EMC3 (ER membrane protein complex subunit 3; also TMEM111) is a 261-residue polytopic ER membrane protein with three transmembrane helices and a lumenal N-terminus, and is the catalytic insertase subunit of the ER membrane protein complex (EMC), a conserved nine- to ten-subunit transmembrane-domain insertase and membrane-protein chaperone of the endoplasmic reticulum. EMC3 belongs to the Oxa1/YidC/Get1 insertase superfamily and is a distant homolog of the tail-anchored-protein insertase Get1; together with the small subunit EMC6 it forms the membrane-embedded hydrophilic vestibule through which substrate transmembrane domains are inserted. A methionine-rich cytosolic loop of EMC3 is required for substrate engagement, and structure-guided mutations of EMC3 residues lining the vestibule (e.g. Arg-31, the Met-rich loop, Arg-180) reduce client insertion without disrupting complex assembly, demonstrating that EMC3 provides the substrate-conducting active site. As part of the EMC, EMC3 enables the energy-independent insertion of newly synthesized membrane proteins into the ER membrane, with a preference for transmembrane domains that are weakly hydrophobic or carry destabilizing charged or aromatic residues. It mediates post-translational insertion of tail-anchored proteins and cotranslational insertion and N-exo topogenesis of multipass membrane proteins, including the first transmembrane domain of G protein-coupled receptors, in cooperation with the Sec61 translocon. EMC3 is broadly expressed and resides in the ER membrane.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0032977 membrane insertase activity | IBA GO_REF:0000033 | ACCEPT | Summary: Phylogenetic (PAN-GO) assignment of membrane insertase activity across the EMC3/Oxa1-YidC family. EMC3 forms the substrate-conducting catalytic vestibule of the EMC with EMC6, so membrane insertase activity is the core molecular function; the contributes_to qualifier reflects that EMC3 acts within the multi-subunit complex. Reason: Core molecular function; EMC3 is the catalytic insertase subunit (YidC/Oxa1/Get1 superfamily) and provides the membrane vestibule, with mutagenesis separating its insertion role from complex assembly. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt No effect on EMC assembly but decreased |
| GO:0071816 tail-anchored membrane protein insertion into ER membrane | IBA GO_REF:0000033 | ACCEPT | Summary: Phylogenetic propagation of the EMC's tail-anchored protein insertion role across the EMC3 family, consistent with direct experimental and structural evidence. Core EMC process executed at the EMC3/EMC6 vestibule. Reason: Core EMC-mediated process; the EMC post-translationally inserts tail-anchored proteins through the EMC3-containing vestibule. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt post-translational insertion of tail-anchored/TA proteins in |
| GO:0072546 EMC complex | IBA GO_REF:0000033 | ACCEPT | Summary: Phylogenetic assignment of EMC complex membership across the EMC3 family, matching direct experimental and structural evidence. Core structural identity of EMC3. Reason: EMC complex membership is a core cellular-component identity of EMC3 and is supported by IDA, cryo-EM structures, and the conserved EMC3 family. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Component of the ER membrane protein complex (EMC). |
| GO:0005789 endoplasmic reticulum membrane | IEA GO_REF:0000044 | ACCEPT | Summary: Electronic transfer of the ER membrane subcellular location from UniProt; the correct and core compartment for the multipass ER membrane subunit EMC3. Reason: Correct core location; redundant with experimental EXP/IDA evidence. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt SUBCELLULAR LOCATION: Endoplasmic reticulum membrane |
| GO:0016020 membrane | IEA GO_REF:0000002 | KEEP AS NON CORE | Summary: InterPro-based generic membrane assignment, a parent of the specific ER membrane localization. Reason: Correct but generic; the specific ER membrane term captures the informative localization. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Multi-pass membrane protein |
| GO:0005515 protein binding | IPI PMID:26496610 A human interactome in three quantitative dimensions organiz... | KEEP AS NON CORE | Summary: Quantitative interactome capture of EMC3 with the EMC cytosolic scaffold EMC2 (Q15006). A bona fide intra-complex partnership, but bare protein binding is uninformative. Reason: Genuine EMC subunit interaction (EMC2); bare protein binding is uninformative and not core. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Q9P0I2; Q15006: EMC2 |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: High-throughput binary (HuRI) interactome capture of EMC3 with a non-EMC partner (Q13126). Bare protein binding is uninformative and the partner is most plausibly an incidental high-throughput hit or a membrane-protein client. Reason: High-throughput binary interaction; bare protein binding is uninformative and not core. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Component of the ER membrane protein complex (EMC). |
| GO:0005515 protein binding | IPI PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... | KEEP AS NON CORE | Summary: BioPlex affinity-MS interactome capture of EMC3 with the EMC scaffold EMC2 (Q15006). Genuine EMC partner but bare protein binding is uninformative. Reason: Genuine EMC subunit interaction (EMC2); bare protein binding is uninformative and not core. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Q9P0I2; Q15006: EMC2 |
| GO:0005515 protein binding | IPI PMID:35271311 OpenCell: Endogenous tagging for the cartography of human ce... | KEEP AS NON CORE | Summary: OpenCell endogenous-tagging interactome capture of EMC3 with the EMC scaffold EMC2 (Q15006). Genuine EMC partner but bare protein binding is uninformative. Reason: Genuine EMC subunit interaction (EMC2); bare protein binding is uninformative and not core. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Q9P0I2; Q15006: EMC2 |
| GO:0005515 protein binding | IPI PMID:40205054 Multimodal cell maps as a foundation for structural and func... | KEEP AS NON CORE | Summary: Multimodal cell-map interactome capture of EMC3 with the EMC scaffold EMC2 (Q15006). Genuine EMC partner but bare protein binding is uninformative. Reason: Genuine EMC subunit interaction (EMC2); bare protein binding is uninformative and not core. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Q9P0I2; Q15006: EMC2 |
| GO:0005789 endoplasmic reticulum membrane | EXP PMID:22119785 Defining human ERAD networks through an integrative mapping ... | ACCEPT | Summary: Experimental ER membrane localization from the foundational ERAD-network mapping study that first identified the EMC. Core compartment. Reason: Experimentally supported core location. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt SUBCELLULAR LOCATION: Endoplasmic reticulum membrane |
| GO:0005789 endoplasmic reticulum membrane | NAS PMID:29242231 The ER membrane protein complex is a transmembrane domain in... | ACCEPT | Summary: ComplexPortal NAS annotation of ER membrane localization for the EMC, consistent with the experimental evidence and core compartment of EMC3. Reason: Correct core location; consistent with EXP/IDA evidence. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt SUBCELLULAR LOCATION: Endoplasmic reticulum membrane |
| GO:0045050 protein insertion into ER membrane by stop-transfer membrane-anchor sequence | IDA PMID:29242231 The ER membrane protein complex is a transmembrane domain in... | ACCEPT | Summary: The EMC inserts transmembrane domains, including stop-transfer membrane-anchor sequences of multipass clients; EMC3 forms the insertase vestibule. Core EMC process. Reason: Core EMC-mediated process; EMC3 provides the substrate-conducting active site of the insertase. Supporting Evidence: PMID:29242231 transmembrane domain insertase |
| GO:0071816 tail-anchored membrane protein insertion into ER membrane | IDA PMID:29242231 The ER membrane protein complex is a transmembrane domain in... | ACCEPT | Summary: The EMC mediates post-translational insertion of tail-anchored proteins with moderately hydrophobic TMDs, demonstrated directly in this study; insertion occurs at the EMC3/EMC6 vestibule. Core EMC process. Reason: Core EMC-mediated process; directly demonstrated, executed at the EMC3-containing vestibule. Supporting Evidence: PMID:29242231 tail-anchored membrane proteins with moderately hydrophobic transmembrane |
| GO:0072546 EMC complex | IPI PMID:32439656 Structural basis for membrane insertion by the human ER memb... | ACCEPT | Summary: ComplexPortal IPI assignment of EMC complex membership based on the cryo-EM structure of the human EMC, which places EMC3 at the catalytic insertion vestibule. Core structural identity. Reason: Structurally demonstrated core EMC membership. Supporting Evidence: PMID:32439656 formed by the subunits EMC3 and EMC6 |
| GO:0032977 membrane insertase activity | IMP PMID:29809151 The ER membrane protein complex interacts cotranslationally ... | ACCEPT | Summary: IMP evidence (cotranslational multipass biogenesis study) that the EMC has membrane insertase activity; EMC3 provides the catalytic vestibule. Core MF. Reason: Core MF; EMC3 is the catalytic insertase subunit, with activity separable from assembly by mutagenesis. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt No effect on EMC assembly but decreased |
| GO:0032977 membrane insertase activity | IMP PMID:30415835 EMC Is Required to Initiate Accurate Membrane Protein Topoge... | ACCEPT | Summary: IMP evidence (topogenesis study) supporting the EMC's membrane insertase activity; EMC3 forms the substrate-conducting vestibule. Core MF. Reason: Core MF; EMC3 provides the catalytic insertase active site. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt No effect on EMC assembly but decreased |
| GO:0045050 protein insertion into ER membrane by stop-transfer membrane-anchor sequence | IMP PMID:29809151 The ER membrane protein complex interacts cotranslationally ... | ACCEPT | Summary: The EMC is required for cotranslational insertion of multipass proteins in which stop-transfer membrane-anchor sequences become membrane-spanning helices; EMC3 is the catalytic subunit. Core EMC process. Reason: Core EMC-mediated process; supported by IMP of EMC subunits. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt stop-transfer membrane-anchor sequences become ER membrane spanning |
| GO:0005789 endoplasmic reticulum membrane | IDA PMID:32439656 Structural basis for membrane insertion by the human ER memb... | ACCEPT | Summary: Direct (cryo-EM structural) evidence placing EMC3 in the ER membrane as a multipass subunit at the insertase vestibule. Core compartment. Reason: Experimentally supported core location. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt SUBCELLULAR LOCATION: Endoplasmic reticulum membrane |
| GO:0045050 protein insertion into ER membrane by stop-transfer membrane-anchor sequence | IMP PMID:30415835 EMC Is Required to Initiate Accurate Membrane Protein Topoge... | ACCEPT | Summary: IMP evidence (topogenesis study) that the EMC inserts stop-transfer membrane-anchor sequences and sets the N-exo topology of multipass clients such as GPCRs; EMC3 is the catalytic subunit. Core EMC process. Reason: Core EMC-mediated process. Supporting Evidence: PMID:30415835 G protein-coupled receptors |
| GO:0016020 membrane | IDA PMID:22119785 Defining human ERAD networks through an integrative mapping ... | KEEP AS NON CORE | Summary: Direct generic membrane localization from the EMC-discovery study; a parent of the specific ER membrane term. Reason: Correct but generic; the ER membrane term captures the informative localization. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt SUBCELLULAR LOCATION: Endoplasmic reticulum membrane |
| GO:0072546 EMC complex | IDA PMID:22119785 Defining human ERAD networks through an integrative mapping ... | ACCEPT | Summary: Direct experimental identification of EMC3 in the EMC by the foundational ERAD-network mapping study. Core structural identity. Reason: Core EMC membership; directly demonstrated. Supporting Evidence: file:human/EMC3/EMC3-uniprot.txt Component of the ER membrane protein complex (EMC). |
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Download this section (compressed HTML)Q: What is the precise reaction trajectory of a substrate transmembrane domain through the EMC3/EMC6 hydrophilic vestibule, and how do the Met-rich cytosolic loop and the vestibule arginines (R31, R180) lower the energetic barrier to insertion?
Q: How does EMC3 discriminate moderately hydrophobic or charge-bearing client TMDs from highly hydrophobic TMDs that are instead handled by the Sec61 translocon?
Experiment: Reconstitute insertion of model tail-anchored and multipass substrates into proteoliposomes containing wild-type versus vestibule-mutant EMC3 (R31A, Met-loop mutants, R180A) to quantify the residue-specific contribution of EMC3 to insertion efficiency independent of complex assembly.
Experiment: Use site-specific crosslinking or time-resolved cryo-EM to capture substrate TMDs engaged at the EMC3/EMC6 vestibule during insertion and define the path of the translocating segment.
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