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4B3V
Biol. Unit 2
Info
Asym.Unit (443 KB)
Biol.Unit 1 (151 KB)
Biol.Unit 2 (148 KB)
Biol.Unit 3 (148 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE RUBELLA VIRUS GLYCOPROTEIN E1 IN ITS POST-FUSION FORM CRYSTALLIZED IN PRESENCE OF 20MM OF CALCIUM ACETATE
Authors
:
M. C. Vaney, R. M. Dubois, M. A. Tortorici, F. A. Rey
Date
:
26 Jul 12 (Deposition) - 09 Jan 13 (Release) - 14 Jun 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.98
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
Viral Protein, Envelope Glycoprotein, Membrane Fusion
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. M. Dubois, M. C. Vaney, M. A. Tortorici, R. A. Kurdi, G. Barba-Spaeth T. Krey, F. A. Rey
Functional And Evolutionary Insight From The Crystal Structure Of Rubella Virus Protein E1.
Nature V. 493 552 2013
(for further references see the
PDB file header
)
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Hetero Components
(4, 10)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
1g: ACETATE ION (ACTg)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
3i: GLYCEROL (GOLi)
3j: GLYCEROL (GOLj)
3k: GLYCEROL (GOLk)
3l: GLYCEROL (GOLl)
3m: GLYCEROL (GOLm)
3n: GLYCEROL (GOLn)
3o: GLYCEROL (GOLo)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4a: SODIUM ION (NAa)
6a: N-ACETYL-D-GALACTOSAMINE (NGAa)
6b: N-ACETYL-D-GALACTOSAMINE (NGAb)
7a: DI(HYDROXYETHYL)ETHER (PEGa)
7b: DI(HYDROXYETHYL)ETHER (PEGb)
7c: DI(HYDROXYETHYL)ETHER (PEGc)
7d: DI(HYDROXYETHYL)ETHER (PEGd)
8a: TETRAETHYLENE GLYCOL (PG4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
2
Ligand/Ion
ACETATE ION
2
CA
-1
Ligand/Ion
CALCIUM ION
3
GOL
6
Ligand/Ion
GLYCEROL
4
NA
-1
Ligand/Ion
SODIUM ION
5
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
NGA
-1
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
7
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
8
PG4
-1
Ligand/Ion
TETRAETHYLENE GLYCOL
[
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Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC3 (SOFTWARE)
03: BC3 (SOFTWARE)
04: BC4 (SOFTWARE)
05: BC5 (SOFTWARE)
06: BC6 (SOFTWARE)
07: BC7 (SOFTWARE)
08: BC8 (SOFTWARE)
09: BC9 (SOFTWARE)
10: CC1 (SOFTWARE)
11: CC2 (SOFTWARE)
12: CC3 (SOFTWARE)
13: CC7 (SOFTWARE)
14: DC3 (SOFTWARE)
15: DC6 (SOFTWARE)
16: DC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:80 , ALA A:81 , CYS A:82 , ALA A:116 , GLU A:118 , HOH A:2108 , ARG B:256 , LEU B:264
BINDING SITE FOR RESIDUE GOL A 1438
02
AC3
SOFTWARE
THR A:347 , PRO A:355 , LEU A:357 , ARG B:217 , HIS B:308 , THR B:311
BINDING SITE FOR RESIDUE GOL A 1440
03
BC3
SOFTWARE
SER B:126 , ALA B:128 , ALA B:129 , ALA B:260 , PRO B:278 , HOH B:2261
BINDING SITE FOR RESIDUE GOL B 1437
04
BC4
SOFTWARE
THR B:347 , PRO B:355 , LEU B:357 , HOH B:2375 , HOH B:2376 , HOH B:2377 , ARG C:217 , THR C:311 , THR C:312
BINDING SITE FOR RESIDUE GOL B 1438
05
BC5
SOFTWARE
ALA B:99 , PHE B:102 , ASN B:103 , PRO B:121 , HOH B:2106 , HOH B:2378
BINDING SITE FOR RESIDUE GOL B 1439
06
BC6
SOFTWARE
THR B:78 , GLN B:79 , ARG B:252 , ALA C:268 , HIS C:298
BINDING SITE FOR RESIDUE GOL B 1440
07
BC7
SOFTWARE
SER B:100 , TYR B:101
BINDING SITE FOR RESIDUE GOL B 1441
08
BC8
SOFTWARE
ARG B:80 , ALA B:81 , CYS B:82 , ALA B:116 , GLU B:118 , ARG B:252 , HOH B:2086 , HOH B:2115 , ARG C:256 , LEU C:264
BINDING SITE FOR RESIDUE GOL B 1442
09
BC9
SOFTWARE
ASN B:88 , THR B:135 , ASP B:136 , THR B:137 , CA B:1445
BINDING SITE FOR RESIDUE ACT B 1443
10
CC1
SOFTWARE
SER B:92 , ASP B:136
BINDING SITE FOR RESIDUE ACT B 1444
11
CC2
SOFTWARE
ASN B:88 , ALA B:89 , ASP B:136 , THR B:137 , ACT B:1443 , HOH B:2093
BINDING SITE FOR RESIDUE CA B 1445
12
CC3
SOFTWARE
PRO B:54 , THR B:55 , ASP B:56 , GLY B:61 , LYS B:384 , HOH B:2052
BINDING SITE FOR RESIDUE PEG B 1446
13
CC7
SOFTWARE
LYS B:110 , HOH B:2115 , ARG C:256 , LEU C:257 , ASP C:262 , HOH C:2233
BINDING SITE FOR RESIDUE GOL C 1442
14
DC3
SOFTWARE
SER B:433 , HOH B:2369 , GLY C:63 , TRP C:65 , VAL C:66 , PRO C:67 , THR C:68
BINDING SITE FOR RESIDUE PEG C 1447
15
DC6
SOFTWARE
THR A:430 , ALA A:431 , VAL A:432 , HOH A:2416 , THR B:46
BINDING SITE FOR MONO-SACCHARIDE NGA A1437 BOUND TO THR A 430
16
DC7
SOFTWARE
SER B:175 , ASN B:177 , HOH B:2167 , HOH B:2175 , HOH B:2374
BINDING SITE FOR MONO-SACCHARIDE NAG B1436 BOUND TO ASN B 177
[
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_POLS_RUBVM_005 (R27G, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_POLS_RUBVM_005
*
R
609
G
POLS_RUBVM
---
---
B
R
27
G
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Sorry, no Info available
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Exons
(0, 0)
Info
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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
(0, 0)
Info
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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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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Sorry, no Info available
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain B
Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (443 KB)
Header - Asym.Unit
Biol.Unit 1 (151 KB)
Header - Biol.Unit 1
Biol.Unit 2 (148 KB)
Header - Biol.Unit 2
Biol.Unit 3 (148 KB)
Header - Biol.Unit 3
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