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1JR2
Asym. Unit
Info
Asym.Unit (184 KB)
Biol.Unit 1 (90 KB)
Biol.Unit 2 (91 KB)
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(1)
Title
:
STRUCTURE OF UROPORPHYRINOGEN III SYNTHASE
Authors
:
M. A. Mathews, H. L. Schubert, F. G. Whitby, K. J. Alexander, K. Schadick, H. A. Bergonia, J. D. Phillips, C. P. Hill
Date
:
10 Aug 01 (Deposition) - 07 Nov 01 (Release) - 17 Nov 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.84
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Heme Biosynthesis, Heam Biosynthesis, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Mathews, H. L. Schubert, F. G. Whitby, K. J. Alexander, K. Schadick, H. A. Bergonia, J. D. Phillips, C. P. Hill
Crystal Structure Of Human Uroporphyrinogen Iii Synthase.
Embo J. V. 20 5832 2001
(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
(23, 46)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_021615 (V3F, chain A/B, )
02: VAR_003674 (L4F, chain A/B, )
03: VAR_003675 (Y19C, chain A/B, )
04: VAR_021616 (S47P, chain A/B, )
05: VAR_003676 (P53L, chain A/B, )
06: VAR_003677 (T62A, chain A/B, )
07: VAR_003678 (A66V, chain A/B, )
08: VAR_021617 (A69T, chain A/B, )
09: VAR_003679 (C73R, chain A/B, )
10: VAR_003680 (V82F, chain A/B, )
11: VAR_003681 (V99A, chain A/B, )
12: VAR_003682 (A104V, chain A/B, )
13: VAR_049345 (K124R, chain A/B, )
14: VAR_021618 (I129T, chain A/B, )
15: VAR_049346 (V171G, chain A/B, )
16: VAR_013558 (G188R, chain A/B, )
17: VAR_021619 (G188W, chain A/B, )
18: VAR_003683 (S212P, chain A/B, )
19: VAR_021621 (I219S, chain A/B, )
20: VAR_003684 (G225S, chain A/B, )
21: VAR_003685 (T228M, chain A/B, )
22: VAR_067318 (L237P, chain A/B, )
23: VAR_066247 (P248Q, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_021615
V
3
F
HEM4_HUMAN
Disease (CEP)
---
A/B
V
3
F
02
UniProt
VAR_003674
L
4
F
HEM4_HUMAN
Disease (CEP)
---
A/B
L
4
F
03
UniProt
VAR_003675
Y
19
C
HEM4_HUMAN
Disease (CEP)
---
A/B
Y
19
C
04
UniProt
VAR_021616
S
47
P
HEM4_HUMAN
Disease (CEP)
---
A/B
S
47
P
05
UniProt
VAR_003676
P
53
L
HEM4_HUMAN
Disease (CEP)
---
A/B
P
53
L
06
UniProt
VAR_003677
T
62
A
HEM4_HUMAN
Disease (CEP)
28941775
A/B
T
62
A
07
UniProt
VAR_003678
A
66
V
HEM4_HUMAN
Disease (CEP)
28941774
A/B
A
66
V
08
UniProt
VAR_021617
A
69
T
HEM4_HUMAN
Disease (CEP)
---
A/B
A
69
T
09
UniProt
VAR_003679
C
73
R
HEM4_HUMAN
Disease (CEP)
---
A/B
C
73
R
10
UniProt
VAR_003680
V
82
F
HEM4_HUMAN
Disease (CEP)
121908016
A/B
V
82
F
11
UniProt
VAR_003681
V
99
A
HEM4_HUMAN
Disease (CEP)
---
A/B
V
99
A
12
UniProt
VAR_003682
A
104
V
HEM4_HUMAN
Disease (CEP)
---
A/B
A
104
V
13
UniProt
VAR_049345
K
124
R
HEM4_HUMAN
Polymorphism
17153561
A/B
K
124
R
14
UniProt
VAR_021618
I
129
T
HEM4_HUMAN
Disease (CEP)
---
A/B
I
129
T
15
UniProt
VAR_049346
V
171
G
HEM4_HUMAN
Polymorphism
17173752
A/B
V
171
G
16
UniProt
VAR_013558
G
188
R
HEM4_HUMAN
Disease (CEP)
---
A/B
G
188
R
17
UniProt
VAR_021619
G
188
W
HEM4_HUMAN
Disease (CEP)
---
A/B
G
188
W
18
UniProt
VAR_003683
S
212
P
HEM4_HUMAN
Disease (CEP)
---
A/B
S
212
P
19
UniProt
VAR_021621
I
219
S
HEM4_HUMAN
Disease (CEP)
---
A/B
I
219
S
20
UniProt
VAR_003684
G
225
S
HEM4_HUMAN
Disease (CEP)
---
A/B
G
225
S
21
UniProt
VAR_003685
T
228
M
HEM4_HUMAN
Disease (CEP)
---
A/B
T
228
M
22
UniProt
VAR_067318
L
237
P
HEM4_HUMAN
Disease (CEP)
---
A/B
L
237
P
23
UniProt
VAR_066247
P
248
Q
HEM4_HUMAN
Disease (CEP)
---
A/B
P
248
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
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]
Exons
(9, 18)
Info
All Exons
Exon 1.2b (A:1-21 | B:1-21)
Exon 1.3a (A:22-49 | B:22-49)
Exon 1.4 (A:50-82 | B:50-82)
Exon 1.5 (A:82-107 | B:82-107)
Exon 1.6a (A:107-132 | B:107-132)
Exon 1.8a (A:132-159 | B:132-159)
Exon 1.11b (A:159-187 | B:159-187)
Exon 1.12c (A:188-220 | B:188-220)
Exon 1.16g (A:221-260 | B:221-260)
View:
Select:
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All Exon Boundaries
01: Boundary 1.1b/1.2b
02: Boundary 1.2b/1.3a
03: Boundary 1.3a/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6a
06: Boundary 1.6a/1.8a
07: Boundary 1.8a/1.11b
08: Boundary 1.11b/1.12c
09: Boundary 1.12c/1.16g
10: Boundary 1.16g/-
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
1.1b
ENST00000368797
1b
ENSE00001432041
chr10:
127511796-127511598
199
HEM4_HUMAN
-
0
0
-
-
1.2b
ENST00000368797
2b
ENSE00001372447
chr10:
127505094-127505006
89
HEM4_HUMAN
1-21
21
2
A:1-21
B:1-21
21
21
1.3a
ENST00000368797
3a
ENSE00001384033
chr10:
127504829-127504746
84
HEM4_HUMAN
22-49
28
2
A:22-49
B:22-49
28
28
1.4
ENST00000368797
4
ENSE00001382769
chr10:
127503699-127503603
97
HEM4_HUMAN
50-82
33
2
A:50-82
B:50-82
33
33
1.5
ENST00000368797
5
ENSE00001372809
chr10:
127500857-127500783
75
HEM4_HUMAN
82-107
26
2
A:82-107
B:82-107
26
26
1.6a
ENST00000368797
6a
ENSE00001382753
chr10:
127496056-127495982
75
HEM4_HUMAN
107-132
26
2
A:107-132
B:107-132
26
26
1.8a
ENST00000368797
8a
ENSE00001381661
chr10:
127486714-127486634
81
HEM4_HUMAN
132-159
28
2
A:132-159
B:132-159
28
28
1.11b
ENST00000368797
11b
ENSE00001370810
chr10:
127484757-127484672
86
HEM4_HUMAN
159-187
29
2
A:159-187
B:159-187
29
29
1.12c
ENST00000368797
12c
ENSE00001371056
chr10:
127483547-127483449
99
HEM4_HUMAN
188-220
33
2
A:188-220
B:188-220
33
33
1.16g
ENST00000368797
16g
ENSE00001865283
chr10:
127477574-127477147
428
HEM4_HUMAN
221-265
45
2
A:221-260
B:221-260
40
40
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1jr2a_ (A:)
1b: SCOP_d1jr2b_ (B:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
HemD-like
(8)
Superfamily
:
HemD-like
(8)
Family
:
HemD-like
(8)
Protein domain
:
Uroporphyrinogen III synthase (U3S, HemD)
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d1jr2a_
A:
1b
d1jr2b_
B:
[
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]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1jr2A01 (A:1-35,A:176-260)
1b: CATH_1jr2B01 (B:1-35,B:176-260)
1c: CATH_1jr2A02 (A:36-175)
1d: CATH_1jr2B02 (B:36-175)
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(
)
(
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Architectures
(
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.10090, no name defined]
(5)
Human (Homo sapiens)
(1)
1a
1jr2A01
A:1-35,A:176-260
1b
1jr2B01
B:1-35,B:176-260
1c
1jr2A02
A:36-175
1d
1jr2B02
B:36-175
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_HEM4_1jr2B01 (B:17-253)
1b: PFAM_HEM4_1jr2B02 (B:17-253)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: HEM4]
(6)
Family
:
HEM4
(6)
Homo sapiens (Human)
(1)
1a
HEM4-1jr2B01
B:17-253
1b
HEM4-1jr2B02
B:17-253
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]
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Asym.Unit (184 KB)
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