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4ADI
Biol. Unit 1
Info
Asym.Unit (455 KB)
Biol.Unit 1 (442 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE RUBELLA VIRUS ENVELOPE GLYCOPROTEIN E1 IN POST-FUSION FORM (CRYSTAL FORM I)
Authors
:
R. M. Dubois, M. C. Vaney, M. A. Tortorici, R. Al Kurdi, G. Barba-Spaeth
Date
:
26 Dec 11 (Deposition) - 09 Jan 13 (Release) - 23 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Viral Protein, 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
]
Hetero Components
(5, 38)
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: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
2n: GLYCEROL (GOLn)
2o: GLYCEROL (GOLo)
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)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
5a: N-ACETYL-D-GALACTOSAMINE (NGAa)
5b: N-ACETYL-D-GALACTOSAMINE (NGAb)
5c: N-ACETYL-D-GALACTOSAMINE (NGAc)
5d: N-ACETYL-D-GALACTOSAMINE (NGAd)
5e: N-ACETYL-D-GALACTOSAMINE (NGAe)
5f: N-ACETYL-D-GALACTOSAMINE (NGAf)
6a: DI(HYDROXYETHYL)ETHER (PEGa)
6b: DI(HYDROXYETHYL)ETHER (PEGb)
6c: DI(HYDROXYETHYL)ETHER (PEGc)
6d: DI(HYDROXYETHYL)ETHER (PEGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
7
Ligand/Ion
ACETATE ION
2
GOL
15
Ligand/Ion
GLYCEROL
3
NA
-1
Ligand/Ion
SODIUM ION
4
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
NGA
6
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
6
PEG
4
Ligand/Ion
DI(HYDROXYETHYL)ETHER
[
close Hetero Component info
]
Sites
(41, 41)
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)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
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:1438 , HOH C:2449
BINDING SITE FOR RESIDUE GOL C1437
02
AC2
SOFTWARE
TYR C:95 , TYR C:101 , TYR C:112 , ARG C:342 , ALA C:362 , PRO C:363 , GOL C:1437
BINDING SITE FOR RESIDUE GOL C1438
03
AC3
SOFTWARE
LEU A:43 , GLU A:44 , ALA A:45 , ILE A:291 , ALA A:293 , HIS C:428 , THR C:430
BINDING SITE FOR RESIDUE GOL A1436
04
AC4
SOFTWARE
THR B:347 , GLY B:348 , PRO B:355 , LEU B:357 , HOH B:2490 , HOH B:2491 , HOH B:2493 , ARG C:217 , THR C:311 , THR C:312
BINDING SITE FOR RESIDUE GOL B1436
05
AC5
SOFTWARE
LYS B:110 , GLN B:111 , PRO B:114 , HOH B:2176 , ASP C:261 , ASP C:262 , HOH C:2327
BINDING SITE FOR RESIDUE GOL C1439
06
AC6
SOFTWARE
ARG A:217 , THR A:311 , HOH A:2345 , THR C:347 , GLY C:348 , PRO C:355 , LEU C:357 , HOH C:2452
BINDING SITE FOR RESIDUE GOL C1440
07
AC7
SOFTWARE
ALA A:81 , CYS A:82 , ALA A:116 , GLU A:118 , HOH A:2161 , HOH A:2212 , HOH A:2574 , LEU B:264
BINDING SITE FOR RESIDUE GOL A1437
08
AC8
SOFTWARE
ALA B:99 , SER B:100 , PHE B:102 , ASN B:103 , PRO B:121 , HOH B:2494
BINDING SITE FOR RESIDUE GOL B1437
09
AC9
SOFTWARE
SER B:100 , TYR B:101 , HOH B:2164
BINDING SITE FOR RESIDUE GOL B1438
10
BC1
SOFTWARE
THR A:9 , PRO A:11 , HIS A:317 , HOH A:2018 , VAL C:386 , THR C:387 , GOL C:1442
BINDING SITE FOR RESIDUE GOL A1438
11
BC2
SOFTWARE
GLY A:94 , GLN A:97 , GLY A:364 , GLY A:383 , HOH A:2107 , HOH A:2577 , HOH A:2578
BINDING SITE FOR RESIDUE GOL A1439
12
BC3
SOFTWARE
ASP A:259 , ASP A:261 , ASP A:262 , PRO A:263 , PEG A:1445 , HOH A:2413 , HOH A:2579 , LYS C:110 , GLN C:111 , PRO C:114
BINDING SITE FOR RESIDUE GOL A1440
13
BC4
SOFTWARE
SER C:100 , TYR C:101 , TYR C:108
BINDING SITE FOR RESIDUE GOL C1441
14
BC5
SOFTWARE
SER A:313 , ASP A:314 , GOL A:1438 , VAL C:386 , ALA C:388
BINDING SITE FOR RESIDUE GOL C1442
15
BC6
SOFTWARE
SER A:100 , TYR A:101 , TYR A:108
BINDING SITE FOR RESIDUE GOL A1441
16
BC7
SOFTWARE
ASN A:88 , ALA A:89 , ASP A:136 , THR A:137 , HOH A:2174
BINDING SITE FOR RESIDUE NA A1442
17
BC8
SOFTWARE
ASN B:88 , ALA B:89 , ASP B:136 , THR B:137 , HOH B:2132
BINDING SITE FOR RESIDUE NA B1439
18
BC9
SOFTWARE
ASN C:88 , ALA C:89 , ASP C:136 , THR C:137 , HOH C:2127
BINDING SITE FOR RESIDUE NA C1443
19
CC1
SOFTWARE
SER A:91 , SER A:92 , ASP A:136 , VAL A:138
BINDING SITE FOR RESIDUE ACT A1443
20
CC2
SOFTWARE
TYR B:90 , SER B:92 , HOH B:2138
BINDING SITE FOR RESIDUE ACT B1440
21
CC3
SOFTWARE
TYR C:90 , SER C:91 , SER C:92 , ASP C:136 , VAL C:138
BINDING SITE FOR RESIDUE ACT C1444
22
CC4
SOFTWARE
TYR B:90 , GLN B:97 , LYS B:384 , HOH B:2068 , HOH B:2075
BINDING SITE FOR RESIDUE ACT B1441
23
CC5
SOFTWARE
GLN B:79 , HOH B:2118 , ALA C:268
BINDING SITE FOR RESIDUE ACT B1442
24
CC6
SOFTWARE
TYR B:101 , TYR B:112 , HOH B:2147 , HOH B:2149
BINDING SITE FOR RESIDUE ACT B1443
25
CC7
SOFTWARE
GLY A:422 , VAL A:423 , GLU B:302
BINDING SITE FOR RESIDUE ACT A1444
26
CC8
SOFTWARE
ILE C:53 , PRO C:54 , THR C:55 , ASP C:56 , GLY C:61 , TYR C:90 , GLN C:97
BINDING SITE FOR RESIDUE PEG C1445
27
CC9
SOFTWARE
GLY A:124 , ASP A:259 , GOL A:1440 , HOH A:2581 , HOH A:2582 , SER C:107 , GLN C:111
BINDING SITE FOR RESIDUE PEG A1445
28
DC1
SOFTWARE
THR B:154 , ARG B:156 , ILE B:207 , CYS B:242 , HOH B:2498
BINDING SITE FOR RESIDUE PEG B1444
29
DC2
SOFTWARE
SER B:433 , THR B:435 , HOH B:2484 , GLY C:63 , TRP C:65 , VAL C:66
BINDING SITE FOR RESIDUE PEG C1446
30
DC3
SOFTWARE
ASN A:76
BINDING SITE FOR MONO-SACCHARIDE NAG A1001 BOUND TO ASN A 76
31
DC4
SOFTWARE
GLN A:168 , SER A:175 , ASN A:177 , HOH A:2292 , HOH A:2583
BINDING SITE FOR MONO-SACCHARIDE NAG A2001 BOUND TO ASN A 177
32
DC5
SOFTWARE
THR A:429 , HIS B:290
BINDING SITE FOR MONO-SACCHARIDE NGA A3001 BOUND TO THR A 429
33
DC6
SOFTWARE
THR A:430 , ALA A:431 , HOH A:2565 , HOH A:2585 , HOH A:2586 , THR B:46
BINDING SITE FOR MONO-SACCHARIDE NGA A4001 BOUND TO THR A 430
34
DC7
SOFTWARE
ASN B:76
BINDING SITE FOR MONO-SACCHARIDE NAG B1001 BOUND TO ASN B 76
35
DC8
SOFTWARE
GLN B:168 , SER B:175 , ASN B:177 , HOH B:2242 , HOH B:2499
BINDING SITE FOR MONO-SACCHARIDE NAG B2001 BOUND TO ASN B 177
36
DC9
SOFTWARE
THR B:429 , HOH B:2500 , NGA B:4001 , HIS C:290
BINDING SITE FOR MONO-SACCHARIDE NGA B3001 BOUND TO THR B 429
37
EC1
SOFTWARE
THR B:430 , ALA B:431 , HOH B:2501 , HOH B:2502 , HOH B:2503 , NGA B:3001 , THR C:46
BINDING SITE FOR MONO-SACCHARIDE NGA B4001 BOUND TO THR B 430
38
EC2
SOFTWARE
ASN C:76
BINDING SITE FOR MONO-SACCHARIDE NAG C1001 BOUND TO ASN C 76
39
EC3
SOFTWARE
ARG C:27 , GLN C:168 , SER C:175 , ASN C:177 , HOH C:2456
BINDING SITE FOR MONO-SACCHARIDE NAG C2001 BOUND TO ASN C 177
40
EC4
SOFTWARE
HIS A:290 , THR C:429 , HOH C:2457
BINDING SITE FOR MONO-SACCHARIDE NGA C3001 BOUND TO THR C 429
41
EC5
SOFTWARE
THR A:46 , HOH A:2094 , THR C:430 , ALA C:431 , VAL C:432 , HOH C:2458 , HOH C:2459
BINDING SITE FOR MONO-SACCHARIDE NGA C4001 BOUND TO THR C 430
[
close Site info
]
SAPs(SNPs)/Variants
(1, 3)
Info
(mutated residues are only available for the asymmetric unit)
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)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
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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
All SCOP Domains
View:
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Label:
Sorry, no Info available
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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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