MTIF2

gene
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Also known as IF-2mt

Summary

MTIF2 (mitochondrial translational initiation factor 2, HGNC:7441) is a protein-coding gene on chromosome 2p16.1, encoding Translation initiation factor IF-2, mitochondrial (P46199). One of the essential components for the initiation of protein synthesis.

During the initiation of protein biosynthesis, initiation factor-2 (IF-2) promotes the binding of the initiator tRNA to the small subunit of the ribosome in a GTP-dependent manner. Prokaryotic IF-2 is a single polypeptide, while eukaryotic cytoplasmic IF-2 (eIF-2) is a trimeric protein. Bovine liver mitochondria contain IF-2(mt), an 85-kD monomeric protein that is equivalent to prokaryotic IF-2. The predicted 727-amino acid human protein contains a 29-amino acid presequence. Human IF-2(mt) shares 32 to 38% amino acid sequence identity with yeast IF-2(mt) and several prokaryotic IF-2s, with the greatest degree of conservation in the G domains of the proteins.

Source: NCBI Gene 4528 — RefSeq curated summary.

At a glance

  • GWAS associations: 1
  • Clinical variants (ClinVar): 129 total — 2 pathogenic
  • MANE Select transcript: NM_002453

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:7441
Approved symbolMTIF2
Namemitochondrial translational initiation factor 2
Location2p16.1
Locus typegene with protein product
StatusApproved
AliasesIF-2mt
Ensembl geneENSG00000085760
Ensembl biotypeprotein_coding
OMIM603766
Entrez4528

Gene structure

Transcript identifiers

Ensembl transcripts: 52 — 50 protein_coding, 2 protein_coding_CDS_not_defined

ENST00000263629, ENST00000366137, ENST00000394600, ENST00000403721, ENST00000404297, ENST00000412530, ENST00000417363, ENST00000417741, ENST00000418823, ENST00000420637, ENST00000441307, ENST00000446660, ENST00000853164, ENST00000853165, ENST00000853166, ENST00000853167, ENST00000853168, ENST00000853169, ENST00000853170, ENST00000853171, ENST00000853172, ENST00000853173, ENST00000853174, ENST00000853175, ENST00000853176, ENST00000853177, ENST00000853178, ENST00000918018, ENST00000918019, ENST00000918020, ENST00000918021, ENST00000918022, ENST00000918023, ENST00000918024, ENST00000918025, ENST00000918026, ENST00000918027, ENST00000918028, ENST00000918029, ENST00000918030, ENST00000918031, ENST00000918032, ENST00000918033, ENST00000956665, ENST00000956666, ENST00000956667, ENST00000956668, ENST00000956669, ENST00000956670, ENST00000956671, ENST00000956672, ENST00000956673

RefSeq mRNA: 7 — MANE Select: NM_002453 NM_001005369, NM_001321001, NM_001321002, NM_001321003, NM_001321004, NM_001321005, NM_002453

CCDS: CCDS1853

Canonical transcript exons

ENST00000263629 — 16 exons

ExonStartEnd
ENSE000007541645525404155254201
ENSE000009326785523728855237428
ENSE000009326805524294055243080
ENSE000009326815524341655243668
ENSE000009326825524402955244233
ENSE000009326835524939555249534
ENSE000009628235524633755246461
ENSE000010358075525247755252653
ENSE000015189745526756955267635
ENSE000015189775526857855268739
ENSE000015189785526916955269231
ENSE000015504015523659555236820
ENSE000035193515526364055263865
ENSE000035824645526231655262427
ENSE000036630295525465455254825
ENSE000037844285524001155240175

Expression profiles

Bgee: expression breadth ubiquitous, 294 present calls, max score 95.88.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 22.1673 / max 315.7795, expressed in 1809 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter IDTPM avgSamples expressed
2845121.13461807
284500.5185281
284520.3245120
284530.189761

Top tissues by expression

295 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
esophagus squamous epitheliumUBERON:000692095.88gold quality
squamous epitheliumUBERON:000691493.77gold quality
biceps brachiiUBERON:000150793.62gold quality
parietal pleuraUBERON:000240093.52gold quality
visceral pleuraUBERON:000240193.46gold quality
germinal epithelium of ovaryUBERON:000130493.45gold quality
colonic epitheliumUBERON:000039793.38gold quality
epithelium of esophagusUBERON:000197693.36gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450293.24gold quality
tibiaUBERON:000097993.22gold quality
heart right ventricleUBERON:000208092.96gold quality
pleuraUBERON:000097792.93gold quality
cervix squamous epitheliumUBERON:000692292.89gold quality
rectumUBERON:000105292.80gold quality
jejunumUBERON:000211592.56gold quality
body of tongueUBERON:001187692.56gold quality
vastus lateralisUBERON:000137992.46gold quality
jejunal mucosaUBERON:000039992.34gold quality
tendonUBERON:000004392.10gold quality
pancreatic ductal cellCL:000207991.97gold quality
superior surface of tongueUBERON:000737191.86gold quality
tongueUBERON:000172391.81gold quality
muscle of legUBERON:000138391.76gold quality
muscle organUBERON:000163091.76gold quality
gastrocnemiusUBERON:000138891.72gold quality
quadriceps femorisUBERON:000137791.69gold quality
calcaneal tendonUBERON:000370191.61gold quality
duodenumUBERON:000211491.60gold quality
skeletal muscle tissueUBERON:000113491.56gold quality
tendon of biceps brachiiUBERON:000818891.52gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes5.61

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NFE2L2

Literature-anchored findings (GeneRIF, showing 2)

  • This study identified a novel GWS association (1.17 x 10(-10)) mapped to chromosome 2 at rs1437396, between MTIF2 and CCDC88A, across all of the EA and AA cohorts. (PMID:24166409)
  • MTIF2 impairs 5 fluorouracil-mediated immunogenic cell death in hepatocellular carcinoma in vivo: Molecular mechanisms and therapeutic significance. (PMID:33129983)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_reriomtif2ENSDARG00000063213
mus_musculusMtif2ENSMUSG00000020459
rattus_norvegicusMtif2ENSRNOG00000004161
drosophila_melanogastermIF2FBGN0039588

Paralogs (18): GTPBP1 (ENSG00000100226), EEF1A2 (ENSG00000101210), GSPT1 (ENSG00000103342), EFTUD2 (ENSG00000108883), HBS1L (ENSG00000112339), EIF2S3 (ENSG00000130741), EEFSEC (ENSG00000132394), EFL1 (ENSG00000140598), GUF1 (ENSG00000151806), EEF1A1 (ENSG00000156508), EIF5B (ENSG00000158417), GFM2 (ENSG00000164347), EEF2 (ENSG00000167658), GFM1 (ENSG00000168827), GTPBP2 (ENSG00000172432), TUFM (ENSG00000178952), EIF2S3B (ENSG00000180574), GSPT2 (ENSG00000189369)

Protein

Protein identifiers

Translation initiation factor IF-2, mitochondrialP46199 (reviewed: P46199)

All UniProt accessions (7): P46199, A0A1D5RMP2, A0A1Y8EJN7, B5MCU1, C9JIY5, E7EW07, H7C213

UniProt curated annotations — full annotation on UniProt →

Function. One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Subunit / interactions. Monomer.

Subcellular location. Mitochondrion.

Tissue specificity. Expressed in all tissues examined. Highest level in skeletal muscle.

Similarity. Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. IF-2 subfamily.

RefSeq proteins (7): NP_001005369, NP_001307930, NP_001307931, NP_001307932, NP_001307933, NP_001307934, NP_002444* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR000178TF_IF2_bacterial-likeFamily
IPR000795T_Tr_GTP-bd_domDomain
IPR005225Small_GTP-bdDomain
IPR009000Transl_B-barrel_sfHomologous_superfamily
IPR015760TIF_IF2Family
IPR023115TIF_IF2_dom3Domain
IPR027417P-loop_NTPaseHomologous_superfamily
IPR036925TIF_IF2_dom3_sfHomologous_superfamily
IPR044145IF2_IIDomain
IPR053905EF-G-like_DIIDomain

Pfam: PF00009, PF11987, PF22042

UniProt features (59 total): strand 27, helix 13, turn 5, region of interest 5, binding site 3, sequence variant 2, transit peptide 1, chain 1, modified residue 1, domain 1

Structure

Experimental structures (PDB)

11 structures.

PDBMethodResolution (Å)
9OJMELECTRON MICROSCOPY2.5
8QRNELECTRON MICROSCOPY2.98
7PO2ELECTRON MICROSCOPY3.09
6GAZELECTRON MICROSCOPY3.1
9HFOELECTRON MICROSCOPY3.1
6RW5ELECTRON MICROSCOPY3.14
6GAWELECTRON MICROSCOPY3.2
6GB2ELECTRON MICROSCOPY3.2
9G5EELECTRON MICROSCOPY3.2
9HFNELECTRON MICROSCOPY3.3
9IGTELECTRON MICROSCOPY5.96

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P46199-F183.660.61

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (3): 288–291; 187–194; 234–237

Post-translational modifications (1): 688

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-5368286Mitochondrial translation initiation

MSigDB gene sets: 168 (showing top): GOBP_CYTOPLASMIC_TRANSLATION, RODRIGUES_THYROID_CARCINOMA_POORLY_DIFFERENTIATED_UP, SWEET_KRAS_ONCOGENIC_SIGNATURE, GOBP_MITOCHONDRIAL_TRANSLATION, GOBP_TRANSLATIONAL_INITIATION, MORF_HDAC2, GOMF_TRANSLATION_INITIATION_FACTOR_ACTIVITY, CAGCTG_AP4_Q5, GOBP_TRANSLATION, WANG_LMO4_TARGETS_DN, GOBP_FORMATION_OF_TRANSLATION_PREINITIATION_COMPLEX, BLALOCK_ALZHEIMERS_DISEASE_UP, BYSTRYKH_HEMATOPOIESIS_STEM_CELL_AND_BRAIN_QTL_CIS, GOBP_CYTOPLASMIC_TRANSLATIONAL_INITIATION, BROWNE_HCMV_INFECTION_14HR_DN

GO Biological Process (6): formation of translation preinitiation complex (GO:0001731), ribosome disassembly (GO:0032790), mitochondrial translational initiation (GO:0070124), translation (GO:0006412), translational initiation (GO:0006413), regulation of translational initiation (GO:0006446)

GO Molecular Function (7): RNA binding (GO:0003723), translation initiation factor activity (GO:0003743), GTPase activity (GO:0003924), GTP binding (GO:0005525), translation factor activity, RNA binding (GO:0008135), ribosomal small subunit binding (GO:0043024), nucleotide binding (GO:0000166)

GO Cellular Component (5): nucleoplasm (GO:0005654), cytoplasm (GO:0005737), mitochondrion (GO:0005739), mitochondrial matrix (GO:0005759), intracellular organelle lumen (GO:0070013)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Mitochondrial translation1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
translational initiation4
mitochondrion2
translation2
translation factor activity2
cellular anatomical structure2
cytoplasmic translational initiation1
protein-RNA complex assembly1
organelle disassembly1
mitochondrial translation1
peptidyltransferase activity1
translational elongation1
translational termination1
macromolecule biosynthetic process1
protein metabolic process1
protein biosynthetic process1
formation of translation initiation ternary complex1
metabolic process1
regulation of translation1
nucleic acid binding1
ribonucleoside triphosphate phosphatase activity1
guanyl ribonucleotide binding1
purine ribonucleoside triphosphate binding1
RNA binding1
ribosome binding1
nucleoside phosphate binding1
heterocyclic compound binding1
nuclear lumen1
intracellular anatomical structure1
cytoplasm1
intracellular membrane-bounded organelle1
intracellular organelle lumen1
intracellular organelle1
organelle lumen1

Protein interactions and networks

STRING

3592 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
MTIF2MTIF3Q9H2K0860
MTIF2MTRF1LQ9UGC7775
MTIF2MTRF1O75570724
MTIF2MRRFQ96E11689
MTIF2RNASELQ05823688
MTIF2MTFMTQ96DP5665
MTIF2ATP5IF1Q9UII2644
MTIF2MALSU1Q96EH3635
MTIF2TSFMP43897625
MTIF2GFM2Q969S9583
MTIF2MRPL58Q14197572
MTIF2TACO1Q9BSH4557
MTIF2C1orf105O95561543
MTIF2ERAL1O75616540
MTIF2MTG2Q9H4K7536

IntAct

132 interactions, top by confidence:

ABTypeScore
NDUFS7NDUFS8psi-mi:“MI:0914”(association)0.640
TRMT61BMTIF2psi-mi:“MI:0914”(association)0.610
BPNT1GTPBP10psi-mi:“MI:0914”(association)0.530
ECSITNDUFS8psi-mi:“MI:0914”(association)0.530
NUDT6DENRpsi-mi:“MI:0914”(association)0.530
MRM3NDUFS6psi-mi:“MI:0914”(association)0.530
TUFMZMYM6psi-mi:“MI:0914”(association)0.530
TSFMCST4psi-mi:“MI:0914”(association)0.530
MTG2HSPD1psi-mi:“MI:0914”(association)0.530
PDHXMTIF2psi-mi:“MI:0914”(association)0.530
DIRAS3MTIF2psi-mi:“MI:0914”(association)0.530
HSD17B8MTIF2psi-mi:“MI:0914”(association)0.530
LDHAL6BMTIF2psi-mi:“MI:0914”(association)0.530
PMPCBpsi-mi:“MI:0914”(association)0.530
YBEYNME4psi-mi:“MI:0914”(association)0.530
ATP5F1DNDUFB5psi-mi:“MI:0914”(association)0.530
NIPSNAP3ACLUHpsi-mi:“MI:0914”(association)0.530
ARHGEF26CPS1psi-mi:“MI:0914”(association)0.530
TUFMMTIF2psi-mi:“MI:0914”(association)0.530

BioGRID (452): MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS), MTIF2 (Affinity Capture-MS)

ESM2 similar proteins: A4FUD1, A8N2M6, B0S6U7, B2B2C5, B5X2B8, B9FI63, E7FCP8, J9VS37, K7UTH7, O43824, O82626, O82653, O95831, P06625, P08240, P0CM18, P11637, P46198, P46199, Q09523, Q1K8F6, Q2KHZ2, Q3MHE8, Q3T0J9, Q4PB75, Q4V8H8, Q5NBJ3, Q5R6Y0, Q66GP9, Q69ZS7, Q6AXM7, Q6CEE1, Q6DCC6, Q6YPG5, Q7Z2Z2, Q8BH64, Q8C0D5, Q8C7H1, Q8JIF5, Q8MT06

Diamond homologs: A0B8Q6, A1RUX2, A1RXH6, A1WSZ8, A2BJZ8, A2STM8, A3CSP4, A3DMS0, A3MTU7, A4FZQ3, A4WIK2, A4YCQ5, A5IRJ6, A5UJM9, A6QFN0, A6U0C5, A6URS1, A6UVG0, A6VIS4, A7IAP7, A8A8D3, A8AUR6, A8MBV9, A8Z0C4, A9A813, B0R6U5, B1I8Z9, B1XV89, B1YCQ7, B2GUV7, B2J573, B5E6U5, B6YWH3, B8ZKU0, B9LQL7, C1CB46, C6A1V3, G0S8G9, O26359, O29490

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 126 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Mitochondrial translation elongation1217.5×8e-10
Complex I biogenesis917.1×2e-07
Mitochondrial ribosome-associated quality control1216.9×8e-10
Mitochondrial translation initiation1014.6×2e-07
Mitochondrial translation914.2×7e-07
Mitochondrial translation termination1012.6×4e-07
Aerobic respiration and respiratory electron transport1010.2×2e-06
Translation117.8×6e-06

GO biological processes:

GO termPartnersFoldFDR
mitochondrial large ribosomal subunit assembly975.6×2e-13
mitochondrial translation1623.6×3e-15
mitochondrial respiratory chain complex I assembly620.9×4e-05
mitochondrial electron transport, NADH to ubiquinone618.2×7e-05
proton motive force-driven mitochondrial ATP synthesis817.9×3e-06
aerobic respiration714.7×4e-05
translation87.0×1e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

129 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic2
Likely pathogenic0
Uncertain significance99
Likely benign8
Benign0

Top pathogenic / likely-pathogenic (2)

Variant IDHGVSClassification
225013NM_002453.3(MTIF2):c.573C>G (p.His191Gln)Pathogenic
520564NM_002453.3(MTIF2):c.899_909del (p.Val300fs)Pathogenic

SpliceAI

2627 predictions. Top by Δscore:

VariantEffectΔscore
2:55236822:T:Cacceptor_gain1.0000
2:55240007:TCA:Tdonor_loss1.0000
2:55240008:CACC:Cdonor_loss1.0000
2:55240009:A:ACdonor_gain1.0000
2:55240009:AC:Adonor_gain1.0000
2:55240010:C:CTdonor_gain1.0000
2:55240010:CC:Cdonor_gain1.0000
2:55240010:CCT:Cdonor_gain1.0000
2:55240010:CCTA:Cdonor_gain1.0000
2:55240013:A:ACdonor_gain1.0000
2:55240014:C:CCdonor_gain1.0000
2:55240173:CAC:Cacceptor_gain1.0000
2:55243081:C:CAacceptor_loss1.0000
2:55243082:T:Aacceptor_loss1.0000
2:55243451:T:Adonor_gain1.0000
2:55243452:C:Adonor_gain1.0000
2:55243521:T:TAdonor_gain1.0000
2:55243664:CTTGG:Cacceptor_gain1.0000
2:55243667:GG:Gacceptor_gain1.0000
2:55243669:C:CCacceptor_gain1.0000
2:55243671:T:Cacceptor_gain1.0000
2:55243671:T:TCacceptor_gain1.0000
2:55244042:T:TAdonor_gain1.0000
2:55244229:CAAGA:Cacceptor_gain1.0000
2:55244234:C:CCacceptor_gain1.0000
2:55246331:TCCTA:Tdonor_loss1.0000
2:55246332:CCTA:Cdonor_loss1.0000
2:55246333:CTAC:Cdonor_loss1.0000
2:55246334:TACC:Tdonor_loss1.0000
2:55246335:A:ACdonor_gain1.0000

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000166719 (2:55256845 C>G,T), RS1000241597 (2:55249806 G>A), RS1000281912 (2:55253592 G>A), RS1000282780 (2:55237534 A>T), RS1000297870 (2:55265058 C>A,T), RS1000301360 (2:55255656 A>C,G), RS1000421806 (2:55269732 G>C), RS1000546372 (2:55248613 G>A,T), RS1000563610 (2:55253778 G>A), RS1000862135 (2:55250094 G>GA), RS1000909578 (2:55248275 T>C), RS1001030537 (2:55268629 A>G), RS1001214966 (2:55251077 T>A,C,G), RS1001355811 (2:55245314 G>A,C), RS1001502230 (2:55268278 T>C)

Disease associations

OMIM: gene MIM:603766 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

1 associations (top):

StudyTraitp-value
GCST002593_2Dementia and core Alzheimer’s disease neuropathologic changes9.000000e-06

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0006801Alzheimer’s disease neuropathologic change

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

32 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Air Pollutantsaffects cotreatment, increases abundance, increases oxidation, decreases expression, increases expression3
Arsenicincreases abundance, increases expression, affects methylation, affects cotreatment3
bisphenol Aaffects expression, decreases expression2
sodium arseniteincreases expression, affects cotreatment, increases abundance2
methacrylaldehydeincreases abundance, affects cotreatment, increases oxidation2
bisphenol Saffects expression, increases expression2
Acroleinaffects cotreatment, increases oxidation, increases abundance2
Ozoneincreases oxidation, increases abundance, affects cotreatment2
Particulate Matterdecreases expression, increases abundance, increases expression2
dicrotophosdecreases expression1
triphenyl phosphateaffects expression1
alpha-pineneaffects cotreatment, increases oxidation, increases abundance1
trichostatin Aaffects expression1
beta-lapachonedecreases expression, increases expression1
arseniteaffects binding, increases reaction1
manganese chlorideaffects cotreatment, increases abundance, increases expression1
beta-methylcholineaffects expression1
abrinedecreases expression1
Acetaminophendecreases expression1
Chloramphenicoldecreases response to substance1
Hydrogen Peroxideaffects expression1
Manganeseaffects cotreatment, increases abundance, increases expression1
Nicotineincreases expression1
Quercetindecreases expression1
Ribonucleotidesaffects binding1
Tretinoindecreases expression1
Josamycindecreases response to substance1
Clarithromycindecreases response to substance1
Cadmium Chloridedecreases expression1
Copper Sulfatedecreases expression1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): dementia