H5N1 subtype

VIRION

Molecular biology

Enveloped. Usually rounded but can be filamentous. The virions are 80-120 nm in diameter.

GENOME

Segmented ssRNA(-) linear genome, encapsidated by nucleoprotein (NP). Contains 8 segments coding for 12-13 proteins depending on strains. Segments size range from 890 to 2,341nt. Genome total size is 13.5Kb

GENE EXPRESSION

Viral RNA polymerase (PB1, PB2 and PA) transcribes one mRNA from each genome segment. Transcription is primed by cap cleaved from cellular mRNAS by Cap snatching. mRNA are polyadenylated by the viral polymerase stuttering on a poly U track MP and NS mRNA can be alternately spliced, giving rise to mRNA coding for M2 and NEP proteins. PB1 mRNA encode three proteins by leaky scanning: PB1, N40 and PB1-F2 . Pa-X protein is translated by ribosomal frameshift on the PA gene .

REPLICATION

NUCLEUS

  1. Virus attaches to sialic acid receptor though HA protein and is endocytosed by clathrins in the host cell.
  2. endosome acidification induces fusion of virus membrane with the vesicle membrane; encapsidated RNA segments migrate to the nucleus.
  3. Transcription of genomic segments by the viral polymerase produces mRNAs that are capped and polyadenylated by the viral polymerase.
  4. Replication of genomic segments.
  5. High level of M1 protein induces genomes segments export from nucleus by NEP protein.
  6. Virus assembly and budding occurs at the plasma membrane.

Host-virus interaction

Innate immune response inhibition

Influenza A virus inhibits the cascade leading to production of interferon-beta by targeting different cellular proteins. NS1 inhibits host RIG-I activation upon recognition of viral RNA, and subsequent induction of IFN-beta expression.

Host protein shutoff

NS1 induces host gene expression shutoff by inducing host mRNA suppression through polyadenlyation inhibition. The viral mRNA are not affected because their polyA tail is generated by polymerase stuttering.

Matching UniProtKB/Swiss-Prot entries

173 entries grouped by strain (browse by keywords)

All proteins are shown (view only 48 complete proteome entries)

12 entries

Influenza A virus (strain A/Goose/Guangdong/1/1996 H5N1 genotype Gs/Gd) reference strain

Select_all Deselect_all  
HEMA_I96A0Hemagglutinin
M1_I96A0Matrix protein 1 (M1)
M2_I96A0Matrix protein 2 (Proton channel protein M2)
NCAP_I96A0Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I96A0Nuclear export protein (NEP) (Non structural protein 2) (NS2)
NRAM_I96A0Neuraminidase (EC 3.2.1.18)
NS1_I96A0Non-structural protein 1 (NS1) (NS1A)
PAX_I96A0Protein PA-X
PA_I96A0Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I96A0Protein PB1-F2
PB2_I96A0Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I96A0RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

12 entries

Influenza A virus (strain A/Chicken/Scotland/1959 H5N1)

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HEMA_I59A0Hemagglutinin
M1_I59A0Matrix protein 1 (M1)
M2_I59A0Matrix protein 2 (Proton channel protein M2)
NCAP_I59A0Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I59A0Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I59A0Neuraminidase (EC 3.2.1.18)
NS1_I59A0Non-structural protein 1 (NS1) (NS1A)
PAX_I59A0Protein PA-X
PA_I59A0Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I59A0Protein PB1-F2
PB2_I59A0Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I59A0RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

12 entries

Influenza A virus (strain A/Duck/Hong Kong/2986.1/2000 H5N1 genotype C)

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HEMA_I00A0Hemagglutinin
M1_I00A0Matrix protein 1 (M1)
M2_I00A0Matrix protein 2 (Proton channel protein M2)
NCAP_I00A0Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I00A0Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I00A0Neuraminidase (EC 3.2.1.18)
NS1_I00A0Non-structural protein 1 (NS1) (NS1A)
PAX_I00A0Protein PA-X
PA_I00A0Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I00A0Protein PB1-F2
PB2_I00A0Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I00A0RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

12 entries

Influenza A virus (strain A/Hong Kong/156/1997 H5N1 genotype Gs/Gd)

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HEMA_I97A1Hemagglutinin
M1_I97A1Matrix protein 1 (M1)
M2_I97A1Matrix protein 2 (Proton channel protein M2)
NCAP_I97A1Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I97A1Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I97A1Neuraminidase (EC 3.2.1.18)
NS1_I97A1Non-structural protein 1 (NS1) (NS1A)
PAX_I97A1Protein PA-X
PA_I97A1Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I97A1Protein PB1-F2
PB2_I97A1Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I97A1RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

11 entries

Influenza A virus (strain A/Chicken/Hong Kong/YU22/2002 H5N1 genotype Z)

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M1_I02A6Matrix protein 1 (M1)
M2_I02A6Matrix protein 2 (Proton channel protein M2)
NCAP_I02A6Nucleoprotein
NEP_I02A6Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I02A6Neuraminidase (EC 3.2.1.18)
NS1_I02A6Non-structural protein 1 (NS1) (NS1A)
PAX_I02A6Protein PA-X
PA_I02A6Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I02A6Protein PB1-F2
PB2_I02A6Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I02A6RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

10 entries

Influenza A virus (strain A/Chicken/Hong Kong/31.2/2002 H5N1 genotype X1)

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M1_I02A2Matrix protein 1 (M1)
M2_I02A2Matrix protein 2 (Proton channel protein M2)
NCAP_I02A2Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I02A2Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I02A2Neuraminidase (EC 3.2.1.18)
NS1_I02A2Non-structural protein 1 (NS1) (NS1A)
PAX_I02A2Protein PA-X
PA_I02A2Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I02A2Protein PB1-F2
RDRP_I02A2RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

10 entries

Influenza A virus (strain A/Chicken/Hong Kong/715.5/2001 H5N1 genotype E)

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M1_I01A3Matrix protein 1 (M1)
M2_I01A3Matrix protein 2 (Proton channel protein M2)
NCAP_I01A3Nucleoprotein
NEP_I01A3Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I01A3Neuraminidase (EC 3.2.1.18)
NS1_I01A3Non-structural protein 1 (NS1) (NS1A)
PAX_I01A3Protein PA-X
PA_I01A3Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I01A3Protein PB1-F2
RDRP_I01A3RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

10 entries

Influenza A virus (strain A/Chicken/Hong Kong/96.1/2002 H5N1 genotype Y)

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M1_I02A5Matrix protein 1 (M1)
M2_I02A5Matrix protein 2 (Proton channel protein M2)
NCAP_I02A5Nucleoprotein
NEP_I02A5Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I02A5Neuraminidase (EC 3.2.1.18)
NS1_I02A5Non-structural protein 1 (NS1) (NS1A)
PAX_I02A5Protein PA-X
PA_I02A5Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I02A5Protein PB1-F2
PB2_I02A5Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)

10 entries

Influenza A virus (strain A/Silky Chicken/Hong Kong/SF189/2001 H5N1 genotype A)

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M1_I01A0Matrix protein 1 (M1)
M2_I01A0Matrix protein 2 (Proton channel protein M2)
NCAP_I01A0Nucleoprotein
NEP_I01A0Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I01A0Neuraminidase (EC 3.2.1.18)
NS1_I01A0Non-structural protein 1 (NS1) (NS1A)
PAX_I01A0Protein PA-X
PA_I01A0Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I01A0Protein PB1-F2
RDRP_I01A0RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

10 entries

Influenza A virus (strain A/Silky Chicken/Hong Kong/YU100/2002 H5N1 genotype X3)

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M1_I02A4Matrix protein 1 (M1)
M2_I02A4Matrix protein 2 (Proton channel protein M2)
NCAP_I02A4Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I02A4Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I02A4Neuraminidase (EC 3.2.1.18)
NS1_I02A4Non-structural protein 1 (NS1) (NS1A)
PAX_I02A4Protein PA-X
PA_I02A4Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I02A4Protein PB1-F2
RDRP_I02A4RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

9 entries

Influenza A virus (strain A/Chicken/Hong Kong/220/1997 H5N1 genotype Gs/Gd)

Select_all Deselect_all  
HEMA_I97A0Hemagglutinin
M1_I97A0Matrix protein 1 (M1)
M2_I97A0Matrix protein 2 (Proton channel protein M2)
NEP_I97A0Nuclear export protein (NEP) (Non structural protein 2) (NS2)
NRAM_I97A0Neuraminidase (EC 3.2.1.18)
NS1_I97A0Non-structural protein 1 (NS1) (NS1A)
PAX_I97A0Protein PA-X
PA_I97A0Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
RDRP_I97A0RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

9 entries

Influenza A virus (strain A/Chicken/Shantou/4231/2003 H5N1 genotype V)

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M1_I03A1Matrix protein 1 (M1)
M2_I03A1Matrix protein 2 (Proton channel protein M2)
NCAP_I03A1Nucleoprotein
NEP_I03A1Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I03A1Neuraminidase (EC 3.2.1.18)
NS1_I03A1Non-structural protein 1 (NS1) (NS1A)
PB1F2_I03A1Protein PB1-F2
PB2_I03A1Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I03A1RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

8 entries

Influenza A virus (strain A/Chicken/Hong Kong/37.4/2002 H5N1 genotype X2)

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M1_I02A3Matrix protein 1 (M1)
M2_I02A3Matrix protein 2 (Proton channel protein M2)
NCAP_I02A3Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I02A3Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I02A3Neuraminidase (EC 3.2.1.18)
NS1_I02A3Non-structural protein 1 (NS1) (NS1A)
PB1F2_I02A3Protein PB1-F2
RDRP_I02A3RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

8 entries

Influenza A virus (strain A/Hong Kong/212/2003 H5N1 genotype Z+)

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M1_I03A0Matrix protein 1 (M1)
M2_I03A0Matrix protein 2 (Proton channel protein M2)
NCAP_I03A0Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I03A0Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NS1_I03A0Non-structural protein 1 (NS1) (NS1A)
PB1F2_I03A0Protein PB1-F2
PB2_I03A0Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I03A0RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

7 entries

Influenza A virus (strain A/Chicken/Hong Kong/FY150/2001 H5N1 genotype D)

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M1_I01A2Matrix protein 1 (M1)
M2_I01A2Matrix protein 2 (Proton channel protein M2)
NCAP_I01A2Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I01A2Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NRAM_I01A2Neuraminidase (EC 3.2.1.18)
NS1_I01A2Non-structural protein 1 (NS1) (NS1A)
PB1F2_I01A2Protein PB1-F2

7 entries

Influenza A virus (strain A/Goose/Guangxi/345/2005 H5N1 genotype G)

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M1_I05A1Matrix protein 1 (M1)
M2_I05A1Matrix protein 2 (Proton channel protein M2)
PAX_I05A1Protein PA-X
PA_I05A1Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I05A1Protein PB1-F2
PB2_I05A1Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I05A1RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...

6 entries

Influenza A virus (strain A/Chicken/Hong Kong/YU562/2001 H5N1 genotype B)

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M1_I01A1Matrix protein 1 (M1)
M2_I01A1Matrix protein 2 (Proton channel protein M2)
NCAP_I01A1Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I01A1Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NS1_I01A1Non-structural protein 1 (NS1) (NS1A)
PB1F2_I01A1Protein PB1-F2

6 entries

Influenza A virus (strain A/Guinea fowl/Hong Kong/38/2002 H5N1 genotype X0)

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NCAP_I02A1Nucleoprotein (Nucleocapsid protein) (Protein N)
NEP_I02A1Nuclear export protein (NEP) (Non-structural protein 2) (NS2)
NS1_I02A1Non-structural protein 1 (NS1) (NS1A)
PAX_I02A1Protein PA-X
PA_I02A1Polymerase acidic protein (RNA-directed RNA polymerase subunit P2)
PB1F2_I02A1Protein PB1-F2

4 entries

Influenza A virus (strain A/Teal/China/2978.1/2002 H5N1 genotype W)

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NCAP_I02A7Nucleoprotein
PB1F2_I02A7Protein PB1-F2
PB2_I02A7Polymerase basic protein 2 (RNA-directed RNA polymerase subunit P3)
RDRP_I02A7RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) (Polymerase basic ...