GGACT

gene
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Summary

GGACT (gamma-glutamylamine cyclotransferase, HGNC:25100) is a protein-coding gene on chromosome 13q32.3, encoding Gamma-glutamylaminecyclotransferase (Q9BVM4). Contributes to degradation of proteins cross-linked by transglutaminases by degrading the cross-link between a lysine and a glutamic acid residue.

The protein encoded by this gene aids in the proteolytic degradation of crosslinked fibrin by breaking down isodipeptide L-gamma-glutamyl-L-epsilon-lysine, a byproduct of fibrin degradation. The reaction catalyzed by the encoded gamma-glutamylaminecyclotransferase produces 5-oxo-L-proline and a free alkylamine. Two transcript variants encoding the same protein have been found for this gene.

Source: NCBI Gene 87769 — RefSeq curated summary.

At a glance

  • GWAS associations: 2
  • Clinical variants (ClinVar): 53 total — 6 pathogenic, 1 likely-pathogenic
  • MANE Select transcript: NM_001195087

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:25100
Approved symbolGGACT
Namegamma-glutamylamine cyclotransferase
Location13q32.3
Locus typegene with protein product
StatusApproved
Ensembl geneENSG00000134864
Ensembl biotypeprotein_coding
OMIM613378
Entrez87769

Gene structure

Transcript identifiers

Ensembl transcripts: 10 — 10 protein_coding

ENST00000376250, ENST00000455100, ENST00000464500, ENST00000467518, ENST00000471912, ENST00000492399, ENST00000683975, ENST00000881872, ENST00000881873, ENST00000881874

RefSeq mRNA: 2 — MANE Select: NM_001195087 NM_001195087, NM_033110

CCDS: CCDS45066

Canonical transcript exons

ENST00000683975 — 3 exons

ExonStartEnd
ENSE00001413407100583825100583997
ENSE00003916144100588741100588789
ENSE00003917236100530180100532601

Expression profiles

Bgee: expression breadth ubiquitous, 175 present calls, max score 97.21.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 2.1888 / max 25.0367, expressed in 1305 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter IDTPM avgSamples expressed
1380532.18881305

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
secondary oocyteCL:000065597.21gold quality
oocyteCL:000002397.14gold quality
kidney epitheliumUBERON:000481997.12silver quality
pancreatic ductal cellCL:000207994.86silver quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099183.86gold quality
adult mammalian kidneyUBERON:000008281.98gold quality
kidneyUBERON:000211380.63gold quality
spermCL:000001979.78silver quality
adult organismUBERON:000702379.27gold quality
right lobe of liverUBERON:000111478.38gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047378.13gold quality
body of pancreasUBERON:000115077.65gold quality
cortex of kidneyUBERON:000122577.62gold quality
right adrenal glandUBERON:000123377.31gold quality
leukocyteCL:000073877.21gold quality
monocyteCL:000057677.08gold quality
left adrenal glandUBERON:000123476.67gold quality
left adrenal gland cortexUBERON:003582576.38gold quality
right adrenal gland cortexUBERON:003582776.31gold quality
granulocyteCL:000009476.27gold quality
renal medullaUBERON:000036275.70gold quality
tibialis anteriorUBERON:000138575.64silver quality
adrenal tissueUBERON:001830375.24gold quality
pancreasUBERON:000126475.12gold quality
adrenal glandUBERON:000236975.07gold quality
ileal mucosaUBERON:000033175.02gold quality
liverUBERON:000210774.49gold quality
adrenal cortexUBERON:000123573.86gold quality
mucosa of transverse colonUBERON:000499173.55gold quality
right testisUBERON:000453473.15gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

ExperimentMarker?Max mean expression
E-ANND-3no2.02

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

50 targeting GGACT, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-5692A100.0074.406850
HSA-MIR-4668-3P100.0068.742635
HSA-MIR-6748-5P100.0065.811057
HSA-MIR-318599.9968.121959
HSA-MIR-806899.9873.852376
HSA-MIR-493-5P99.9672.472382
HSA-MIR-551B-5P99.9671.283493
HSA-MIR-365899.9673.874379
HSA-MIR-335-3P99.9373.364958
HSA-MIR-10527-5P99.9172.283754
HSA-MIR-627-3P99.9071.423316
HSA-MIR-95-5P99.8972.173973
HSA-MIR-449299.8768.253611
HSA-MIR-4728-5P99.8569.394718
HSA-MIR-5010-3P99.8370.602357
HSA-MIR-6785-5P99.8268.684428
HSA-MIR-205299.7969.372031
HSA-MIR-498-5P99.7669.641807
HSA-MIR-4766-5P99.7569.232662
HSA-MIR-5580-3P99.7069.412052
HSA-MIR-5009-3P99.4569.431341
HSA-MIR-377-3P99.3770.181905
HSA-MIR-6853-3P99.3670.791558
HSA-MIR-4727-5P99.2367.551154
HSA-MIR-607199.1667.771780
HSA-MIR-29A-5P99.0868.591813
HSA-MIR-10B-3P99.0466.98988
HSA-MIR-6738-3P99.0367.141326
HSA-MIR-181A-2-3P98.9167.601168
HSA-MIR-4709-3P98.8868.041594

Literature-anchored findings (GeneRIF, showing 1)

  • gamma-glutamylamine cyclotransferase is an enzyme responsible for gamma-glutamyl-epsilon-lysine catabolism (PMID:20110353)

Cross-species orthologs

8 orthologs

OrganismSymbolGene ID
danio_rerioggact.2ENSDARG00000038248
danio_rerioggact.3ENSDARG00000070579
danio_rerioggact.1ENSDARG00000070581
mus_musculusGgactENSMUSG00000041625
rattus_norvegicusGgactENSRNOG00000027040
drosophila_melanogasterCG2811FBGN0035082
drosophila_melanogasterTina-1FBGN0035083
caenorhabditis_elegansWBGENE00023489

Protein

Protein identifiers

Gamma-glutamylaminecyclotransferaseQ9BVM4 (reviewed: Q9BVM4)

Alternative names: AIG2-like domain-containing protein 1, Gamma-glutamylamine cyclotransferase

All UniProt accessions (3): Q9BVM4, M0R0M3, M0R217

UniProt curated annotations — full annotation on UniProt →

Function. Contributes to degradation of proteins cross-linked by transglutaminases by degrading the cross-link between a lysine and a glutamic acid residue. Catalyzes the formation of 5-oxo-L-proline from L-gamma-glutamyl-L-epsilon-lysine. Inactive with L-gamma-glutamyl-alpha-amino acid substrates such as L-gamma-glutamyl-L-alpha-cysteine and L-gamma-glutamyl-L-alpha-alanine.

Subunit / interactions. Monomer.

Similarity. Belongs to the gamma-glutamylcyclotransferase family.

RefSeq proteins (2): NP_001182016, NP_149101 (=MANE)

Domains & families (InterPro)

IDNameType
IPR009288AIG2-like_domDomain
IPR013024GGCT-likeDomain
IPR036568GGCT-like_sfHomologous_superfamily
IPR039126GGACTFamily

Pfam: PF06094

Enzyme classification (BRENDA):

  • EC 4.3.2.8 — gamma-glutamylamine cyclotransferase (BRENDA: 4 organisms, 23 substrates, 4 inhibitors, 15 Km, 12 kcat entries)
  • EC 4.3.2.9 — gamma-glutamylcyclotransferase (BRENDA: 13 organisms, 119 substrates, 12 inhibitors, 54 Km, 28 kcat entries)

Substrate kinetics (BRENDA)

57 substrates with measured Km, best-characterized 15. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
5-L-GLUTAMYL-L-ALPHA-AMINOBUTYRATE6–124
GAMMA-GLUTAMYL-L-ALANINE2–84
5-L-GLUTAMYL-L-ALANINE2–4.483
GLUTATHIONE1.7–4.963
5-L-GLUTAMYL-L-GLUTAMINE10–182
GAMMA-L-GLU-EPSILON-N-BENZYLOXYCARBONYL-L-LYS0.28–0.322
EPSILON-(GAMMA-L-GLUTAMYL)-L-LYSINE0.231
GAMMA-GLUTAMYLDANSYLCADAVERINE0.0111
L-GAMMA-GLUTAMYL-(2S)-2-METHYLBUTYLAMINE0.381
L-GAMMA-GLUTAMYL-2-METHYLBUTYLAMINE0.381
L-GAMMA-GLUTAMYL-BETA-ALANINE0.911
L-GAMMA-GLUTAMYL-N-BUTYLAMINE0.251
L-GAMMA-GLUTAMYL-N-PROPYLAMINE0.321
L-GAMMA-GLUTAMYLBENZYLAMINE0.561
L-GAMMA-GLUTAMYLCYCLOPENTYLAMINE0.0841

Catalyzed reactions (Rhea), 1 shown:

  • epsilon-(gamma-L-glutamyl)-L-lysine = 5-oxo-L-proline + L-lysine (RHEA:16961)

UniProt features (20 total): strand 8, helix 4, turn 2, chain 1, region of interest 1, compositionally biased region 1, active site 1, binding site 1, mutagenesis site 1

Structure

Experimental structures (PDB)

3 structures.

PDBMethodResolution (Å)
3JUDX-RAY DIFFRACTION0.98
3JUBX-RAY DIFFRACTION1.2
3JUCX-RAY DIFFRACTION1.2

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9BVM4-F192.360.86

Functional residue map

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

Catalytic / active sites (1): 82 (proton acceptor)

Ligand- & substrate-binding residues (1): 7–10

Mutagenesis-validated functional residues (1):

PositionPhenotype
82loss of activity.

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 77 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_COLON_TUMORAL_MACROPHAGE_DN, GOBP_MODIFIED_AMINO_ACID_CATABOLIC_PROCESS, WANG_LMO4_TARGETS_DN, SCHAEFFER_PROSTATE_DEVELOPMENT_48HR_UP, GOBP_MODIFIED_AMINO_ACID_METABOLIC_PROCESS, chr13q32, KRIGE_RESPONSE_TO_TOSEDOSTAT_24HR_UP, FORTSCHEGGER_PHF8_TARGETS_DN, GOMF_CARBON_NITROGEN_LYASE_ACTIVITY, GOMF_AMIDINE_LYASE_ACTIVITY, MTOR_UP.V1_UP, CRX_NRL_DN.V1_DN, ZNF146_TARGET_GENES, ZNF202_TARGET_GENES, ZNF589_TARGET_GENES

GO Biological Process (1): modified amino acid catabolic process (GO:0042219)

GO Molecular Function (3): gamma-glutamylaminecyclotransferase activity (GO:0061929), protein binding (GO:0005515), lyase activity (GO:0016829)

GO Cellular Component (2): cytosol (GO:0005829), extracellular exosome (GO:0070062)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
modified amino acid metabolic process1
catabolic process1
amidine-lyase activity1
binding1
catalytic activity1
cytoplasm1
cellular anatomical structure1
extracellular vesicle1

Protein interactions and networks

STRING

194 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
GGACTFGAP02671768
GGACTGGCTO75223413
GGACTASCL3Q9NQ33387
GGACTATP1B3P54709371
GGACTFBXO2Q9UK22370
GGACTCHAC2Q8WUX2352
GGACTRBKSQ9H477350
GGACTSAMM50Q9Y512333
GGACTOPLAHO14841323
GGACTDDOQ99489312
GGACTSPATA20Q8TB22304
GGACTCTHP32929302
GGACTGGTLC3B5MD39300
GGACTGLYATQ6IB77271
GGACTOR8U3Q8NH85263

IntAct

23 interactions, top by confidence:

ABTypeScore
ARPC5ARPC3psi-mi:“MI:0914”(association)0.730
PLAAT5GGACTpsi-mi:“MI:0915”(physical association)0.720
GGACTPLAAT5psi-mi:“MI:0915”(physical association)0.720
ZBED1GGACTpsi-mi:“MI:0915”(physical association)0.560
LDB2GGACTpsi-mi:“MI:0915”(physical association)0.560
CUTAPRKAG1psi-mi:“MI:0914”(association)0.530
GGACTRPL23Apsi-mi:“MI:0915”(physical association)0.400
ORMDL1GGACTpsi-mi:“MI:0915”(physical association)0.400
COL20A1MEIS1psi-mi:“MI:0914”(association)0.350
COL20A1TSC2psi-mi:“MI:0914”(association)0.350
CDX1IPO7psi-mi:“MI:0914”(association)0.350
COPS7BCPSF4psi-mi:“MI:0914”(association)0.350
GGACTPLAAT5psi-mi:“MI:0915”(physical association)0.000
GGACTZBED1psi-mi:“MI:0915”(physical association)0.000
GGACTLDB2psi-mi:“MI:0915”(physical association)0.000

BioGRID (12): HRASLS5 (Two-hybrid), GGACT (Affinity Capture-MS), HRASLS5 (Two-hybrid), LDB2 (Two-hybrid), ZBED1 (Two-hybrid), GGACT (Affinity Capture-MS), RPL23A (Affinity Capture-MS), GGACT (Affinity Capture-MS), GGACT (Affinity Capture-MS), GGACT (Affinity Capture-MS), GGACT (Affinity Capture-MS), GGACT (Affinity Capture-MS)

ESM2 similar proteins: B3STU3, O02785, O75808, P19526, P97812, Q0VFX9, Q10979, Q14623, Q29043, Q3TX08, Q4KM86, Q561R2, Q5RA07, Q5ZL13, Q60806, Q6PAT0, Q7YR35, Q866C5, Q866C7, Q866C9, Q866D2, Q866D6, Q866D9, Q866E1, Q866E4, Q866E6, Q866E7, Q866E8, Q866F0, Q866F1, Q8CAK1, Q8IYL2, Q8NF37, Q8NI29, Q8R3J5, Q91YP1, Q923B0, Q96EF6, Q96EN8, Q96EY9

Diamond homologs: A0JMM9, A3KNL6, Q0VFX9, Q4KM86, Q58909, Q66I06, Q66KX0, Q923B0, Q9BVM4, Q9KP33, Q9M8T3, Q9W0Y1, Q9W0Y2, P39759, Q4H4F0, D2TN58, P0AE48, P0AE49, P0AE50, P0AE51

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic6
Likely pathogenic1
Uncertain significance39
Likely benign3
Benign2

Top pathogenic / likely-pathogenic (7)

Variant IDHGVSClassification
1454834NC_000013.10:g.(?101167671)(101182701_?)delPathogenic
1459911NC_000013.10:g.(?101179909)(101182420_?)delPathogenic
2422797NC_000013.10:g.(?100741375)(101182420_?)delPathogenic
4279340GRCh37/hg19 13q32.3(chr13:101175886-101187305)x1Pathogenic
657918NC_000013.11:g.(?100527665)(100530447_?)delPathogenic
831847NC_000013.11:g.(?100527655)(100530186_?)delPathogenic
1527793GRCh37/hg19 13q32.3(chr13:101167705-101265053)Likely pathogenic

SpliceAI

994 predictions. Top by Δscore:

VariantEffectΔscore
13:100532597:CAGAG:Cacceptor_gain1.0000
13:100530088:A:AGacceptor_gain0.9900
13:100530089:A:Gacceptor_gain0.9900
13:100532598:AGAG:Aacceptor_gain0.9900
13:100532599:GAG:Gacceptor_gain0.9900
13:100532600:AG:Aacceptor_gain0.9900
13:100532600:AGCT:Aacceptor_loss0.9900
13:100532602:C:CCacceptor_gain0.9900
13:100532602:C:Tacceptor_loss0.9900
13:100532603:T:Cacceptor_loss0.9900
13:100556061:T:Adonor_gain0.9900
13:100583819:TCTCA:Tdonor_loss0.9900
13:100583820:CTCA:Cdonor_loss0.9900
13:100583821:TCACC:Tdonor_loss0.9900
13:100583822:CACCT:Cdonor_loss0.9900
13:100583823:A:ATdonor_loss0.9900
13:100583824:C:Gdonor_loss0.9900
13:100530082:T:Gacceptor_gain0.9800
13:100533613:AGGT:Adonor_gain0.9800
13:100556062:C:Adonor_gain0.9800
13:100529620:G:Tdonor_gain0.9700
13:100530081:A:AGacceptor_gain0.9700
13:100530093:TCAA:Tacceptor_loss0.9700
13:100530094:CAA:Cacceptor_loss0.9700
13:100530097:G:GTacceptor_loss0.9700
13:100529606:G:GTdonor_gain0.9600
13:100529619:G:GTdonor_gain0.9600
13:100530078:T:Aacceptor_gain0.9600
13:100532605:C:CTacceptor_gain0.9600
13:100529582:G:GTdonor_gain0.9500

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000016467 (13:100560918 T>A,C), RS1000063881 (13:100589299 C>G), RS1000083056 (13:100562183 T>C), RS1000090632 (13:100583227 G>A,T), RS1000121770 (13:100582812 C>T), RS1000201526 (13:100533328 G>A), RS1000222943 (13:100544701 T>G), RS1000227277 (13:100530969 C>G), RS1000258175 (13:100551526 C>A,G,T), RS1000350699 (13:100532610 A>G), RS1000372683 (13:100589064 G>A), RS1000380704 (13:100573333 A>G), RS1000383276 (13:100532879 G>A), RS1000399158 (13:100569520 G>A), RS1000428931 (13:100569210 G>A,T)

Disease associations

OMIM: gene MIM:613378 | disease phenotypes: MIM:606054

GenCC curated gene-disease

Mondo (1): propionic acidemia (MONDO:0011628)

Orphanet (1): Propionic acidemia (Orphanet:35)

HPO phenotypes

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

GWAS associations

2 associations (top):

StudyTraitp-value
GCST007327_107Smoking status (ever vs never smokers)2.000000e-09
GCST010002_194Refractive error2.000000e-76

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0004318smoking behavior

MeSH disease descriptors (1)

DescriptorNameTree numbers
D056693Propionic AcidemiaC16.320.565.100.823; C18.452.648.100.823

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

24 total (human), top 24 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, increases expression, increases methylation3
Arsenicaffects methylation, decreases expression, increases abundance2
Particulate Matterincreases expression, decreases expression, increases abundance2
GSK-J4decreases expression1
bisphenol Faffects cotreatment, decreases expression1
methylmercuric chloridedecreases expression1
triphenyl phosphateaffects expression1
sodium arsenatedecreases expression, increases abundance1
hydroxyhydroquinoneincreases expression1
sodium arsenitedecreases expression1
ferrous chloridedecreases expression1
avobenzonedecreases expression1
di-n-butylphosphoric acidaffects expression1
Grape Seed Proanthocyanidinsaffects cotreatment, increases expression1
jinfukangincreases expression1
Air Pollutantsincreases abundance, increases expression1
Benzo(a)pyrenedecreases expression1
Catechinaffects cotreatment, increases expression1
Dexamethasoneaffects cotreatment, decreases expression1
Indomethacinaffects cotreatment, decreases expression1
Phthalic Acidsdecreases methylation1
Tobacco Smoke Pollutiondecreases expression1
Tunicamycinincreases expression1
1-Methyl-3-isobutylxanthineaffects cotreatment, decreases expression1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT02426775PHASE3COMPLETEDCarglumic Acid in Methylmalonic Acidemia and Propionic Acidemia
NCT01341379PHASE2WITHDRAWNIncreasing Ureagenesis in Inborn Errors of Metabolism With N-Carbamylglutamate
NCT01597440PHASE2TERMINATEDLong-term Outcome of N-Carbamylglutamate Treatment in Propionic Acidemia and Methylmalonic Acidemia
NCT04732429PHASE2TERMINATEDStudy of HST5040 in Subjects With Propionic or Methylmalonic Acidemia
NCT00645879PHASE1COMPLETEDAnaplerotic Therapy in Propionic Acidemia
NCT04836494PHASE1TERMINATEDA First in Human, Dose Escalation Study to Evaluate the Safety and Tolerability of BBP-671 in Healthy Volunteers and Patients With Propionic Acidemia or Methylmalonic Acidemia
NCT04159103PHASE1/PHASE2RECRUITINGOpen-Label Study of mRNA-3927 in Participants With Propionic Acidemia
NCT05130437PHASE1/PHASE2RECRUITINGA Study to Assess the Long-term Safety and Clinical Activity of mRNA-3927 in Participants Previously Enrolled in the mRNA-3927-P101 Study
NCT02890342Not specifiedRECRUITINGNatural History, Physiology, Microbiome and Biochemistry Studies of Propionic Acidemia
NCT03159026Not specifiedCOMPLETEDReview of Charts From Amish/Mennonite Variant PA Patients
NCT03484767Not specifiedCOMPLETEDThe MaP Study: Mapping the Patient Journey in MMA and PA
NCT03655223Not specifiedENROLLING_BY_INVITATIONEarly Check: Expanded Screening in Newborns
NCT04176523Not specifiedRECRUITINGUnderstanding the Long-Term Management of Organic Acidemia Patients With CARBAGLU®: A Mixed Methods Approach
NCT05040178Not specifiedRECRUITINGAn Observational Study of Carbaglu® for the Treatment of MMA and PA in Adults and Pediatrics
NCT05330039Not specifiedCOMPLETEDCharacterization of Intestinal Microbiota in Children With Inborn Errors of Metabolism (IEM)
NCT05438485Not specifiedTERMINATEDNatural History Study of Patients With Methylmalonic Acidemia and Propionic Acidemia
NCT05687474Not specifiedCOMPLETEDBaby Detect : Genomic Newborn Screening
NCT05769621Not specifiedRECRUITINGA Retrospective Study to Characterize Participants With Propionic Acidemia
NCT06664840Not specifiedNOT_YET_RECRUITINGMyRareDiet A Novel Diet Tracking Tool
  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): propionic acidemia