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4FMG
Biol. Unit 2
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
[
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Hetero Components
(1, 9)
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
9
Ligand/Ion
GLYCEROL
[
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Sites
(15, 15)
Info
All Sites
01: BC7 (SOFTWARE)
02: BC8 (SOFTWARE)
03: BC9 (SOFTWARE)
04: CC1 (SOFTWARE)
05: CC2 (SOFTWARE)
06: CC3 (SOFTWARE)
07: CC4 (SOFTWARE)
08: CC5 (SOFTWARE)
09: CC6 (SOFTWARE)
10: CC7 (SOFTWARE)
11: CC8 (SOFTWARE)
12: CC9 (SOFTWARE)
13: DC1 (SOFTWARE)
14: DC2 (SOFTWARE)
15: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC7
SOFTWARE
HIS F:164 , GLN F:248 , PRO F:254 , THR F:255 , VAL F:256 , CL F:403 , HOH F:533
BINDING SITE FOR RESIDUE GOL F 401
02
BC8
SOFTWARE
LYS F:147 , ARG F:148 , ASP F:151 , HOH F:529
BINDING SITE FOR RESIDUE GOL F 402
03
BC9
SOFTWARE
ASN F:162 , HIS F:164 , SER F:246 , ILE F:247 , GOL F:401
BINDING SITE FOR RESIDUE CL F 403
04
CC1
SOFTWARE
ASN G:162 , HIS G:164 , GLN G:248 , PRO G:254 , VAL G:256 , CL G:402
BINDING SITE FOR RESIDUE GOL G 401
05
CC2
SOFTWARE
HIS G:164 , SER G:246 , ILE G:247 , GLN G:248 , GOL G:401 , HOH G:518
BINDING SITE FOR RESIDUE CL G 402
06
CC3
SOFTWARE
ASN H:162 , GLN H:248 , PRO H:254 , THR H:255 , VAL H:256 , CL H:403
BINDING SITE FOR RESIDUE GOL H 401
07
CC4
SOFTWARE
LYS H:147 , ARG H:148 , HIS H:150 , ASP H:151 , HOH H:639
BINDING SITE FOR RESIDUE GOL H 402
08
CC5
SOFTWARE
HIS H:164 , SER H:246 , ILE H:247 , GOL H:401 , HOH H:504
BINDING SITE FOR RESIDUE CL H 403
09
CC6
SOFTWARE
ASN I:162 , HIS I:164 , GLN I:248 , PRO I:254 , THR I:255 , VAL I:256 , CL I:403
BINDING SITE FOR RESIDUE GOL I 401
10
CC7
SOFTWARE
HIS I:164 , PHE I:166 , SER I:246 , ARG I:307 , HOH I:553 , HOH I:584 , HOH I:641
BINDING SITE FOR RESIDUE GOL I 402
11
CC8
SOFTWARE
HIS I:164 , SER I:246 , ILE I:247 , GLN I:248 , GOL I:401 , HOH I:535
BINDING SITE FOR RESIDUE CL I 403
12
CC9
SOFTWARE
ASN J:162 , HIS J:164 , GLN J:248 , PRO J:254 , THR J:255 , VAL J:256 , CL J:403
BINDING SITE FOR RESIDUE GOL J 401
13
DC1
SOFTWARE
HIS J:164 , PHE J:166 , SER J:246 , ARG J:307 , HOH J:580
BINDING SITE FOR RESIDUE GOL J 402
14
DC2
SOFTWARE
HIS J:164 , SER J:246 , ILE J:247 , GLN J:248 , GOL J:401 , HOH J:534
BINDING SITE FOR RESIDUE CL J 403
15
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
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(, 0)
Info
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;
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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
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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
(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
(
)
(
)
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
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Asymmetric Unit 1
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Asym.Unit (1.8 MB)
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Biol.Unit 1 (462 KB)
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Biol.Unit 2 (464 KB)
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Biol.Unit 3 (459 KB)
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Biol.Unit 4 (462 KB)
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