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4X17
Asym. Unit
Info
Asym.Unit (449 KB)
Biol.Unit 1 (439 KB)
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(1)
Title
:
JC MAD-1 POLYOMAVIRUS VP1 IN COMPLEX WITH GD1B 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
:
1.75
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
[
close entry info
]
Hetero Components
(4, 31)
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)
1g: 1,2-ETHANEDIOL (EDOg)
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)
2p: GLYCEROL (GOLp)
2q: GLYCEROL (GOLq)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
4a: O-SIALIC ACID (SIAa)
4b: O-SIALIC ACID (SIAb)
4c: O-SIALIC ACID (SIAc)
4d: O-SIALIC ACID (SIAd)
4e: O-SIALIC ACID (SIAe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
7
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
17
Ligand/Ion
GLYCEROL
3
K
2
Ligand/Ion
POTASSIUM ION
4
SIA
5
Ligand/Ion
O-SIALIC ACID
[
close Hetero Component info
]
Sites
(29, 29)
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)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:208 , ASN A:209 , ARG A:211 , ASP A:238 , GLY A:243 , PRO A:244
binding site for residue GOL A 301
02
AC2
SOFTWARE
HIS A:142 , PHE A:144 , GLY A:214 , THR A:215 , EDO A:303 , GOL A:304 , HOH A:593
binding site for residue GOL A 302
03
AC3
SOFTWARE
THR A:234 , GOL A:302
binding site for residue EDO A 303
04
AC4
SOFTWARE
HIS A:142 , PRO A:224 , VAL A:225 , GOL A:302 , HOH A:444 , HOH A:451 , HOH A:456
binding site for residue GOL A 304
05
AC5
SOFTWARE
SER A:62 , SER A:64 , SER A:69 , ASP A:70 , SER A:71 , PRO A:72 , HOH A:441 , HIS E:121
binding site for residue GOL A 305
06
AC6
SOFTWARE
THR A:205 , HOH A:474 , HOH A:544 , HOH A:603 , GLU E:40 , HOH E:410
binding site for residue K A 306
07
AC7
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:404 , HOH B:426 , HOH B:436 , PHE C:67
binding site for residue SIA B 301
08
AC8
SOFTWARE
HIS B:142 , GLY B:214 , THR B:215 , EDO B:303
binding site for residue EDO B 302
09
AC9
SOFTWARE
THR B:234 , EDO B:302
binding site for residue EDO B 303
10
AD1
SOFTWARE
HIS B:142 , PRO B:224 , VAL B:225 , HOH B:422 , HOH B:475 , HOH B:617
binding site for residue GOL B 304
11
AD2
SOFTWARE
HIS A:121 , SER B:62 , SER B:64 , SER B:69 , ASP B:70 , SER B:71 , PRO B:72 , HOH B:452
binding site for residue GOL B 305
12
AD3
SOFTWARE
HIS C:142 , LEU C:226 , HIS C:227 , GOL C:306 , GOL C:307
binding site for residue EDO C 303
13
AD4
SOFTWARE
GLU C:208 , ASN C:209 , ARG C:211 , ASP C:238 , GLY C:243 , PRO C:244
binding site for residue GOL C 304
14
AD5
SOFTWARE
THR C:234 , GOL C:306
binding site for residue EDO C 305
15
AD6
SOFTWARE
HIS C:142 , PHE C:144 , PHE C:213 , GLY C:214 , THR C:215 , EDO C:303 , EDO C:305 , GOL C:307 , HOH C:527
binding site for residue GOL C 306
16
AD7
SOFTWARE
PRO C:224 , VAL C:225 , EDO C:303 , GOL C:306 , HOH C:450 , HOH C:475 , HOH C:490 , HOH C:605
binding site for residue GOL C 307
17
AD8
SOFTWARE
HIS B:121 , SER C:62 , SER C:64 , SER C:69 , ASP C:70 , SER C:71 , MET C:76 , HOH C:410
binding site for residue GOL C 308
18
AD9
SOFTWARE
GLU D:208 , ASN D:209 , ARG D:211 , ASP D:238 , GLY D:243 , PRO D:244 , LEU D:245 , HOH D:440
binding site for residue GOL D 303
19
AE1
SOFTWARE
HIS D:142 , PHE D:144 , PHE D:213 , GLY D:214 , THR D:215 , EDO D:305 , HOH D:487 , HOH D:547
binding site for residue GOL D 304
20
AE2
SOFTWARE
THR D:234 , GOL D:304
binding site for residue EDO D 305
21
AE3
SOFTWARE
HIS C:121 , SER D:62 , SER D:64 , SER D:69 , ASP D:70 , SER D:71 , PRO D:72 , MET D:76 , HOH D:410
binding site for residue GOL D 306
22
AE4
SOFTWARE
GLU D:40 , HOH D:501 , THR E:205 , HOH E:498 , HOH E:594
binding site for residue K D 307
23
AE5
SOFTWARE
VAL E:82 , ALA E:83 , ARG E:84 , ASP E:190 , ASN E:192 , HOH E:554
binding site for residue GOL E 301
24
AE6
SOFTWARE
PHE E:213 , THR E:234 , GOL E:303
binding site for residue EDO E 302
25
AE7
SOFTWARE
HIS E:142 , PHE E:144 , GLY E:214 , THR E:215 , EDO E:302 , GOL E:304 , HOH E:581
binding site for residue GOL E 303
26
AE8
SOFTWARE
HIS E:142 , PRO E:224 , VAL E:225 , GOL E:303 , HOH E:429 , HOH E:484 , HOH E:494 , HOH E:616
binding site for residue GOL E 304
27
AE9
SOFTWARE
ARG A:265 , 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:454
binding site for residue GOL E 305
28
AF1
SOFTWARE
ASN B:130 , 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:425 , HOH C:427 , HOH C:439 , HOH C:446 , HOH C:541 , HOH C:569 , PHE D:67
binding site for residues SIA C 301 and SIA C 302
29
AF2
SOFTWARE
ASN C:130 , 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:403 , HOH D:425 , HOH D:475 , HOH D:530 , HOH D:560 , PHE E:67
binding site for residues SIA D 301 and SIA D 302
[
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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 (449 KB)
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