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3BGF
Asym. Unit
Info
Asym.Unit (195 KB)
Biol.Unit 1 (97 KB)
Biol.Unit 2 (98 KB)
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(1)
Title
:
X-RAY CRYSTAL STRUCTURE OF THE SARS CORONAVIRUS SPIKE RECEPTOR BINDING DOMAIN IN COMPLEX WITH F26G19 FAB
Authors
:
J. E. Pak, J. M. Rini
Date
:
26 Nov 07 (Deposition) - 02 Dec 08 (Release) - 19 May 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,H,L,S
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: H,L,S (1x)
Keywords
:
Antigen-Antibody Complex, Envelope Protein, Glycoprotein, Host-Virus Interaction, Membrane, Transmembrane, Virion, Virulence, Viral Protein/Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. E. Pak, C. Sharon, M. Satkunarajah, T. C. Auperin, C. M. Cameron, D. J. Kelvin, J. Seetharaman, A. Cochrane, F. A. Plummer, J. D. Berry, J. M. Rini
Structural Insights Into Immune Recognition Of The Severe Acute Respiratory Syndrome Coronavirus S Protein Receptor Binding Domain.
J. Mol. Biol. V. 388 815 2009
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
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Sites
(0, 0)
Info
All Sites
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Sorry, no Info available
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SAPs(SNPs)/Variants
(9, 18)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_SPIKE_CVHSA_014 (K344R, chain A/S, )
2: VAR_SPIKE_CVHSA_015 (F360S, chain A/S, )
3: VAR_SPIKE_CVHSA_016 (R426G, chain A/S, )
4: VAR_SPIKE_CVHSA_017 (N437D, chain A/S, )
5: VAR_SPIKE_CVHSA_018 (L472P, chain A/S, )
6: VAR_SPIKE_CVHSA_019 (N479K, chain A/S, )
7: VAR_SPIKE_CVHSA_020 (D480G, chain A/S, )
8: VAR_SPIKE_CVHSA_021 (T487S, chain A/S, )
9: VAR_SPIKE_CVHSA_022 (F501Y, chain A/S, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_SPIKE_CVHSA_014
*
K
344
R
SPIKE_CVHSA
---
---
A/S
K
344
R
2
UniProt
VAR_SPIKE_CVHSA_015
*
F
360
S
SPIKE_CVHSA
---
---
A/S
F
360
S
3
UniProt
VAR_SPIKE_CVHSA_016
*
R
426
G
SPIKE_CVHSA
---
---
A/S
R
426
G
4
UniProt
VAR_SPIKE_CVHSA_017
*
N
437
D
SPIKE_CVHSA
---
---
A/S
N
437
D
5
UniProt
VAR_SPIKE_CVHSA_018
*
L
472
P
SPIKE_CVHSA
---
---
A/S
L
472
P
6
UniProt
VAR_SPIKE_CVHSA_019
*
N
479
K
SPIKE_CVHSA
---
---
A/S
N
479
K
7
UniProt
VAR_SPIKE_CVHSA_020
*
D
480
G
SPIKE_CVHSA
---
---
A/S
D
480
G
8
UniProt
VAR_SPIKE_CVHSA_021
*
T
487
S
SPIKE_CVHSA
---
---
A/S
T
487
S
9
UniProt
VAR_SPIKE_CVHSA_022
*
F
501
Y
SPIKE_CVHSA
---
---
A/S
F
501
Y
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (C:192-198,L:192-198)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGKC_MOUSE
84-90
2
C:192-198
L:192-198
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Exons
(0, 0)
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d3bgfc1 (C:1-107)
1b: SCOP_d3bgfl1 (L:1-107)
2a: SCOP_d3bgfc2 (C:108-211)
2b: SCOP_d3bgfl2 (L:108-212)
3a: SCOP_d3bgfa_ (A:)
3b: SCOP_d3bgfs_ (S:)
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)
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)
Protein Domains
(
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(
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(
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Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Mouse (Mus musculus) [TaxId: 10090]
(360)
1a
d3bgfc1
C:1-107
1b
d3bgfl1
L:1-107
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Mouse (Mus musculus) [TaxId: 10090]
(309)
2a
d3bgfc2
C:108-211
2b
d3bgfl2
L:108-212
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
SARS receptor-binding domain-like
(12)
Superfamily
:
SARS receptor-binding domain-like
(12)
Family
:
SARS receptor-binding domain-like
(12)
Protein domain
:
Spike protein S1
(8)
SARS coronavirus [TaxId: 227859]
(8)
3a
d3bgfa_
A:
3b
d3bgfs_
S:
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_3bgfL02 (L:109-212)
1b: CATH_3bgfC02 (C:109-211)
1c: CATH_3bgfC01 (C:1-108)
1d: CATH_3bgfL01 (L:1-108)
1e: CATH_3bgfB02 (B:114-213)
1f: CATH_3bgfH02 (H:114-213)
1g: CATH_3bgfB01 (B:1-113)
1h: CATH_3bgfH01 (H:1-113)
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)
Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Sars-cov (Sars coronavirus)
(1)
1a
3bgfL02
L:109-212
1b
3bgfC02
C:109-211
1c
3bgfC01
C:1-108
1d
3bgfL01
L:1-108
1e
3bgfB02
B:114-213
1f
3bgfH02
H:114-213
1g
3bgfB01
B:1-113
1h
3bgfH01
H:1-113
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Pfam Domains
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Show PDB file:
Asym.Unit (195 KB)
Header - Asym.Unit
Biol.Unit 1 (97 KB)
Header - Biol.Unit 1
Biol.Unit 2 (98 KB)
Header - Biol.Unit 2
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