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2YPG
Asym. Unit
Info
Asym.Unit (521 KB)
Biol.Unit 1 (506 KB)
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(1)
Title
:
HAEMAGGLUTININ OF 1968 HUMAN H3N2 VIRUS IN COMPLEX WITH HUMAN RECEPTOR ANALOGUE LSTC
Authors
:
J. Liu, X. Xiong, L. F. Haire, Y. P. Lin, S. A. Wharton, S. R. Martin, P. J. C S. G. Vachieri, E. Christodoulou, P. A. Walker, J. J. Skehel, S. J. Gamb A. J. Hay, R. S. Daniels, J. W. Mccauley
Date
:
30 Oct 12 (Deposition) - 07 Nov 12 (Release) - 16 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.85
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Viral Protein, Receptor Binding, Membrane Fusion, Influenza Virus Evolution, Glycoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. P. Lin, X. Xiong, S. A. Wharton, S. R. Martin, P. J. Coombs, S. G. Vachieri, E. Christodoulou, P. A. Walker, J. Liu, J. J. Skehel, S. J. Gamblin, A. J. Hay, R. S. Daniels, J. W. Mccauley
Evolution Of The Receptor Binding Properties Of The Influenza A(H3N2) Hemagglutinin.
Proc. Natl. Acad. Sci. Usa V. 109 21474 2012
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Hetero Components
(7, 54)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
2a: BETA-D-MANNOSE (BMAa)
2b: BETA-D-MANNOSE (BMAb)
2c: BETA-D-MANNOSE (BMAc)
3a: CITRATE ANION (FLCa)
3b: CITRATE ANION (FLCb)
3c: CITRATE ANION (FLCc)
3d: CITRATE ANION (FLCd)
3e: CITRATE ANION (FLCe)
3f: CITRATE ANION (FLCf)
3g: CITRATE ANION (FLCg)
3h: CITRATE ANION (FLCh)
3i: CITRATE ANION (FLCi)
3j: CITRATE ANION (FLCj)
3k: CITRATE ANION (FLCk)
3l: CITRATE ANION (FLCl)
3m: CITRATE ANION (FLCm)
4a: BETA-L-FUCOSE (FULa)
5a: BETA-D-GALACTOSE (GALa)
5b: BETA-D-GALACTOSE (GALb)
5c: BETA-D-GALACTOSE (GALc)
5d: BETA-D-GALACTOSE (GALd)
5e: BETA-D-GALACTOSE (GALe)
5f: BETA-D-GALACTOSE (GALf)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
6b: N-ACETYL-D-GLUCOSAMINE (NAGb)
6c: N-ACETYL-D-GLUCOSAMINE (NAGc)
6d: N-ACETYL-D-GLUCOSAMINE (NAGd)
6e: N-ACETYL-D-GLUCOSAMINE (NAGe)
6f: N-ACETYL-D-GLUCOSAMINE (NAGf)
6g: N-ACETYL-D-GLUCOSAMINE (NAGg)
6h: N-ACETYL-D-GLUCOSAMINE (NAGh)
6i: N-ACETYL-D-GLUCOSAMINE (NAGi)
6j: N-ACETYL-D-GLUCOSAMINE (NAGj)
6k: N-ACETYL-D-GLUCOSAMINE (NAGk)
6l: N-ACETYL-D-GLUCOSAMINE (NAGl)
6m: N-ACETYL-D-GLUCOSAMINE (NAGm)
6n: N-ACETYL-D-GLUCOSAMINE (NAGn)
6o: N-ACETYL-D-GLUCOSAMINE (NAGo)
6p: N-ACETYL-D-GLUCOSAMINE (NAGp)
6q: N-ACETYL-D-GLUCOSAMINE (NAGq)
6r: N-ACETYL-D-GLUCOSAMINE (NAGr)
6s: N-ACETYL-D-GLUCOSAMINE (NAGs)
6t: N-ACETYL-D-GLUCOSAMINE (NAGt)
6u: N-ACETYL-D-GLUCOSAMINE (NAGu)
6v: N-ACETYL-D-GLUCOSAMINE (NAGv)
6w: N-ACETYL-D-GLUCOSAMINE (NAGw)
6x: N-ACETYL-D-GLUCOSAMINE (NAGx)
6y: N-ACETYL-D-GLUCOSAMINE (NAGy)
6z: N-ACETYL-D-GLUCOSAMINE (NAGz)
7a: O-SIALIC ACID (SIAa)
7b: O-SIALIC ACID (SIAb)
7c: O-SIALIC ACID (SIAc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
2
Ligand/Ion
BETA-D-GLUCOSE
2
BMA
3
Ligand/Ion
BETA-D-MANNOSE
3
FLC
13
Ligand/Ion
CITRATE ANION
4
FUL
1
Ligand/Ion
BETA-L-FUCOSE
5
GAL
6
Ligand/Ion
BETA-D-GALACTOSE
6
NAG
26
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
SIA
3
Ligand/Ion
O-SIALIC ACID
[
close Hetero Component info
]
Sites
(23, 23)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR B:94 , GLU B:97 , HOH B:2057 , HOH B:2058 , HOH B:2059 , ARG D:54 , LEU D:99
BINDING SITE FOR RESIDUE FLC B1176
02
AC2
SOFTWARE
LEU B:99 , HOH B:2060 , TYR F:94
BINDING SITE FOR RESIDUE FLC B1177
03
AC3
SOFTWARE
ARG A:269 , GLU B:69 , PHE B:70 , SER B:71
BINDING SITE FOR RESIDUE FLC B1178
04
AC4
SOFTWARE
TYR D:94 , GLU D:97 , HOH D:2061 , ARG F:54 , LEU F:99
BINDING SITE FOR RESIDUE FLC D1174
05
AC5
SOFTWARE
ARG D:123 , ARG F:123
BINDING SITE FOR RESIDUE FLC F1175
06
AC6
SOFTWARE
ASN A:38 , THR A:318 , LEU B:52
BINDING SITE FOR MONO-SACCHARIDE NAG A1326 BOUND TO ASN A 38
07
AC7
SOFTWARE
SER A:45 , GLN A:80 , ASN A:81 , GLU A:119 , PHE A:120 , ASN A:165 , THR A:167 , ASN A:285 , VAL A:297 , HOH A:2094 , GLU B:69 , SER E:219 , PRO E:221 , TRP E:222
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 81 RESIDUES 1327 TO 1334
08
AC8
SOFTWARE
ASN A:165 , THR A:167 , HOH A:2094 , SER E:219 , PRO E:221 , TRP E:222
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 165 RESIDUES 1329 TO 1331
09
AC9
SOFTWARE
SER A:45 , ASN A:285 , VAL A:297 , GLU B:69
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 285 RESIDUES 1332 TO 1333
10
BC1
SOFTWARE
ILE A:34 , TYR A:98 , THR A:128 , GLY A:135 , SER A:136 , ASN A:137 , LYS A:156 , VAL A:163 , ASN A:165 , HIS A:183 , GLU A:190 , LEU A:194 , LEU A:226 , SER A:228 , ARG A:321 , HOH A:2096 , ALA B:7 , GLN D:47
BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 1335 TO 1341
11
BC2
SOFTWARE
ILE A:34 , THR A:128 , LYS A:156 , VAL A:163 , ASN A:165 , ARG A:321 , SIA A:1335 , GAL A:1336 , HOH A:2096 , ALA B:7 , GLN D:47
BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 1337 TO 1341
12
BC3
SOFTWARE
GLU B:150 , ASN B:154 , THR B:156
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 154 RESIDUES 1174 TO 1175
13
BC4
SOFTWARE
ASN C:38 , THR C:318 , LEU D:52
BINDING SITE FOR MONO-SACCHARIDE NAG C1328 BOUND TO ASN C 38
14
BC5
SOFTWARE
GLN C:80 , ASN C:81 , GLU C:119 , PHE C:120
BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 81 RESIDUES 1329 TO 1330
15
BC6
SOFTWARE
SER A:219 , PRO A:221 , TRP A:222 , ASN C:165 , THR C:167 , FLC C:1340
BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 165 RESIDUES 1331 TO 1333
16
BC7
SOFTWARE
SER C:45 , ASN C:285 , VAL C:297 , GLU D:69
BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 285 RESIDUES 1334 TO 1335
17
BC8
SOFTWARE
TYR A:100 , ASP A:101 , TYR A:105 , HOH A:2035 , TYR C:98 , THR C:126 , THR C:128 , GLY C:135 , SER C:136 , ASN C:137 , ASN C:165 , VAL C:166 , THR C:167 , HIS C:183 , GLU C:190 , LEU C:194 , ARG C:208 , GLY C:225 , LEU C:226 , SER C:228 , ARG C:321 , NAG C:1331 , HOH C:2083 , ALA D:7 , GLN F:47
BINDING SITE FOR CHAIN C OF POLYSACCHARIDE RESIDUES 1336 TO 1342
18
BC9
SOFTWARE
ALA D:147 , GLU D:150 , ASN D:154 , THR D:156 , HOH D:2057 , HOH D:2060
BINDING SITE FOR MONO-SACCHARIDE NAG D1173 BOUND TO ASN D 154
19
CC1
SOFTWARE
GLN E:80 , ASN E:81 , GLU E:119 , PHE E:120 , ILE E:121
BINDING SITE FOR MONO-SACCHARIDE NAG E1327 BOUND TO ASN E 81
20
CC2
SOFTWARE
SER C:219 , PRO C:221 , TRP C:222 , ASN E:165 , THR E:167 , SER F:29
BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 165 RESIDUES 1328 TO 1330
21
CC3
SOFTWARE
SER E:45 , ASN E:285 , VAL E:297 , GLU F:69
BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 285 RESIDUES 1331 TO 1332
22
CC4
SOFTWARE
LYS B:39 , ASP E:31 , ILE E:34 , GLU E:41 , ASP E:77 , TYR E:98 , GLY E:135 , SER E:136 , ASN E:137 , ARG E:141 , SER E:149 , TRP E:153 , LYS E:156 , HIS E:183 , GLU E:190 , LEU E:194 , LEU E:226 , SER E:228 , LYS E:292 , ARG E:321 , HOH E:2092 , HOH E:2093 , ALA F:7
BINDING SITE FOR CHAIN E OF POLYSACCHARIDE RESIDUES 1333 TO 1340
23
CC5
SOFTWARE
ALA F:147 , GLU F:150 , ASN F:154 , THR F:156
BINDING SITE FOR MONO-SACCHARIDE NAG F1174 BOUND TO ASN F 154
[
close Site info
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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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
(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
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2ypga_ (A:)
1b: SCOP_d2ypgc_ (C:)
1c: SCOP_d2ypge_ (E:)
2a: SCOP_d2ypgb_ (B:)
2b: SCOP_d2ypgd_ (D:)
2c: SCOP_d2ypgf_ (F:)
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Classes
(
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(
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Folds
(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Viral protein domain
(195)
Superfamily
:
Viral protein domain
(195)
Family
:
Influenza hemagglutinin headpiece
(152)
Protein domain
:
Hemagglutinin
(109)
Influenza A virus, different strains [TaxId: 11320]
(97)
1a
d2ypga_
A:
1b
d2ypgc_
C:
1c
d2ypge_
E:
Class
:
Coiled coil proteins
(689)
Fold
:
Stalk segment of viral fusion proteins
(231)
Superfamily
:
Influenza hemagglutinin (stalk)
(172)
Family
:
Influenza hemagglutinin (stalk)
(161)
Protein domain
:
Influenza hemagglutinin (stalk)
(102)
Influenza A virus, different strains [TaxId: 11320]
(93)
2a
d2ypgb_
B:
2b
d2ypgd_
D:
2c
d2ypgf_
F:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
[
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]
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Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (521 KB)
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