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4FMG
Biol. Unit 3
Info
Asym.Unit (1.8 MB)
Biol.Unit 1 (462 KB)
Biol.Unit 2 (464 KB)
Biol.Unit 3 (459 KB)
Biol.Unit 4 (462 KB)
Biol.Unit 5 (908 KB)
Biol.Unit 6 (913 KB)
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(1)
Title
:
MERKEL CELL POLYOMAVIRUS VP1 UNASSEMBLED PENTAMER
Authors
:
U. Neu, H. Hengel, T. Stehle
Date
:
17 Jun 12 (Deposition) - 05 Sep 12 (Release) - 05 Sep 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: F,G,H,I,J (1x)
Biol. Unit 3: K,L,M,N,O (1x)
Biol. Unit 4: P,Q,R,S,T (1x)
Biol. Unit 5: A,B,C,D,E,K,L,M,N,O (1x)
Biol. Unit 6: F,G,H,I,J,P,Q,R,S,T (1x)
Keywords
:
Viral Capsid Protein, Jelly Roll, Encapsidation, Receptor Binding, Sialylated Oligosaccharides, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
U. Neu, H. Hengel, B. S. Blaum, R. M. Schowalter, D. Macejak, M. Gilbert W. W. Wakarchuk, A. Imamura, H. Ando, M. Kiso, N. Arnberg, R. L. Garcea, T. Peters, C. B. Buck, T. Stehle
Structures Of Merkel Cell Polyomavirus Vp1 Complexes Define A Sialic Acid Binding Site Required For Infection.
Plos Pathog. V. 8 02738 2012
[
close entry info
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Hetero Components
(1, 7)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
1o: CHLORIDE ION (CLo)
1p: CHLORIDE ION (CLp)
1q: CHLORIDE ION (CLq)
1r: CHLORIDE ION (CLr)
1s: CHLORIDE ION (CLs)
1t: CHLORIDE ION (CLt)
2a: GLYCEROL (GOLa)
2aa: GLYCEROL (GOLaa)
2ab: GLYCEROL (GOLab)
2ac: GLYCEROL (GOLac)
2ad: GLYCEROL (GOLad)
2ae: GLYCEROL (GOLae)
2af: GLYCEROL (GOLaf)
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)
2r: GLYCEROL (GOLr)
2s: GLYCEROL (GOLs)
2t: GLYCEROL (GOLt)
2u: GLYCEROL (GOLu)
2v: GLYCEROL (GOLv)
2w: GLYCEROL (GOLw)
2x: GLYCEROL (GOLx)
2y: GLYCEROL (GOLy)
2z: GLYCEROL (GOLz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
GOL
7
Ligand/Ion
GLYCEROL
[
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Sites
(12, 12)
Info
All Sites
01: DC3 (SOFTWARE)
02: DC4 (SOFTWARE)
03: DC5 (SOFTWARE)
04: DC6 (SOFTWARE)
05: DC7 (SOFTWARE)
06: DC8 (SOFTWARE)
07: DC9 (SOFTWARE)
08: EC1 (SOFTWARE)
09: EC2 (SOFTWARE)
10: EC3 (SOFTWARE)
11: EC4 (SOFTWARE)
12: EC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
DC3
SOFTWARE
ASN K:162 , GLN K:248 , PRO K:254 , THR K:255 , VAL K:256 , CL K:402 , HOH K:564
BINDING SITE FOR RESIDUE GOL K 401
02
DC4
SOFTWARE
HIS K:164 , SER K:246 , ILE K:247 , GLN K:248 , GOL K:401 , HOH K:509
BINDING SITE FOR RESIDUE CL K 402
03
DC5
SOFTWARE
ASN L:75 , TRP L:76 , TYR L:143 , TRP L:144 , HOH L:723 , ASP M:181 , GLN M:183 , HOH M:583 , HOH M:654
BINDING SITE FOR RESIDUE GOL L 501
04
DC6
SOFTWARE
ASN L:162 , HIS L:164 , GLN L:248 , PRO L:254 , THR L:255 , VAL L:256 , CL L:504
BINDING SITE FOR RESIDUE GOL L 502
05
DC7
SOFTWARE
SER G:88 , TRP L:76 , TYR L:81 , ASP L:82 , LYS L:295 , HOH L:651
BINDING SITE FOR RESIDUE GOL L 503
06
DC8
SOFTWARE
ASN L:162 , HIS L:164 , SER L:246 , ILE L:247 , GOL L:502 , HOH L:614
BINDING SITE FOR RESIDUE CL L 504
07
DC9
SOFTWARE
ASN M:162 , HIS M:164 , SER M:246 , GLN M:248 , PRO M:254 , THR M:255 , VAL M:256 , CL M:402 , HOH M:664
BINDING SITE FOR RESIDUE GOL M 401
08
EC1
SOFTWARE
HIS M:164 , SER M:246 , ILE M:247 , GOL M:401 , HOH M:510
BINDING SITE FOR RESIDUE CL M 402
09
EC2
SOFTWARE
ASN N:162 , HIS N:164 , GLN N:248 , PRO N:254 , THR N:255 , VAL N:256 , CL N:402 , HOH N:539 , HOH N:619
BINDING SITE FOR RESIDUE GOL N 401
10
EC3
SOFTWARE
ASN N:162 , HIS N:164 , SER N:246 , ILE N:247 , GLN N:248 , GOL N:401 , HOH N:529
BINDING SITE FOR RESIDUE CL N 402
11
EC4
SOFTWARE
ASN O:162 , GLN O:248 , PRO O:254 , THR O:255 , VAL O:256 , CL O:402 , HOH O:513 , HOH O:630
BINDING SITE FOR RESIDUE GOL O 401
12
EC5
SOFTWARE
ASN O:162 , HIS O:164 , SER O:246 , ILE O:247 , GLN O:248 , GOL O:401 , HOH O:506
BINDING SITE FOR RESIDUE CL O 402
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 20)
Info
All SCOP Domains
1a: SCOP_d4fmga_ (A:)
1b: SCOP_d4fmgb_ (B:)
1c: SCOP_d4fmgc_ (C:)
1d: SCOP_d4fmgd_ (D:)
1e: SCOP_d4fmge_ (E:)
1f: SCOP_d4fmgf_ (F:)
1g: SCOP_d4fmgg_ (G:)
1h: SCOP_d4fmgh_ (H:)
1i: SCOP_d4fmgi_ (I:)
1j: SCOP_d4fmgj_ (J:)
1k: SCOP_d4fmgk_ (K:)
1l: SCOP_d4fmgl_ (L:)
1m: SCOP_d4fmgm_ (M:)
1n: SCOP_d4fmgn_ (N:)
1o: SCOP_d4fmgo_ (O:)
1p: SCOP_d4fmgp_ (P:)
1q: SCOP_d4fmgq_ (Q:)
1r: SCOP_d4fmgr_ (R:)
1s: SCOP_d4fmgs_ (S:)
1t: SCOP_d4fmgt_ (T:)
View:
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Classes
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)
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)
Folds
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)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Nucleoplasmin-like/VP (viral coat and capsid proteins)
(278)
Superfamily
:
Group I dsDNA viruses
(30)
Family
:
Papovaviridae-like VP
(19)
Protein domain
:
automated matches
(12)
Merkel cell polyomavirus [TaxId: 493803]
(4)
1a
d4fmga_
A:
1b
d4fmgb_
B:
1c
d4fmgc_
C:
1d
d4fmgd_
D:
1e
d4fmge_
E:
1f
d4fmgf_
F:
1g
d4fmgg_
G:
1h
d4fmgh_
H:
1i
d4fmgi_
I:
1j
d4fmgj_
J:
1k
d4fmgk_
K:
1l
d4fmgl_
L:
1m
d4fmgm_
M:
1n
d4fmgn_
N:
1o
d4fmgo_
O:
1p
d4fmgp_
P:
1q
d4fmgq_
Q:
1r
d4fmgr_
R:
1s
d4fmgs_
S:
1t
d4fmgt_
T:
[
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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
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Sorry, no Info available
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Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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Asym.Unit (1.8 MB)
Header - Asym.Unit
Biol.Unit 1 (462 KB)
Header - Biol.Unit 1
Biol.Unit 2 (464 KB)
Header - Biol.Unit 2
Biol.Unit 3 (459 KB)
Header - Biol.Unit 3
Biol.Unit 4 (462 KB)
Header - Biol.Unit 4
Biol.Unit 5 (908 KB)
Header - Biol.Unit 5
Biol.Unit 6 (913 KB)
Header - Biol.Unit 6
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