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3Q38
Asym. Unit
Info
Asym.Unit (228 KB)
Biol.Unit 1 (221 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF P DOMAIN FROM NORWALK VIRUS STRAIN VIETNAM 026 IN COMPLEX WITH HBGA TYPE B (TRIGLYCAN)
Authors
:
G. S. Hansman, C. Biertumpfel, L. Chen, I. Georgiev, J. S. Mclellan, K. K P. D. Kwong
Date
:
21 Dec 10 (Deposition) - 11 May 11 (Release) - 10 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.28
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Norovirus, P-Domain, Capsid, Receptor, Histo Blood Group Antigen (Hbga), Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. S. Hansman, C. Biertumpfel, I. Georgiev, J. S. Mclellan, L. Chen, T. Zhou, K. Katayama, P. D. Kwong
Crystal Structures Of Gii. 10 And Gii. 12 Norovirus Protrudin Domains In Complex With Histo-Blood Group Antigens Reveal Details For A Potential Site Of Vulnerability.
J. Virol. V. 85 6687 2011
[
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Hetero Components
(5, 28)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
1p: 1,2-ETHANEDIOL (EDOp)
1q: 1,2-ETHANEDIOL (EDOq)
1r: 1,2-ETHANEDIOL (EDOr)
1s: 1,2-ETHANEDIOL (EDOs)
2a: ALPHA-L-FUCOSE (FUCa)
3a: BETA-D-GALACTOSE (GALa)
4a: ALPHA D-GALACTOSE (GLAa)
5a: IMIDAZOLE (IMDa)
5b: IMIDAZOLE (IMDb)
5c: IMIDAZOLE (IMDc)
5d: IMIDAZOLE (IMDd)
5e: IMIDAZOLE (IMDe)
5f: IMIDAZOLE (IMDf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
19
Ligand/Ion
1,2-ETHANEDIOL
2
FUC
1
Ligand/Ion
ALPHA-L-FUCOSE
3
GAL
1
Ligand/Ion
BETA-D-GALACTOSE
4
GLA
1
Ligand/Ion
ALPHA D-GALACTOSE
5
IMD
6
Ligand/Ion
IMIDAZOLE
[
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Sites
(28, 28)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GAL A:2 , GLA A:3 , ALA A:354 , ASN A:355 , ARG A:356 , ASP A:385 , HOH B:147 , GLY B:451 , TYR B:452
BINDING SITE FOR RESIDUE FUC A 1
02
AC2
SOFTWARE
FUC A:1 , GLA A:3 , PHE A:532 , THR A:534 , HOH A:930 , HOH A:972 , HOH A:1001 , GLY B:451
BINDING SITE FOR RESIDUE GAL A 2
03
AC3
SOFTWARE
FUC A:1 , GAL A:2 , HIS A:358 , ASP A:385 , HOH A:930 , HOH A:955 , HOH A:1047 , HOH A:1065 , IMD B:26
BINDING SITE FOR RESIDUE GLA A 3
04
AC4
SOFTWARE
HOH A:75 , HOH A:99 , THR A:281 , GLY A:282 , ARG A:287 , LEU A:310
BINDING SITE FOR RESIDUE EDO A 854
05
AC5
SOFTWARE
HOH A:31 , HIS A:358 , GLU A:359 , TRP A:381 , HOH A:989 , IMD B:26 , GLU B:359 , LYS B:449
BINDING SITE FOR RESIDUE EDO A 4
06
AC6
SOFTWARE
HOH A:35 , HOH A:36 , HOH A:145 , HOH A:150 , PRO A:243 , PRO A:280 , THR A:281 , PRO B:243 , PRO B:280 , THR B:281
BINDING SITE FOR RESIDUE EDO A 6
07
AC7
SOFTWARE
ARG A:299 , GLY A:300 , SER A:379 , THR A:380 , TRP A:381 , HOH A:1092
BINDING SITE FOR RESIDUE EDO A 7
08
AC8
SOFTWARE
HOH A:32 , HOH A:168 , ASN A:309 , LEU A:310 , ASN A:311 , LEU A:325 , HOH A:860
BINDING SITE FOR RESIDUE EDO A 10
09
AC9
SOFTWARE
HOH A:87 , GLU A:236 , HOH A:872 , HOH A:885 , LEU B:272 , LEU B:325
BINDING SITE FOR RESIDUE EDO A 11
10
BC1
SOFTWARE
HOH A:41 , HOH A:86 , HOH A:122 , PRO A:245 , ILE A:246 , HOH A:1058 , ASN B:311
BINDING SITE FOR RESIDUE EDO A 14
11
BC2
SOFTWARE
PRO A:245 , ASP A:247 , HOH A:1133 , EDO B:9 , ARG B:287
BINDING SITE FOR RESIDUE EDO A 16
12
BC3
SOFTWARE
HOH A:57 , HOH A:123 , PHE A:408 , GLN A:410 , PRO A:455 , ALA A:456 , HOH A:1072
BINDING SITE FOR RESIDUE EDO A 18
13
BC4
SOFTWARE
HOH A:162 , GLU A:464 , HIS A:468 , HOH A:866 , HOH B:111
BINDING SITE FOR RESIDUE EDO A 22
14
BC5
SOFTWARE
LEU A:272 , GLN A:273 , GLY A:274 , THR A:276 , LEU A:325
BINDING SITE FOR RESIDUE IMD A 24
15
BC6
SOFTWARE
GLU A:359 , TRP A:381 , LYS A:449 , HOH A:969
BINDING SITE FOR RESIDUE IMD A 27
16
BC7
SOFTWARE
HOH A:122 , PRO A:245 , HOH B:51 , LEU B:279 , THR B:281 , GLY B:282 , ARG B:287
BINDING SITE FOR RESIDUE EDO B 1
17
BC8
SOFTWARE
HOH B:18 , HOH B:48 , HOH B:163 , ASN B:309 , LEU B:310 , ASN B:311 , LEU B:325
BINDING SITE FOR RESIDUE EDO B 8
18
BC9
SOFTWARE
EDO A:16 , HOH A:107 , PRO A:447 , ARG B:287 , ARG B:341 , HOH B:866 , HOH B:1153
BINDING SITE FOR RESIDUE EDO B 9
19
CC1
SOFTWARE
LYS B:225 , GLN B:471 , GLU B:472 , HOH B:1100
BINDING SITE FOR RESIDUE EDO B 12
20
CC2
SOFTWARE
THR B:291 , ASN B:304 , MET B:305 , THR B:306 , ASN B:375 , ILE B:376 , HOH B:1000 , HOH B:1059
BINDING SITE FOR RESIDUE EDO B 13
21
CC3
SOFTWARE
ARG B:287 , GLY B:288 , LYS B:289 , PRO B:391 , THR B:392 , HOH B:875 , HOH B:1154
BINDING SITE FOR RESIDUE EDO B 15
22
CC4
SOFTWARE
ARG A:287 , PRO B:245 , ASP B:247 , HOH B:877 , HOH B:1156
BINDING SITE FOR RESIDUE EDO B 17
23
CC5
SOFTWARE
SER B:379 , TRP B:381
BINDING SITE FOR RESIDUE EDO B 19
24
CC6
SOFTWARE
PRO B:317 , THR B:318 , GLU B:319 , ASP B:320 , LYS B:372 , ASN B:425
BINDING SITE FOR RESIDUE EDO B 21
25
CC7
SOFTWARE
LEU B:272 , GLN B:273 , GLY B:274 , THR B:276 , LEU B:325
BINDING SITE FOR RESIDUE IMD B 23
26
CC8
SOFTWARE
TYR B:470 , GLN B:471
BINDING SITE FOR RESIDUE IMD B 25
27
CC9
SOFTWARE
GLA A:3 , EDO A:4 , HIS A:358 , GLU B:359 , TRP B:381 , LYS B:449
BINDING SITE FOR RESIDUE IMD B 26
28
DC1
SOFTWARE
ASP B:269 , GLY B:270 , SER B:473
BINDING SITE FOR RESIDUE IMD B 28
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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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.
SCOP Domains
(0, 0)
Info
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Calici_coat_3q38B01 (B:224-291)
1b: PFAM_Calici_coat_3q38B02 (B:224-291)
2a: PFAM_Calici_coat_C_3q38B03 (B:307-538)
2b: PFAM_Calici_coat_C_3q38B04 (B:307-538)
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Clans
(
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(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Viral_ssRNA_CP
(106)
Family
:
Calici_coat
(20)
Norwalk virus
(9)
1a
Calici_coat-3q38B01
B:224-291
1b
Calici_coat-3q38B02
B:224-291
Clan
:
no clan defined [family: Calici_coat_C]
(19)
Family
:
Calici_coat_C
(19)
Norwalk virus
(9)
2a
Calici_coat_C-3q38B03
B:307-538
2b
Calici_coat_C-3q38B04
B:307-538
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Asymmetric Unit 1
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