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1F6A
Asym. Unit
Info
Asym.Unit (121 KB)
Biol.Unit 1 (111 KB)
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(1)
Title
:
STRUCTURE OF THE HUMAN IGE-FC BOUND TO ITS HIGH AFFINITY RECEPTOR FC(EPSILON)RI(ALPHA)
Authors
:
S. C. Garman, B. A. Wurzburg, S. S. Tarchevskaya, J. P. Kinet, T. S. Jarde
Date
:
20 Jun 00 (Deposition) - 20 Jul 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B,D
Biol. Unit 1: A,B,D (1x)
Keywords
:
Immunoglobulin Fold, Glycoprotein, Receptor, Ige-Binding Protein, Ige Antibody, Ige-Fc, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. C. Garman, B. A. Wurzburg, S. S. Tarchevskaya, J. P. Kinet, T. S. Jardetzky
Structure Of The Fc Fragment Of Human Ige Bound To Its High-Affinity Receptor Fc (Epsilon) Ri (Alpha).
Nature V. 406 259 2000
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Hetero Components
(5, 31)
Info
All Hetero Components
1a: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMO... (CPSa)
1b: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMO... (CPSb)
1c: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMO... (CPSc)
1d: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMO... (CPSd)
1e: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMO... (CPSe)
2a: ALPHA-L-FUCOSE (FUCa)
2b: ALPHA-L-FUCOSE (FUCb)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
3e: ALPHA-D-MANNOSE (MANe)
3f: ALPHA-D-MANNOSE (MANf)
3g: ALPHA-D-MANNOSE (MANg)
3h: ALPHA-D-MANNOSE (MANh)
3i: ALPHA-D-MANNOSE (MANi)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CPS
5
Ligand/Ion
3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
2
FUC
2
Ligand/Ion
ALPHA-L-FUCOSE
3
MAN
9
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
10
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
SO4
5
Ligand/Ion
SULFATE ION
[
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Sites
(31, 31)
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)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:21 , NAG A:222 , FUC A:224
BINDING SITE FOR RESIDUE NAG A 221
02
AC2
SOFTWARE
NAG A:221 , MAN A:223 , FUC A:224
BINDING SITE FOR RESIDUE NAG A 222
03
AC3
SOFTWARE
NAG A:222
BINDING SITE FOR RESIDUE MAN A 223
04
AC4
SOFTWARE
NAG A:221 , NAG A:222
BINDING SITE FOR RESIDUE FUC A 224
05
AC5
SOFTWARE
ASN A:42 , GLU A:61 , SER A:63 , NAG A:243
BINDING SITE FOR RESIDUE NAG A 242
06
AC6
SOFTWARE
GLU A:61 , SER A:63 , NAG A:242 , MAN A:244
BINDING SITE FOR RESIDUE NAG A 243
07
AC7
SOFTWARE
PHE A:60 , NAG A:243 , MAN A:245 , MAN A:246
BINDING SITE FOR RESIDUE MAN A 244
08
AC8
SOFTWARE
MAN A:244
BINDING SITE FOR RESIDUE MAN A 245
09
AC9
SOFTWARE
MAN A:244 , ARG D:427
BINDING SITE FOR RESIDUE MAN A 246
10
BC1
SOFTWARE
ASN A:166 , NAG A:367 , FUC A:369
BINDING SITE FOR RESIDUE NAG A 366
11
BC2
SOFTWARE
NAG A:366 , FUC A:369
BINDING SITE FOR RESIDUE NAG A 367
12
BC3
SOFTWARE
NAG A:366 , NAG A:367
BINDING SITE FOR RESIDUE FUC A 369
13
BC4
SOFTWARE
ASP B:362 , GLN B:392 , ASN B:394 , NAG B:695
BINDING SITE FOR RESIDUE NAG B 694
14
BC5
SOFTWARE
TYR B:339 , GLN B:392 , NAG B:694 , MAN B:696
BINDING SITE FOR RESIDUE NAG B 695
15
BC6
SOFTWARE
TYR B:339 , NAG B:695 , MAN B:697 , MAN B:698
BINDING SITE FOR RESIDUE MAN B 696
16
BC7
SOFTWARE
MAN B:696 , MAN B:699
BINDING SITE FOR RESIDUE MAN B 697
17
BC8
SOFTWARE
MAN B:696
BINDING SITE FOR RESIDUE MAN B 698
18
BC9
SOFTWARE
GLN B:494 , MAN B:697
BINDING SITE FOR RESIDUE MAN B 699
19
CC1
SOFTWARE
ASP D:362 , GLN D:392 , ASN D:394 , THR D:396 , NAG D:695
BINDING SITE FOR RESIDUE NAG D 694
20
CC2
SOFTWARE
TYR D:339 , GLN D:392 , NAG D:694 , MAN D:696
BINDING SITE FOR RESIDUE NAG D 695
21
CC3
SOFTWARE
NAG D:695
BINDING SITE FOR RESIDUE MAN D 696
22
CC4
SOFTWARE
PRO A:2 , GLN A:72 , TRP A:130 , ARG B:334
BINDING SITE FOR RESIDUE SO4 B 201
23
CC5
SOFTWARE
SER B:366 , LYS B:367 , HIS B:424
BINDING SITE FOR RESIDUE SO4 B 202
24
CC6
SOFTWARE
THR A:139 , ASN A:140
BINDING SITE FOR RESIDUE SO4 A 203
25
CC7
SOFTWARE
THR B:493 , GLN B:494 , ARG B:496 , THR D:493 , GLN D:494 , ARG D:496
BINDING SITE FOR RESIDUE SO4 B 204
26
CC8
SOFTWARE
LEU D:429 , ARG D:431
BINDING SITE FOR RESIDUE SO4 D 205
27
CC9
SOFTWARE
SER A:36 , LYS A:38 , ARG A:111 , TRP A:113 , CPS A:371 , CPS D:105
BINDING SITE FOR RESIDUE CPS A 370
28
DC1
SOFTWARE
LYS A:38 , GLN A:69 , GLN A:71 , GLN A:72 , TYR A:116 , CPS A:370 , ARG B:427 , SER D:331
BINDING SITE FOR RESIDUE CPS A 371
29
DC2
SOFTWARE
TRP A:156 , CPS D:104 , ALA D:364 , HIS D:424
BINDING SITE FOR RESIDUE CPS D 103
30
DC3
SOFTWARE
LEU A:45 , GLU A:47 , CPS D:103 , CPS D:105
BINDING SITE FOR RESIDUE CPS D 104
31
DC4
SOFTWARE
CPS A:370 , CPS D:104 , LYS D:367 , HIS D:424
BINDING SITE FOR RESIDUE CPS D 105
[
close Site info
]
SAPs(SNPs)/Variants
(3, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_020091 (K59R, chain A, )
2: VAR_020092 (S76N, chain A, )
3: VAR_003885 (W478L, chain B/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_020091
K
84
R
FCERA_HUMAN
Polymorphism
2298804
A
K
59
R
2
UniProt
VAR_020092
S
101
N
FCERA_HUMAN
Polymorphism
2298805
A
S
76
N
3
UniProt
VAR_003885
W
359
L
IGHE_HUMAN
Polymorphism
---
B/D
W
478
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (-|B:416-422,D:416-422|B:522-528,D:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGHE_HUMAN
83-89
297-303
403-409
4
-
B:416-422
D:416-422
B:522-528
D:522-528
[
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]
Exons
(7, 10)
Info
All Exons
Exon 1.3 (A:1-1)
Exon 1.4a (A:1-86)
Exon 1.5 (A:86-172)
Exon 1.6b (A:172-173)
Exon 2.2 (B:328-330 | D:329-330)
Exon 2.3 (B:330-438 | D:330-438)
Exon 2.4 (B:438-544 | D:438-544)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2a/1.3
2: Boundary 1.3/1.4a
3: Boundary 1.4a/1.5
4: Boundary 1.5/1.6b
5: Boundary 1.6b/-
6: Boundary 2.1/2.2
7: Boundary 2.2/2.3
8: Boundary 2.3/2.4
9: Boundary 2.4/-
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
ENST00000368115
1
ENSE00001277214
chr1:
159259504-159259543
40
FCERA_HUMAN
-
0
0
-
-
1.2a
ENST00000368115
2a
ENSE00001277230
chr1:
159272096-159272209
114
FCERA_HUMAN
1-19
19
0
-
-
1.3
ENST00000368115
3
ENSE00001067917
chr1:
159272644-159272664
21
FCERA_HUMAN
19-26
8
1
A:1-1
1
1.4a
ENST00000368115
4a
ENSE00001067919
chr1:
159273718-159273972
255
FCERA_HUMAN
26-111
86
1
A:1-86
86
1.5
ENST00000368115
5
ENSE00001277186
chr1:
159275778-159276035
258
FCERA_HUMAN
111-197
87
1
A:86-172
87
1.6b
ENST00000368115
6b
ENSE00001446352
chr1:
159277538-159278014
477
FCERA_HUMAN
197-257
61
1
A:172-173
2
2.1
ENST00000390541
1
ENSE00001935719
chr14:
106068065-106067756
310
IGHE_HUMAN
1-104
104
0
-
-
2.2
ENST00000390541
2
ENSE00001508179
chr14:
106067548-106067228
321
IGHE_HUMAN
104-211
108
2
B:328-330
D:329-330
3
2
2.3
ENST00000390541
3
ENSE00001508174
chr14:
106067141-106066818
324
IGHE_HUMAN
211-319
109
2
B:330-438
D:330-438
109
109
2.4
ENST00000390541
4
ENSE00001943927
chr14:
106066734-106066278
457
IGHE_HUMAN
319-428
110
2
B:438-544
D:438-544
107
107
[
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]
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1f6ab1 (B:328-438)
1b: SCOP_d1f6ad1 (D:329-438)
2a: SCOP_d1f6ab2 (B:439-544)
2b: SCOP_d1f6ad2 (D:439-544)
3a: SCOP_d1f6aa1 (A:1-85)
3b: SCOP_d1f6aa2 (A:86-173)
View:
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Classes
(
)
(
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Folds
(
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(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain epsilon constant domain 3, CH3-epsilon
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1f6ab1
B:328-438
1b
d1f6ad1
D:329-438
Protein domain
:
Immunoglobulin heavy chain epsilon constant domain 4, CH4-epsilon
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d1f6ab2
B:439-544
2b
d1f6ad2
D:439-544
Family
:
I set domains
(152)
Protein domain
:
IgE high affinity receptor alpha subunit
(7)
Human (Homo sapiens) [TaxId: 9606]
(7)
3a
d1f6aa1
A:1-85
3b
d1f6aa2
A:86-173
[
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1f6aB02 (B:436-543)
1b: CATH_1f6aD02 (D:436-543)
1c: CATH_1f6aA01 (A:4-84)
1d: CATH_1f6aB01 (B:336-435)
1e: CATH_1f6aD01 (D:336-435)
1f: CATH_1f6aA02 (A:85-173)
View:
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Architectures
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
1a
1f6aB02
B:436-543
1b
1f6aD02
D:436-543
1c
1f6aA01
A:4-84
1d
1f6aB01
B:336-435
1e
1f6aD01
D:336-435
1f
1f6aA02
A:85-173
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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Asym.Unit (121 KB)
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