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1OHF
Asym. Unit
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Asym.Unit (338 KB)
Biol.Unit 1, α-C (18.8 MB)
Biol.Unit 1 (18.8 MB)
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(1)
Title
:
THE REFINED STRUCTURE OF NUDAURELIA CAPENSIS OMEGA VIRUS
Authors
:
C. Helgstrand, S. Munshi, J. E. Johnson, L. Liljas
Date
:
26 May 03 (Deposition) - 26 Feb 04 (Release) - 17 Nov 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (60x)
Keywords
:
Virus, Viral Coat, Auto-Catalytic Cleavage, Quasiequivalence, Nwv, Icosahedral Virus
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Helgstrand, S. Munshi, J. E. Johnson, L. Liljas
The Refined Structure Of Nudaurelia Capensis Omega Virus Reveals Control Elements For A T = 4 Capsid Maturation
Virology V. 318 192 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
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No.
Name
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Type
Full Name
1
MG
4
Ligand/Ion
MAGNESIUM ION
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:182 , ASP A:207
BINDING SITE FOR RESIDUE MG A1645
2
AC2
SOFTWARE
ASP B:182 , ASP B:207 , GLY D:330
BINDING SITE FOR RESIDUE MG B1645
3
AC3
SOFTWARE
ASP C:182 , ASP C:207
BINDING SITE FOR RESIDUE MG C1645
4
AC4
SOFTWARE
ASP D:182 , ASP D:207
BINDING SITE FOR RESIDUE MG D1645
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
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Exons
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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_d1ohfa_ (A:)
1b: SCOP_d1ohfb_ (B:)
1c: SCOP_d1ohfc_ (C:)
1d: SCOP_d1ohfd_ (D:)
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Class
:
All beta proteins
(24004)
Fold
:
Nucleoplasmin-like/VP (viral coat and capsid proteins)
(278)
Superfamily
:
Positive stranded ssRNA viruses
(163)
Family
:
Tetraviridae-like VP
(1)
Protein domain
:
Tetraomegavirus capsid protein
(1)
Nudaurelia capensis omega virus [TaxId: 12541]
(1)
1a
d1ohfa_
A:
1b
d1ohfb_
B:
1c
d1ohfc_
C:
1d
d1ohfd_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1ohfB02 (B:117-276,B:417-544,B:562-566)
1b: CATH_1ohfC02 (C:117-278,C:417-544,C:562-570)
1c: CATH_1ohfD02 (D:117-278,D:417-544,D:562-570)
1d: CATH_1ohfA02 (A:117-275,A:417-544,A:562-570)
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)
Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.20, no name defined]
(133)
Nudaurelia capensis omega virus. Organism_taxid: 12541
(1)
1a
1ohfB02
B:117-276,B:417-544,B:562-566
1b
1ohfC02
C:117-278,C:417-544,C:562-570
1c
1ohfD02
D:117-278,D:417-544,D:562-570
1d
1ohfA02
A:117-275,A:417-544,A:562-570
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Peptidase_A21_1ohfD01 (D:43-641)
1b: PFAM_Peptidase_A21_1ohfD02 (D:43-641)
1c: PFAM_Peptidase_A21_1ohfD03 (D:43-641)
1d: PFAM_Peptidase_A21_1ohfD04 (D:43-641)
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Clan
:
Viral_ssRNA_CP
(106)
Family
:
Peptidase_A21
(1)
Nudaurelia capensis omega virus
(1)
1a
Peptidase_A21-1ohfD01
D:43-641
1b
Peptidase_A21-1ohfD02
D:43-641
1c
Peptidase_A21-1ohfD03
D:43-641
1d
Peptidase_A21-1ohfD04
D:43-641
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Asymmetric Unit 1
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Asym.Unit (338 KB)
Header - Asym.Unit
Biol.Unit 1 (18.8 MB)
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