAR_002458
L
75
P
G6PD_HUMAN
Disease (NSHA)
---
A/B
L
75
P
08
UniProt
VAR_002460
R
81
C
G6PD_HUMAN
Disease (NSHA)
138687036
A/B
R
81
C
09
UniProt
VAR_002459
R
81
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
81
H
10
UniProt
VAR_002461
S
106
C
G6PD_HUMAN
Disease (NSHA)
---
A/B
S
106
C
11
UniProt
VAR_002462
N
126
D
G6PD_HUMAN
Disease (NSHA)
1050829
A/B
N
126
D
12
UniProt
VAR_002463
L
128
P
G6PD_HUMAN
Disease (NSHA)
---
A/B
L
128
P
13
UniProt
VAR_002464
G
131
V
G6PD_HUMAN
Polymorphism
137852341
A/B
G
131
V
14
UniProt
VAR_002465
E
156
K
G6PD_HUMAN
Disease (NSHA)
---
A/B
E
156
K
15
UniProt
VAR_002467
G
163
D
G6PD_HUMAN
Disease (NSHA)
---
A/B
G
163
D
16
UniProt
VAR_002466
G
163
S
G6PD_HUMAN
Disease (NSHA)
---
A/B
G
163
S
17
UniProt
VAR_002468
N
165
D
G6PD_HUMAN
Disease (NSHA)
---
A/B
N
165
D
18
UniProt
VAR_002469
R
166
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
166
H
19
UniProt
VAR_002470
D
176
G
G6PD_HUMAN
Disease (NSHA)
---
A/B
D
176
G
20
UniProt
VAR_002471
D
181
V
G6PD_HUMAN
Disease (NSHA)
5030872
A/B
D
181
V
21
UniProt
VAR_002472
R
182
W
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
182
W
22
UniProt
VAR_002473
S
188
F
G6PD_HUMAN
Disease (NSHA)
5030868
A/B
S
188
F
23
UniProt
VAR_002474
R
198
C
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
198
C
24
UniProt
VAR_002475
R
198
P
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
198
P
25
UniProt
VAR_002476
M
212
V
G6PD_HUMAN
Disease (NSHA)
---
A/B
M
212
V
26
UniProt
VAR_002477
V
213
L
G6PD_HUMAN
Disease (NSHA)
---
A/B
V
213
L
27
UniProt
VAR_002478
F
216
L
G6PD_HUMAN
Disease (NSHA)
---
A/B
F
216
L
28
UniProt
VAR_002480
R
227
L
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
227
L
29
UniProt
VAR_002479
R
227
Q
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
227
Q
30
UniProt
VAR_002482
R
257
G
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
257
G
31
UniProt
VAR_002483
E
274
K
G6PD_HUMAN
Disease (NSHA)
---
A/B
E
274
K
32
UniProt
VAR_002484
S
278
F
G6PD_HUMAN
Disease (NSHA)
---
A/B
S
278
F
33
UniProt
VAR_002485
T
279
S
G6PD_HUMAN
Disease (NSHA)
---
A/B
T
279
S
34
UniProt
VAR_002486
D
282
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
D
282
H
35
UniProt
VAR_002487
R
285
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
285
H
36
UniProt
VAR_002488
V
291
M
G6PD_HUMAN
Disease (NSHA)
---
A/B
V
291
M
37
UniProt
VAR_002489
E
317
K
G6PD_HUMAN
Disease (NSHA)
---
A/B
E
317
K
38
UniProt
VAR_020535
Y
322
H
G6PD_HUMAN
Unclassified
---
A/B
Y
322
H
39
UniProt
VAR_002490
L
323
P
G6PD_HUMAN
Disease (NSHA)
76723693
A/B
L
323
P
40
UniProt
VAR_002491
A
335
T
G6PD_HUMAN
Disease (NSHA)
5030869
A/B
A
335
T
41
UniProt
VAR_002492
L
342
F
G6PD_HUMAN
Unclassified
---
A/B
L
342
F
42
UniProt
VAR_002493
P
353
S
G6PD_HUMAN
Disease (NSHA)
---
A/B
P
353
S
43
UniProt
VAR_002494
N
363
K
G6PD_HUMAN
Disease (NSHA)
---
A/B
N
363
K
44
UniProt
VAR_002495
C
385
R
G6PD_HUMAN
Disease (NSHA)
---
A/B
C
385
R
45
UniProt
VAR_002496
K
386
E
G6PD_HUMAN
Disease (NSHA)
---
A/B
K
386
E
46
UniProt
VAR_002498
R
387
C
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
387
C
47
UniProt
VAR_002497
R
387
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
387
H
48
UniProt
VAR_002499
R
393
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
393
H
49
UniProt
VAR_002500
V
394
L
G6PD_HUMAN
Disease (NSHA)
---
A/B
V
394
L
50
UniProt
VAR_002501
P
396
L
G6PD_HUMAN
Disease (NSHA)
---
A/B
P
396
L
51
UniProt
VAR_002502
E
398
K
G6PD_HUMAN
Disease (NSHA)
---
A/B
E
398
K
52
UniProt
VAR_002503
G
410
C
G6PD_HUMAN
Disease (NSHA)
---
A/B
G
410
C
53
UniProt
VAR_002504
G
410
D
G6PD_HUMAN
Disease (NSHA)
---
A/B
G
410
D
54
UniProt
VAR_002505
E
416
K
G6PD_HUMAN
Disease (NSHA)
---
A/B
E
416
K
55
UniProt
VAR_002506
R
439
P
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
439
P
56
UniProt
VAR_002507
L
440
F
G6PD_HUMAN
Disease (NSHA)
---
A/B
L
440
F
57
UniProt
VAR_002508
G
447
R
G6PD_HUMAN
Disease (NSHA)
---
A/B
G
447
R
58
UniProt
VAR_002509
Q
449
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
Q
449
H
59
UniProt
VAR_002510
R
454
C
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
454
C
60
UniProt
VAR_002511
R
454
H
G6PD_HUMAN
Unclassified
---
A/B
R
454
H
61
UniProt
VAR_002512
R
459
L
G6PD_HUMAN
Disease (NSHA)
72554665
A/B
R
459
L
62
UniProt
VAR_002513
R
459
P
G6PD_HUMAN
Disease (NSHA)
72554665
A/B
R
459
P
63
UniProt
VAR_002514
R
463
H
G6PD_HUMAN
Disease (NSHA)
---
A/B
R
463
H
64
UniProt
VAR_002515
G
488
V
G6PD_HUMAN
Disease (NSHA)
---
A/B
G
488
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: G6P_DEHYDROGENASE (A:200-206,B:200-206)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
G6P_DEHYDROGENASE
PS00069
Glucose-6-phosphate dehydrogenase active site.
G6PD_HUMAN
200-206
4
A:200-206
B:200-206
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
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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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2bhlA02 (A:200-432,A:454-505)
1b: CATH_2bhlB02 (B:200-432,B:454-505)
2a: CATH_2bhlA01 (A:27-199,A:433-453)
2b: CATH_2bhlB01 (B:27-199,B:433-453)
View:
Select:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
Human (Homo sapiens)
(8)
1a
2bhlA02
A:200-432,A:454-505
1b
2bhlB02
B:200-432,B:454-505
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
2a
2bhlA01
A:27-199,A:433-453
2b
2bhlB01
B:27-199,B:433-453
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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(currently selected atoms:
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)
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