PANDIT+

KeywordFamilyClanGene   

Entry: DIE2_ALG10 (PF04922) * this family does not contain any human sequence in the seed alignment although some of the annotation data are human specific [read more]

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Very fast search for clan entries. The
search can be done either by clan ID
(e.g. CL0192) or by clan name (e.g. GPCR_A).

Pfam summary

Description

DIE2/ALG10 family

The ALG10 protein from Saccharomyces cerevisiae encodes the alpha-1,2 glucosyltransferase of the endoplasmic reticulum. This protein has been characterised in rat as potassium channel regulator 1 [2].
 
Literature1. Burda P, Aebi M; Glycobiology 1998;8:455-462.The ALG10 locus of Saccharomyces cerevisiae encodes the alpha-1,2 glucosyltransferase of the endoplasmic reticulum: the terminal glucose of the lipid-linked oligosaccharide is required for efficient N-linked glycosylation. PUBMED:9597543
2. Hoshi N, Takahashi H, Shahidullah M, Yokoyama S, Higashida H; J Biol Chem 1998;273:23080-23085.KCR1, a membrane protein that facilitates functional expression of non-inactivating K+ currents associates with rat EAG voltage-dependent K+ channels. PUBMED:9722534
 
Clan

CL0111 (GT-C)

The clan contains the following members: PF03155(Alg6_Alg8); PF04602(Arabinose_trans); PF04922(DIE2_ALG10); PF05208(ALG3); PF04188(DUF409); PF02364(Glucan_synthase); PF05007(Mannosyl_trans); PF01277(Oleosin); PF03901(Glyco_transf_22); PF02366(PMT); PF02516(STT3); PF07220(DUF1420);
 
InterPro entry IPR007006
 

Alignment

New Hampshire tree

The seed alignment for this family in the PANDIT database contains 5 aligned sequences:

  DIE2_YEAST/63-458   O02332_CAEEL/40-393   O88788_RAT/28-428   Q9LZ85_ARATH/22-450   YD26_SCHPO/24-398  

The full alignment for this family in the Pfam database contains 148 aligned sequences

Species in the seed alignment

List of species covered in the seed alignment. The number in brackets denotes the number of sequences taken from each organism.

  Schizosaccharomyces pombe (1);   Rattus norvegicus (1);   Saccharomyces cerevisiae (1);   Arabidopsis thaliana (1);   Caenorhabditis elegans (1);  

The full alignment covers 77 species.

Pre-computed estimates from Markov codon substitution models (explanation)

Following are maximum-likelihood estimates and log-likelihood scores from codon models M0, M1, M2, M7 and M8, implemented in PAML v.4.1

Model name  

Model M0

Model M1

Model M2

Model M7

Model M8

Log-likelihood score  

-5721.70-5682.594814-5682.594814-5643.184432-5642.966777

Tree Length  

38.4238.4247938.4247938.4247938.42479

κ  

1.000.9928910.992890.9337310.924824

ω-ratio  

ω=0.04365p0=0.655065 ~ ω0=0.049411
p1=0.344935 ~ ω1=1
p0=0.655065 ~ ω0=0.049411
p1=0.202902 ~ ω1=1
p2=0.142033 ~ ω2=1
ω~Β(1.033997,12.924772)p0=0.999559 ~ ω~Β(1.018867,9.379283)
p1=0.000441 ~ ω=242.271589

P-value for testing  
positive selection  

M1 vs M2: P-value=1
family classification: conserved
M7 vs M8: P-value=0.804403
family classification: conserved

Maximum-likelihood estimates and log-likelihood scores from codon models Nonsynonymous and Dual implemented in HYPHY

Model name  

Model Nonsynonymous

Model Dual

Log-likelihood score  

-7020.03246-7017.12171

Mean ω-ratio  

ω = 0.23714ω = 0.08926

Coeff. of variation  
of ω-ratio  

CVω = 2.46161CVω = 0.76712
 

Annotations

InteractionsThis family has 0 known interactions:

StructuresThis family has 0 structures:
Notation: PDB_ID (PDB chain, PDB residues)

Gene Ontologies
Cellular component
 integral to membrane[GO:0016021]
Molecular Function
 transferase activity, transferring hexosyl groups[GO:0016758]

KEGG Pathways - for genes coding for sequences from full alignment
Metabolism
Carbohydrate Metabolism
Ascorbate and aldarate metabolism [KEGG]
Starch and sucrose metabolism [KEGG]
Energy Metabolism
Oxidative phosphorylation [KEGG]
Lipid Metabolism
Biosynthesis of steroids [KEGG]
Glycan Biosynthesis and Metabolism
N-Glycan biosynthesis [KEGG]
Peptidoglycan biosynthesis [KEGG]
Glycosylphosphatidylinositol(GPI)-anchor biosynthesis [KEGG]
Metabolism of Cofactors and Vitamins
Porphyrin and chlorophyll metabolism [KEGG]
Genetic Information Processing
Folding, Sorting and Degradation
Protein export [KEGG]
Type II secretion system [KEGG]
Regulation of autophagy [KEGG]
Environmental Information Processing
Membrane Transport
ABC transporters [KEGG]
Phosphotransferase system (PTS) [KEGG]
Signal Transduction
Two-component system [KEGG]
Calcium signaling pathway [KEGG]
Wnt signaling pathway [KEGG]
Signaling Molecules and Interaction
Neuroactive ligand-receptor interaction [KEGG]
Cellular Processes
Cell Motility
Regulation of actin cytoskeleton [KEGG]
Cell Communication
Gap junction [KEGG]
Immune System
Toll-like receptor signaling pathway [KEGG]
Sensory System
Olfactory transduction [KEGG]
Human Diseases
Neurodegenerative Diseases
Alzheimer's disease [KEGG]
 

Expression data (explanation)

 
Bgee expression data - for genes coding for sequences from seed alignment     Click here for overview of Bgee data

none


HumanProteinpedia expression data - for human genes coding for sequences from full alignment     Click here for overview of Human Proteinpedia data

The numbers in brackets correspond to the number of human genes that are associated with the selected family and are expressed in the corresponding tissue. Click on the tissue to see all the families that possibly have function in that tissue and click on the genes to see the corresponding genes.

Healthy tissues
Disease tissues

Human disease association

 
Genetic Association Database - data for human genes coding for sequences from full alignment

The numbers in brackets correspond to the number of genes that are associated with the selected family and are associated with the corresponding disease. Click on the disease name to see all the families possibly associated with that disease and click on the genes to see the corresponding genes.

Associated diseases and disorders

Links to OMIM - for human genes coding for sequences from full alignment
 
602886 (1) 606201 (1) 606167 (1) 607550 (1) 603313 (1) 601872 (1) 610770 (1) 600424 (1)