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Getting 'Biological Unit' information from database.
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3H9Y
Biol. Unit 1
Info
Asym.Unit (119 KB)
Biol.Unit 1 (76 KB)
Biol.Unit 2 (73 KB)
Biol.Unit 3 (75 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE IGE-FC3-4 DOMAINS
Authors
:
B. A. Wurzburg
Date
:
30 Apr 09 (Deposition) - 08 Sep 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.23
Chains
:
Asym. Unit : A,B,E
Biol. Unit 1: A,B (1x)
Biol. Unit 2: E (2x)
Biol. Unit 3: A,B (1x)
Keywords
:
Immunoglobin, Ige, Fc, Flexibility, Hydrophobic Pocket, Disulfide Bond, Glycoprotein, Immunoglobulin C Region, Immunoglobulin Domain, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. A. Wurzburg, T. S. Jardetzky
Conformational Flexibility In Immunoglobulin E-Fc 3-4 Revealed In Multiple Crystal Forms.
J. Mol. Biol. V. 393 176 2009
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
2c: ALPHA-D-MANNOSE (MANc)
2d: ALPHA-D-MANNOSE (MANd)
2e: ALPHA-D-MANNOSE (MANe)
2f: ALPHA-D-MANNOSE (MANf)
2g: ALPHA-D-MANNOSE (MANg)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4a: AMMONIUM ION (NH4a)
View:
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Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
MAN
3
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
NH4
-1
Ligand/Ion
AMMONIUM ION
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Sites
(11, 11)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
NAG A:2 , LEU A:363 , GLN A:392 , ASN A:394
BINDING SITE FOR RESIDUE NAG A 1
02
AC2
SOFTWARE
NAG A:1 , BMA A:3 , TYR A:339 , LEU A:359 , THR A:398
BINDING SITE FOR RESIDUE NAG A 2
03
AC3
SOFTWARE
NAG A:2 , MAN A:4 , MAN A:6 , HOH A:275 , LEU A:359
BINDING SITE FOR RESIDUE BMA A 3
04
AC4
SOFTWARE
BMA A:3 , MAN A:5 , HOH A:249
BINDING SITE FOR RESIDUE MAN A 4
05
AC5
SOFTWARE
MAN A:4
BINDING SITE FOR RESIDUE MAN A 5
06
AC6
SOFTWARE
BMA A:3
BINDING SITE FOR RESIDUE MAN A 6
07
AC7
SOFTWARE
NAG B:2 , GLN B:392 , ASN B:394 , THR B:396
BINDING SITE FOR RESIDUE NAG B 1
08
AC8
SOFTWARE
NAG B:1 , BMA B:3 , TYR B:339 , LEU B:359 , THR B:398
BINDING SITE FOR RESIDUE NAG B 2
09
AC9
SOFTWARE
NAG B:2 , MAN B:4 , MAN B:5
BINDING SITE FOR RESIDUE BMA B 3
10
BC1
SOFTWARE
BMA B:3
BINDING SITE FOR RESIDUE MAN B 4
11
BC2
SOFTWARE
BMA B:3
BINDING SITE FOR RESIDUE MAN B 5
[
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_003885 (W478L, chain A/B, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_003885
W
359
L
IGHE_HUMAN
Polymorphism
---
A/B
W
478
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (A:416-422,B:416-422,A:522-528,B:52...)
;
View:
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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
-
A:416-422
B:416-422
-
A:522-528
B:522-528
-
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d3h9ya1 (A:336-438)
1b: SCOP_d3h9ya2 (A:439-544)
1c: SCOP_d3h9yb1 (B:335-438)
1d: SCOP_d3h9yb2 (B:439-544)
1e: SCOP_d3h9ye1 (E:336-438)
1f: SCOP_d3h9ye2 (E:439-544)
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)
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)
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)
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
:
automated matches
(652)
Human (Homo sapiens) [TaxId: 9606]
(334)
1a
d3h9ya1
A:336-438
1b
d3h9ya2
A:439-544
1c
d3h9yb1
B:335-438
1d
d3h9yb2
B:439-544
1e
d3h9ye1
E:336-438
1f
d3h9ye2
E:439-544
[
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_3h9yA02 (A:436-543)
1b: CATH_3h9yB02 (B:436-543)
1c: CATH_3h9yE02 (E:436-543)
1d: CATH_3h9yB01 (B:335-435)
1e: CATH_3h9yA01 (A:336-435)
1f: CATH_3h9yE01 (E:336-435)
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)
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)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
1a
3h9yA02
A:436-543
1b
3h9yB02
B:436-543
1c
3h9yE02
E:436-543
1d
3h9yB01
B:335-435
1e
3h9yA01
A:336-435
1f
3h9yE01
E:336-435
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Asym.Unit (119 KB)
Header - Asym.Unit
Biol.Unit 1 (76 KB)
Header - Biol.Unit 1
Biol.Unit 2 (73 KB)
Header - Biol.Unit 2
Biol.Unit 3 (75 KB)
Header - Biol.Unit 3
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