3TB8
Crystal structure of full-length myristoylated HIV-1 Nef
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005102 | molecular_function | signaling receptor binding |
| A | 0005515 | molecular_function | protein binding |
| A | 0005525 | molecular_function | GTP binding |
| A | 0005576 | cellular_component | extracellular region |
| A | 0010561 | biological_process | negative regulation of glycoprotein biosynthetic process |
| A | 0016020 | cellular_component | membrane |
| A | 0017124 | molecular_function | SH3 domain binding |
| A | 0019058 | biological_process | viral life cycle |
| A | 0019901 | molecular_function | protein kinase binding |
| A | 0020002 | cellular_component | host cell plasma membrane |
| A | 0031996 | molecular_function | thioesterase binding |
| A | 0033668 | biological_process | symbiont-mediated suppression of host apoptosis |
| A | 0039504 | biological_process | symbiont-mediated suppression of host adaptive immune response |
| A | 0039505 | biological_process | symbiont-mediated suppression of host antigen processing and presentation of peptide antigen via MHC class II |
| A | 0042288 | molecular_function | MHC class I protein binding |
| A | 0042609 | molecular_function | CD4 receptor binding |
| A | 0044178 | cellular_component | host cell Golgi membrane |
| A | 0044423 | cellular_component | virion component |
| A | 0046776 | biological_process | symbiont-mediated suppression of host antigen processing and presentation of peptide antigen via MHC class I |
| A | 0050848 | biological_process | regulation of calcium-mediated signaling |
| A | 0051117 | molecular_function | ATPase binding |
| A | 0051246 | biological_process | regulation of protein metabolic process |
| A | 0051701 | biological_process | biological process involved in interaction with host |
| A | 0052031 | biological_process | symbiont-mediated perturbation of host defense response |
| A | 0052170 | biological_process | symbiont-mediated suppression of host innate immune response |
| A | 0140321 | biological_process | symbiont-mediated suppression of host autophagy |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 3 |
| Details | Region: {"description":"Acidic; interacts with host PACS1 and PACS2; stabilizes the interaction of NEF/MHC-I with host AP1M1; necessary for MHC-I internalization","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 9 |
| Details | Region: {"description":"SH3-binding; interaction with Src family tyrosine kinases","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 16 |
| Details | Region: {"description":"Mediates dimerization, Nef-PTE1 interaction","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 32 |
| Details | Region: {"description":"Binding to ATP6V1H","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 3 |
| Details | Motif: {"description":"PxxP; stabilizes the interaction of NEF/MHC-I with host AP1M1; necessary for MHC-I internalization","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | Motif: {"description":"Dileucine internalization motif; necessary for CD4 internalization","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | Motif: {"description":"Diacidic; necessary for CD4 internalization","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 1 |
| Details | Site: {"description":"Might play a role in AP-1 recruitment to the Nef-MHC-I complex","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 1 |
| Details | Site: {"description":"Cleavage; by viral protease","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine; by host","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI11 |
| Number of Residues | 1 |
| Details | Lipidation: {"description":"N-myristoyl glycine; by host","evidences":[{"source":"HAMAP-Rule","id":"MF_04078","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
