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1RD8
Asym. Unit
Info
Asym.Unit (255 KB)
Biol.Unit 1 (246 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE 1918 HUMAN H1 HEMAGGLUTININ PRECURSOR (HA0)
Authors
:
J. Stevens, A. L. Corper, C. F. Basler, J. K. Taubenberger, P. Palese, I.
Date
:
05 Nov 03 (Deposition) - 23 Mar 04 (Release) - 14 Dec 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Glycoprotein, Membrane-Fusion Precursor, Virus/Viral Protein, Viral Protein
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
J. Stevens, A. L. Corper, C. F. Basler, J. K. Taubenberger, P. Palese, I. A. Wilson
Structure Of The Uncleaved Human H1 Hemagglutinin From The Extinct 1918 Influenza Virus.
Science V. 303 1866 2004
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close entry info
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Hetero Components
(5, 17)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
2a: ALPHA-D-MANNOSE (MANa)
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)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
5a: PHOSPHATE ION (PO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
3
Ligand/Ion
BETA-D-MANNOSE
2
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
11
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5
PO4
1
Ligand/Ion
PHOSPHATE ION
[
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Sites
(17, 17)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:20 , PRO C:273 , HIS C:275
BINDING SITE FOR RESIDUE NAG A 1
02
AC2
SOFTWARE
ASN A:34 , THR A:35A
BINDING SITE FOR RESIDUE NAG A 2
03
AC3
SOFTWARE
ASN A:73 , GLU A:94 , ASN A:95 , CYS A:97 , ARG A:224 , NAG A:331
BINDING SITE FOR RESIDUE NAG A 330
04
AC4
SOFTWARE
NAG A:330 , BMA A:332
BINDING SITE FOR RESIDUE NAG A 331
05
AC5
SOFTWARE
NAG A:331
BINDING SITE FOR RESIDUE BMA A 332
06
AC6
SOFTWARE
GLU B:150 , ASN B:154
BINDING SITE FOR RESIDUE NAG B 183
07
AC7
SOFTWARE
ASN C:34
BINDING SITE FOR RESIDUE NAG C 330
08
AC8
SOFTWARE
ASN C:73 , GLU C:94 , ASN C:95 , CYS C:97 , ARG C:224 , NAG C:332
BINDING SITE FOR RESIDUE NAG C 331
09
AC9
SOFTWARE
NAG C:331 , BMA C:333 , MAN C:334
BINDING SITE FOR RESIDUE NAG C 332
10
BC1
SOFTWARE
NAG C:332 , MAN C:334
BINDING SITE FOR RESIDUE BMA C 333
11
BC2
SOFTWARE
NAG C:332 , BMA C:333
BINDING SITE FOR RESIDUE MAN C 334
12
BC3
SOFTWARE
ASN C:289 , SER C:291
BINDING SITE FOR RESIDUE NAG C 335
13
BC4
SOFTWARE
ASN E:34
BINDING SITE FOR RESIDUE NDG E 330
14
BC5
SOFTWARE
ASN E:73 , GLU E:75 , ASN E:95 , CYS E:97 , ARG E:224 , NAG E:332
BINDING SITE FOR RESIDUE NAG E 331
15
BC6
SOFTWARE
ARG E:224 , NAG E:331 , BMA E:333
BINDING SITE FOR RESIDUE NAG E 332
16
BC7
SOFTWARE
NAG E:332
BINDING SITE FOR RESIDUE BMA E 333
17
BC8
SOFTWARE
ARG B:116 , GLU B:120 , LYS B:123 , ARG D:116 , GLU D:120 , LYS D:123 , ARG F:116 , GLU F:120 , LYS F:123
BINDING SITE FOR RESIDUE PO4 B 301
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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
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
View:
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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_d1rd8a_ (A:)
1b: SCOP_d1rd8c_ (C:)
1c: SCOP_d1rd8e_ (E:)
2a: SCOP_d1rd8b_ (B:)
2b: SCOP_d1rd8d_ (D:)
2c: SCOP_d1rd8f_ (F:)
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)
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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
d1rd8a_
A:
1b
d1rd8c_
C:
1c
d1rd8e_
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
d1rd8b_
B:
2b
d1rd8d_
D:
2c
d1rd8f_
F:
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CATH Domains
(3, 9)
Info
all CATH domains
1a: CATH_1rd8A02 (A:52-275)
1b: CATH_1rd8C02 (C:52-275)
1c: CATH_1rd8E02 (E:52-275)
2a: CATH_1rd8B00 (B:1-175)
2b: CATH_1rd8D00 (D:1-175)
2c: CATH_1rd8F00 (F:1-175)
3a: CATH_1rd8A01 (A:10-51,A:276-329)
3b: CATH_1rd8C01 (C:10-51,C:276-329)
3c: CATH_1rd8E01 (E:10-51,E:276-329)
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Homologous Superfamilies
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Hemagglutinin (Ha1 Chain); Chain: A; domain 1
(59)
Homologous Superfamily
:
[code=3.90.209.20, no name defined]
(59)
Influenza a virus. Organism_taxid: 11320.
(1)
1a
1rd8A02
A:52-275
1b
1rd8C02
C:52-275
1c
1rd8E02
E:52-275
Topology
:
Hemagglutinin Ectodomain; Chain B
(70)
Homologous Superfamily
:
[code=3.90.20.10, no name defined]
(69)
Influenza a virus. Organism_taxid: 11320.
(1)
2a
1rd8B00
B:1-175
2b
1rd8D00
D:1-175
2c
1rd8F00
F:1-175
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Hemagglutinin; Chain A, domain 2
(27)
Homologous Superfamily
:
Hemagglutinin Chain A, Domain 2
(27)
Influenza a virus. Organism_taxid: 11320.
(1)
3a
1rd8A01
A:10-51,A:276-329
3b
1rd8C01
C:10-51,C:276-329
3c
1rd8E01
E:10-51,E:276-329
[
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]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Hemagglutinin_1rd8F01 (F:1-175)
1b: PFAM_Hemagglutinin_1rd8F02 (F:1-175)
1c: PFAM_Hemagglutinin_1rd8F03 (F:1-175)
1d: PFAM_Hemagglutinin_1rd8F04 (F:1-175)
1e: PFAM_Hemagglutinin_1rd8F05 (F:1-175)
1f: PFAM_Hemagglutinin_1rd8F06 (F:1-175)
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Clans
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)
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(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Hemagglutinin]
(58)
Family
:
Hemagglutinin
(58)
Influenza A virus (strain A/Brevig Mission/1/1918 H1N1) (Influenza A virus (strain A/South Carolina/
(5)
1a
Hemagglutinin-1rd8F01
F:1-175
1b
Hemagglutinin-1rd8F02
F:1-175
1c
Hemagglutinin-1rd8F03
F:1-175
1d
Hemagglutinin-1rd8F04
F:1-175
1e
Hemagglutinin-1rd8F05
F:1-175
1f
Hemagglutinin-1rd8F06
F:1-175
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