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SPRY domain-containing protein 7

Reviewed
Reference proteome

AF-Q5W111-F1-v4

DownloadPDB file mmCIF file Predicted aligned error

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Information

Structure viewer
 Very high (pLDDT > 90)
 High (90 > pLDDT > 70)
 Low (70 > pLDDT > 50)
 Very low (pLDDT < 50)
AlphaFold produces a per-residue model confidence score (pLDDT) between 0 and 100. Some regions below 50 pLDDT may be unstructured in isolation.

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SequenceNo structure available
Structure Tools
  • 1:55:12
    Mol* Plugin 4.5.0 [8/22/2024, 2:35:37 PM]
 Very high (pLDDT > 90)
 High (90 > pLDDT > 70)
 Low (70 > pLDDT > 50)
 Very low (pLDDT < 50)
AlphaFold produces a per-residue model confidence score (pLDDT) between 0 and 100. Some regions below 50 pLDDT may be unstructured in isolation.

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Scored residueAligned residue
050100150050100150
  • 0
  • 5
  • 10
  • 15
  • 20
  • 25
  • 30
Expected position error (Ångströms)

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.

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11962040608010012014016018050100150
20406080100120140160180GAVLISTCMDNEQRKHFYWPGAVLISTCMDNEQRKHFYWPAlternative amino acidsResidue sequence number
BenignUncertainPathogenic Reference
Amino acid present in the reference UniProt protein sequence, based on HG38
  • 0.0
  • 0.2
  • 0.3
  • 0.4
  • 0.5
  • 0.6
  • 0.7
  • 0.8
  • 1.0
  • -
Filter by category
0
0.34
0.00.34
0.34
0.56
0.340.564
0.56
1
0.5641
Similar structures Discover similar structures from the Protein Data Bank (PDB) and the AlphaFold Database clustered to 50% sequence identity (AFDB50) using Foldseek.
PDB ID
and chain
DescriptionSpecies Residue
range
E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
Seq.
identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
Res.
(Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
Align
in 3D
Align in 3D
PDB ID and
chain
7ccb_B_1
Description

SPRY domain-containing protein 7

SPRY domain-containing prot...

SPRY domain-containing protein 7
Species

Homo sapiens

Homo sapiens

Residue range

15 - 191Q5W111

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
9.56e-30
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
100%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
1.62
Align in 3D
PDB ID and
chain
7ccb_A_1
Description

SPRY domain-containing protein 7

SPRY domain-containing prot...

SPRY domain-containing protein 7
Species

Homo sapiens

Homo sapiens

Residue range

15 - 191Q5W111

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
1.01e-29
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
100%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
1.62
Align in 3D
PDB ID and
chain
3toj_B_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

370 - 496Q9UBL3

516 - 617Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
6.06e-12
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.2%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.07
Align in 3D
PDB ID and
chain
5f6k_B_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 496Q9UBL3

516 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
8.82e-12
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.4%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.41
Align in 3D
PDB ID and
chain
7bre_A_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 496Q9UBL3

516 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
1.15e-11
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.3%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.80
Align in 3D
PDB ID and
chain
7w67_A_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 496Q9UBL3

516 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
1.68e-11
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.6%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.19
Align in 3D
PDB ID and
chain
4x8n_A_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 495Q9UBL3

539 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
2.32e-11
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.3%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.10
Align in 3D
PDB ID and
chain
7w6l_B_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 496Q9UBL3

516 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
2.44e-11
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
19.4%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.26
Align in 3D
PDB ID and
chain
5f6l_B_2
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 496Q9UBL3

516 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
3.03e-11
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.4%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
1.90
Align in 3D
PDB ID and
chain
4x8p_A_1
Description

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2

Set1/Ash2 histone methyltra...

Set1/Ash2 histone methyltransferase complex subunit ASH2
Species

Homo sapiens

Homo sapiens

Homo sapiens

Homo sapiens

Residue range

380 - 495Q9UBL3

539 - 598Q9UBL3

E-value
Likelihood of a match between
the query and target sequence
in a structural alignment.
The lower the E-value, the more
significant the alignment.
3.56e-11
Seq. identity
Percentage of identical
residues between aligned
sequences over the
aligned length.
20.2%
Resolution (Å)
Resolution. Indicates the level
of detail present in the 3D
structure. Smaller value means
finer details of the structure
and higher quality.
2.20
Items per page:
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AF-Q5W111-F1
Current entry

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Aligned in 3D
Rotate and zoom structures in the 3D
viewer. Structures are aligned using alpha
carbon atoms as reference points. Once
aligned, RMSD values will appear in the
list below; lower values indicate greater
similarity between the two structures.
Toggle structures in both PDB and AFDB tables to view and align them with the entry structure in the 3D viewer. You can also download the aligned coordinates of the toggled structures and the entry structure.
Structure similarity clusterPredicted structures in the AlphaFold Protein Structure Database clustered using MMseqs2 and Foldseek. This data is provided by the AFDB Clusters.

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 DescriptionSpecies
Sequence length
Average pLDDT
AFDB accessionAF-G9L094-F1
Unreviewed
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesMustela putorius furo
Mustela putorius furo
Sequence length 158 Average pLDDT 96.75
AFDB accessionAF-A0A6I9HGU0-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesGeospiza fortis
Geospiza fortis
Sequence length 172 Average pLDDT 96.31
AFDB accessionAF-A0A2D0Q560-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesIctalurus punctatus
Ictalurus punctatus
Sequence length 172 Average pLDDT 96.31
AFDB accessionAF-A0A2I0MSS4-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesColumba livia
Columba livia
Sequence length 172 Average pLDDT 96.31
AFDB accessionAF-A0A6P3H4J1-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesBison bison bison
Bison bison bison
Sequence length 172 Average pLDDT 96.19
AFDB accessionAF-A0A643C5Z0-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesBalaenoptera physalus
Balaenoptera physalus
Sequence length 172 Average pLDDT 96.19
AFDB accessionAF-A0A811YXU9-F1
Unreviewed
Reference proteome
Description (raccoon dog) hypothetical protein
(raccoon dog) hypothetical protein
SpeciesNyctereutes procyonoides
Nyctereutes procyonoides
Sequence length 172 Average pLDDT 96.06
AFDB accessionAF-A0A7L2MGS1-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesRhadina sibilatrix
Rhadina sibilatrix
Sequence length 161 Average pLDDT 95.62
AFDB accessionAF-A0A7L1Q778-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesCisticola juncidis
Cisticola juncidis
Sequence length 161 Average pLDDT 95.62
AFDB accessionAF-A0A7L1VRK4-F1
Unreviewed
Reference proteome
Description SPRY domain-containing protein 7
SPRY domain-containing protein 7
SpeciesSitta europaea
Sitta europaea
Sequence length 161 Average pLDDT 95.62
Items per page:
1 – 10 of 726

Help

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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.

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:

  • We’re confident in the relative position of residue 200
  • We’re not confident in the relative position of residue 600

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.

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.

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).

 


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).

AlphaFold Data Copyright (2022) DeepMind Technologies Limited.
AlphaMissense Copyright (2023) DeepMind Technologies Limited.

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