N-glycan LLO assembly II — ER-lumenal face + glucosylation (to Glc3Man9GlcNAc2-PP-dolichol); ALG3/ALG9/ALG12/ALG6/ALG8/ALG10

After the Man5GlcNAc2-PP-dolichol intermediate is flipped from the cytoplasmic to the lumenal face of the endoplasmic-reticulum membrane (by the RFT1 flippase), the dolichol-linked oligosaccharide (LLO) is completed inside the ER lumen to the mature Glc3Man9GlcNAc2-PP-dolichol donor for protein N-linked glycosylation. Unlike the cytoplasmic-face steps, the lumenal glycosyltransferases use lipid-linked donors: dolichyl-phosphate-mannose (Dol-P-Man) for the mannose additions and dolichyl-phosphate-glucose (Dol-P-Glc) for the glucose additions. Four mannoses are added: ALG3 (alpha-1,3) adds the sixth mannose, ALG9 (alpha-1,2) adds the seventh and, later, the ninth mannose, and ALG12 (alpha-1,6) adds the eighth, giving Man9GlcNAc2-PP-dolichol. Three glucoses then cap the glycan: ALG6 (alpha-1,3) adds the first glucose, ALG8 (alpha-1,3) the second, and ALG10 (alpha-1,2) the third and terminal glucose, producing the mature Glc3Man9GlcNAc2-PP-dolichol. The terminal glucose is the recognition signal for efficient transfer of the glycan to nascent proteins by the oligosaccharyltransferase (and, after transfer, for glucosidase trimming and calnexin/calreticulin quality control). Inherited defects in each step cause a congenital disorder of glycosylation (CDG type I): ALG3-CDG (CDG-Id), ALG9-CDG (CDG-Il / Gillessen-Kaesbach-Nishimura syndrome), ALG12-CDG (CDG-Ig), ALG6-CDG (CDG-Ic, one of the commonest CDG-I subtypes) and ALG8-CDG (CDG-Ih).

MODULE:n_glycan_llo_assembly_lumenalDRAFTMetabolic Pathwaymodules/n_glycan_llo_assembly_lumenal.yaml
dolichol-linked oligosaccharide biosynthetic processGO:0006488 protein N-linked glycosylationGO:0006487
GO:0006488
dolichol-linked oligosaccharide biosynthetic process
The module is grounded in dolichol-linked oligosaccharide biosynthetic process (GO:0006488); it covers the lumenal-face completion of the LLO to Glc3Man9GlcNAc2-PP-dolichol.
GO:0006487
protein N-linked glycosylation
The mature glucosylated LLO is the donor for protein N-linked glycosylation (GO:0006487); each enzyme's loss reduces N-glycan occupancy (CDG type I).
Reactome:R-HSA-446193
Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein
Step order, intermediates and reaction stoichiometries follow the human Reactome LLO biosynthesis sub-pathway (R-HSA-446188/446215/446198/446216/446202/446189 for the lumenal steps).
file:human/ALG3/ALG3-ai-review.yaml
ALG3 gene review (human)
The first lumenal mannose (6th, alpha-1,3) step (UniProtKB:Q92685, GO:0052925) matches the completed human ALG3 review.
file:human/ALG9/ALG9-ai-review.yaml
ALG9 gene review (human)
The 7th- and 9th-mannose (alpha-1,2) steps (UniProtKB:Q9H6U8, GO:0052926/GO:0052918) match the completed human ALG9 review.
file:human/ALG12/ALG12-ai-review.yaml
ALG12 gene review (human)
The 8th-mannose (alpha-1,6) step (UniProtKB:Q9BV10, GO:0052917) matches the completed human ALG12 review.
file:human/ALG6/ALG6-ai-review.yaml
ALG6 gene review (human)
The first-glucose (alpha-1,3) step (UniProtKB:Q9Y672, GO:0042281) matches the completed human ALG6 review.
file:human/ALG8/ALG8-ai-review.yaml
ALG8 gene review (human)
The second-glucose (alpha-1,3) step (UniProtKB:Q9BVK2, GO:0042283) matches the completed human ALG8 review.
file:human/ALG10/ALG10-ai-review.yaml
ALG10 gene review (human)
The third/terminal-glucose (alpha-1,2) step (UniProtKB:Q5BKT4, GO:0106073) matches the completed human ALG10 review.
8Nodes
7Parts
0Variant Sets
0Variants
7Annotons
6Connections

Derived QC

Recommended-field compliance

100.0% recommended fields populated

All recommended fields populated.

Module deep research

✗ none found

No MODULE:n_glycan_llo_assembly_lumenal deep-research report alongside the module YAML.

Leaf nodes lacking representative members

every leaf node grounds to a representative protein.

Template conformance

every declared conforms_to bundle matches its template motif.

Gene-review completeness (6/6 grounded genes reviewed)

6 complete review(s) · 0 with deep research · 0 missing review · 6 reviewed but lacking deep research

Gene Review Complete Deep research
ALG10 Q5BKT4
ALG12 Q9BV10
ALG3 Q92685
ALG6 Q9Y672
ALG8 Q9BVK2
ALG9 Q9H6U8

Details

Context
lumenal side of endoplasmic reticulum membraneGO:0098553 endoplasmic reticulum membraneGO:0005789
N-glycan LLO assembly, lumenal face + glucosylation (to Glc3Man9GlcNAc2-PP-dolichol)Metabolic Pathwayn_glycan_llo_assembly_lumenal
dolichol-linked oligosaccharide biosynthetic processGO:0006488 protein N-linked glycosylationGO:0006487
Context
lumenal side of endoplasmic reticulum membraneGO:0098553 endoplasmic reticulum membraneGO:0005789

Lumenal-face + glucosylation segment of dolichol-linked oligosaccharide (LLO) assembly, grounded to the human enzymes ALG3 (UniProtKB:Q92685, GO:0052925, EC 2.4.1.258), ALG9 (Q9H6U8, GO:0052926 + GO:0052918, EC 2.4.1.259/261), ALG12 (Q9BV10, GO:0052917, EC 2.4.1.260), ALG6 (Q9Y672, GO:0042281, EC 2.4.1.267), ALG8 (Q9BVK2, GO:0042283, EC 2.4.1.265) and ALG10 (Q5BKT4, GO:0106073, EC 2.4.1.256). GO molecular-function/location terms were taken from the completed human gene reviews and verified against the local go.db; Reactome reaction ids/titles were verified against the local reactome cache (ALG10 has no cached WT Reactome reaction, so its node is grounded on EC 2.4.1.256 and the umbrella pathway R-HSA-446193). Each step uses a PANTHER family selector with the human enzyme as representative so the module generalises across orthologs/paralogs; ALG9/ALG12 share PTHR22760 and ALG6/ALG8 share PTHR12413. ALG9 appears twice (steps 2 and 4) because it is bifunctional (adds both the 7th and 9th mannoses). All lumenal steps use lipid-linked donors — Dol-P-Man for mannoses, Dol-P-Glc for glucoses — supplied by the dolichol/sugar-donor module (DOLK, SRD5A3, DPM1/2/3, MPDU1, ALG5; to follow). Upstream is the cytoplasmic-face module (DPAGT1/ALG13/ALG14/ALG1/ALG2/ALG11 -> Man5GlcNAc2-PP-Dol, flipped by RFT1); downstream the mature Glc3Man9GlcNAc2-PP-Dol is transferred to protein by the oligosaccharyltransferase. Disorders: each step's loss is a CDG type I (ALG3-, ALG9-, ALG12-, ALG6-, ALG8-CDG; ALG6-CDG/CDG-Ic is one of the commonest).

Connections

alg3_step -> alg9_step7 Provides Input For
Man6GlcNAc2-PP-dolichol from ALG3 receives the 7th mannose from ALG9.
alg9_step7 -> alg12_step Provides Input For
Man7GlcNAc2-PP-dolichol receives the 8th mannose from ALG12.
alg12_step -> alg9_step9 Provides Input For
Man8GlcNAc2-PP-dolichol receives the 9th mannose from ALG9, completing Man9.
alg9_step9 -> alg6_step Provides Input For
Man9GlcNAc2-PP-dolichol receives the first glucose from ALG6.
alg6_step -> alg8_step Provides Input For
Glc1Man9GlcNAc2-PP-dolichol receives the second glucose from ALG8.
alg8_step -> alg10_step Provides Input For
Glc2Man9GlcNAc2-PP-dolichol receives the terminal glucose from ALG10, giving the mature LLO.
Part 1: 6th mannose (alpha-1,3), first lumenal step
Man5GlcNAc2-PP-dolichol to Man6GlcNAc2-PP-dolicholReactionalg3_step

Annotons

ALG3: Dol-P-Man alpha-1,3-mannosyltransferase
alg3_activity
Participant: Family: ALG3 mannosyltransferase family
Family:
ALG3 mannosyltransferase familyPANTHER:PTHR12646
Representative Members: ALG3 (human)UniProtKB:Q92685

Function

dol-P-Man:Man(5)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase activityGO:0052925
Substrates: dolichyl-phosphate-mannose (Dol-P-Man) Man5GlcNAc2-PP-dolichol
Products: Man6GlcNAc2-PP-dolichol dolichyl phosphate

Locations

endoplasmic reticulum membraneGO:0005789

First lumenal mannose; deficiency = ALG3-CDG (CDG-Id).

Part 2: 7th mannose (alpha-1,2)
Man6GlcNAc2-PP-dolichol to Man7GlcNAc2-PP-dolicholReactionalg9_step7

Annotons

ALG9: Dol-P-Man alpha-1,2-mannosyltransferase (7th Man)
alg9_activity_m7
Participant: Family: ALG9/ALG12 Dol-P-Man mannosyltransferase family
Family:
ALG9/ALG12 Dol-P-Man mannosyltransferase familyPANTHER:PTHR22760
Representative Members: ALG9 (human)UniProtKB:Q9H6U8

Function

dol-P-Man:Man(6)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase activityGO:0052926
Substrates: dolichyl-phosphate-mannose (Dol-P-Man) Man6GlcNAc2-PP-dolichol
Products: Man7GlcNAc2-PP-dolichol dolichyl phosphate

Locations

endoplasmic reticulum membraneGO:0005789

7th mannose; ALG9 is bifunctional and later adds the 9th mannose. Deficiency = ALG9-CDG (CDG-Il) / Gillessen-Kaesbach-Nishimura syndrome.

Part 3: 8th mannose (alpha-1,6)
Man7GlcNAc2-PP-dolichol to Man8GlcNAc2-PP-dolicholReactionalg12_step

Annotons

ALG12: Dol-P-Man alpha-1,6-mannosyltransferase
alg12_activity
Participant: Family: ALG9/ALG12 Dol-P-Man mannosyltransferase family
Family:
ALG9/ALG12 Dol-P-Man mannosyltransferase familyPANTHER:PTHR22760
Representative Members: ALG12 (human)UniProtKB:Q9BV10

Function

dol-P-Man:Man(7)GlcNAc(2)-PP-Dol alpha-1,6-mannosyltransferase activityGO:0052917
Substrates: dolichyl-phosphate-mannose (Dol-P-Man) Man7GlcNAc2-PP-dolichol
Products: Man8GlcNAc2-PP-dolichol dolichyl phosphate

Locations

endoplasmic reticulum membraneGO:0005789

8th mannose; deficiency = ALG12-CDG (CDG-Ig).

Part 4: 9th mannose (alpha-1,2) — completes Man9
Man8GlcNAc2-PP-dolichol to Man9GlcNAc2-PP-dolicholReactionalg9_step9

Annotons

ALG9: Dol-P-Man alpha-1,2-mannosyltransferase (9th Man)
alg9_activity_m9
Participant: Family: ALG9/ALG12 Dol-P-Man mannosyltransferase family
Family:
ALG9/ALG12 Dol-P-Man mannosyltransferase familyPANTHER:PTHR22760
Representative Members: ALG9 (human)UniProtKB:Q9H6U8

Function

dol-P-Man:Man(8)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase activityGO:0052918
Substrates: dolichyl-phosphate-mannose (Dol-P-Man) Man8GlcNAc2-PP-dolichol
Products: Man9GlcNAc2-PP-dolichol dolichyl phosphate

Locations

endoplasmic reticulum membraneGO:0005789

9th mannose (same enzyme as step 2), completing the Man9 core.

Part 5: 1st glucose (alpha-1,3)
Man9GlcNAc2-PP-dolichol to Glc1Man9GlcNAc2-PP-dolicholReactionalg6_step

Annotons

ALG6: Dol-P-Glc alpha-1,3-glucosyltransferase
alg6_activity
Participant: Family: ALG6/ALG8 Dol-P-Glc glucosyltransferase family
Family:
ALG6/ALG8 Dol-P-Glc glucosyltransferase familyPANTHER:PTHR12413
Representative Members: ALG6 (human)UniProtKB:Q9Y672

Function

dolichyl pyrophosphate Man9GlcNAc2 alpha-1,3-glucosyltransferase activityGO:0042281
Substrates: dolichyl-phosphate-glucose (Dol-P-Glc) Man9GlcNAc2-PP-dolichol
Products: Glc1Man9GlcNAc2-PP-dolichol dolichyl phosphate

Locations

endoplasmic reticulum membraneGO:0005789

First glucose; deficiency = ALG6-CDG (CDG-Ic, a common CDG-I subtype).

Part 6: 2nd glucose (alpha-1,3)
Glc1Man9GlcNAc2-PP-dolichol to Glc2Man9GlcNAc2-PP-dolicholReactionalg8_step

Annotons

ALG8: Dol-P-Glc alpha-1,3-glucosyltransferase
alg8_activity
Participant: Family: ALG6/ALG8 Dol-P-Glc glucosyltransferase family
Family:
ALG6/ALG8 Dol-P-Glc glucosyltransferase familyPANTHER:PTHR12413
Representative Members: ALG8 (human)UniProtKB:Q9BVK2

Function

dolichyl pyrophosphate Glc1Man9GlcNAc2 alpha-1,3-glucosyltransferase activityGO:0042283
Substrates: dolichyl-phosphate-glucose (Dol-P-Glc) Glc1Man9GlcNAc2-PP-dolichol
Products: Glc2Man9GlcNAc2-PP-dolichol dolichyl phosphate

Locations

lumenal side of endoplasmic reticulum membraneGO:0098553

Second glucose; deficiency = ALG8-CDG (CDG-Ih).

Part 7: 3rd/terminal glucose (alpha-1,2) — mature LLO
Glc2Man9GlcNAc2-PP-dolichol to Glc3Man9GlcNAc2-PP-dolichol (mature LLO)Reactionalg10_step

Annotons

ALG10: Dol-P-Glc alpha-1,2-glucosyltransferase
alg10_activity
Participant: Family: ALG10 Dol-P-Glc alpha-1,2-glucosyltransferase family
Family:
ALG10 Dol-P-Glc alpha-1,2-glucosyltransferase familyPANTHER:PTHR12989
Representative Members: ALG10 (human)UniProtKB:Q5BKT4

Function

dolichyl pyrophosphate Glc2Man9GlcNAc2 alpha-1,2-glucosyltransferase activityGO:0106073
Substrates: dolichyl-phosphate-glucose (Dol-P-Glc) Glc2Man9GlcNAc2-PP-dolichol
Products: Glc3Man9GlcNAc2-PP-dolichol (mature LLO) dolichyl phosphate

Locations

endoplasmic reticulum membraneGO:0005789

Terminal glucose completing Glc3Man9GlcNAc2-PP-dolichol, the mature LLO transferred to protein by the oligosaccharyltransferase.