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2AJF
Asym. Unit
Info
Asym.Unit (268 KB)
Biol.Unit 1 (132 KB)
Biol.Unit 2 (131 KB)
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(1)
Title
:
STRUCTURE OF SARS CORONAVIRUS SPIKE RECEPTOR-BINDING DOMAIN COMPLEXED WITH ITS RECEPTOR
Authors
:
F. Li, W. Li, M. Farzan, S. C. Harrison
Date
:
01 Aug 05 (Deposition) - 20 Sep 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,E,F
Biol. Unit 1: A,E (1x)
Biol. Unit 2: B,F (1x)
Keywords
:
Antiparallel Beta Sheet, Extended Loop, Hydrolase-Viral Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Li, W. Li, M. Farzan, S. C. Harrison
Structure Of Sars Coronavirus Spike Receptor-Binding Domain Complexed With Receptor.
Science V. 309 1864 2005
[
close entry info
]
Hetero Components
(4, 16)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
CL
2
Ligand/Ion
CHLORIDE ION
3
NAG
10
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:26 , ASN A:90 , NAG A:1091
BINDING SITE FOR RESIDUE NAG A 1090
02
AC2
SOFTWARE
NAG A:1090 , BMA A:1092
BINDING SITE FOR RESIDUE NAG A 1091
03
AC3
SOFTWARE
NAG A:1091
BINDING SITE FOR RESIDUE BMA A 1092
04
AC4
SOFTWARE
ASN A:49 , ASN A:53 , GLN A:340
BINDING SITE FOR RESIDUE NAG A 1053
05
AC5
SOFTWARE
VAL A:316 , ASN A:322
BINDING SITE FOR RESIDUE NAG A 1322
06
AC6
SOFTWARE
PHE E:329 , ASN E:330 , PHE E:360
BINDING SITE FOR RESIDUE NAG E 1330
07
AC7
SOFTWARE
SER A:317 , SER A:420 , ASN A:546
BINDING SITE FOR RESIDUE NAG A 1546
08
AC8
SOFTWARE
LYS B:26 , ASN B:90 , NAG B:1091
BINDING SITE FOR RESIDUE NAG B 1090
09
AC9
SOFTWARE
NAG B:1090 , BMA B:1092
BINDING SITE FOR RESIDUE NAG B 1091
10
BC1
SOFTWARE
NAG B:1091 , THR F:402
BINDING SITE FOR RESIDUE BMA B 1092
11
BC2
SOFTWARE
ASN B:322
BINDING SITE FOR RESIDUE NAG B 1322
12
BC3
SOFTWARE
ASN F:330 , VAL F:354
BINDING SITE FOR RESIDUE NAG F 1330
13
BC4
SOFTWARE
HIS A:374 , GLU A:375 , HIS A:378 , GLU A:402 , HOH A:1566
BINDING SITE FOR RESIDUE ZN A 901
14
BC5
SOFTWARE
ARG A:169 , ASP A:499
BINDING SITE FOR RESIDUE CL A 902
15
BC6
SOFTWARE
HIS B:374 , HIS B:378 , GLU B:402 , HOH B:1909
BINDING SITE FOR RESIDUE ZN B 901
16
BC7
SOFTWARE
ARG B:169 , ASP B:499
BINDING SITE FOR RESIDUE CL B 1902
[
close Site info
]
SAPs(SNPs)/Variants
(10, 20)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_023082 (K26R, chain A/B, )
02: VAR_SPIKE_CVHSA_014 (K344R, chain E/F, )
03: VAR_SPIKE_CVHSA_015 (F360S, chain E/F, )
04: VAR_SPIKE_CVHSA_016 (R426G, chain E/F, )
05: VAR_SPIKE_CVHSA_017 (N437D, chain E/F, )
06: VAR_SPIKE_CVHSA_018 (L472P, chain E/F, )
07: VAR_SPIKE_CVHSA_019 (N479K, chain E/F, )
08: VAR_SPIKE_CVHSA_020 (D480G, chain E/F, )
09: VAR_SPIKE_CVHSA_021 (T487S, chain E/F, )
10: VAR_SPIKE_CVHSA_022 (F501Y, chain E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_023082
K
26
R
ACE2_HUMAN
Polymorphism
4646116
A/B
K
26
R
02
UniProt
VAR_SPIKE_CVHSA_014
*
K
344
R
SPIKE_CVHSA
---
---
E/F
K
344
R
03
UniProt
VAR_SPIKE_CVHSA_015
*
F
360
S
SPIKE_CVHSA
---
---
E/F
F
360
S
04
UniProt
VAR_SPIKE_CVHSA_016
*
R
426
G
SPIKE_CVHSA
---
---
E/F
R
426
G
05
UniProt
VAR_SPIKE_CVHSA_017
*
N
437
D
SPIKE_CVHSA
---
---
E/F
N
437
D
06
UniProt
VAR_SPIKE_CVHSA_018
*
L
472
P
SPIKE_CVHSA
---
---
E/F
L
472
P
07
UniProt
VAR_SPIKE_CVHSA_019
*
N
479
K
SPIKE_CVHSA
---
---
E/F
N
479
K
08
UniProt
VAR_SPIKE_CVHSA_020
*
D
480
G
SPIKE_CVHSA
---
---
E/F
D
480
G
09
UniProt
VAR_SPIKE_CVHSA_021
*
T
487
S
SPIKE_CVHSA
---
---
E/F
T
487
S
10
UniProt
VAR_SPIKE_CVHSA_022
*
F
501
Y
SPIKE_CVHSA
---
---
E/F
F
501
Y
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (A:371-380,B:371-380)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
ACE2_HUMAN
371-380
2
A:371-380
B:371-380
[
close PROSITE info
]
Exons
(14, 28)
Info
All Exons
Exon 1.2 (A:19-62 | B:19-62)
Exon 1.3b (A:63-115 | B:63-115)
Exon 1.4 (A:116-147 | B:116-147)
Exon 1.5 (A:147-195 | B:147-195)
Exon 1.6 (A:195-232 | B:195-232)
Exon 1.7 (A:233-268 | B:233-268)
Exon 1.8 (A:268-300 | B:268-300)
Exon 1.9 (A:301-357 | B:301-357)
Exon 1.10 (A:357-433 | B:357-433)
Exon 1.11 (A:433-481 | B:433-481)
Exon 1.12 (A:481-514 | B:481-514)
Exon 1.13 (A:514-555 | B:514-555)
Exon 1.14 (A:555-613 | B:555-613)
Exon 1.15 (A:613-615 | B:613-615)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.2
02: Boundary 1.2/1.3b
03: Boundary 1.3b/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9
09: Boundary 1.9/1.10
10: Boundary 1.10/1.11
11: Boundary 1.11/1.12
12: Boundary 1.12/1.13
13: Boundary 1.13/1.14
14: Boundary 1.14/1.15
15: Boundary 1.15/1.16
View:
Label:
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
1.2
ENST00000252519
2
ENSE00002198181
X:15619137-15618849
289
ACE2_HUMAN
1-62
62
2
A:19-62
B:19-62
44
44
1.3b
ENST00000252519
3b
ENSE00000894057
X:15613126-15612968
159
ACE2_HUMAN
63-115
53
2
A:63-115
B:63-115
53
53
1.4
ENST00000252519
4
ENSE00000894058
X:15610445-15610352
94
ACE2_HUMAN
116-147
32
2
A:116-147
B:116-147
32
32
1.5
ENST00000252519
5
ENSE00000894059
X:15609979-15609836
144
ACE2_HUMAN
147-195
49
2
A:147-195
B:147-195
49
49
1.6
ENST00000252519
6
ENSE00000894060
X:15607579-15607467
113
ACE2_HUMAN
195-232
38
2
A:195-232
B:195-232
38
38
1.7
ENST00000252519
7
ENSE00000894061
X:15605981-15605876
106
ACE2_HUMAN
233-268
36
2
A:233-268
B:233-268
36
36
1.8
ENST00000252519
8
ENSE00000894062
X:15603695-15603598
98
ACE2_HUMAN
268-300
33
2
A:268-300
B:268-300
33
33
1.9
ENST00000252519
9
ENSE00000894063
X:15599513-15599344
170
ACE2_HUMAN
301-357
57
2
A:301-357
B:301-357
57
57
1.10
ENST00000252519
10
ENSE00000894064
X:15596438-15596212
227
ACE2_HUMAN
357-433
77
2
A:357-433
B:357-433
77
77
1.11
ENST00000252519
11
ENSE00000894065
X:15593933-15593789
145
ACE2_HUMAN
433-481
49
2
A:433-481
B:433-481
49
49
1.12
ENST00000252519
12
ENSE00000894066
X:15591588-15591490
99
ACE2_HUMAN
481-514
34
2
A:481-514
B:481-514
34
34
1.13
ENST00000252519
13
ENSE00000894067
X:15590446-15590324
123
ACE2_HUMAN
514-555
42
2
A:514-555
B:514-555
42
42
1.14
ENST00000252519
14
ENSE00000894068
X:15589919-15589747
173
ACE2_HUMAN
555-613
59
2
A:555-613
B:555-613
59
59
1.15
ENST00000252519
15
ENSE00000894069
X:15588476-15588418
59
ACE2_HUMAN
613-632
20
2
A:613-615
B:613-615
3
3
1.16
ENST00000252519
16
ENSE00000894070
X:15585949-15585849
101
ACE2_HUMAN
633-666
34
0
-
-
1.17b
ENST00000252519
17b
ENSE00000894071
X:15584492-15584376
117
ACE2_HUMAN
666-705
40
0
-
-
1.18
ENST00000252519
18
ENSE00000894072
X:15582341-15582147
195
ACE2_HUMAN
705-770
66
0
-
-
1.19c
ENST00000252519
19c
ENSE00001334055
X:15580136-15579156
981
ACE2_HUMAN
770-805
36
0
-
-
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2ajfe1 (E:323-502)
1b: SCOP_d2ajff_ (F:)
2a: SCOP_d2ajfa_ (A:)
2b: SCOP_d2ajfb_ (B:)
View:
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(
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(
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(
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(
)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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)
1a
d2ajfe1
E:323-502
1b
d2ajff_
F:
Fold
:
Zincin-like
(701)
Superfamily
:
Metalloproteases (zincins), catalytic domain
(647)
Family
:
Neurolysin-like
(55)
Protein domain
:
Angiotensin converting enzyme 2, ACE2
(10)
Human (Homo sapiens) [TaxId: 9606]
(5)
2a
d2ajfa_
A:
2b
d2ajfb_
B:
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Chain E
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Asym.Unit (268 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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