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4LN8
Asym. Unit
Info
Asym.Unit (996 KB)
Biol.Unit 1 (497 KB)
Biol.Unit 2 (173 KB)
Biol.Unit 3 (172 KB)
Biol.Unit 4 (172 KB)
Biol.Unit 5 (491 KB)
Biol.Unit 6 (171 KB)
Biol.Unit 7 (169 KB)
Biol.Unit 8 (170 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF HEMAGGLUTININ FROM A H7N9 INFLUENZA VIRUS (A/SHANGHAI/2/2013) IN COMPLEX WITH LSTB
Authors
:
H. Yang, P. J. Carney, J. C. Chang, J. M. Villanueva, J. Stevens
Date
:
11 Jul 13 (Deposition) - 02 Oct 13 (Release) - 30 Oct 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: C,D (1x)
Biol. Unit 4: E,F (1x)
Biol. Unit 5: G,H,I,J,K,L (1x)
Biol. Unit 6: G,H (1x)
Biol. Unit 7: I,J (1x)
Biol. Unit 8: K,L (1x)
Keywords
:
Receptor Specificity, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Yang, P. J. Carney, J. C. Chang, J. M. Villanueva, J. Stevens
Structural Analysis Of The Hemagglutinin From The Recent 2013 H7N9 Influenza Virus.
J. Virol. V. 87 12433 2013
[
close entry info
]
Hetero Components
(6, 62)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
1f: BETA-D-MANNOSE (BMAf)
1g: BETA-D-MANNOSE (BMAg)
1h: BETA-D-MANNOSE (BMAh)
1i: BETA-D-MANNOSE (BMAi)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
4a: BETA-D-GALACTOSE (GALa)
4b: BETA-D-GALACTOSE (GALb)
4c: BETA-D-GALACTOSE (GALc)
4d: BETA-D-GALACTOSE (GALd)
4e: BETA-D-GALACTOSE (GALe)
4f: BETA-D-GALACTOSE (GALf)
4g: BETA-D-GALACTOSE (GALg)
4h: BETA-D-GALACTOSE (GALh)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
5ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
5ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
5ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
5i: N-ACETYL-D-GLUCOSAMINE (NAGi)
5j: N-ACETYL-D-GLUCOSAMINE (NAGj)
5k: N-ACETYL-D-GLUCOSAMINE (NAGk)
5l: N-ACETYL-D-GLUCOSAMINE (NAGl)
5m: N-ACETYL-D-GLUCOSAMINE (NAGm)
5n: N-ACETYL-D-GLUCOSAMINE (NAGn)
5o: N-ACETYL-D-GLUCOSAMINE (NAGo)
5p: N-ACETYL-D-GLUCOSAMINE (NAGp)
5q: N-ACETYL-D-GLUCOSAMINE (NAGq)
5r: N-ACETYL-D-GLUCOSAMINE (NAGr)
5s: N-ACETYL-D-GLUCOSAMINE (NAGs)
5t: N-ACETYL-D-GLUCOSAMINE (NAGt)
5u: N-ACETYL-D-GLUCOSAMINE (NAGu)
5v: N-ACETYL-D-GLUCOSAMINE (NAGv)
5w: N-ACETYL-D-GLUCOSAMINE (NAGw)
5x: N-ACETYL-D-GLUCOSAMINE (NAGx)
5y: N-ACETYL-D-GLUCOSAMINE (NAGy)
5z: N-ACETYL-D-GLUCOSAMINE (NAGz)
6a: O-SIALIC ACID (SIAa)
6b: O-SIALIC ACID (SIAb)
6c: O-SIALIC ACID (SIAc)
6d: O-SIALIC ACID (SIAd)
6e: O-SIALIC ACID (SIAe)
6f: O-SIALIC ACID (SIAf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
9
Ligand/Ion
BETA-D-MANNOSE
2
CA
6
Ligand/Ion
CALCIUM ION
3
FUC
3
Ligand/Ion
ALPHA-L-FUCOSE
4
GAL
8
Ligand/Ion
BETA-D-GALACTOSE
5
NAG
30
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
SIA
6
Ligand/Ion
O-SIALIC ACID
[
close Hetero Component info
]
Sites
(62, 62)
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)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:12 , THR A:14 , ASN A:28 , NAG A:402 , FUC A:404 , ASN K:267
BINDING SITE FOR RESIDUE NAG A 401
02
AC2
SOFTWARE
NAG A:401 , BMA A:403 , FUC A:404 , HOH A:502 , HOH A:523
BINDING SITE FOR RESIDUE NAG A 402
03
AC3
SOFTWARE
NAG A:402
BINDING SITE FOR RESIDUE BMA A 403
04
AC4
SOFTWARE
NAG A:401 , NAG A:402 , HOH A:516 , VAL K:264 , ASP K:265 , ALA K:266
BINDING SITE FOR RESIDUE FUC A 404
05
AC5
SOFTWARE
ASN A:28 , THR A:30 , THR A:309 , NAG A:406
BINDING SITE FOR RESIDUE NAG A 405
06
AC6
SOFTWARE
THR A:30 , NAG A:405 , BMA A:407 , HOH A:526
BINDING SITE FOR RESIDUE NAG A 406
07
AC7
SOFTWARE
NAG A:406
BINDING SITE FOR RESIDUE BMA A 407
08
AC8
SOFTWARE
TYR A:88 , ALA A:125 , THR A:126 , SER A:127 , TRP A:142 , LEU A:144 , HIS A:174 , GLU A:181 , LEU A:185 , NAG A:409 , HOH A:521
BINDING SITE FOR RESIDUE SIA A 408
09
AC9
SOFTWARE
SIA A:408 , GAL A:410 , GAL A:411
BINDING SITE FOR RESIDUE NAG A 409
10
BC1
SOFTWARE
VAL A:177 , GLU A:181 , NAG A:409
BINDING SITE FOR RESIDUE GAL A 410
11
BC2
SOFTWARE
ASN A:215 , NAG A:409
BINDING SITE FOR RESIDUE GAL A 411
12
BC3
SOFTWARE
GLU A:71 , ASP A:109 , LYS A:110
BINDING SITE FOR RESIDUE CA A 412
13
BC4
SOFTWARE
ASN B:79 , ASN B:82 , HOH B:612
BINDING SITE FOR RESIDUE NAG B 500
14
BC5
SOFTWARE
ASN C:12 , ASN C:28 , NAG C:402 , FUC C:404 , ASN I:267
BINDING SITE FOR RESIDUE NAG C 401
15
BC6
SOFTWARE
NAG C:401 , BMA C:403 , FUC C:404 , HOH C:514
BINDING SITE FOR RESIDUE NAG C 402
16
BC7
SOFTWARE
NAG C:402
BINDING SITE FOR RESIDUE BMA C 403
17
BC8
SOFTWARE
NAG C:401 , NAG C:402 , HOH C:513 , VAL I:264 , ASP I:265 , ALA I:266
BINDING SITE FOR RESIDUE FUC C 404
18
BC9
SOFTWARE
ASN C:28 , THR C:30 , THR C:309 , NAG C:406 , HOH C:521
BINDING SITE FOR RESIDUE NAG C 405
19
CC1
SOFTWARE
THR C:30 , NAG C:405 , BMA C:407 , HOH C:521
BINDING SITE FOR RESIDUE NAG C 406
20
CC2
SOFTWARE
NAG C:406
BINDING SITE FOR RESIDUE BMA C 407
21
CC3
SOFTWARE
TYR C:88 , ALA C:125 , THR C:126 , SER C:127 , TRP C:142 , LEU C:144 , HIS C:174 , GLU C:181 , LEU C:185 , NAG C:409 , HOH C:506 , HOH C:538
BINDING SITE FOR RESIDUE SIA C 408
22
CC4
SOFTWARE
LEU C:217 , SIA C:408 , GAL C:410
BINDING SITE FOR RESIDUE NAG C 409
23
CC5
SOFTWARE
GLU C:181 , NAG C:409
BINDING SITE FOR RESIDUE GAL C 410
24
CC6
SOFTWARE
GLU C:71 , ASP C:109 , LYS C:110
BINDING SITE FOR RESIDUE CA C 411
25
CC7
SOFTWARE
ASN D:79 , ASN D:82 , GLU E:104
BINDING SITE FOR RESIDUE NAG D 500
26
CC8
SOFTWARE
ASN E:12 , THR E:14 , ASN E:28 , NAG E:402 , FUC E:404 , ASN G:267
BINDING SITE FOR RESIDUE NAG E 401
27
CC9
SOFTWARE
NAG E:401 , BMA E:403 , FUC E:404
BINDING SITE FOR RESIDUE NAG E 402
28
DC1
SOFTWARE
NAG E:402
BINDING SITE FOR RESIDUE BMA E 403
29
DC2
SOFTWARE
NAG E:401 , NAG E:402 , HOH E:510 , VAL G:264 , ALA G:266
BINDING SITE FOR RESIDUE FUC E 404
30
DC3
SOFTWARE
ASN E:28 , THR E:30 , THR E:309 , NAG E:406
BINDING SITE FOR RESIDUE NAG E 405
31
DC4
SOFTWARE
THR E:30 , NAG E:405 , BMA E:407 , HOH E:532
BINDING SITE FOR RESIDUE NAG E 406
32
DC5
SOFTWARE
NAG E:406 , HOH E:532 , HOH E:537
BINDING SITE FOR RESIDUE BMA E 407
33
DC6
SOFTWARE
TYR E:88 , ALA E:125 , THR E:126 , SER E:127 , TRP E:142 , LEU E:144 , HIS E:174 , GLU E:181 , LEU E:185 , NAG E:409 , HOH E:530
BINDING SITE FOR RESIDUE SIA E 408
34
DC7
SOFTWARE
SIA E:408
BINDING SITE FOR RESIDUE NAG E 409
35
DC8
SOFTWARE
GLU E:71 , ASP E:109 , LYS E:110
BINDING SITE FOR RESIDUE CA E 410
36
DC9
SOFTWARE
GLU A:104 , ASN F:79 , ASN F:82
BINDING SITE FOR RESIDUE NAG F 500
37
EC1
SOFTWARE
ASN G:28 , THR G:30 , THR G:309 , NAG G:402
BINDING SITE FOR RESIDUE NAG G 401
38
EC2
SOFTWARE
NAG G:401 , BMA G:403 , HOH G:506
BINDING SITE FOR RESIDUE NAG G 402
39
EC3
SOFTWARE
NAG G:402 , HOH G:506
BINDING SITE FOR RESIDUE BMA G 403
40
EC4
SOFTWARE
TYR G:88 , ALA G:125 , THR G:126 , SER G:127 , TRP G:142 , HIS G:174 , GLU G:181 , LEU G:185 , LEU G:217 , NAG G:405 , HOH G:503
BINDING SITE FOR RESIDUE SIA G 404
41
EC5
SOFTWARE
SIA G:404 , GAL G:406 , GAL G:407
BINDING SITE FOR RESIDUE NAG G 405
42
EC6
SOFTWARE
VAL G:177 , GLU G:181 , NAG G:405
BINDING SITE FOR RESIDUE GAL G 406
43
EC7
SOFTWARE
NAG G:405
BINDING SITE FOR RESIDUE GAL G 407
44
EC8
SOFTWARE
GLU G:71 , ASP G:109 , LYS G:110
BINDING SITE FOR RESIDUE CA G 408
45
EC9
SOFTWARE
ASN H:79 , ASN H:82 , GLU I:104
BINDING SITE FOR RESIDUE NAG H 500
46
FC1
SOFTWARE
ASN I:28 , THR I:30 , THR I:309 , NAG I:402
BINDING SITE FOR RESIDUE NAG I 401
47
FC2
SOFTWARE
NAG I:401 , BMA I:403 , HOH I:528
BINDING SITE FOR RESIDUE NAG I 402
48
FC3
SOFTWARE
NAG I:402 , HOH I:519
BINDING SITE FOR RESIDUE BMA I 403
49
FC4
SOFTWARE
TYR I:88 , ALA I:125 , THR I:126 , SER I:127 , TRP I:142 , HIS I:174 , GLU I:181 , LEU I:185 , NAG I:405 , HOH I:502
BINDING SITE FOR RESIDUE SIA I 404
50
FC5
SOFTWARE
SIA I:404 , GAL I:406
BINDING SITE FOR RESIDUE NAG I 405
51
FC6
SOFTWARE
GLU I:181 , NAG I:405
BINDING SITE FOR RESIDUE GAL I 406
52
FC7
SOFTWARE
GLU I:71 , ASP I:109 , LYS I:110
BINDING SITE FOR RESIDUE CA I 407
53
FC8
SOFTWARE
ASN J:79 , ASN J:82 , GLU K:104
BINDING SITE FOR RESIDUE NAG J 500
54
FC9
SOFTWARE
ASN K:28 , THR K:30 , THR K:309 , NAG K:402 , HOH K:522
BINDING SITE FOR RESIDUE NAG K 401
55
GC1
SOFTWARE
NAG K:401 , BMA K:403 , HOH K:539
BINDING SITE FOR RESIDUE NAG K 402
56
GC2
SOFTWARE
NAG K:402 , HOH K:548 , HOH K:550
BINDING SITE FOR RESIDUE BMA K 403
57
GC3
SOFTWARE
TYR K:88 , ALA K:125 , THR K:126 , SER K:127 , TRP K:142 , HIS K:174 , GLU K:181 , LEU K:185 , NAG K:405 , HOH K:509
BINDING SITE FOR RESIDUE SIA K 404
58
GC4
SOFTWARE
LEU K:217 , SIA K:404 , GAL K:406 , GAL K:407 , HOH K:546
BINDING SITE FOR RESIDUE NAG K 405
59
GC5
SOFTWARE
VAL K:177 , NAG K:405 , HOH K:546
BINDING SITE FOR RESIDUE GAL K 406
60
GC6
SOFTWARE
NAG K:405 , HOH K:510 , HOH K:521 , HOH K:526
BINDING SITE FOR RESIDUE GAL K 407
61
GC7
SOFTWARE
GLU K:71 , ASP K:109 , LYS K:110
BINDING SITE FOR RESIDUE CA K 408
62
GC8
SOFTWARE
GLU G:104 , ASN L:79 , ASN L:82
BINDING SITE FOR RESIDUE NAG L 500
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 12)
Info
All SCOP Domains
1a: SCOP_d4ln8a_ (A:)
1b: SCOP_d4ln8c_ (C:)
1c: SCOP_d4ln8e_ (E:)
1d: SCOP_d4ln8g_ (G:)
1e: SCOP_d4ln8i_ (I:)
1f: SCOP_d4ln8k_ (K:)
2a: SCOP_d4ln8b_ (B:)
2b: SCOP_d4ln8d_ (D:)
2c: SCOP_d4ln8f_ (F:)
2d: SCOP_d4ln8h_ (H:)
2e: SCOP_d4ln8j_ (J:)
2f: SCOP_d4ln8l_ (L:)
View:
Select:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Viral protein domain
(195)
Superfamily
:
Viral protein domain
(195)
Family
:
automated matches
(37)
Protein domain
:
automated matches
(37)
Influenza a virus [TaxId: 1332244]
(9)
1a
d4ln8a_
A:
1b
d4ln8c_
C:
1c
d4ln8e_
E:
1d
d4ln8g_
G:
1e
d4ln8i_
I:
1f
d4ln8k_
K:
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
:
automated matches
(59)
Influenza a virus [TaxId: 1332244]
(9)
2a
d4ln8b_
B:
2b
d4ln8d_
D:
2c
d4ln8f_
F:
2d
d4ln8h_
H:
2e
d4ln8j_
J:
2f
d4ln8l_
L:
[
close SCOP info
]
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
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Label:
Sorry, no Info available
[
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Asym.Unit (996 KB)
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Biol.Unit 3 (172 KB)
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Biol.Unit 4 (172 KB)
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