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3GPC
Asym. Unit
Info
Asym.Unit (194 KB)
Biol.Unit 1 (95 KB)
Biol.Unit 2 (96 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN ACYL-COA SYNTHETASE MEDIUM-CHAIN FAMILY MEMBER 2A (L64P MUTATION) IN A COMPLEX WITH COA
Authors
:
E. S. Pilka, G. T. Kochan, W. W. Yue, C. Bhatia, F. Von Delft, C. H. Arrows A. M. Edwards, J. Weigelt, C. Bountra, U. Oppermann, Structural Geno Consortium (Sgc)
Date
:
23 Mar 09 (Deposition) - 07 Apr 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Middle-Chain Acyl-Coa Synthetase, Xenobiotic/Medium-Chain Fatty Acid- Coa Ligase, Atp-Binding, Fatty Acid Metabolism, Lipid Metabolism, Magnesium, Metal-Binding, Mitochondrion, Nucleotide-Binding Polymorphism, Transit Peptide, Ligase, Nucleotide-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
G. Kochan, E. S. Pilka, F. Von Delft, U. Oppermann, W. W. Yue
Structural Snapshots For The Conformation-Dependent Catalysis By Human Medium-Chain Acyl-Coenzyme A Synthetase Acsm2A
J. Mol. Biol. V. 388 997 2009
[
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: COENZYME A (COAa)
1b: COENZYME A (COAb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
COA
2
Ligand/Ion
COENZYME A
2
MG
2
Ligand/Ion
MAGNESIUM ION
[
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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
MET A:483 , HIS A:485 , VAL A:488 , HOH A:957
BINDING SITE FOR RESIDUE MG A 901
2
AC2
SOFTWARE
GLY A:338 , GLU A:339 , SER A:340 , GLU A:359 , SER A:360 , TYR A:361 , GLY A:362 , GLN A:363 , THR A:364 , LEU A:444 , ASP A:446 , PHE A:458 , ARG A:461 , THR A:553 , THR A:555 , LYS A:557 , GLN A:559 , HOH A:590 , HOH A:687 , HOH A:697 , HOH A:780 , HOH A:781 , HOH A:785 , HOH A:918 , HOH A:1143
BINDING SITE FOR RESIDUE COA A 578
3
AC3
SOFTWARE
MET B:483 , HIS B:485 , VAL B:488 , HOH B:611
BINDING SITE FOR RESIDUE MG B 901
4
AC4
SOFTWARE
TRP B:265 , GLY B:338 , GLU B:339 , SER B:340 , GLU B:359 , SER B:360 , TYR B:361 , GLY B:362 , GLN B:363 , THR B:364 , ASP B:446 , PHE B:458 , ARG B:461 , THR B:555 , HOH B:718 , HOH B:787 , HOH B:788 , HOH B:794 , HOH B:1192
BINDING SITE FOR RESIDUE COA B 902
[
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SAPs(SNPs)/Variants
(5, 10)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_058692 (V335L, chain A/B, )
2: VAR_058693 (T336A, chain A/B, )
3: VAR_058694 (V337G, chain A/B, )
4: VAR_035247 (S513L, chain A/B, )
5: VAR_035248 (A561T, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_058692
V
335
L
ACS2A_HUMAN
Polymorphism
4643305
A/B
V
335
L
2
UniProt
VAR_058693
T
336
A
ACS2A_HUMAN
Polymorphism
5002299
A/B
T
336
A
3
UniProt
VAR_058694
V
337
G
ACS2A_HUMAN
Polymorphism
4586421
A/B
V
337
G
4
UniProt
VAR_035247
S
513
L
ACS2A_HUMAN
Polymorphism
1133607
A/B
S
513
L
5
UniProt
VAR_035248
A
561
T
ACS2A_HUMAN
Polymorphism
1054977
A/B
A
561
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: AMP_BINDING (A:218-229,B:218-229)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AMP_BINDING
PS00455
Putative AMP-binding domain signature.
ACS2A_HUMAN
218-229
2
A:218-229
B:218-229
[
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Exons
(13, 26)
Info
All Exons
Exon 1.2a (A:36-59 | B:35-59)
Exon 1.3 (A:60-130 | B:60-130)
Exon 1.4 (A:130-199 | B:130-199)
Exon 1.6b (A:199-247 (gaps) | B:199-247 (gaps...)
Exon 1.7 (A:247-298 | B:247-298)
Exon 1.8 (A:299-325 | B:299-325)
Exon 1.9 (A:325-366 | B:325-366)
Exon 1.10 (A:367-393 | B:367-393)
Exon 1.11 (A:394-427 | B:394-427)
Exon 1.12 (A:428-470 | B:428-470)
Exon 1.13 (A:470-503 | B:470-503)
Exon 1.14 (A:504-543 | B:504-543)
Exon 1.15b (A:544-569 | B:544-569)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.2a
02: Boundary 1.2a/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.6b
05: Boundary 1.6b/1.7
06: Boundary 1.7/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10
09: Boundary 1.10/1.11
10: Boundary 1.11/1.12
11: Boundary 1.12/1.13
12: Boundary 1.13/1.14
13: Boundary 1.14/1.15b
14: Boundary 1.15b/-
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
1.2a
ENST00000396104
2a
ENSE00001773140
chr16:
20471426-20471613
188
ACS2A_HUMAN
1-59
59
2
A:36-59
B:35-59
24
25
1.3
ENST00000396104
3
ENSE00001682005
chr16:
20476839-20477049
211
ACS2A_HUMAN
60-130
71
2
A:60-130
B:60-130
71
71
1.4
ENST00000396104
4
ENSE00001771411
chr16:
20480834-20481041
208
ACS2A_HUMAN
130-199
70
2
A:130-199
B:130-199
70
70
1.6b
ENST00000396104
6b
ENSE00001731165
chr16:
20482395-20482538
144
ACS2A_HUMAN
199-247
49
2
A:199-247 (gaps)
B:199-247 (gaps)
49
49
1.7
ENST00000396104
7
ENSE00001594810
chr16:
20482858-20483011
154
ACS2A_HUMAN
247-298
52
2
A:247-298
B:247-298
52
52
1.8
ENST00000396104
8
ENSE00001697128
chr16:
20486684-20486763
80
ACS2A_HUMAN
299-325
27
2
A:299-325
B:299-325
27
27
1.9
ENST00000396104
9
ENSE00001626853
chr16:
20486972-20487095
124
ACS2A_HUMAN
325-366
42
2
A:325-366
B:325-366
42
42
1.10
ENST00000396104
10
ENSE00001780247
chr16:
20488691-20488771
81
ACS2A_HUMAN
367-393
27
2
A:367-393
B:367-393
27
27
1.11
ENST00000396104
11
ENSE00000516753
chr16:
20489898-20489999
102
ACS2A_HUMAN
394-427
34
2
A:394-427
B:394-427
34
34
1.12
ENST00000396104
12
ENSE00001611767
chr16:
20491895-20492022
128
ACS2A_HUMAN
428-470
43
2
A:428-470
B:428-470
43
43
1.13
ENST00000396104
13
ENSE00001600227
chr16:
20492144-20492243
100
ACS2A_HUMAN
470-503
34
2
A:470-503
B:470-503
34
34
1.14
ENST00000396104
14
ENSE00001682277
chr16:
20494380-20494499
120
ACS2A_HUMAN
504-543
40
2
A:504-543
B:504-543
40
40
1.15b
ENST00000396104
15b
ENSE00001523880
chr16:
20497896-20498989
1094
ACS2A_HUMAN
544-577
34
2
A:544-569
B:544-569
26
26
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3gpca_ (A:)
1b: SCOP_d3gpcb_ (B:)
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Protein Domains
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(
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Organisms
(
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(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Acetyl-CoA synthetase-like
(64)
Superfamily
:
Acetyl-CoA synthetase-like
(64)
Family
:
automated matches
(26)
Protein domain
:
automated matches
(26)
Human (Homo sapiens) [TaxId: 9606]
(7)
1a
d3gpca_
A:
1b
d3gpcb_
B:
[
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CATH Domains
(0, 0 ; only for superseded entry 3EYN: 1,2)
Info
all CATH domains
1a: CATH_3eynA02 ()
1b: CATH_3eynB02 ()
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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