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3F5O
Asym. Unit
Info
Asym.Unit (203 KB)
Biol.Unit 1 (100 KB)
Biol.Unit 2 (100 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HTHEM2(UNDECAN-2-ONE-COA) COMPLEX
Authors
:
H. Xu, W. Gong
Date
:
04 Nov 08 (Deposition) - 18 Aug 09 (Release) - 18 Aug 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Hotdog Fold, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Cao, H. Xu, H. Zhao, W. Gong, D. Dunaway-Mariano
The Mechanisms Of Human Hotdog-Fold Thioesterase 2 (Hthem2) Substrate Recognition And Catalysis Illuminated By A Structure And Function Based Analysis
Biochemistry V. 48 1293 2009
(for further references see the
PDB file header
)
[
close entry info
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Hetero Components
(4, 27)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
2a: COENZYME A (COAa)
2b: COENZYME A (COAb)
2c: COENZYME A (COAc)
2d: COENZYME A (COAd)
2e: COENZYME A (COAe)
2f: COENZYME A (COAf)
2g: COENZYME A (COAg)
2h: COENZYME A (COAh)
3a: HEXAETHYLENE GLYCOL (P6Ga)
3b: HEXAETHYLENE GLYCOL (P6Gb)
3c: HEXAETHYLENE GLYCOL (P6Gc)
3d: HEXAETHYLENE GLYCOL (P6Gd)
4a: UNDECAN-2-ONE (UOCa)
4b: UNDECAN-2-ONE (UOCb)
4c: UNDECAN-2-ONE (UOCc)
4d: UNDECAN-2-ONE (UOCd)
4e: UNDECAN-2-ONE (UOCe)
4f: UNDECAN-2-ONE (UOCf)
4g: UNDECAN-2-ONE (UOCg)
4h: UNDECAN-2-ONE (UOCh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
7
Ligand/Ion
CHLORIDE ION
2
COA
8
Ligand/Ion
COENZYME A
3
P6G
4
Ligand/Ion
HEXAETHYLENE GLYCOL
4
UOC
8
Ligand/Ion
UNDECAN-2-ONE
[
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]
Sites
(27, 27)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:50 , HIS A:56 , GLY A:57 , UOC B:149 , HOH B:187
BINDING SITE FOR RESIDUE CL A 151
02
AC2
SOFTWARE
ASN C:50 , GLY C:57 , UOC D:149 , COA D:150 , HOH D:175
BINDING SITE FOR RESIDUE CL C 151
03
AC3
SOFTWARE
UOC C:149 , COA C:150 , HOH C:164 , ASN D:50 , HIS D:56 , GLY D:57
BINDING SITE FOR RESIDUE CL D 151
04
AC4
SOFTWARE
ASN E:50 , GLY E:57 , UOC F:149 , COA F:150 , HOH F:190
BINDING SITE FOR RESIDUE CL E 151
05
AC5
SOFTWARE
UOC E:149 , COA E:150 , HOH E:164 , HOH E:165 , ASN F:50 , GLY F:57
BINDING SITE FOR RESIDUE CL F 151
06
AC6
SOFTWARE
ASN G:50 , HIS G:56 , GLY G:57 , HOH H:158
BINDING SITE FOR RESIDUE CL G 151
07
AC7
SOFTWARE
UOC G:149 , HOH G:159 , ASN H:50 , GLY H:57
BINDING SITE FOR RESIDUE CL H 151
08
AC8
SOFTWARE
MET A:15 , ASN A:66 , MET A:70 , LEU A:73 , GLY A:81 , SER A:83 , LYS A:136 , COA A:150 , HOH A:1276 , ASN B:50
BINDING SITE FOR RESIDUE UOC A 149
09
AC9
SOFTWARE
VAL A:82 , SER A:83 , HIS A:137 , GLY A:139 , UOC A:149 , TYR B:90 , MET B:91 , SER B:92 , PRO B:93 , LYS C:108 , GLY C:110 , LYS C:111 , THR C:112 , LEU C:113 , PHE C:115 , HOH C:163 , HOH C:606 , HOH C:1268 , ARG H:19
BINDING SITE FOR RESIDUE COA A 150
10
BC1
SOFTWARE
ASN A:50 , ALA A:51 , CL A:151 , GLY B:81 , VAL B:82 , LYS B:136 , COA B:150 , P6G B:1001
BINDING SITE FOR RESIDUE UOC B 149
11
BC2
SOFTWARE
TYR A:90 , MET A:91 , SER A:92 , PRO A:93 , HOH A:335 , SER B:83 , HIS B:137 , UOC B:149 , LYS D:108 , GLY D:110 , LYS D:111 , THR D:112 , LEU D:113 , PHE D:115 , HOH D:298 , HOH D:586 , HOH D:633
BINDING SITE FOR RESIDUE COA B 150
12
BC3
SOFTWARE
GLY C:81 , VAL C:82 , LYS C:136 , COA C:150 , HOH C:611 , ASN D:50 , CL D:151
BINDING SITE FOR RESIDUE UOC C 149
13
BC4
SOFTWARE
LYS A:108 , GLY A:110 , LYS A:111 , THR A:112 , LEU A:113 , PHE A:115 , HOH A:157 , HOH A:287 , HOH A:332 , HOH A:473 , HOH A:1172 , HOH A:1192 , SER C:83 , HIS C:137 , GLY C:139 , UOC C:149 , LEU D:55 , TYR D:90 , MET D:91 , SER D:92 , PRO D:93 , LYS D:95 , CL D:151 , HOH D:153 , HOH D:357
BINDING SITE FOR RESIDUE COA C 150
14
BC5
SOFTWARE
ASN C:50 , CL C:151 , GLY D:81 , LYS D:136 , COA D:150 , HOH D:338
BINDING SITE FOR RESIDUE UOC D 149
15
BC6
SOFTWARE
LYS B:108 , GLY B:110 , LYS B:111 , THR B:112 , LEU B:113 , PHE B:115 , HOH B:154 , HOH B:186 , HOH B:210 , HOH B:682 , HOH B:750 , HOH B:1080 , HOH B:1233 , TYR C:90 , MET C:91 , SER C:92 , PRO C:93 , CL C:151 , HOH C:162 , SER D:83 , HIS D:137 , UOC D:149 , ARG E:19 , GLU F:46
BINDING SITE FOR RESIDUE COA D 150
16
BC7
SOFTWARE
ASN E:66 , THR E:69 , GLY E:81 , LYS E:136 , COA E:150 , ASN F:50 , CL F:151
BINDING SITE FOR RESIDUE UOC E 149
17
BC8
SOFTWARE
SER E:83 , HIS E:137 , UOC E:149 , TYR F:90 , MET F:91 , SER F:92 , PRO F:93 , CL F:151 , HOH F:155 , HOH F:1274 , LYS G:108 , GLY G:110 , LYS G:111 , THR G:112 , LEU G:113 , PHE G:115 , HOH G:158 , HOH G:229 , HOH G:524 , HOH G:649 , HOH G:1123 , HOH G:1197
BINDING SITE FOR RESIDUE COA E 150
18
BC9
SOFTWARE
ASN E:50 , ALA E:51 , CL E:151 , P6G E:1001 , GLY F:81 , LYS F:136 , COA F:150
BINDING SITE FOR RESIDUE UOC F 149
19
CC1
SOFTWARE
TYR E:90 , MET E:91 , SER E:92 , PRO E:93 , LYS E:95 , CL E:151 , HOH E:213 , SER F:83 , HIS F:137 , GLY F:139 , UOC F:149 , LYS H:108 , GLY H:110 , LYS H:111 , THR H:112 , LEU H:113 , PHE H:115 , HOH H:350 , HOH H:354 , HOH H:489 , HOH H:947 , HOH H:1272
BINDING SITE FOR RESIDUE COA F 150
20
CC2
SOFTWARE
PRO G:80 , GLY G:81 , LYS G:136 , COA G:150 , P6G G:1001 , ASN H:50 , CL H:151
BINDING SITE FOR RESIDUE UOC G 149
21
CC3
SOFTWARE
LYS E:108 , GLY E:110 , LYS E:111 , THR E:112 , LEU E:113 , PHE E:115 , HOH E:161 , HOH E:262 , HOH E:448 , HOH E:678 , HOH E:893 , HOH E:1202 , SER G:83 , HIS G:137 , GLY G:139 , UOC G:149 , TYR H:90 , MET H:91 , SER H:92 , PRO H:93 , LYS H:95 , HOH H:159
BINDING SITE FOR RESIDUE COA G 150
22
CC4
SOFTWARE
ASN G:50 , MET H:15 , GLY H:81 , LYS H:136 , COA H:150 , HOH H:468 , HOH H:1204
BINDING SITE FOR RESIDUE UOC H 149
23
CC5
SOFTWARE
LYS F:108 , GLY F:110 , LYS F:111 , THR F:112 , LEU F:113 , PHE F:115 , HOH F:478 , HOH F:627 , HOH F:1259 , TYR G:90 , MET G:91 , SER G:92 , PRO G:93 , HOH G:421 , VAL H:82 , SER H:83 , HIS H:137 , UOC H:149
BINDING SITE FOR RESIDUE COA H 150
24
CC6
SOFTWARE
ALA A:51 , VAL B:11 , MET B:15 , ASN B:20 , UOC B:149
BINDING SITE FOR RESIDUE P6G B 1001
25
CC7
SOFTWARE
VAL C:11 , ASN C:20 , ALA D:51
BINDING SITE FOR RESIDUE P6G C 1001
26
CC8
SOFTWARE
ALA E:51 , MET F:15 , ALA F:18 , ASN F:20 , GLU F:22 , UOC F:149
BINDING SITE FOR RESIDUE P6G E 1001
27
CC9
SOFTWARE
VAL G:11 , ALA G:14 , MET G:15 , ASN G:20 , GLU G:22 , UOC G:149 , ALA H:51
BINDING SITE FOR RESIDUE P6G G 1001
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(3, 24)
Info
All Exons
Exon 1.1 (A:2-27 | B:4-27 | C:3-27 | D:3-27 ...)
Exon 1.3 (A:28-89 | B:28-89 | C:28-89 | D:28...)
Exon 1.4 (A:89-139 | B:89-139 | C:89-139 | D...)
View:
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Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/-
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
1.1
ENST00000230048
1
ENSE00001174688
chr6:
24667299-24667572
274
ACO13_HUMAN
1-27
27
8
A:2-27
B:4-27
C:3-27
D:3-27
E:2-27
F:2-27
G:4-27
H:2-27
26
24
25
25
26
26
24
26
1.3
ENST00000230048
3
ENSE00001968027
chr6:
24698111-24698295
185
ACO13_HUMAN
28-89
62
8
A:28-89
B:28-89
C:28-89
D:28-89
E:28-89
F:28-89
G:28-89
H:28-89
62
62
62
62
62
62
62
62
1.4
ENST00000230048
4
ENSE00001960410
chr6:
24701687-24701942
256
ACO13_HUMAN
89-140
52
8
A:89-139
B:89-139
C:89-139
D:89-139
E:89-139
F:89-139
G:89-139
H:89-139
51
51
51
51
51
51
51
51
[
close EXON info
]
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d3f5oa_ (A:)
1b: SCOP_d3f5ob_ (B:)
1c: SCOP_d3f5oc_ (C:)
1d: SCOP_d3f5od_ (D:)
1e: SCOP_d3f5oe_ (E:)
1f: SCOP_d3f5of_ (F:)
1g: SCOP_d3f5og_ (G:)
1h: SCOP_d3f5oh_ (H:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Thioesterase/thiol ester dehydrase-isomerase
(151)
Superfamily
:
Thioesterase/thiol ester dehydrase-isomerase
(151)
Family
:
PaaI/YdiI-like
(44)
Protein domain
:
automated matches
(20)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d3f5oa_
A:
1b
d3f5ob_
B:
1c
d3f5oc_
C:
1d
d3f5od_
D:
1e
d3f5oe_
E:
1f
d3f5of_
F:
1g
d3f5og_
G:
1h
d3f5oh_
H:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Asymmetric Unit 1
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Asym.Unit (203 KB)
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