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3GVV
Biol. Unit 1
Info
Asym.Unit (62 KB)
Biol.Unit 1 (114 KB)
Biol.Unit 2 (58 KB)
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(1)
Title
:
SINGLE-CHAIN UROD Y164G (GY) MUTATION
Authors
:
C. P. Hill, J. D. Phillips, F. G. Whitby, C. Warby, J. P. Kushner
Date
:
31 Mar 09 (Deposition) - 07 Jul 09 (Release) - 07 Jul 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Biol. Unit 2: A (1x)
Keywords
:
Uroporphyrinogen, Decarboxylase, Lyase, Heme Biosynthesis, Acetylation, Cytoplasm, Disease Mutation, Phosphoprotein, Porphyrin Biosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. D. Phillips, C. A. Warby, F. G. Whitby, J. P. Kushner, C. P. Hill
Substrate Shuttling Between Active Sites Of Uroporphyrinogen Decarboxylase Is Not Required To Generate Coproporphyrinogen.
J. Mol. Biol. V. 389 306 2009
(for further references see the
PDB file header
)
[
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Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
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]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
close Site info
]
SAPs(SNPs)/Variants
(41, 82)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_060683 (K15E, chain A, )
02: VAR_022567 (G25E, chain A, )
03: VAR_022568 (F46L, chain A, )
04: VAR_009103 (P62L, chain A, )
05: VAR_067457 (P77L, chain A, )
06: VAR_007910 (A80G, chain A, )
07: VAR_022569 (A80S, chain A, )
08: VAR_060684 (P106L, chain A, )
09: VAR_060685 (R113T, chain A, )
10: VAR_009104 (V134Q, chain A, )
11: VAR_010985 (R142Q, chain A, )
12: VAR_022570 (R144P, chain A, )
13: VAR_022571 (G156D, chain A, )
14: VAR_010986 (L161Q, chain A, )
15: VAR_007911 (M165R, chain A, )
16: VAR_007714 (E167K, chain A, )
17: VAR_065558 (G168R, chain A, )
18: VAR_065559 (G170D, chain A, )
19: VAR_022572 (R193P, chain A, )
20: VAR_007912 (L195F, chain A, )
21: VAR_022573 (L216Q, chain A, )
22: VAR_022574 (E218K, chain A, )
23: VAR_010987 (S219F, chain A, )
24: VAR_009105 (H220P, chain A, )
25: VAR_009106 (F229L, chain A, )
26: VAR_022575 (F232L, chain A, )
27: VAR_010988 (P235S, chain A, )
28: VAR_007913 (L253Q, chain A, )
29: VAR_022576 (I260T, chain A, )
30: VAR_007715 (G281E, chain A, )
31: VAR_007716 (G281V, chain A, )
32: VAR_022577 (L282R, chain A, )
33: VAR_007717 (R292G, chain A, )
34: VAR_022578 (G303S, chain A, )
35: VAR_060686 (G303V, chain A, )
36: VAR_007914 (N304K, chain A, )
37: VAR_009107 (Y311C, chain A, )
38: VAR_007915 (G318R, chain A, )
39: VAR_009108 (M324T, chain A, )
40: VAR_007916 (R332H, chain A, )
41: VAR_007917 (I334T, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_060683
K
15
E
DCUP_HUMAN
Polymorphism
11541959
A
K
15
E
02
UniProt
VAR_022567
G
25
E
DCUP_HUMAN
Disease (FPCT)
---
A
G
25
E
03
UniProt
VAR_022568
F
46
L
DCUP_HUMAN
Disease (HEP)
---
A
F
46
L
04
UniProt
VAR_009103
P
62
L
DCUP_HUMAN
Disease (HEP)
---
A
P
62
L
05
UniProt
VAR_067457
P
77
L
DCUP_HUMAN
Polymorphism
1131147
A
P
77
L
06
UniProt
VAR_007910
A
80
G
DCUP_HUMAN
Disease (HEP)
---
A
A
80
G
07
UniProt
VAR_022569
A
80
S
DCUP_HUMAN
Disease (FPCT)
---
A
A
80
S
08
UniProt
VAR_060684
P
106
L
DCUP_HUMAN
Polymorphism
11541962
A
P
106
L
09
UniProt
VAR_060685
R
113
T
DCUP_HUMAN
Polymorphism
11541963
A
R
113
T
10
UniProt
VAR_009104
V
134
Q
DCUP_HUMAN
Disease (HEP)
---
A
V
134
Q
11
UniProt
VAR_010985
R
142
Q
DCUP_HUMAN
Disease (FPCT)
---
A
R
142
Q
12
UniProt
VAR_022570
R
144
P
DCUP_HUMAN
Disease (FPCT)
---
A
R
144
P
13
UniProt
VAR_022571
G
156
D
DCUP_HUMAN
Disease (FPCT)
---
A
G
156
D
14
UniProt
VAR_010986
L
161
Q
DCUP_HUMAN
Disease (FPCT)
---
A
L
161
Q
15
UniProt
VAR_007911
M
165
R
DCUP_HUMAN
Disease (FPCT)
---
A
M
165
R
16
UniProt
VAR_007714
E
167
K
DCUP_HUMAN
Disease (HEP)
---
A
E
167
K
17
UniProt
VAR_065558
G
168
R
DCUP_HUMAN
Disease (HEP)
---
A
G
168
R
18
UniProt
VAR_065559
G
170
D
DCUP_HUMAN
Disease (HEP)
---
A
G
170
D
19
UniProt
VAR_022572
R
193
P
DCUP_HUMAN
Disease (FPCT)
---
A
R
193
P
20
UniProt
VAR_007912
L
195
F
DCUP_HUMAN
Disease (FPCT)
---
A
L
195
F
21
UniProt
VAR_022573
L
216
Q
DCUP_HUMAN
Disease (FPCT)
---
A
L
216
Q
22
UniProt
VAR_022574
E
218
K
DCUP_HUMAN
Disease (FPCT)
---
A
E
218
K
23
UniProt
VAR_010987
S
219
F
DCUP_HUMAN
Disease (FPCT)
---
A
S
219
F
24
UniProt
VAR_009105
H
220
P
DCUP_HUMAN
Disease (HEP)
---
A
H
220
P
25
UniProt
VAR_009106
F
229
L
DCUP_HUMAN
Disease (FPCT)
---
A
F
229
L
26
UniProt
VAR_022575
F
232
L
DCUP_HUMAN
Disease (FPCT)
---
A
F
232
L
27
UniProt
VAR_010988
P
235
S
DCUP_HUMAN
Disease (FPCT)
---
A
P
235
S
28
UniProt
VAR_007913
L
253
Q
DCUP_HUMAN
Disease (FPCT)
36033115
A
L
253
Q
29
UniProt
VAR_022576
I
260
T
DCUP_HUMAN
Disease (FPCT)
---
A
I
260
T
30
UniProt
VAR_007715
G
281
E
DCUP_HUMAN
Disease (HEP)
---
A
G
281
E
31
UniProt
VAR_007716
G
281
V
DCUP_HUMAN
Disease (FPCT)
---
A
G
281
V
32
UniProt
VAR_022577
L
282
R
DCUP_HUMAN
Disease (FPCT)
---
A
L
282
R
33
UniProt
VAR_007717
R
292
G
DCUP_HUMAN
Disease (HEP)
---
A
R
292
G
34
UniProt
VAR_022578
G
303
S
DCUP_HUMAN
Disease (FPCT)
---
A
G
303
S
35
UniProt
VAR_060686
G
303
V
DCUP_HUMAN
Polymorphism
17849533
A
G
303
V
36
UniProt
VAR_007914
N
304
K
DCUP_HUMAN
Disease (FPCT)
---
A
N
304
K
37
UniProt
VAR_009107
Y
311
C
DCUP_HUMAN
Disease (HEP)
---
A
Y
311
C
38
UniProt
VAR_007915
G
318
R
DCUP_HUMAN
Disease (FPCT)
116233118
A
G
318
R
39
UniProt
VAR_009108
M
324
T
DCUP_HUMAN
Disease (FPCT)
---
A
M
324
T
40
UniProt
VAR_007916
R
332
H
DCUP_HUMAN
Disease (FPCT)
---
A
R
332
H
41
UniProt
VAR_007917
I
334
T
DCUP_HUMAN
Disease (FPCT)
---
A
I
334
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: UROD_1 (A:32-41)
2: UROD_2 (A:152-168)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UROD_1
PS00906
Uroporphyrinogen decarboxylase signature 1.
DCUP_HUMAN
32-41
2
A:32-41
2
UROD_2
PS00907
Uroporphyrinogen decarboxylase signature 2.
DCUP_HUMAN
152-168
2
A:152-168
[
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]
Exons
(0, 0)
Info
All Exons
View:
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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_d3gvva_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
UROD/MetE-like
(30)
Family
:
Uroporphyrinogen decarboxylase, UROD
(22)
Protein domain
:
Uroporphyrinogen decarboxylase, UROD
(21)
Human (Homo sapiens) [TaxId: 9606]
(19)
1a
d3gvva_
A:
[
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]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3gvvA00 (A:11-366)
View:
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Classes
(
)
(
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Architectures
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
[code=3.20.20.210, no name defined]
(35)
Human (Homo sapiens)
(19)
1a
3gvvA00
A:11-366
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Atom Selection
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all
)
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