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1Z7Z
Asym. Unit
Info
Asym.Unit (163 KB)
Biol.Unit 1, α-C (8.8 MB)
Biol.Unit 1 (8.8 MB)
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(1)
Title
:
CRYO-EM STRUCTURE OF HUMAN COXSACKIEVIRUS A21 COMPLEXED WITH FIVE DOMAIN ICAM-1KILIFI
Authors
:
C. Xiao, C. M. Bator-Kelly, E. Rieder, P. R. Chipman, A. Craig, R. J. Kuhn E. Wimmer, M. G. Rossmann
Date
:
28 Mar 05 (Deposition) - 02 Aug 05 (Release) - 13 Jul 11 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
8.00
Chains
:
Asym. Unit : I,1,2,3,4,5
Biol. Unit 1: I,1,2,3,4,5 (60x)
Keywords
:
Icam-1, Kilifi, Cd54, Human Coxsackievirus A21, Cryo-Electron Microscopy, Virus-Receptor Complex, Icosahedral Virus, Virus-Receptor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
C. Xiao, C. M. Bator-Kelly, E. Rieder, P. R. Chipman, A. Craig, R. J. Kuhn, E. Wimmer, M. G. Rossmann
The Crystal Structure Of Coxsackievirus A21 And Its Interaction With Icam-1.
Structure V. 13 1019 2005
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
1b: N-ACETYL-D-GLUCOSAMINE (NAGb)
1c: N-ACETYL-D-GLUCOSAMINE (NAGc)
1d: N-ACETYL-D-GLUCOSAMINE (NAGd)
1e: N-ACETYL-D-GLUCOSAMINE (NAGe)
1f: N-ACETYL-D-GLUCOSAMINE (NAGf)
1g: N-ACETYL-D-GLUCOSAMINE (NAGg)
2a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
2
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
[
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Sites
(8, 8)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN I:103 , THR I:145 , LEU I:147
BINDING SITE FOR RESIDUE NAG I 451
2
AC2
SOFTWARE
ALA I:117 , ASN I:118 , PRO I:167
BINDING SITE FOR RESIDUE NAG I 452
3
AC3
SOFTWARE
GLY I:126 , GLU I:127 , ASN I:156
BINDING SITE FOR RESIDUE NAG I 453
4
AC4
SOFTWARE
PRO I:86 , GLU I:87 , GLU I:174 , ASN I:175 , NAG I:455
BINDING SITE FOR RESIDUE NAG I 454
5
AC5
SOFTWARE
TYR I:83 , TRP I:84 , THR I:85 , NAG I:454
BINDING SITE FOR RESIDUE NAG I 455
6
AC6
SOFTWARE
GLY I:239 , ASN I:240
BINDING SITE FOR RESIDUE NAG I 456
7
AC7
SOFTWARE
TRP I:97 , ASN I:269
BINDING SITE FOR RESIDUE NDG I 457
8
AC8
SOFTWARE
ASN I:358
BINDING SITE FOR RESIDUE NAG I 458
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SAPs(SNPs)/Variants
(8, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_049879 (S7C, chain I, )
2: VAR_010204 (M29M, chain I, )
3: VAR_014651 (K128N, chain I, )
4: VAR_014186 (G214R, chain I, )
5: VAR_014652 (V288M, chain I, )
6: VAR_014653 (P325L, chain I, )
7: VAR_014654 (R370Q, chain I, )
8: VAR_014187 (E442E, chain I, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_049879
S
34
C
ICAM1_HUMAN
Polymorphism
5491
I
S
7
C
2
UniProt
VAR_010204
K
56
M
ICAM1_HUMAN
Polymorphism
5491
I
M
29
M
3
UniProt
VAR_014651
K
155
N
ICAM1_HUMAN
Polymorphism
5492
I
K
128
N
4
UniProt
VAR_014186
G
241
R
ICAM1_HUMAN
Polymorphism
1799969
I
G
214
R
5
UniProt
VAR_014652
V
315
M
ICAM1_HUMAN
Polymorphism
5495
I
V
288
M
6
UniProt
VAR_014653
P
352
L
ICAM1_HUMAN
Polymorphism
1801714
I
P
325
L
7
UniProt
VAR_014654
R
397
Q
ICAM1_HUMAN
Polymorphism
5497
I
R
370
Q
8
UniProt
VAR_014187
K
469
E
ICAM1_HUMAN
Polymorphism
5498
I
E
442
E
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
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Exons
(6, 6)
Info
All Exons
Exon 1.2b (I:1-84)
Exon 1.3a (I:84-186)
Exon 1.4a (I:186-282)
Exon 1.5 (I:282-367 (gaps))
Exon 1.6a (I:367-449)
Exon 1.7b (I:449-450)
View:
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All Exon Boundaries
1: Boundary 1.1/1.2b
2: Boundary 1.2b/1.3a
3: Boundary 1.3a/1.4a
4: Boundary 1.4a/1.5
5: Boundary 1.5/1.6a
6: Boundary 1.6a/1.7b
7: Boundary 1.7b/-
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
1.1
ENST00000264832
1
ENSE00001235328
chr19:
10381517-10381902
386
ICAM1_HUMAN
1-23
23
0
-
-
1.2b
ENST00000264832
2b
ENSE00000576130
chr19:
10385441-10385704
264
ICAM1_HUMAN
23-111
89
1
I:1-84
84
1.3a
ENST00000264832
3a
ENSE00000676100
chr19:
10394157-10394462
306
ICAM1_HUMAN
111-213
103
1
I:84-186
103
1.4a
ENST00000264832
4a
ENSE00000676102
chr19:
10394709-10394996
288
ICAM1_HUMAN
213-309
97
1
I:186-282
97
1.5
ENST00000264832
5
ENSE00000676105
chr19:
10395079-10395333
255
ICAM1_HUMAN
309-394
86
1
I:282-367 (gaps)
86
1.6a
ENST00000264832
6a
ENSE00000676106
chr19:
10395459-10395704
246
ICAM1_HUMAN
394-476
83
1
I:367-449
83
1.7b
ENST00000264832
7b
ENSE00000872752
chr19:
10395791-10397291
1501
ICAM1_HUMAN
476-532
57
1
I:449-450
2
[
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SCOP Domains
(2, 5)
Info
All SCOP Domains
1a: SCOP_d1z7zi1 (I:83-187)
1b: SCOP_d1z7zi2 (I:283-366)
2a: SCOP_d1z7zi3 (I:1-82)
2b: SCOP_d1z7zi4 (I:188-282)
2c: SCOP_d1z7zi5 (I:367-450)
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Protein Domains
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(
)
Organisms
(
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(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C2 set domains
(47)
Protein domain
:
Intercellular cell adhesion molecule-1 (ICAM-1)
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d1z7zi1
I:83-187
1b
d1z7zi2
I:283-366
Family
:
I set domains
(152)
Protein domain
:
Intercellular adhesion molecule-1, ICAM-1
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
2a
d1z7zi3
I:1-82
2b
d1z7zi4
I:188-282
2c
d1z7zi5
I:367-450
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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
(3, 7)
Info
all PFAM domains
1a: PFAM_ICAM_N_1z7zI01 (I:1-88)
2a: PFAM_Ig_2_1z7zI02 (I:378-447)
2b: PFAM_Ig_2_1z7zI03 (I:378-447)
2c: PFAM_Ig_2_1z7zI04 (I:378-447)
2d: PFAM_Ig_2_1z7zI05 (I:378-447)
3a: PFAM_Rhv_1z7z301 (3:43-208)
3b: PFAM_Rhv_1z7z302 (3:43-208)
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Clans
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)
Organisms
(
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(
)
Clan
:
Ig
(577)
Family
:
ICAM_N
(3)
Homo sapiens (Human)
(3)
1a
ICAM_N-1z7zI01
I:1-88
Family
:
Ig_2
(52)
Homo sapiens (Human)
(39)
2a
Ig_2-1z7zI02
I:378-447
2b
Ig_2-1z7zI03
I:378-447
2c
Ig_2-1z7zI04
I:378-447
2d
Ig_2-1z7zI05
I:378-447
Clan
:
Viral_ssRNA_CP
(106)
Family
:
Rhv
(55)
Human coxsackievirus A21
(2)
3a
Rhv-1z7z301
3:43-208
3b
Rhv-1z7z302
3:43-208
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Chain 1
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Asymmetric Unit 1
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