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4B3V
Asym. Unit
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
)
[
close entry info
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Hetero Components
(8, 37)
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
7
Ligand/Ion
ACETATE ION
2
CA
3
Ligand/Ion
CALCIUM ION
3
GOL
15
Ligand/Ion
GLYCEROL
4
NA
1
Ligand/Ion
SODIUM ION
5
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
NGA
2
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
7
PEG
4
Ligand/Ion
DI(HYDROXYETHYL)ETHER
8
PG4
1
Ligand/Ion
TETRAETHYLENE GLYCOL
[
close Hetero Component info
]
Sites
(37, 37)
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)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
View:
Select:
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
AC2
SOFTWARE
ARG A:256 , LEU A:257 , ASP A:262 , HOH A:2417 , LYS C:110
BINDING SITE FOR RESIDUE GOL A 1439
03
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
04
AC4
SOFTWARE
SER A:100 , TYR A:108
BINDING SITE FOR RESIDUE GOL A 1441
05
AC5
SOFTWARE
SER A:91 , SER A:92 , ASP A:136
BINDING SITE FOR RESIDUE ACT A 1443
06
AC6
SOFTWARE
GLY A:93 , GLY A:94 , ARG A:342 , GLY A:364
BINDING SITE FOR RESIDUE ACT A 1444
07
AC7
SOFTWARE
THR A:9 , ALA A:10 , PG4 A:1447 , HOH A:2420 , PHE C:380 , THR C:387
BINDING SITE FOR RESIDUE ACT A 1445
08
AC8
SOFTWARE
ASP A:314 , HIS A:317 , ACT A:1445 , HOH A:2331 , ALA C:388
BINDING SITE FOR RESIDUE PG4 A 1447
09
AC9
SOFTWARE
GLU A:52 , ILE A:53 , TYR A:90 , GLY A:94 , GLN A:97 , HOH A:2074
BINDING SITE FOR RESIDUE PEG A 1449
10
BC1
SOFTWARE
ASN A:88 , ALA A:89 , ASP A:136 , THR A:137 , HOH A:2118
BINDING SITE FOR RESIDUE NA A 1450
11
BC2
SOFTWARE
ASN A:88 , ALA A:89 , ASP A:136 , THR A:137 , HOH A:2118
BINDING SITE FOR RESIDUE CA A 1451
12
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
13
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
14
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
15
BC6
SOFTWARE
THR B:78 , GLN B:79 , ARG B:252 , ALA C:268 , HIS C:298
BINDING SITE FOR RESIDUE GOL B 1440
16
BC7
SOFTWARE
SER B:100 , TYR B:101
BINDING SITE FOR RESIDUE GOL B 1441
17
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
18
BC9
SOFTWARE
ASN B:88 , THR B:135 , ASP B:136 , THR B:137 , CA B:1445
BINDING SITE FOR RESIDUE ACT B 1443
19
CC1
SOFTWARE
SER B:92 , ASP B:136
BINDING SITE FOR RESIDUE ACT B 1444
20
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
21
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
22
CC4
SOFTWARE
GLY C:93 , GLY C:94 , TYR C:95 , ALA C:96 , GLN C:97 , LEU C:98 , TYR C:101 , ARG C:342 , GOL C:1440 , HOH C:2332
BINDING SITE FOR RESIDUE GOL C 1439
23
CC5
SOFTWARE
TYR C:95 , TYR C:101 , TYR C:112 , ARG C:342 , ALA C:362 , PRO C:363 , GLY C:364 , GOL C:1439
BINDING SITE FOR RESIDUE GOL C 1440
24
CC6
SOFTWARE
HIS A:308 , THR A:311 , THR A:312 , PRO C:355 , LEU C:357 , HOH C:2333
BINDING SITE FOR RESIDUE GOL C 1441
25
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
26
CC8
SOFTWARE
SER C:100 , TYR C:101 , TYR C:108 , HOH C:2111
BINDING SITE FOR RESIDUE GOL C 1443
27
CC9
SOFTWARE
ASN C:88 , THR C:135 , ASP C:136 , THR C:137 , CA C:1446 , HOH C:2128
BINDING SITE FOR RESIDUE ACT C 1444
28
DC1
SOFTWARE
TYR C:90 , SER C:92 , ASP C:136
BINDING SITE FOR RESIDUE ACT C 1445
29
DC2
SOFTWARE
ASN C:88 , ALA C:89 , ASP C:136 , THR C:137 , ACT C:1444 , HOH C:2093
BINDING SITE FOR RESIDUE CA C 1446
30
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
31
DC4
SOFTWARE
GLU C:52 , ILE C:53 , THR C:55 , ASP C:56 , GLY C:61 , TYR C:90 , GLN C:97
BINDING SITE FOR RESIDUE PEG C 1448
32
DC5
SOFTWARE
GLN A:168 , SER A:175 , ASN A:177
BINDING SITE FOR MONO-SACCHARIDE NAG A1436 BOUND TO ASN A 177
33
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
34
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
35
DC8
SOFTWARE
ASN C:76
BINDING SITE FOR MONO-SACCHARIDE NAG C1437 BOUND TO ASN C 76
36
DC9
SOFTWARE
GLN C:168 , SER C:175 , ASN C:177
BINDING SITE FOR MONO-SACCHARIDE NAG C1436 BOUND TO ASN C 177
37
EC1
SOFTWARE
THR A:46 , HOH A:2067 , THR C:430 , ALA C:431 , VAL C:432
BINDING SITE FOR MONO-SACCHARIDE NGA C1438 BOUND TO THR C 430
[
close Site info
]
SAPs(SNPs)/Variants
(1, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_POLS_RUBVM_005 (R27G, chain A/B/C, )
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
---
---
A/B/C
R
27
G
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
View:
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Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Atom Selection
(currently selected atoms:
all
)
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Backbone
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
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Chain C
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Asym.Unit (443 KB)
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