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Asym. Unit
Info
Asym.Unit (120 KB)
Biol.Unit 1 (59 KB)
Biol.Unit 2 (59 KB)
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(1)
Title
:
STRUCTURE OF PROSTAGLANDIN F SYNTHASE WITH PROSTAGLANDIN D2
Authors
:
J. Komoto, T. Yamada, K. Watanabe, F. Takusagawa
Date
:
19 Dec 03 (Deposition) - 02 Nov 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.69
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Prostaglandin F Synthase, Akr1C3, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Komoto, T. Yamada, K. Watanabe, F. Takusagawa
Crystal Structure Of Human Prostaglandin F Synthase (Akr1C3).
Biochemistry V. 43 2188 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 4)
Info
All Hetero Components
1a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
1b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
2a: PROSTAGLANDIN D2 (PG2a)
2b: PROSTAGLANDIN D2 (PG2b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2
PG2
2
Ligand/Ion
PROSTAGLANDIN D2
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:22 , THR A:23 , TYR A:24 , ASP A:50 , TYR A:55 , LYS A:84 , HIS A:117 , SER A:166 , ASN A:167 , GLN A:190 , TYR A:216 , SER A:217 , ALA A:218 , LEU A:219 , SER A:221 , GLN A:222 , LEU A:236 , ALA A:253 , LEU A:268 , ALA A:269 , LYS A:270 , SER A:271 , TYR A:272 , ARG A:276 , GLN A:279 , ASN A:280 , HOH A:1001 , HOH A:1039 , HOH A:1094 , HOH A:1096 , HOH A:1174 , HOH A:1180 , HOH A:1311 , PG2 A:2325
BINDING SITE FOR RESIDUE NAP A 2324
2
AC2
SOFTWARE
TYR A:24 , LEU A:54 , TYR A:55 , TRP A:86 , HIS A:117 , MET A:120 , LEU A:128 , SER A:129 , ASN A:167 , PHE A:306 , SER A:308 , TYR A:319 , NAP A:2324
BINDING SITE FOR RESIDUE PG2 A 2325
3
AC3
SOFTWARE
GLY B:22 , THR B:23 , TYR B:24 , ASP B:50 , TYR B:55 , LYS B:84 , HIS B:117 , SER B:166 , ASN B:167 , GLN B:190 , TYR B:216 , SER B:217 , LEU B:219 , SER B:221 , GLN B:222 , ALA B:253 , LEU B:268 , ALA B:269 , LYS B:270 , SER B:271 , TYR B:272 , ASN B:273 , ARG B:276 , GLN B:279 , ASN B:280 , HOH B:1025 , HOH B:1055 , HOH B:1193 , HOH B:1274 , PG2 B:3325
BINDING SITE FOR RESIDUE NAP B 3324
4
AC4
SOFTWARE
TYR B:24 , LEU B:54 , TYR B:55 , TRP B:86 , HIS B:117 , SER B:129 , ASN B:167 , TRP B:227 , PHE B:306 , SER B:308 , PHE B:311 , TYR B:319 , NAP B:3324
BINDING SITE FOR RESIDUE PG2 B 3325
[
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SAPs(SNPs)/Variants
(6, 12)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_013288 (Q5Q, chain A/B, )
2: VAR_032767 (R66Q, chain A/B, )
3: VAR_061001 (E77G, chain A/B, )
4: VAR_032768 (R170C, chain A/B, )
5: VAR_013289 (M175I, chain A/B, )
6: VAR_032769 (P180S, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_013288
H
5
Q
AK1C3_HUMAN
Polymorphism
12529
A/B
Q
5
Q
2
UniProt
VAR_032767
R
66
Q
AK1C3_HUMAN
Polymorphism
35961894
A/B
R
66
Q
3
UniProt
VAR_061001
E
77
G
AK1C3_HUMAN
Polymorphism
41306308
A/B
E
77
G
4
UniProt
VAR_032768
R
170
C
AK1C3_HUMAN
Polymorphism
35575889
A/B
R
170
C
5
UniProt
VAR_013289
M
175
I
AK1C3_HUMAN
Polymorphism
1131132
A/B
M
175
I
6
UniProt
VAR_032769
P
180
S
AK1C3_HUMAN
Polymorphism
34186955
A/B
P
180
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: ALDOKETO_REDUCTASE_1 (A:45-62,B:45-62)
2: ALDOKETO_REDUCTASE_2 (A:151-168,B:151-168)
3: ALDOKETO_REDUCTASE_3 (A:268-283,B:268-283)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALDOKETO_REDUCTASE_1
PS00798
Aldo/keto reductase family signature 1.
AK1C3_HUMAN
45-62
2
A:45-62
B:45-62
2
ALDOKETO_REDUCTASE_2
PS00062
Aldo/keto reductase family signature 2.
AK1C3_HUMAN
151-168
2
A:151-168
B:151-168
3
ALDOKETO_REDUCTASE_3
PS00063
Aldo/keto reductase family putative active site signature.
AK1C3_HUMAN
268-283
2
A:268-283
B:268-283
[
close PROSITE info
]
Exons
(9, 18)
Info
All Exons
Exon 1.5a (A:5-28 | B:5-28)
Exon 1.6 (A:29-84 | B:29-84)
Exon 1.7c (A:85-123 | B:85-123)
Exon 1.8 (A:124-149 | B:124-149)
Exon 1.9 (A:150-190 | B:150-190)
Exon 1.10 (A:191-227 | B:191-227)
Exon 1.11 (A:227-282 | B:227-282)
Exon 1.12 (A:283-310 | B:283-310)
Exon 1.13 (A:310-323 | B:310-323)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.5a
02: Boundary 1.5a/1.6
03: Boundary 1.6/1.7c
04: Boundary 1.7c/1.8
05: Boundary 1.8/1.9
06: Boundary 1.9/1.10
07: Boundary 1.10/1.11
08: Boundary 1.11/1.12
09: Boundary 1.12/1.13
10: Boundary 1.13/-
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
1.5a
ENST00000380554
5a
ENSE00001896041
chr10:
5135985-5136720
736
AK1C3_HUMAN
1-28
28
2
A:5-28
B:5-28
24
24
1.6
ENST00000380554
6
ENSE00001653638
chr10:
5138602-5138769
168
AK1C3_HUMAN
29-84
56
2
A:29-84
B:29-84
56
56
1.7c
ENST00000380554
7c
ENSE00001655668
chr10:
5139626-5139742
117
AK1C3_HUMAN
85-123
39
2
A:85-123
B:85-123
39
39
1.8
ENST00000380554
8
ENSE00000907705
chr10:
5140994-5141071
78
AK1C3_HUMAN
124-149
26
2
A:124-149
B:124-149
26
26
1.9
ENST00000380554
9
ENSE00001741294
chr10:
5141519-5141641
123
AK1C3_HUMAN
150-190
41
2
A:150-190
B:150-190
41
41
1.10
ENST00000380554
10
ENSE00001623936
chr10:
5144293-5144402
110
AK1C3_HUMAN
191-227
37
2
A:191-227
B:191-227
37
37
1.11
ENST00000380554
11
ENSE00001750670
chr10:
5144677-5144842
166
AK1C3_HUMAN
227-282
56
2
A:227-282
B:227-282
56
56
1.12
ENST00000380554
12
ENSE00000907699
chr10:
5147787-5147869
83
AK1C3_HUMAN
283-310
28
2
A:283-310
B:283-310
28
28
1.13
ENST00000380554
13
ENSE00001386806
chr10:
5149653-5149878
226
AK1C3_HUMAN
310-323
14
2
A:310-323
B:310-323
14
14
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1ry0a_ (A:)
1b: SCOP_d1ry0b_ (B:)
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Protein Domains
(
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(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
NAD(P)-linked oxidoreductase
(286)
Family
:
Aldo-keto reductases (NADP)
(251)
Protein domain
:
Prostaglandin d2 11-ketoreductase (akr1c3)
(30)
Human (Homo sapiens) [TaxId: 9606]
(30)
1a
d1ry0a_
A:
1b
d1ry0b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1ry0A00 (A:5-323)
1b: CATH_1ry0B00 (B:5-323)
View:
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
NADP-dependent oxidoreductase
(181)
Human (Homo sapiens)
(116)
1a
1ry0A00
A:5-323
1b
1ry0B00
B:5-323
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Aldo_ket_red_1ry0B01 (B:18-301)
1b: PFAM_Aldo_ket_red_1ry0B02 (B:18-301)
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(
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)
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(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Aldo_ket_red]
(94)
Family
:
Aldo_ket_red
(94)
Homo sapiens (Human)
(60)
1a
Aldo_ket_red-1ry0B01
B:18-301
1b
Aldo_ket_red-1ry0B02
B:18-301
[
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]
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