Long chronological lifespan protein 2
AF-B6QFV5-F1-v4
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Predicted aligned error (PAE)
Click and drag a box on the PAE viewer to select regions of the structure and highlight them on the 3D viewer.
PAE data is useful for assessing inter-domain accuracy – go to Help section below for more information.
Start a structural similarity search to discover similar proteins.
AlphaFold database protein sequences clustered by the MMseqs2 algorithm (Steinegger M. and Soeding J., Nat. Commun. 9, 2018). Each cluster is comprised of sequences that fulfil two criteria: maintaining a maximum sequence identity of 50% and achieving a 90% bi-directional sequence overlap with the longest sequence of the cluster representative.
AFDB accession | Description | Species | Sequence length | Average pLDDT |
---|---|---|---|---|
AFDB accessionAF-Q2U9Z3-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesAspergillus oryzae (strain ATCC 42149 / RIB 40) Aspergillus oryzae (strain ATCC 42149 / RIB 40)... Aspergillus oryzae (strain ATCC 42149 / RIB 40) | Sequence length 122 | Average pLDDT 84.94 |
AFDB accessionAF-A1CZR3-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesNeosartorya fischeri (strain ATCC 1020 / DSM 3700 / CBS 544.65 / FGSC A1164 / JCM 1740 / NRRL 181 / WB 181) Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / CBS 544.65 / FGSC A1164 / JCM 1740 / NRRL 181 / WB 181)... Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / CBS 544.65 / FGSC A1164 / JCM 1740 / NRRL 181 / WB 181) | Sequence length 122 | Average pLDDT 84.87 |
AFDB accessionAF-B6HU36-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesPenicillium rubens (strain ATCC 28089 / DSM 1075 / NRRL 1951 / Wisconsin 54-1255) Penicillium rubens (strain ATCC 28089 / DSM 1075 / NRRL 1951 / Wisconsin 54-1255)... Penicillium rubens (strain ATCC 28089 / DSM 1075 / NRRL 1951 / Wisconsin 54-1255) | Sequence length 122 | Average pLDDT 84.81 |
AFDB accessionAF-A1C4T4-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesAspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1)... Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) | Sequence length 121 | Average pLDDT 84.75 |
AFDB accessionAF-B0Y310-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesNeosartorya fumigata (strain CEA10 / CBS 144.89 / FGSC A1163) Neosartorya fumigata (strain CEA10 / CBS 144.89 / FGSC A1163)... Neosartorya fumigata (strain CEA10 / CBS 144.89 / FGSC A1163) | Sequence length 122 | Average pLDDT 84.74 |
AFDB accessionAF-B8NQK0-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesAspergillus flavus (strain ATCC 200026 / FGSC A1120 / NRRL 3357 / JCM 12722 / SRRC 167) Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / NRRL 3357 / JCM 12722 / SRRC 167)... Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / NRRL 3357 / JCM 12722 / SRRC 167) | Sequence length 122 | Average pLDDT 84.71 |
AFDB accessionAF-U7Q1T0-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesSporothrix schenckii (strain ATCC 58251 / de Perez 2211183) Sporothrix schenckii (strain ATCC 58251 / de Perez 2211183)... Sporothrix schenckii (strain ATCC 58251 / de Perez 2211183) | Sequence length 122 | Average pLDDT 84.7 |
AFDB accessionAF-A7E987-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesSclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) Sclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1)... Sclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) | Sequence length 119 | Average pLDDT 84.68 |
AFDB accessionAF-E3QVL2-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesColletotrichum graminicola (strain M1.001 / M2 / FGSC 10212) Colletotrichum graminicola (strain M1.001 / M2 / FGSC 10212)... Colletotrichum graminicola (strain M1.001 / M2 / FGSC 10212) | Sequence length 120 | Average pLDDT 84.68 |
AFDB accessionAF-Q4WES5-F1 | Description Long chronological lifespan protein 2 Long chronological lifespan protein 2 ... Long chronological lifespan protein 2 | SpeciesNeosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100)... Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) | Sequence length 122 | Average pLDDT 84.47 |
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How to interpret the Predicted Aligned Error
The Predicted Aligned Error (PAE) measures the confidence in the relative position of two residues within the predicted structure, providing insight into the reliability of relative position and orientations of different domains. Consider the human protein encoded by the gene GNE (Q9Y223). GNE has two distinct domains according to experimentally determined structures in the Protein Data Bank (PDBe-KB). Does AlphaFold confidently predict their relative positions? We can use the interactive Predicted Aligned Error (PAE) plot to answer this question. The PAE plot is not an inter-residue distance map or a contact map. Instead, the shade of green indicates the expected distance error in Ångströms (Å), ranging from 0 Å to an arbitrary cut-off of 31 Å. The colour at (x, y) corresponds to the expected distance error in the residue x’s position when the predicted and the true structures are aligned on residue y. The two low-error, dark green squares correspond to the two domains. By clicking and dragging, you can highlight these squares on the structure. If you want to remove the highlighting, click the cross icon. When selecting an off-diagonal region, the plot visually represents the relationship between the selected ranges on the sequence and structure. The x range corresponds to the selection for scored residues, highlighted in orange, while the y range of aligned residues is highlighted in emerald green. Let’s consider another inter-domain example, the human protein encoded by DIP2B (Q9P265). In this case, we have confidence in the relative position of scored residues around 1450 when aligned with residues around 850, suggesting a packing between the small central domains. Note that the PAE scores are asymmetrical, meaning there might be variations in PAE values between (x,y) and (y,x) positions. This is particularly relevant for loop regions with highly uncertain orientations, as seen on the DNA topoisomerase 3 (Q8T2T7).
A dark green tile corresponds to a good prediction (low error), whereas a light green tile indicates poor prediction (high error). For example, when aligning on residue 300:
The high PAE values across the whole inter-domain region indicate that for this particular protein, AlphaFold does not reliably predict the relative position of the domains.
Last updated
Last updated in AlphaFold DB version 2022-11-01, created with the AlphaFold Monomer v2.0 pipeline.
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If you make use of an AlphaFold prediction, please cite the following papers: Jumper, J et al. Highly accurate protein structure prediction with AlphaFold. Nature (2021).
Varadi, M et al. AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences. Nucleic Acids Research (2024).
If you use data from AlphaMissense in your work, please cite the following paper: Cheng, J et al. Accurate proteome-wide missense variant effect prediction with AlphaMissense. Science (2023).
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AlphaMissense Copyright (2023) DeepMind Technologies Limited.
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