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1WYK
Asym. Unit
Info
Asym.Unit (143 KB)
Biol.Unit 1 (38 KB)
Biol.Unit 2 (38 KB)
Biol.Unit 3 (37 KB)
Biol.Unit 4 (38 KB)
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(1)
Title
:
SINDBIS VIRUS CAPSID PROTEIN (114-264)
Authors
:
S. Lee, R. J. Kuhn, M. G. Rossmann
Date
:
12 Jan 98 (Deposition) - 29 Apr 98 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Coat Protein, Sindbis, Virus, Proteinase, Alphavirus, Capsid, Dioxane, Viral Protein, Hydrolase
(Keyword Search:
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Reference
:
S. Lee, R. J. Kuhn, M. G. Rossmann
Probing The Potential Glycoprotein Binding Site Of Sindbis Virus Capsid Protein With Dioxane And Model Building.
Proteins V. 33 311 1998
(for further references see the
PDB file header
)
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Hetero Components
(2, 9)
Info
All Hetero Components
1a: 1,4-DIETHYLENE DIOXIDE (DIOa)
1b: 1,4-DIETHYLENE DIOXIDE (DIOb)
1c: 1,4-DIETHYLENE DIOXIDE (DIOc)
1d: 1,4-DIETHYLENE DIOXIDE (DIOd)
1e: 1,4-DIETHYLENE DIOXIDE (DIOe)
2a: FORMYL GROUP (FORa)
2b: FORMYL GROUP (FORb)
2c: FORMYL GROUP (FORc)
2d: FORMYL GROUP (FORd)
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Label:
No.
Name
Count
Type
Full Name
1
DIO
5
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
2
FOR
4
Mod. Residue
FORMYL GROUP
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
MET A:113 , ARG A:114
BINDING SITE FOR RESIDUE FOR A 112
2
AC2
SOFTWARE
MET B:113 , VAL C:125
BINDING SITE FOR RESIDUE FOR B 112
3
AC3
SOFTWARE
MET C:113
BINDING SITE FOR RESIDUE FOR C 112
4
AC4
SOFTWARE
MET D:113
BINDING SITE FOR RESIDUE FOR D 112
5
AC5
SOFTWARE
MET A:132 , GLU A:133 , ARG A:207 , TRP A:247 , HOH A:396
BINDING SITE FOR RESIDUE DIO A 1
6
AC6
SOFTWARE
TRP B:247 , HOH B:369
BINDING SITE FOR RESIDUE DIO B 2
7
AC7
SOFTWARE
HOH A:306 , TYR B:162 , TRP B:247 , THR B:253 , HOH B:369
BINDING SITE FOR RESIDUE DIO B 22
8
AC8
SOFTWARE
GLU C:133 , LYS C:135 , MET C:137
BINDING SITE FOR RESIDUE DIO C 3
9
AC9
SOFTWARE
MET D:132 , ARG D:207 , TRP D:247 , HOH D:372
BINDING SITE FOR RESIDUE DIO D 4
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: ALPHAVIRUS_CP (A:114-264,B:114-264,C:114-264,D:11...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALPHAVIRUS_CP
PS51690
Alphavirus core protein (CP) domain profile.
POLS_SINDO
114-264
4
A:114-264
B:114-264
C:114-264
D:114-264
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1wyka_ (A:)
1b: SCOP_d1wykb_ (B:)
1c: SCOP_d1wykc_ (C:)
1d: SCOP_d1wykd_ (D:)
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Protein Domains
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)
(
)
Organisms
(
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(
)
Class
:
All beta proteins
(24004)
Fold
:
Trypsin-like serine proteases
(1752)
Superfamily
:
Trypsin-like serine proteases
(1752)
Family
:
Viral proteases
(62)
Protein domain
:
Viral capsid protein
(15)
Sindbis virus [TaxId: 11034]
(11)
1a
d1wyka_
A:
1b
d1wykb_
B:
1c
d1wykc_
C:
1d
d1wykd_
D:
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1wykA02 (A:179-264)
1b: CATH_1wykB02 (B:179-264)
1c: CATH_1wykC02 (C:179-264)
1d: CATH_1wykD02 (D:179-264)
1e: CATH_1wykA01 (A:114-178)
1f: CATH_1wykB01 (B:114-178)
1g: CATH_1wykC01 (C:114-178)
1h: CATH_1wykD01 (D:114-178)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
Trypsin-like serine proteases
(1488)
Sindbis virus. Organism_taxid: 11034. Strain: sa-ar 86. Cell_line: bl21.
(1)
1a
1wykA02
A:179-264
1b
1wykB02
B:179-264
1c
1wykC02
C:179-264
1d
1wykD02
D:179-264
1e
1wykA01
A:114-178
1f
1wykB01
B:114-178
1g
1wykC01
C:114-178
1h
1wykD01
D:114-178
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Peptidase_S3_1wykD01 (D:114-264)
1b: PFAM_Peptidase_S3_1wykD02 (D:114-264)
1c: PFAM_Peptidase_S3_1wykD03 (D:114-264)
1d: PFAM_Peptidase_S3_1wykD04 (D:114-264)
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Clan
:
Peptidase_PA
(797)
Family
:
Peptidase_S3
(13)
Sindbis virus subtype Ockelbo (strain Edsbyn 82-5) (OCKV) (Ockelbo virus)
(1)
1a
Peptidase_S3-1wykD01
D:114-264
1b
Peptidase_S3-1wykD02
D:114-264
1c
Peptidase_S3-1wykD03
D:114-264
1d
Peptidase_S3-1wykD04
D:114-264
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (143 KB)
Header - Asym.Unit
Biol.Unit 1 (38 KB)
Header - Biol.Unit 1
Biol.Unit 2 (38 KB)
Header - Biol.Unit 2
Biol.Unit 3 (37 KB)
Header - Biol.Unit 3
Biol.Unit 4 (38 KB)
Header - Biol.Unit 4
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