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3WJJ
Asym. Unit
Info
Asym.Unit (106 KB)
Biol.Unit 1 (99 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF IIB SELECTIVE FC VARIANT, FC(P238D), IN COMPLEX WITH FCGRIIB
Authors
:
S. Kadono, F. Mimoto, H. Katada, T. Igawa, T. Kuramochi, M. Muraoka, Y. W K. Haraya, T. Miyazaki, K. Hattori
Date
:
10 Oct 13 (Deposition) - 13 Nov 13 (Release) - 26 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Receptor Complex, Fc Receptor, Antibody, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Mimoto, H. Katada, S. Kadono, T. Igawa, T. Kuramochi, M. Muraoka, Y. Wada, K. Haraya, T. Miyazaki, K. Hattori
Engineered Antibody Fc Variant With Selectively Enhanced Fc Gamma Riib Binding Over Both Fc Gamma Riiar131 And Fc Gamma Riiah131.
Protein Eng. Des. Sel. V. 26 589 2013
[
close entry info
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Hetero Components
(5, 18)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: BETA-L-FUCOSE (FULa)
2b: BETA-L-FUCOSE (FULb)
3a: BETA-D-GALACTOSE (GALa)
3b: BETA-D-GALACTOSE (GALb)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
FUL
2
Ligand/Ion
BETA-L-FUCOSE
3
GAL
2
Ligand/Ion
BETA-D-GALACTOSE
4
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
8
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:243 , PRO A:245 , LYS A:246 , ASP A:249 , GLU A:258 , VAL A:264 , ASP A:265 , GLN A:295 , ASN A:297 , THR A:299 , ARG A:301 , HOH A:1124 , MAN B:1008
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 297 RESIDUES 1001 TO 1009
2
AC2
SOFTWARE
MAN A:1008 , PHE B:241 , PHE B:243 , PRO B:244 , LYS B:246 , ASP B:249 , GLU B:258 , THR B:260 , VAL B:264 , ASP B:265 , ASN B:297 , ARG B:301 , HOH B:1152
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 297 RESIDUES 1001 TO 1009
[
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SAPs(SNPs)/Variants
(4, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_059430 (Q38P, chain C, )
2: VAR_027045 (Y160F, chain C, )
3: VAR_003887 (D356E, chain A/B, )
4: VAR_003888 (L358M, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_059430
Q
83
P
FCG2B_HUMAN
Polymorphism
5017567
C
Q
38
P
2
UniProt
VAR_027045
Y
205
F
FCG2B_HUMAN
Polymorphism
1050499
C
Y
160
F
3
UniProt
VAR_003887
D
239
E
IGHG1_HUMAN
Unclassified
---
A/B
D
356
E
4
UniProt
VAR_003888
L
241
M
IGHG1_HUMAN
Unclassified
---
A/B
L
358
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (-|A:423-429,B:423-429)
;
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.
IGHG1_HUMAN
81-87
306-312
2
-
A:423-429
B:423-429
[
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Exons
(4, 6)
Info
All Exons
Exon 1.5a (C:5-86)
Exon 1.5d (C:86-168)
Exon 2.3b (A:233-341 | B:238-341)
Exon 2.4c (A:341-444 | B:341-443)
View:
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All Exon Boundaries
1: Boundary 1.4/1.5a
2: Boundary 1.5a/1.5d
3: Boundary 1.5d/1.6a
4: Boundary 2.2/2.3b
5: Boundary 2.3b/2.4c
6: Boundary 2.4c/-
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
1.3c
ENST00000358671
3c
ENSE00001909120
chr1:
161632951-161633143
193
FCG2B_HUMAN
1-38
38
0
-
-
1.4
ENST00000358671
4
ENSE00001636876
chr1:
161640042-161640062
21
FCG2B_HUMAN
38-45
8
0
-
-
1.5a
ENST00000358671
5a
ENSE00001722186
chr1:
161641182-161641439
258
FCG2B_HUMAN
45-131
87
1
C:5-86
82
1.5d
ENST00000358671
5d
ENSE00001772598
chr1:
161642765-161643019
255
FCG2B_HUMAN
131-216
86
1
C:86-168
83
1.6a
ENST00000358671
6a
ENSE00001265717
chr1:
161643750-161643863
114
FCG2B_HUMAN
216-254
39
0
-
-
1.6d
ENST00000358671
6d
ENSE00000789244
chr1:
161645047-161645103
57
FCG2B_HUMAN
254-273
20
0
-
-
1.6e
ENST00000358671
6e
ENSE00000796505
chr1:
161647118-161647155
38
FCG2B_HUMAN
273-285
13
0
-
-
1.7f
ENST00000358671
7f
ENSE00001863715
chr1:
161647266-161648444
1179
FCG2B_HUMAN
286-310
25
0
-
-
2.1
ENST00000390549
1
ENSE00001838294
chr14:
106209408-106209114
295
IGHG1_HUMAN
1-99
99
0
-
-
2.2
ENST00000390549
2
ENSE00001719055
chr14:
106208722-106208678
45
IGHG1_HUMAN
99-114
16
0
-
-
2.3b
ENST00000390549
3b
ENSE00001776617
chr14:
106208559-106208230
330
IGHG1_HUMAN
114-224
111
2
A:233-341
B:238-341
109
104
2.4c
ENST00000390549
4c
ENSE00001837466
chr14:
106208132-106207675
458
IGHG1_HUMAN
224-330
107
2
A:341-444
B:341-443
104
103
[
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]
SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d3wjja1 (A:233-341)
1b: SCOP_d3wjja2 (A:342-444)
1c: SCOP_d3wjjb1 (B:238-341)
1d: SCOP_d3wjjb2 (B:342-443)
2a: SCOP_d3wjjc1 (C:5-85)
2b: SCOP_d3wjjc2 (C:86-168)
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Protein Domains
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(
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Organisms
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(
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Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Human (Homo sapiens) [TaxId: 9606]
(448)
1a
d3wjja1
A:233-341
1b
d3wjja2
A:342-444
1c
d3wjjb1
B:238-341
1d
d3wjjb2
B:342-443
Family
:
I set domains
(152)
Protein domain
:
automated matches
(23)
Human (Homo sapiens) [TaxId: 9606]
(22)
2a
d3wjjc1
C:5-85
2b
d3wjjc2
C:86-168
[
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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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