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3PCV
Asym. Unit
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Asym.Unit (38 KB)
Biol.Unit 1 (89 KB)
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(1)
Title
:
CRYSTAL STRUCTURE ANALYSIS OF HUMAN LEUKOTRIENE C4 SYNTHASE AT 1.9 ANGSTROM RESOLUTION
Authors
:
H. Saino, H. Ago, M. Miyano
Date
:
22 Oct 10 (Deposition) - 16 Mar 11 (Release) - 14 Dec 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A
Biol. Unit 1: A (3x)
Keywords
:
Membrane Protein, Helix Bundle, Homo Trimer, Mgst, Mapeg, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Saino, Y. Ukita, H. Ago, D. Irikura, A. Nisawa, G. Ueno, M. Yamamoto, Y. Kanaoka, B. K. Lam, K. F. Austen, M. Miyano
The Catalytic Architecture Of Leukotriene C4 Synthase With Two Arginine Residues
J. Biol. Chem. V. 286 16392 2011
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(5, 22)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
2a: GLUTATHIONE (GSHa)
3a: DODECYL-BETA-D-MALTOSIDE (LMTa)
3b: DODECYL-BETA-D-MALTOSIDE (LMTb)
3c: DODECYL-BETA-D-MALTOSIDE (LMTc)
3d: DODECYL-BETA-D-MALTOSIDE (LMTd)
3e: DODECYL-BETA-D-MALTOSIDE (LMTe)
3f: DODECYL-BETA-D-MALTOSIDE (LMTf)
3g: DODECYL-BETA-D-MALTOSIDE (LMTg)
3h: DODECYL-BETA-D-MALTOSIDE (LMTh)
3i: DODECYL-BETA-D-MALTOSIDE (LMTi)
3j: DODECYL-BETA-D-MALTOSIDE (LMTj)
3k: DODECYL-BETA-D-MALTOSIDE (LMTk)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
5a: UNKNOWN LIGAND (UNLa)
5b: UNKNOWN LIGAND (UNLb)
5c: UNKNOWN LIGAND (UNLc)
5d: UNKNOWN LIGAND (UNLd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
4
Ligand/Ion
1,2-ETHANEDIOL
2
GSH
1
Ligand/Ion
GLUTATHIONE
3
LMT
11
Ligand/Ion
DODECYL-BETA-D-MALTOSIDE
4
SO4
2
Ligand/Ion
SULFATE ION
5
UNL
4
Ligand/Ion
UNKNOWN LIGAND
[
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]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:23 , ILE A:27 , ARG A:30 , TYR A:50 , ARG A:51 , GLN A:53 , ASN A:55 , GLU A:58 , TYR A:59 , TYR A:93 , TYR A:97 , ARG A:104 , LEU A:108 , EDO A:217 , HOH A:303
BINDING SITE FOR RESIDUE GSH A 201
02
AC2
SOFTWARE
LEU A:7 , LEU A:127 , PHE A:130
BINDING SITE FOR RESIDUE LMT A 203
03
AC3
SOFTWARE
ALA A:20 , TRP A:116 , EDO A:217
BINDING SITE FOR RESIDUE LMT A 204
04
AC4
SOFTWARE
LEU A:18 , GLN A:95
BINDING SITE FOR RESIDUE LMT A 205
05
AC5
SOFTWARE
PHE A:74 , ALA A:128 , PRO A:132 , LEU A:135
BINDING SITE FOR RESIDUE LMT A 206
06
AC6
SOFTWARE
ALA A:10 , GLY A:77 , LEU A:81 , LEU A:84
BINDING SITE FOR RESIDUE LMT A 207
07
AC7
SOFTWARE
MET A:1 , ILE A:72
BINDING SITE FOR RESIDUE LMT A 208
08
AC8
SOFTWARE
TRP A:116 , LEU A:117
BINDING SITE FOR RESIDUE LMT A 209
09
AC9
SOFTWARE
LEU A:84 , PHE A:88
BINDING SITE FOR RESIDUE LMT A 211
10
BC1
SOFTWARE
LEU A:18 , PHE A:88
BINDING SITE FOR RESIDUE LMT A 213
11
BC2
SOFTWARE
THR A:40 , TYR A:50 , ARG A:51 , HOH A:314
BINDING SITE FOR RESIDUE EDO A 214
12
BC3
SOFTWARE
GLN A:19 , SER A:23 , SER A:57 , GLU A:58 , LEU A:62
BINDING SITE FOR RESIDUE EDO A 215
13
BC4
SOFTWARE
SER A:36 , ARG A:104 , EDO A:217 , HOH A:333 , HOH A:381
BINDING SITE FOR RESIDUE EDO A 216
14
BC5
SOFTWARE
GSH A:201 , LMT A:204 , EDO A:216 , HOH A:382
BINDING SITE FOR RESIDUE EDO A 217
15
BC6
SOFTWARE
SER A:100 , ALA A:101 , GLN A:102 , HOH A:307 , HOH A:336
BINDING SITE FOR RESIDUE SO4 A 250
16
BC7
SOFTWARE
ARG A:34 , HOH A:398
BINDING SITE FOR RESIDUE SO4 A 251
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_042736 (R142Q, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_042736
R
142
Q
LTC4S_HUMAN
Polymorphism
11541078
A
R
142
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: FLAP_GST2_LTC4S (A:42-56)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FLAP_GST2_LTC4S
PS01297
FLAP/GST2/LTC4S family signature.
LTC4S_HUMAN
42-56
1
A:42-56
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.1c (A:1-20)
Exon 1.3b (A:20-53)
Exon 1.3f (A:53-77)
Exon 1.3g (A:77-104)
Exon 1.4e (A:104-146)
View:
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All Exon Boundaries
1: Boundary -/1.1c
2: Boundary 1.1c/1.3b
3: Boundary 1.3b/1.3f
4: Boundary 1.3f/1.3g
5: Boundary 1.3g/1.4e
6: Boundary 1.4e/-
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
1.1c
ENST00000292596
1c
ENSE00001194180
chr5:
179220987-179221139
153
LTC4S_HUMAN
1-20
20
1
A:1-20
20
1.3b
ENST00000292596
3b
ENSE00001056000
chr5:
179222585-179222684
100
LTC4S_HUMAN
20-53
34
1
A:20-53
34
1.3f
ENST00000292596
3f
ENSE00001255861
chr5:
179222787-179222857
71
LTC4S_HUMAN
53-77
25
1
A:53-77
25
1.3g
ENST00000292596
3g
ENSE00001056001
chr5:
179222942-179223023
82
LTC4S_HUMAN
77-104
28
1
A:77-104
28
1.4e
ENST00000292596
4e
ENSE00002050377
chr5:
179223254-179223513
260
LTC4S_HUMAN
104-150
47
1
A:104-146
43
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3pcva_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
MAPEG domain-like
(9)
Superfamily
:
MAPEG domain-like
(9)
Family
:
MAPEG domain
(7)
Protein domain
:
Leukotriene C4 synthase
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d3pcva_
A:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_MAPEG_3pcvA01 (A:8-131)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: MAPEG]
(6)
Family
:
MAPEG
(6)
Homo sapiens (Human)
(6)
1a
MAPEG-3pcvA01
A:8-131
[
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]
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Chain A
Asymmetric Unit 1
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