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4X16
Asym. Unit
Info
Asym.Unit (451 KB)
Biol.Unit 1 (439 KB)
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(1)
Title
:
JC MAD-1 POLYOMAVIRUS VP1 IN COMPLEX WITH GD1A OLIGOSACCHARIDE
Authors
:
L. J. Stroh, T. Stehle
Date
:
24 Nov 14 (Deposition) - 22 Apr 15 (Release) - 27 May 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Keywords
:
Beta-Sandwich, Jelly-Roll, Viral Major Capsid Protein, Glycan, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. J. Stroh, M. S. Maginnis, B. S. Blaum, C. D. Nelson, U. Neu, G. V. Gee, B. A. O'Hara, N. Motamedi, D. Dimaio, W. J. Atwood, T. Stehle
The Greater Affinity Of Jc Polyomavirus Capsid For Alpha 2, 6-Linked Lactoseries Tetrasaccharide C Than For Other Sialylated Glycans Is A Major Determinant Of Infectivity.
J. Virol. V. 89 6364 2015
[
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Hetero Components
(4, 21)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
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)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
3c: POTASSIUM ION (Kc)
4a: O-SIALIC ACID (SIAa)
4b: O-SIALIC ACID (SIAb)
4c: O-SIALIC ACID (SIAc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
6
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
9
Ligand/Ion
GLYCEROL
3
K
3
Ligand/Ion
POTASSIUM ION
4
SIA
3
Ligand/Ion
O-SIALIC ACID
[
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Sites
(21, 21)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:62 , SER A:64 , SER A:69 , ASP A:70 , SER A:71 , PRO A:72 , MET A:76 , HOH A:533 , HIS E:121
binding site for residue GOL A 301
02
AC2
SOFTWARE
HIS A:142 , GLY A:214 , THR A:215
binding site for residue EDO A 302
03
AC3
SOFTWARE
GLU A:40 , HOH A:514 , THR B:205 , HOH B:438
binding site for residue K A 303
04
AC4
SOFTWARE
LEU B:54 , LYS B:59 , SER B:60 , ASN B:123 , ASN B:264 , SER B:266 , SER B:268 , GLN B:270 , HOH B:427 , HOH B:488 , HOH B:489 , PHE C:67
binding site for residue SIA B 301
05
AC5
SOFTWARE
HIS A:121 , SER B:62 , SER B:64 , SER B:69 , ASP B:70 , SER B:71 , PRO B:72 , HOH B:406
binding site for residue GOL B 302
06
AC6
SOFTWARE
HIS B:142 , GLY B:214 , THR B:215 , EDO B:304 , GOL B:305 , HOH B:578
binding site for residue EDO B 303
07
AC7
SOFTWARE
HIS B:142 , HIS B:227 , EDO B:303 , GOL B:305 , HOH B:592
binding site for residue EDO B 304
08
AC8
SOFTWARE
HIS B:142 , PRO B:224 , VAL B:225 , EDO B:303 , EDO B:304 , HOH B:454 , HOH B:455 , HOH B:523 , HOH B:592
binding site for residue GOL B 305
09
AC9
SOFTWARE
GLU B:40 , THR C:205 , HOH C:550 , HOH C:551
binding site for residue K B 306
10
AD1
SOFTWARE
LEU C:54 , LYS C:59 , SER C:60 , ASN C:123 , ASN C:264 , SER C:266 , SER C:268 , GLN C:270 , HOH C:445 , HOH C:448 , HOH C:449 , HOH C:472 , PHE D:67
binding site for residue SIA C 301
11
AD2
SOFTWARE
HIS B:121 , SER C:62 , SER C:64 , SER C:69 , ASP C:70 , SER C:71 , MET C:76 , HOH C:505
binding site for residue GOL C 302
12
AD3
SOFTWARE
HIS C:142 , GLY C:214 , THR C:215 , HOH C:548
binding site for residue EDO C 303
13
AD4
SOFTWARE
HIS C:142 , PRO C:224 , VAL C:225 , HOH C:414 , HOH C:440 , HOH C:537 , HOH C:608
binding site for residue GOL C 304
14
AD5
SOFTWARE
LEU D:54 , LYS D:59 , SER D:60 , ASN D:123 , ASN D:264 , SER D:266 , SER D:268 , GLN D:270 , HOH D:436 , HOH D:588 , PHE E:67 , HOH E:616
binding site for residue SIA D 301
15
AD6
SOFTWARE
HIS C:121 , SER D:62 , SER D:64 , SER D:69 , ASP D:70 , SER D:71 , MET D:76 , HOH D:518 , HOH D:585
binding site for residue GOL D 302
16
AD7
SOFTWARE
HIS D:142 , GLY D:214 , THR D:215 , HOH D:484
binding site for residue EDO D 303
17
AD8
SOFTWARE
ASP B:65 , THR B:66 , HIS D:121 , SER E:62 , SER E:64 , SER E:69 , ASP E:70 , SER E:71 , PRO E:72 , HOH E:401 , HOH E:407
binding site for residue GOL E 301
18
AD9
SOFTWARE
HIS E:142 , HIS E:227 , GOL E:303
binding site for residue EDO E 302
19
AE1
SOFTWARE
HIS E:142 , PRO E:224 , VAL E:225 , EDO E:302 , HOH E:427 , HOH E:442 , HOH E:480 , HOH E:534
binding site for residue GOL E 303
20
AE2
SOFTWARE
SER A:62 , ILE A:63 , ALA E:126 , ASN E:130 , GLY E:131 , HOH E:511
binding site for residue GOL E 304
21
AE3
SOFTWARE
THR A:205 , HOH A:426 , HOH A:556 , HOH A:586 , GLU E:40 , HOH E:577
binding site for residue K E 305
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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SCOP Domains
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CATH Domains
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Pfam Domains
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Asym.Unit (451 KB)
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