Vacuolar sorting-associated protein 13, N-terminal; VPS13 is a family of eukaryotic vacuolar ...
182-414
5.79e-94
Vacuolar sorting-associated protein 13, N-terminal; VPS13 is a family of eukaryotic vacuolar sorting-associated 13 proteins that lies just downstream from Chorein_N family, pfam12624. The exact function of this domain is not known.
:
Pssm-ID: 465309 Cd Length: 234 Bit Score: 304.57 E-value: 5.79e-94
Vacuolar-sorting-associated 13 protein C-terminal; VPS13_C is a family of eukaryotic vacuolar ...
3318-3495
6.68e-76
Vacuolar-sorting-associated 13 protein C-terminal; VPS13_C is a family of eukaryotic vacuolar sorting-associated 13 proteins that lies at the C-terminus of the members, The exact function of this domain is not known.
:
Pssm-ID: 465310 [Multi-domain] Cd Length: 175 Bit Score: 250.15 E-value: 6.68e-76
SHR-binding domain of vacuolar-sorting associated protein 13; SHR-BD is a family of eukaryotic ...
2759-3013
1.98e-20
SHR-binding domain of vacuolar-sorting associated protein 13; SHR-BD is a family of eukaryotic proteins found on vacuolar-sorting associated proteins towards the C-terminus. In plants, the domain is found to be the region which interacts with SHR or the SHORT-ROOT transcription factor, a regulator of root-growth and asymmetric cell division that separates ground tissue into endodermis and cortex. The plant protein containing the SHR-BD is named SHRUBBY or SHBY, UniProtKB:Q9FT44.
The actual alignment was detected with superfamily member pfam06650:
Pssm-ID: 461974 [Multi-domain] Cd Length: 275 Bit Score: 94.29 E-value: 1.98e-20
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic ...
1687-1879
5.88e-08
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic vacuolar sorting-associated 13 proteins. This repeating region shares a common core element that includes a well-conserved P-x4-P-x13-17-G sequence. The exact function of this repeat is not known.
The actual alignment was detected with superfamily member pfam16910:
Pssm-ID: 465311 [Multi-domain] Cd Length: 236 Bit Score: 56.37 E-value: 5.88e-08
Vacuolar sorting-associated protein 13, N-terminal; VPS13 is a family of eukaryotic vacuolar ...
182-414
5.79e-94
Vacuolar sorting-associated protein 13, N-terminal; VPS13 is a family of eukaryotic vacuolar sorting-associated 13 proteins that lies just downstream from Chorein_N family, pfam12624. The exact function of this domain is not known.
Pssm-ID: 465309 Cd Length: 234 Bit Score: 304.57 E-value: 5.79e-94
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic ...
611-832
6.62e-81
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic vacuolar sorting-associated 13 proteins. This repeating region shares a common core element that includes a well-conserved P-x4-P-x13-17-G sequence. The exact function of this repeat is not known.
Pssm-ID: 465311 [Multi-domain] Cd Length: 236 Bit Score: 267.08 E-value: 6.62e-81
Vacuolar-sorting-associated 13 protein C-terminal; VPS13_C is a family of eukaryotic vacuolar ...
3318-3495
6.68e-76
Vacuolar-sorting-associated 13 protein C-terminal; VPS13_C is a family of eukaryotic vacuolar sorting-associated 13 proteins that lies at the C-terminus of the members, The exact function of this domain is not known.
Pssm-ID: 465310 [Multi-domain] Cd Length: 175 Bit Score: 250.15 E-value: 6.68e-76
SHR-binding domain of vacuolar-sorting associated protein 13; SHR-BD is a family of eukaryotic ...
2759-3013
1.98e-20
SHR-binding domain of vacuolar-sorting associated protein 13; SHR-BD is a family of eukaryotic proteins found on vacuolar-sorting associated proteins towards the C-terminus. In plants, the domain is found to be the region which interacts with SHR or the SHORT-ROOT transcription factor, a regulator of root-growth and asymmetric cell division that separates ground tissue into endodermis and cortex. The plant protein containing the SHR-BD is named SHRUBBY or SHBY, UniProtKB:Q9FT44.
Pssm-ID: 461974 [Multi-domain] Cd Length: 275 Bit Score: 94.29 E-value: 1.98e-20
Autophagy-related protein C terminal domain; ATG2 (also known as Apg2) is a peripheral ...
3504-3577
7.08e-11
Autophagy-related protein C terminal domain; ATG2 (also known as Apg2) is a peripheral membrane protein. It functions in both cytoplasm-to-vacuole targeting and in autophagy.
Pssm-ID: 462761 [Multi-domain] Cd Length: 96 Bit Score: 61.37 E-value: 7.08e-11
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic ...
1687-1879
5.88e-08
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic vacuolar sorting-associated 13 proteins. This repeating region shares a common core element that includes a well-conserved P-x4-P-x13-17-G sequence. The exact function of this repeat is not known.
Pssm-ID: 465311 [Multi-domain] Cd Length: 236 Bit Score: 56.37 E-value: 5.88e-08
Vacuolar sorting-associated protein 13, N-terminal; VPS13 is a family of eukaryotic vacuolar ...
182-414
5.79e-94
Vacuolar sorting-associated protein 13, N-terminal; VPS13 is a family of eukaryotic vacuolar sorting-associated 13 proteins that lies just downstream from Chorein_N family, pfam12624. The exact function of this domain is not known.
Pssm-ID: 465309 Cd Length: 234 Bit Score: 304.57 E-value: 5.79e-94
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic ...
611-832
6.62e-81
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic vacuolar sorting-associated 13 proteins. This repeating region shares a common core element that includes a well-conserved P-x4-P-x13-17-G sequence. The exact function of this repeat is not known.
Pssm-ID: 465311 [Multi-domain] Cd Length: 236 Bit Score: 267.08 E-value: 6.62e-81
Vacuolar-sorting-associated 13 protein C-terminal; VPS13_C is a family of eukaryotic vacuolar ...
3318-3495
6.68e-76
Vacuolar-sorting-associated 13 protein C-terminal; VPS13_C is a family of eukaryotic vacuolar sorting-associated 13 proteins that lies at the C-terminus of the members, The exact function of this domain is not known.
Pssm-ID: 465310 [Multi-domain] Cd Length: 175 Bit Score: 250.15 E-value: 6.68e-76
N-terminal region of Chorein or VPS13; Although mutations in the full-length vacuolar protein ...
3-115
2.14e-43
N-terminal region of Chorein or VPS13; Although mutations in the full-length vacuolar protein sorting 13A (VPS13A) protein in vertebrates lead to the disease of chorea-acanthocytosis, the exact function of any of the regions within the protein is not yet known. This region is the proposed leucine zipper at the N-terminus. The full-length protein is a transmembrane protein with a presumed role in vesicle-mediated sorting and intracellular protein transport.
Pssm-ID: 463646 Cd Length: 116 Bit Score: 154.65 E-value: 2.14e-43
SHR-binding domain of vacuolar-sorting associated protein 13; SHR-BD is a family of eukaryotic ...
2759-3013
1.98e-20
SHR-binding domain of vacuolar-sorting associated protein 13; SHR-BD is a family of eukaryotic proteins found on vacuolar-sorting associated proteins towards the C-terminus. In plants, the domain is found to be the region which interacts with SHR or the SHORT-ROOT transcription factor, a regulator of root-growth and asymmetric cell division that separates ground tissue into endodermis and cortex. The plant protein containing the SHR-BD is named SHRUBBY or SHBY, UniProtKB:Q9FT44.
Pssm-ID: 461974 [Multi-domain] Cd Length: 275 Bit Score: 94.29 E-value: 1.98e-20
Autophagy-related protein C terminal domain; ATG2 (also known as Apg2) is a peripheral ...
3504-3577
7.08e-11
Autophagy-related protein C terminal domain; ATG2 (also known as Apg2) is a peripheral membrane protein. It functions in both cytoplasm-to-vacuole targeting and in autophagy.
Pssm-ID: 462761 [Multi-domain] Cd Length: 96 Bit Score: 61.37 E-value: 7.08e-11
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic ...
1687-1879
5.88e-08
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic vacuolar sorting-associated 13 proteins. This repeating region shares a common core element that includes a well-conserved P-x4-P-x13-17-G sequence. The exact function of this repeat is not known.
Pssm-ID: 465311 [Multi-domain] Cd Length: 236 Bit Score: 56.37 E-value: 5.88e-08
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic ...
1236-1365
2.10e-04
Repeating coiled region of VPS13; This repeat is a family of repeating regions of eukaryotic vacuolar sorting-associated 13 proteins. This repeating region shares a common core element that includes a well-conserved P-x4-P-x13-17-G sequence. The exact function of this repeat is not known.
Pssm-ID: 465311 [Multi-domain] Cd Length: 236 Bit Score: 45.97 E-value: 2.10e-04
Database: CDSEARCH/cdd Low complexity filter: no Composition Based Adjustment: yes E-value threshold: 0.01
References:
Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
of the residues that compose this conserved feature have been mapped to the query sequence.
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of your query sequence and the protein sequences used to curate the domain model,
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The thumbnail image, if present, provides an approximate view of the feature's location in 3 dimensions.
Click on the triangle for interactive 3D structure viewing options.
Functional characterization of the conserved domain architecture found on the query.
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This image shows a graphical summary of conserved domains identified on the query sequence.
The Show Concise/Full Display button at the top of the page can be used to select the desired level of detail: only top scoring hits
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Domains are color coded according to superfamilies
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if a domain or superfamily has been annotated with functional sites (conserved features),
they are mapped to the query sequence and indicated through sets of triangles
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click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.
The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores.
Click on the domain model's accession number to view the multiple sequence alignment of the proteins used to develop the corresponding domain model.
To view your query sequence embedded in that multiple sequence alignment, click on the colored bars in the Graphical Summary portion of the search results page,
or click on the triangles, if present, that represent functional sites (conserved features)
mapped to the query sequence.
Concise Display shows only the best scoring domain model, in each hit category listed below except non-specific hits, for each region on the query sequence.
(labeled illustration) Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence.
(labeled illustration) Full Display shows all domain models, in each hit category below, that meet or exceed the RPS-BLAST threshold for statistical significance.
(labeled illustration) Four types of hits can be shown, as available,
for each region on the query sequence:
specific hits meet or exceed a domain-specific e-value threshold
(illustrated example)
and represent a very high confidence that the query sequence belongs to the same protein family as the sequences use to create the domain model
non-specific hits
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advanced search options)
the domain superfamily to which the specific and non-specific hits belong
multi-domain models that were computationally detected and are likely to contain multiple single domains
Retrieve proteins that contain one or more of the domains present in the query sequence, using the Conserved Domain Architecture Retrieval Tool
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