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Protein

Protein Nef

Gene

nef

Organism
Human immunodeficiency virus type 2 subtype B (isolate UC1) (HIV-2)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Factor of infectivity and pathogenicity, required for optimal virus replication. Alters numerous pathways of T-lymphocytes function and down-regulates immunity surface molecules in order to evade host defense and increase viral infectivity. Alters the functionality of other immunity cells, like dendritic cells, monocytes/macrophages and NK cells. One of the earliest and most abundantly expressed viral proteins (By similarity).By similarity
In infected CD4+ T-lymphocytes, down-regulates cell surface expression of CD4, CD28, CD3, and MHC-I or MHC-II molecules.By similarity
Interferes with TCR signaling from the cell membrane. Interacts with CD247/TCRZ (TCR zeta chain) and exert potent down-regulation of cell surface TCR/CD3 complexes (By similarity).By similarity
Plays a role in optimizing the host cell environment for viral replication without causing cell death by apoptosis. Protects the infected cells from apoptosis in order to keep them alive until the next virus generation is ready to strike (By similarity).By similarity
Extracellular Nef protein targets CD4+ T-lymphocytes for apoptosis by interacting with CXCR4 surface receptors.By similarity

Miscellaneous

This isolate is from a Gambian case of 'neuro-AIDS'.

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processHost-virus interaction, Viral immunoevasion, Virulence

Names & Taxonomyi

Protein namesi
Recommended name:
Protein Nef
Alternative name(s):
3'ORF
Negative factor
Short name:
F-protein
Gene namesi
Name:nef
OrganismiHuman immunodeficiency virus type 2 subtype B (isolate UC1) (HIV-2)
Taxonomic identifieri388822 [NCBI]
Taxonomic lineageiVirusesOrterviralesRetroviridaeOrthoretrovirinaeLentivirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000007428 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Host cell membrane, Host membrane, Membrane

Pathology & Biotechi

Keywords - Diseasei

AIDS

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved; by hostBy similarity
ChainiPRO_00002448182 – 225Protein NefAdd BLAST224

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Lipidationi2N-myristoyl glycine; by hostBy similarity1

Keywords - PTMi

Lipoprotein, Myristate

Proteomic databases

PRIDEiQ76639

Interactioni

Subunit structurei

Homodimer. Interacts with host CD247/TCRZ; this interaction induces down-regulation of cell surface TCR/CD3 complexes.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ76639
SMRiQ76639
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni70 – 77Acidic8
Regioni122 – 138Mediates dimerizationBy similarityAdd BLAST17

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi86 – 89PxxP4

Domaini

The N-terminal domain is composed of the N-myristoyl glycine and of a cluster of positively charged amino acids. It is required for inner plasma membrane targeting of Nef and virion incorporation, and thereby for infectivity (By similarity).By similarity

Sequence similaritiesi

Phylogenomic databases

OrthoDBiVOG090000RB

Family and domain databases

Gene3Di3.30.62.10, 1 hit
InterProiView protein in InterPro
IPR027481 HIV-1_Nef_core_sf
IPR001558 HIV_Nef
PfamiView protein in Pfam
PF00469 F-protein, 1 hit
SUPFAMiSSF55671 SSF55671, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q76639-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MGSAGSKKQS KQQRGLRERL LRTQEEPYGK LSEGQRKQSS RSPGGSDKDL
60 70 80 90 100
NSPSCEGRNA PRAEGGGQQD TDDSDEDNEV GVYVRPNRPL RSMTYKMAID
110 120 130 140 150
MSHFIKEKGG LEGIYYSERR HRILDTYLEN EEGIVSGWQN YTYGPGIRYP
160 170 180 190 200
RTFGWLWKLV PVDIPEEERG AETSCLVHPA QISSWDDIHG ETLAWRFDPL
210 220
LAHDYVAFNR YPEEFGYQSG LPEKE
Length:225
Mass (Da):25,680
Last modified:January 23, 2007 - v3
Checksum:i51CE1EA983771458
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07625 Genomic RNA Translation: AAA43947.1

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07625 Genomic RNA Translation: AAA43947.1

3D structure databases

ProteinModelPortaliQ76639
SMRiQ76639
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ76639

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

OrthoDBiVOG090000RB

Family and domain databases

Gene3Di3.30.62.10, 1 hit
InterProiView protein in InterPro
IPR027481 HIV-1_Nef_core_sf
IPR001558 HIV_Nef
PfamiView protein in Pfam
PF00469 F-protein, 1 hit
SUPFAMiSSF55671 SSF55671, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiNEF_HV2UC
AccessioniPrimary (citable) accession number: Q76639
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: January 23, 2007
Last modified: June 20, 2018
This is version 78 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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Main funding by: National Institutes of Health

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