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Asym. Unit
Info
Asym.Unit (125 KB)
Biol.Unit 1 (63 KB)
Biol.Unit 2 (61 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN 17BETA-HYDROXYSTEROID DEHYDROGENASE TYPE 5 (AKR1C3) IN COMPLEX WITH NADP+ AND 2'-DESMETHYL-INDOMETHACIN
Authors
:
M. Chen, D. W. Christianson, L. J. Marnett, T. M. Penning
Date
:
16 Jan 12 (Deposition) - 06 Mar 13 (Release) - 28 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Castrate Resistant Prostate Cancer, Akr1C3 Selective Inhibitor, Tim Barrel, Steroid Metabolism, Oxidoreductase-Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. J. Liedtke, A. O. Adeniji, M. Chen, M. C. Byrns, Y. Jin, D. W. Christianson, L. J. Marnett, T. M. Penning
Development Of Potent And Selective Indomethacin Analogues For The Inhibition Of Akr1C3 (Type 5 17 Beta-Hydroxysteroid Dehydrogenase/Prostaglandin F Synthase) In Castrate-Resistant Prostate Cancer.
J. Med. Chem. V. 56 2429 2013
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Hetero Components
(2, 6)
Info
All Hetero Components
1a: [1-(4-CHLOROBENZOYL)-5-METHOXY-1H-... (511a)
1b: [1-(4-CHLOROBENZOYL)-5-METHOXY-1H-... (511b)
1c: [1-(4-CHLOROBENZOYL)-5-METHOXY-1H-... (511c)
1d: [1-(4-CHLOROBENZOYL)-5-METHOXY-1H-... (511d)
2a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
2b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
511
4
Ligand/Ion
[1-(4-CHLOROBENZOYL)-5-METHOXY-1H-INDOL-3-YL]ACETICACID
2
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (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 , HIS A:117 , SER A:166 , ASN A:167 , GLN A:190 , TYR A:216 , SER A:217 , ALA A:218 , LEU A:219 , GLY A:220 , SER A:221 , GLN A:222 , 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 , PHE A:306 , 511 A:402 , HOH A:1002 , HOH A:1066 , HOH A:1068 , HOH A:1116 , HOH A:1233 , HOH A:1274 , HOH A:1275
BINDING SITE FOR RESIDUE NAP A 401
2
AC2
SOFTWARE
TYR A:24 , LEU A:54 , TYR A:55 , TRP A:86 , HIS A:117 , MET A:120 , ASN A:167 , TYR A:216 , ARG A:226 , TRP A:227 , PHE A:306 , PRO A:318 , TYR A:319 , NAP A:401 , 511 A:403 , HOH A:1274 , HOH A:1279
BINDING SITE FOR RESIDUE 511 A 402
3
AC3
SOFTWARE
SER A:129 , PHE A:306 , SER A:308 , PHE A:311 , 511 A:402 , HOH A:1279 , HOH A:1306
BINDING SITE FOR RESIDUE 511 A 403
4
AC4
SOFTWARE
GLY B:22 , THR B:23 , TYR B:24 , ASP B:50 , TYR B:55 , HIS B:117 , SER B:166 , ASN B:167 , GLN B:190 , TYR B:216 , SER B:217 , ALA B:218 , 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 , ARG B:276 , GLN B:279 , ASN B:280 , 511 B:402 , HOH B:1003 , HOH B:1014 , HOH B:1154 , HOH B:1157 , HOH B:1196 , HOH B:1213
BINDING SITE FOR RESIDUE NAP B 401
5
AC5
SOFTWARE
TYR B:24 , LEU B:54 , TYR B:55 , TRP B:86 , HIS B:117 , MET B:120 , ASN B:167 , TYR B:216 , TRP B:227 , TYR B:319 , NAP B:401 , 511 B:403 , HOH B:1154 , HOH B:1160
BINDING SITE FOR RESIDUE 511 B 402
6
AC6
SOFTWARE
TRP B:86 , LEU B:128 , SER B:129 , TRP B:227 , PHE B:306 , SER B:308 , PHE B:311 , 511 B:402 , HOH B:1160 , HOH B:1200
BINDING SITE FOR RESIDUE 511 B 403
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SAPs(SNPs)/Variants
(5, 10)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_032767 (R66Q, chain A/B, )
2: VAR_061001 (E77G, chain A/B, )
3: VAR_032768 (R170C, chain A/B, )
4: VAR_013289 (M175I, chain A/B, )
5: 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_032767
R
66
Q
AK1C3_HUMAN
Polymorphism
35961894
A/B
R
66
Q
2
UniProt
VAR_061001
E
77
G
AK1C3_HUMAN
Polymorphism
41306308
A/B
E
77
G
3
UniProt
VAR_032768
R
170
C
AK1C3_HUMAN
Polymorphism
35575889
A/B
R
170
C
4
UniProt
VAR_013289
M
175
I
AK1C3_HUMAN
Polymorphism
1131132
A/B
M
175
I
5
UniProt
VAR_032769
P
180
S
AK1C3_HUMAN
Polymorphism
34186955
A/B
P
180
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
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:
Select:
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
[
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Exons
(9, 18)
Info
All Exons
Exon 1.5a (A:6-28 | B:6-28)
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:310-320 | B:310-323)
View:
Select:
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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:6-28
B:6-28
23
23
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:310-320
B:310-323
11
14
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d4dbwa_ (A:)
1b: SCOP_d4dbwb_ (B:)
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Protein Domains
(
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(
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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
d4dbwa_
A:
1b
d4dbwb_
B:
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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
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Label:
Sorry, no Info available
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