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1LD4
Asym. Unit
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Asym.Unit (330 KB)
Biol.Unit 1, α-C (18.5 MB)
Biol.Unit 1 (18.5 MB)
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(1)
Title
:
PLACEMENT OF THE STRUCTURAL PROTEINS IN SINDBIS VIRUS
Authors
:
W. Zhang, S. Mukhopadhyay, S. V. Pletnev, T. S. Baker, R. J. Kuhn, M. G. Rossmann
Date
:
08 Apr 02 (Deposition) - 04 Nov 02 (Release) - 09 Jun 09 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
11.40
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P (60x)
Keywords
:
Sindbis Virus, Alphavirus Structure, Cryo-Electron Microscopy, Glycoprotein Organization, Nucleocapsid Structure, Transmembrane Coiled Coils, Icosahedral Virus
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Zhang, S. Mukhopadhyay, S. V. Pletnev, T. S. Baker, R. J. Kuhn, M. G. Rossmann
Placement Of The Structural Proteins In Sindbis Virus
J. Virol. V. 76 11645 2002
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 32)
Info
All Hetero Components
1a: UNKNOWN ATOM OR ION (UNXa)
1aa: UNKNOWN ATOM OR ION (UNXaa)
1ab: UNKNOWN ATOM OR ION (UNXab)
1ac: UNKNOWN ATOM OR ION (UNXac)
1ad: UNKNOWN ATOM OR ION (UNXad)
1ae: UNKNOWN ATOM OR ION (UNXae)
1af: UNKNOWN ATOM OR ION (UNXaf)
1b: UNKNOWN ATOM OR ION (UNXb)
1c: UNKNOWN ATOM OR ION (UNXc)
1d: UNKNOWN ATOM OR ION (UNXd)
1e: UNKNOWN ATOM OR ION (UNXe)
1f: UNKNOWN ATOM OR ION (UNXf)
1g: UNKNOWN ATOM OR ION (UNXg)
1h: UNKNOWN ATOM OR ION (UNXh)
1i: UNKNOWN ATOM OR ION (UNXi)
1j: UNKNOWN ATOM OR ION (UNXj)
1k: UNKNOWN ATOM OR ION (UNXk)
1l: UNKNOWN ATOM OR ION (UNXl)
1m: UNKNOWN ATOM OR ION (UNXm)
1n: UNKNOWN ATOM OR ION (UNXn)
1o: UNKNOWN ATOM OR ION (UNXo)
1p: UNKNOWN ATOM OR ION (UNXp)
1q: UNKNOWN ATOM OR ION (UNXq)
1r: UNKNOWN ATOM OR ION (UNXr)
1s: UNKNOWN ATOM OR ION (UNXs)
1t: UNKNOWN ATOM OR ION (UNXt)
1u: UNKNOWN ATOM OR ION (UNXu)
1v: UNKNOWN ATOM OR ION (UNXv)
1w: UNKNOWN ATOM OR ION (UNXw)
1x: UNKNOWN ATOM OR ION (UNXx)
1y: UNKNOWN ATOM OR ION (UNXy)
1z: UNKNOWN ATOM OR ION (UNXz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
UNX
32
Ligand/Ion
UNKNOWN ATOM OR ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
MET M:1195 , PRO M:1197 , GLY M:1198 , ALA M:1199
BINDING SITE FOR RESIDUE LYS M1196
2
AC2
SOFTWARE
ARG N:4324 , GLU N:4325
BINDING SITE FOR RESIDUE UNX N4440
3
AC3
SOFTWARE
MET N:4195 , PRO N:4197 , GLY N:4198 , ALA N:4199
BINDING SITE FOR RESIDUE LYS N4196
4
AC4
SOFTWARE
GLU O:5325
BINDING SITE FOR RESIDUE UNX O5440
5
AC5
SOFTWARE
MET O:5195 , PRO O:5197 , GLY O:5198 , ALA O:5199
BINDING SITE FOR RESIDUE LYS O5196
6
AC6
SOFTWARE
GLU P:6325
BINDING SITE FOR RESIDUE UNX P6440
7
AC7
SOFTWARE
MET P:6195 , PRO P:6197 , GLY P:6198 , ALA P:6199
BINDING SITE FOR RESIDUE LYS P6196
[
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SAPs(SNPs)/Variants
(1, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_POLS_SINDV_007 (D6113V, chain M/N/O/P, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_POLS_SINDV_007
*
D
919
V
POLS_SINDV
---
---
M
N
O
P
D
1113
4113
5113
6113
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: ALPHAVIRUS_CP (A:1114-1264,B:4114-4264,C:5114-526...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALPHAVIRUS_CP
PS51690
Alphavirus core protein (CP) domain profile.
POLS_SINDV
114-264
4
A:1114-1264
B:4114-4264
C:5114-5264
D:6114-6264
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Exons
(1, 8)
Info
All Exons
Exon 1.1 (E:1150-1177 | F:1250-1277 | G:4150...)
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YEL009C
1
YEL009C.1
V:139763-138918
846
GCN4_YEAST
1-281
281
8
E:1150-1177
F:1250-1277
G:4150-4177
H:4250-4277
I:5150-5177
J:5250-5277
K:6150-6177
L:6250-6277
28
28
28
28
28
28
28
28
[
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SCOP Domains
(1, 16)
Info
All SCOP Domains
1a: SCOP_d1ld4a_ (A:)
1b: SCOP_d1ld4b_ (B:)
1c: SCOP_d1ld4k_ (K:)
1d: SCOP_d1ld4l_ (L:)
1e: SCOP_d1ld4m_ (M:)
1f: SCOP_d1ld4n_ (N:)
1g: SCOP_d1ld4o_ (O:)
1h: SCOP_d1ld4p_ (P:)
1i: SCOP_d1ld4c_ (C:)
1j: SCOP_d1ld4d_ (D:)
1k: SCOP_d1ld4e_ (E:)
1l: SCOP_d1ld4f_ (F:)
1m: SCOP_d1ld4g_ (G:)
1n: SCOP_d1ld4h_ (H:)
1o: SCOP_d1ld4i_ (I:)
1p: SCOP_d1ld4j_ (J:)
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Organisms
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(
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Class
:
Low resolution protein structures
(283)
Fold
:
Viruses and virus-receptor complexes
(17)
Superfamily
:
Viruses and virus-receptor complexes
(17)
Family
:
Viruses and virus-receptor complexes
(17)
Protein domain
:
Structural proteins
(1)
Sindbis virus [TaxId: 11034]
(1)
1a
d1ld4a_
A:
1b
d1ld4b_
B:
1c
d1ld4k_
K:
1d
d1ld4l_
L:
1e
d1ld4m_
M:
1f
d1ld4n_
N:
1g
d1ld4o_
O:
1h
d1ld4p_
P:
1i
d1ld4c_
C:
1j
d1ld4d_
D:
1k
d1ld4e_
E:
1l
d1ld4f_
F:
1m
d1ld4g_
G:
1n
d1ld4h_
H:
1o
d1ld4i_
I:
1p
d1ld4j_
J:
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Peptidase_S3_1ld4D01 (D:6114-6264)
1b: PFAM_Peptidase_S3_1ld4D02 (D:6114-6264)
1c: PFAM_Peptidase_S3_1ld4D03 (D:6114-6264)
1d: PFAM_Peptidase_S3_1ld4D04 (D:6114-6264)
2a: PFAM_Alpha_E1_glycop_1ld4P01 (P:6001-6380)
2b: PFAM_Alpha_E1_glycop_1ld4P02 (P:6001-6380)
2c: PFAM_Alpha_E1_glycop_1ld4P03 (P:6001-6380)
2d: PFAM_Alpha_E1_glycop_1ld4P04 (P:6001-6380)
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)
Clan
:
Peptidase_PA
(797)
Family
:
Peptidase_S3
(13)
Sindbis virus (SINV)
(10)
1a
Peptidase_S3-1ld4D01
D:6114-6264
1b
Peptidase_S3-1ld4D02
D:6114-6264
1c
Peptidase_S3-1ld4D03
D:6114-6264
1d
Peptidase_S3-1ld4D04
D:6114-6264
Clan
:
no clan defined [family: Alpha_E1_glycop]
(11)
Family
:
Alpha_E1_glycop
(11)
Sindbis virus (SINV)
(3)
2a
Alpha_E1_glycop-1ld4P01
P:6001-6380
2b
Alpha_E1_glycop-1ld4P02
P:6001-6380
2c
Alpha_E1_glycop-1ld4P03
P:6001-6380
2d
Alpha_E1_glycop-1ld4P04
P:6001-6380
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