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1AYN
Biol. Unit 1
Info
Asym.Unit (142 KB)
Biol.Unit 1, α-C (7.7 MB)
Biol.Unit 1 (7.7 MB)
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(1)
Title
:
HUMAN RHINOVIRUS 16 COAT PROTEIN
Authors
:
A. T. Hadfield, M. A. Oliveira, R. Zhao, M. G. Rossmann
Date
:
06 Nov 97 (Deposition) - 21 Jan 98 (Release) - 29 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : 1,2,3,4
Biol. Unit 1: 1,2,3,4 (60x)
Keywords
:
Human Rhinovirus 16, Receptor, Drug, Rhinovirus Coat Protein, Icosahedral Virus, Virus
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Oliveira, R. Zhao, W. M. Lee, M. J. Kremer, I. Minor, R. R. Rueckert G. D. Diana, D. C. Pevear, F. J. Dutko, M. A. Mckinlay, M. G. Rossman
The Structure Of Human Rhinovirus 16.
Structure V. 1 51 1993
(for further references see the
PDB file header
)
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Hetero Components
(2, 120)
Info
All Hetero Components
1a: LAURIC ACID (DAOa)
2a: MYRISTIC ACID (MYRa)
3a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DAO
60
Ligand/Ion
LAURIC ACID
2
MYR
60
Ligand/Ion
MYRISTIC ACID
3
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: MYR (UNKNOWN)
5: POC (UNKNOWN)
6: RNA (UNKNOWN)
7: ZN (UNKNOWN)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS 1:134
BINDING SITE FOR RESIDUE ZN 1 6000
2
AC2
SOFTWARE
ILE 1:98 , ASN 1:99 , LEU 1:100 , ASN 1:212
BINDING SITE FOR RESIDUE DAO 1 7009
3
AC3
SOFTWARE
GLY 4:1
BINDING SITE FOR RESIDUE MYR 4 4000
4
MYR
UNKNOWN
MYR 4:4000 , GLY 4:1 , TYR 1:6
MYRISTYLATION IS OBSERVED AT N-TERMINUS OF VP4, WHICH LIES VERY CLOSE TO THE ICOSAHEDRAL FIVE-FOLD AXIS. TYR 1 6 IS HYDROGEN BONDED TO THE N-TERMINUS OF VP4 ALSO, FORMING A LINK BETWEEN THE AMPHIPATHIC HELIX AT THE TERMINUS OF VP1 AND THE 10- STRANDED BETA BARREL OBSERVED AT THE N-TERMINUS OF VP4 (TWO STRANDS, FIVE SYMMETRY RELATED COPIES).
5
POC
UNKNOWN
DAO 1:7009 , ASN 1:212 , LEU 1:100 , MET 1:214
A MOIETY MODELLED AS A 12-CARBON FATTY ACID IS OBSERVED IN FULL OCCUPANCY IN THE HYDROPHOBIC POCKET WHERE ANTI- VIRAL COMPOUNDS BIND. THE HEAD GROUP OXYGENS CONTACT N1212 AND L1100.
6
RNA
UNKNOWN
TRP 2:38 , PHE 3:35
RNA OBSERVED INTERACTING WITH THESE RESIDUES ON INTERIOR SURFACE OF VIRAL PROTEIN CAPSID. NON-CONSERVATIVE MUTATION OF TRP 2 38 GIVES NON-VIABLE VIRUS.
7
ZN
UNKNOWN
HIS 1:134 , HIS 1:228 , ZN 1:6000
PUTATIVE ZINC BINDING SITE ON ICOSAHEDRAL FIVE- FOLD AXIS. ION LIGANDED BY FIVE SYMMETRY RELATED HISTIDINES (HIS 1 134). EXTERIOR OF SITE SURROUNDED BY A WIDER CIRCLE OF FIVE HISTIDINES (HIS 1 228).
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SAPs(SNPs)/Variants
(1, 60)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_POLG_HRV1A_001 (Q3G, chain 4, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_POLG_HRV1A_001
*
Q
4
G
POLG_HRV1A
---
---
4
Q
3
G
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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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
All Exons
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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, 3)
Info
All SCOP Domains
1a: SCOP_d1ayn_1 (4:,2:)
1b: SCOP_d1ayn1_ (1:)
1c: SCOP_d1ayn3_ (3:)
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Classes
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(
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(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Nucleoplasmin-like/VP (viral coat and capsid proteins)
(278)
Superfamily
:
Positive stranded ssRNA viruses
(163)
Family
:
Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
(103)
Protein domain
:
Rhinovirus coat proteins
(46)
Human rhinovirus 16, (HRV-16) [TaxId: 31708]
(9)
1a
d1ayn.1
4:,2:
1b
d1ayn1_
1:
1c
d1ayn3_
3:
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1ayn400 (4:1-44)
2a: CATH_1ayn300 (3:1-238)
2b: CATH_1ayn200 (2:10-261)
2c: CATH_1ayn100 (1:1-285)
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Architectures
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Rhinovirus 14, subunit 4
(101)
Homologous Superfamily
:
Rhinovirus 14, subunit 4
(68)
Human rhinovirus sp.. Organism_taxid: 169066. Strain: serotype 16. Cell_line: hela.
(2)
1a
1ayn400
4:1-44
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.20, no name defined]
(133)
Human rhinovirus sp.. Organism_taxid: 169066. Strain: serotype 16. Cell_line: hela.
(2)
2a
1ayn300
3:1-238
2b
1ayn200
2:10-261
2c
1ayn100
1:1-285
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Pfam Domains
(0, 0)
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Asym.Unit (142 KB)
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