EBV

EBV BKRF2

Predicted structure model: ColabFold (3x recycles).

The model was generated using ColabFold with 3 recycles.

Using DeepTMHMM, this protein was identified to contain a signal peptide but no transmembrane domain.

Predicted Structure (ColabFold (3x recycles))
Predicted Aligned Error (PAE) Click image to open full size
Predicted Aligned Error (PAE)
Structural Homologs
Virus Protein Uniprot pTM
HSV-1 UL1 P10185 0.50
HSV-2 UL1 P28278 0.53
VZV ORF60 P09308 0.54
MDV MDV013 Q77MS8 n/a
PrV UL1 G3G996 n/a
HCMV UL115 F5HCH8 0.72
RCMV E115 K7XWE4 n/a
HHV-6A U82 P52508 0.51
HHV-6B U82 P52526 0.53
HHV-7 U82 O56297 0.49
EBV BKRF2 P03212 0.58
KSHV ORF47 F5HDB7 0.57
MHV68 ORF47 Q9QAI5 n/a

This page uses Mol* for molecular visualization, with JSmol as a fallback when WebGL is unavailable.

Predictions were run with Colabfold by the Steinegger lab:
Mirdita M, Schutze K, Moriwaki Y, Heo L, Ovchinnikov S, Steinegger M. "ColabFold: Making protein folding accessible to all". Nature Methods (2022) doi: 10.1038/s41592-022-01488-1

Foldseek is developed by the Steinegger lab:
van Kempen M, Kim S, Tumescheit C, Mirdita M, Soding J, and Steinegger M. "Fast and accurate protein structure search with Foldseek". Nature Biotechnology (2023) doi: 10.1038/s41587-023-01773-0

Alphafold2 was developed by Deepmind:
Jumper et al. "Highly accurate protein structure prediction with AlphaFold." Nature (2021) doi: 10.1038/s41586-021-03819-2

Signal peptide predictions were performed with DeepTMHMM
Jeppe Hallgren, Konstantinos D. Tsirigos, Mads Damgaard Pedersen, Jose Juan Almagro Armenteros, Paolo Marcatili, Henrik Nielsen, Anders Krogh, Ole Winther. "DeepTMHMM predicts alpha and beta transmembrane proteins using deep neural networks." bioRxiv (2022) doi: 10.1101/2022.04.08.487609

AlphaFold3 models were generated through the Alphafold Server, which uses Google DeepMind's AlphaFold technology
Abramson J, et al. Accurate structure prediction of biomolecular interactions with AlphaFold 3. Nature (2024). doi: 10.1038/s41586-024-07487-w