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PAM

gene
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Also known as PALPHMPAM-1

Summary

PAM (peptidylglycine alpha-amidating monooxygenase, HGNC:8596) is a protein-coding gene on chromosome 5q21.1, encoding Peptidyl-glycine alpha-amidating monooxygenase (P19021). Bifunctional enzyme that catalyzes amidation of the C-terminus of proteins.

This gene encodes a multifunctional protein. The encoded preproprotein is proteolytically processed to generate the mature enzyme. This enzyme includes two domains with distinct catalytic activities, a peptidylglycine alpha-hydroxylating monooxygenase (PHM) domain and a peptidyl-alpha-hydroxyglycine alpha-amidating lyase (PAL) domain. These catalytic domains work sequentially to catalyze the conversion of neuroendocrine peptides to active alpha-amidated products. Alternative splicing results in multiple transcript variants, at least one of which encodes an isoform that is proteolytically processed.

Source: NCBI Gene 5066 — RefSeq curated summary.

At a glance

  • Clinical variants (ClinVar): 113 total
  • GTEx eGene: eQTL in 28 tissues, sQTL in 33 (q < 0.05)
  • Constraint (gnomAD): pLI 0.00 (LoF-tolerant), LOEUF 0.86 (unconstrained)
  • MANE Select transcript: NM_001177306
  • Notable: 113 clinical variants but no curated precision-oncology (CIViC) evidence yet

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:8596
Approved symbolPAM
Namepeptidylglycine alpha-amidating monooxygenase
Location5q21.1
Locus typegene with protein product
StatusApproved
AliasesPAL, PHM, PAM-1
Ensembl geneENSG00000145730
Ensembl biotypeprotein_coding
OMIM170270
Entrez5066

Gene structure

Transcript identifiers

Ensembl transcripts: 161 — 113 protein_coding, 41 nonsense_mediated_decay, 5 protein_coding_CDS_not_defined, 2 retained_intron

MANE Select: ENST00000438793

Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 1: 5, TSL 2: 4, TSL 3: 5, TSL 4: 9, TSL 5: 2

ENST00000438793, ENST00000304400, ENST00000345721, ENST00000346918, ENST00000348126, ENST00000379799, ENST00000455264, ENST00000504456, ENST00000504691, ENST00000505372, ENST00000505654, ENST00000506006, ENST00000506127, ENST00000506260, ENST00000508060, ENST00000509523, ENST00000509636, ENST00000509832, ENST00000510006, ENST00000510208, ENST00000511429, ENST00000511477, ENST00000511839, ENST00000512073, ENST00000513648, ENST00000682024, ENST00000682407, ENST00000682882, ENST00000682972, ENST00000684043, ENST00000684379, ENST00000684529, ENST00000890191, ENST00000890192, ENST00000890193, ENST00000890194, ENST00000890195, ENST00000890196, ENST00000890197, ENST00000890198, ENST00000890199, ENST00000890200, ENST00000890201, ENST00000890202, ENST00000890203, ENST00000890204, ENST00000890205, ENST00000890206, ENST00000890207, ENST00000890208, ENST00000890209, ENST00000890210, ENST00000890211, ENST00000890212, ENST00000890213, ENST00000890214, ENST00000890215, ENST00000890216, ENST00000890217, ENST00000890218, ENST00000890219, ENST00000890220, ENST00000890221, ENST00000890222, ENST00000939731, ENST00000939732, ENST00000939734, ENST00000939736, ENST00000939739, ENST00000939740, ENST00000939741, ENST00000939742, ENST00000957482, ENST00000957483, ENST00000957484, ENST00000957485, ENST00000957486, ENST00000957487, ENST00000957488, ENST00000957489, ENST00000957490, ENST00000957491, ENST00000957492, ENST00000957493, ENST00000957494, ENST00000957495, ENST00000957496, ENST00000957497, ENST00000957498, ENST00000957499, ENST00000957500, ENST00000957501, ENST00000957502, ENST00000957503, ENST00000957504, ENST00000957505, ENST00000957506, ENST00000957507, ENST00000957508, ENST00000957509, ENST00000957510, ENST00000957511, ENST00000957512, ENST00000957513, ENST00000957514, ENST00000957515, ENST00000957516, ENST00000957517, ENST00000957518, ENST00000957519, ENST00000990597, ENST00000990598, ENST00000990599, ENST00000990600, ENST00001057926, ENST00001057927, ENST00001057928, ENST00001057929, ENST00001057934, ENST00001057935, ENST00001057936, ENST00001057937, ENST00001057938, ENST00001057939, ENST00001057940, ENST00001057941, ENST00001057943, ENST00001057944, ENST00001057945, ENST00001057947, ENST00001057948, ENST00001057951, ENST00001057952, ENST00001057954, ENST00001057955, ENST00001057958, ENST00001057959, ENST00001057960, ENST00001057965, ENST00001057966, ENST00001057967, ENST00001057968, ENST00001057969, ENST00001057970, ENST00001057971, ENST00001057972, ENST00001057979, ENST00001107230, ENST00001107231, ENST00001113505, ENST00001113506, ENST00001113507, ENST00001113508, ENST00001119001, ENST00001124498, ENST00001124499, ENST00001124500, ENST00001124501, ENST00001124502, ENST00001124503, ENST00001135087

RefSeq mRNA: 20 — MANE Select: NM_001177306 NM_000919, NM_001177306, NM_001319943, NM_001364582, NM_001364583, NM_001364584, NM_001364585, NM_001364586, NM_001364587, NM_001364588, NM_001364589, NM_001364590, NM_001364591, NM_001364592, NM_001364593, NM_001364594, NM_001438446, NM_138766, NM_138821, NM_138822

CCDS: CCDS4092, CCDS4093, CCDS4094, CCDS43348, CCDS54885, CCDS93753, CCDS93754, CCDS93755, CCDS93756, CCDS93757

Canonical transcript exons

ENST00000438793 — 26 exons

ExonStartEnd
ENSE00001957372103028887103029716
ENSE00003459027102949902102949978
ENSE00003461968102990272102990401
ENSE00003470536102924957102925042
ENSE00003474257103003033103003149
ENSE00003495205103028185103028238
ENSE00003505311103017334103017433
ENSE00003512809103025131103025334
ENSE00003549530102949537102949617
ENSE00003552953103019790103019843
ENSE00003554562102959875102960059
ENSE00003557513103005154103005226
ENSE00003563882102913934102914021
ENSE00003564668102950717102950820
ENSE00003573210102946837102946885
ENSE00003578298102926585102926668
ENSE00003582428102974116102974436
ENSE00003596818102865823102866284
ENSE00003609741103006801103007011
ENSE00003623893102901356102901413
ENSE00003624006103009751103009866
ENSE00003633981103007457103007657
ENSE00003634022102867273102867393
ENSE00003653909102961158102961229
ENSE00003678493102948378102948445
ENSE00003920269102755305102755348

Expression profiles

Bgee: expression breadth ubiquitous, 301 present calls, max score 99.89.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 71.7303 / max 2250.7789, expressed in 1767 samples.

Highest expression (Bgee): cardiac muscle of right atrium, heart right ventricle, cardiac atrium, atrium auricular region, corpus epididymis.

Genetic regulation across tissues (GTEx eQTL / sQTL)

PAM is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 28 tissues and its splicing (sQTL) in 33 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

showing 20 of 61 significant tissue × QTL associations:

TissueQTLq-valueSlopeLead variant
Cells Cultured fibroblastssqtl2.0e-105-1.095:102974462:G:A
Whole Bloodeqtl5.0e-104+0.685:102782303:C:T
Artery Tibialsqtl1.4e-47-0.795:102974462:G:A
Thyroidsqtl1.7e-41-0.635:102989988:T:C
Adipose Subcutaneoussqtl9.3e-39-0.515:102989988:T:C
Nerve Tibialsqtl6.2e-34-0.675:102989988:T:C
Lungsqtl8.8e-32-0.585:102971151:T:TA
Adipose Visceral Omentumsqtl3.3e-31-0.615:102989988:T:C
Artery Aortasqtl1.1e-28-0.755:102974462:G:A
Brain Cerebellar Hemisphereeqtl3.0e-25-0.515:102628754:T:C
Cells EBV-transformed lymphocytessqtl6.8e-25-1.035:102989988:T:C
Whole Bloodsqtl2.9e-20-0.565:102990174:A:G
Breast Mammary Tissuesqtl9.1e-19-0.575:103100407:T:A
Skin Sun Exposed Lower legsqtl5.6e-18-0.455:102990174:A:G
Esophagus Mucosasqtl1.1e-17-0.495:102989988:T:C
Brain Cerebellumeqtl1.4e-17-0.495:102676962:C:T
Esophagus Muscularissqtl2.5e-16-0.405:102974462:G:A
Heart Atrial Appendagesqtl4.2e-16+1.065:103025380:G:C
Thyroideqtl1.4e-14-0.205:102741554:T:C
Skin Not Sun Exposed Suprapubiceqtl1.4e-13-0.165:102589070:T:G

FANTOM5 promoters

showing 10 of 26 alternative TSS:

Promoter IDTPM avgSamples expressed
5780740.32931757
5783010.75371318
578275.3529982
578313.7186967
578263.5171879
578051.2074800
578061.0653711
578181.0508182
578231.0014592
578250.8933439

Top tissues by expression

showing 100 of 302 tissues by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
cardiac muscle of right atriumUBERON:000337999.89gold quality
heart right ventricleUBERON:000208099.86gold quality
cardiac atriumUBERON:000208199.86gold quality
right atrium auricular regionUBERON:000663199.85gold quality
corpus epididymisUBERON:000435999.83gold quality
myocardiumUBERON:000234999.80gold quality
parotid glandUBERON:000183199.75gold quality
type B pancreatic cellCL:000016999.70gold quality
vena cavaUBERON:000408799.65gold quality
islet of LangerhansUBERON:000000699.64gold quality
descending thoracic aortaUBERON:000234599.60gold quality
renal glomerulusUBERON:000007499.59gold quality
metanephric glomerulusUBERON:000473699.58gold quality
heartUBERON:000094899.54gold quality
thoracic aortaUBERON:000151599.52gold quality
blood vessel layerUBERON:000479799.52gold quality
tibiaUBERON:000097999.51gold quality
ascending aortaUBERON:000149699.51gold quality
synovial jointUBERON:000221799.50gold quality
cardiac ventricleUBERON:000208299.46gold quality
visceral pleuraUBERON:000240199.46gold quality
left ventricle myocardiumUBERON:000656699.46gold quality
heart left ventricleUBERON:000208499.45gold quality
Brodmann (1909) area 23UBERON:001355499.45gold quality
skin of hipUBERON:000155499.44gold quality
right coronary arteryUBERON:000162599.40gold quality
seminal vesicleUBERON:000099899.39gold quality
palpebral conjunctivaUBERON:000181299.36gold quality
middle temporal gyrusUBERON:000277199.32gold quality
aortaUBERON:000094799.31gold quality
caput epididymisUBERON:000435899.27gold quality
endocervixUBERON:000045899.25gold quality
deciduaUBERON:000245099.25gold quality
choroid plexus epitheliumUBERON:000391199.23gold quality
lateral nuclear group of thalamusUBERON:000273699.17gold quality
urethraUBERON:000005799.16gold quality
calcaneal tendonUBERON:000370199.16gold quality
stromal cell of endometriumCL:000225599.15gold quality
popliteal arteryUBERON:000225099.15gold quality
tibial arteryUBERON:000761099.14gold quality
arteryUBERON:000163799.13gold quality
coronary arteryUBERON:000162199.06gold quality
left coronary arteryUBERON:000162699.05gold quality
endometriumUBERON:000129599.04gold quality
cartilage tissueUBERON:000241899.04gold quality
pleuraUBERON:000097799.03gold quality
apex of heartUBERON:000209899.02gold quality
kidney epitheliumUBERON:000481999.01gold quality
saphenous veinUBERON:000731898.99gold quality
parietal pleuraUBERON:000240098.91gold quality
layer of synovial tissueUBERON:000761698.90gold quality
smooth muscle tissueUBERON:000113598.89gold quality
dorsal motor nucleus of vagus nerveUBERON:000287098.88gold quality
upper leg skinUBERON:000426298.87gold quality
metanephrosUBERON:000008198.85gold quality
right adrenal gland cortexUBERON:003582798.85gold quality
adrenal cortexUBERON:000123598.84gold quality
tracheaUBERON:000312698.84gold quality
colonic epitheliumUBERON:000039798.82gold quality
cauda epididymisUBERON:000436098.82gold quality
left adrenal gland cortexUBERON:003582598.79gold quality
endothelial cellCL:000011598.78gold quality
left adrenal glandUBERON:000123498.78gold quality
right adrenal glandUBERON:000123398.77gold quality
adrenal glandUBERON:000236998.77gold quality
adenohypophysisUBERON:000219698.76gold quality
nephron tubuleUBERON:000123198.75gold quality
ponsUBERON:000098898.72gold quality
pituitary glandUBERON:000000798.70gold quality
pylorusUBERON:000116698.69gold quality
substantia nigra pars compactaUBERON:000196598.68gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450298.65gold quality
adult organismUBERON:000702398.65gold quality
mucosa of stomachUBERON:000119998.64gold quality
superficial temporal arteryUBERON:000161498.53gold quality
saliva-secreting glandUBERON:000104498.52gold quality
hypothalamusUBERON:000189898.52gold quality
ventricular zoneUBERON:000305398.50gold quality
germinal epithelium of ovaryUBERON:000130498.48gold quality
uterusUBERON:000099598.42gold quality
biceps brachiiUBERON:000150798.41gold quality
adrenal tissueUBERON:001830398.39gold quality
gall bladderUBERON:000211098.38gold quality
epithelial cell of pancreasCL:000008398.35gold quality
myometriumUBERON:000129698.29gold quality
esophagogastric junction muscularis propriaUBERON:003584198.29gold quality
cardia of stomachUBERON:000116298.28gold quality
gluteal muscleUBERON:000200098.28gold quality
thoracic mammary glandUBERON:000520098.28gold quality
minor salivary glandUBERON:000183098.27gold quality
mammary glandUBERON:000191198.25gold quality
ectocervixUBERON:001224998.23gold quality
renal medullaUBERON:000036298.22gold quality
trigeminal ganglionUBERON:000167598.22gold quality
left ovaryUBERON:000211998.18gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451198.18gold quality
vastus lateralisUBERON:000137998.17gold quality
nucleus accumbensUBERON:000188298.17gold quality
muscle layer of sigmoid colonUBERON:003580598.16gold quality
lower esophagus muscularis layerUBERON:003583398.15gold quality

Single-cell (SCXA)

Detected in 13 experiment(s), a significant marker in 8.

ExperimentMarker?Max mean expression
E-MTAB-9154yes2569.86
E-HCAD-35yes1447.03
E-HCAD-25yes1055.86
E-MTAB-10287yes47.29
E-MTAB-5061yes17.51
E-GEOD-125970yes9.44
E-GEOD-83139yes4.75
E-ENAD-17no623.84
E-CURD-114no17.96
E-GEOD-81608no7.90
E-ENAD-27no3.34
E-HCAD-31no2.15
E-ANND-3no0.00

HPA expression

RNA tissue specificity: Low tissue specificity

showing 60 of 155 HPA tissues / cells by nTPM:

Tissue / cellAxisnTPMProtein (IHC)
Heart muscletissue1159.0high
Epididymistissue691.0high
Cervixtissue574.4medium
Locus coeruleustissue276.2
Parathyroid glandtissue248.7not detected
Seminal vesicletissue204.2not detected
Salivary glandtissue203.7low
Adrenal glandtissue197.2high
Ovarytissue157.8not detected
Choroid plexustissue156.8
Tonguetissue139.0
Smooth muscletissue130.6medium
Endometrium 1tissue125.7medium
Putamentissue122.9
Basal gangliatissue119.5low
Stomach 1tissue116.7low
Pituitary glandtissue115.6
Cerebral cortextissue114.0medium
Motor cortextissue114.0
Kidneytissue112.2high
Hippocampal formationtissue109.7
Frontal cortextissue109.5
Nucleus accumbenstissue107.3
Prefrontal cortextissue105.3
Skeletal muscletissue101.7medium
Adipose tissuetissue99.9not detected
Hypothalamustissue99.6
Retrosplenial and cingulate cortextissue97.7
Retrosplenial cortextissue97.0
Vaginatissue96.5not detected
Pancreastissue93.9medium
Breasttissue90.9not detected
Septumtissue90.9
Urinary bladdertissue90.5not detected
Temporal cortextissue89.4
Thyroid glandtissue87.8not detected
Caudate putamentissue87.6
Ventral forebraintissue83.7
Thalamustissue83.1
Entorhinal cortextissue82.9
Gallbladdertissue82.5not detected
Insular cortextissue82.3
Lungtissue82.1not detected
Somatosensory cortextissue81.5
Fallopian tubetissue81.2high
Prostatetissue79.2not detected
Substantia nigratissue77.9
Ponstissue76.7
Midbraintissue75.7
Periaqueductal graytissue75.1
Hippocampustissue74.1low
Superior colliculitissue73.4
Occipital cortextissue72.0
Rectumtissue71.9high
Postcentral gyrustissue70.3
Amygdalatissue66.5
Medulla oblongatatissue66.0
Spinal cordtissue61.5
Colontissue59.1high
Esophagustissue58.5not detected

Brain sub-regions (HPA Brain Atlas): detected in 380; highest nTPM — Blood vessel (428.3), Arcuate nucleus (275.5), Lateral hypothalamic area (195.3), Ventromedial nucleus (162.6), Periaquaductal grey, anterior (152.9).

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

Targeting PAM by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).

showing 30 of 144 miRNAs:

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4262100.0073.263931
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-6833-3P100.0070.633197
HSA-MIR-4768-5P100.0069.492861
HSA-MIR-3134100.0066.43777
HSA-MIR-340-5P100.0072.504437
HSA-MIR-126-5P100.0072.713180
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-6759-5P99.9966.54785
HSA-MIR-428299.9975.366408
HSA-MIR-453499.9966.581907
HSA-MIR-33A-5P99.9968.621055
HSA-MIR-33B-5P99.9968.581062
HSA-MIR-314899.9775.066478
HSA-MIR-548AN99.9770.912817
HSA-MIR-6793-5P99.9765.95758
HSA-MIR-3688-3P99.9772.022834
HSA-MIR-570-3P99.9672.414910
HSA-MIR-302E99.9670.742669
HSA-MIR-391099.9571.132227
HSA-MIR-497-5P99.9271.832674
HSA-MIR-329-3P99.9166.561234
HSA-MIR-362-3P99.9166.381267
HSA-MIR-6809-3P99.9171.453814
HSA-MIR-10527-5P99.9172.283754
HSA-MIR-15A-5P99.9072.802787
HSA-MIR-15B-5P99.9072.782798

Functional genomics

gnomAD constraint: pLI 0.000642, LOEUF 0.863, missense Z 1.26 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD)

ENST00000438793 splits into 3 regions with different missense tolerance; 0 are missense-constrained. Missense variants in a constrained region (low observed/expected) are more likely to be pathogenic. gnomAD

Region (GRCh38)Missense obs / expo/eConstrained
5:102,866,196–103,003,111670 / 690.30.97no
5:103,003,112–103,007,535103 / 157.90.65no
5:103,007,536–103,029,062333 / 335.60.99no

Literature-anchored findings (GeneRIF, showing 19)

  • nuclear retention of PAM mRNA is lost upon expressing the La proteins that lack a conserved nuclear retention element, suggesting a direct association between PAM mRNA and La protein in vivo (PMID:16107699)
  • Data indicate that catalytic inactivation of PHM caused by pH changes is accompanied by structural change between two states of the protein involving strong Cu-S interaction that does not involve M314. (PMID:22080626)
  • Detail the production of the catalytic core of human peptidylglycine alpha-hydroxylating monooxygenase (hPHMcc) in Escherichia coli possessing a N-terminal fusion to thioredoxin (Trx). (PMID:22554821)
  • Two missense variants in PAM, encoding p.Asp563Gly (frequency of 4.98%) and p.Ser539Trp (frequency of 0.65%), confer moderately higher risk of type 2 diabetes (OR = 1.23, P = 3.9 x 10(-10) and OR = 1.47, P = 1.7 x 10(-5), respectively) (PMID:24464100)
  • Oxygen Sensitivity of the Peptidylglycine alpha-Amidating Monooxygenase (PAM) in Neuroendocrine Cells (PMID:26296884)
  • PAM expression is increased in the secretory pathway of differentiated neurons. (PMID:26879543)
  • Data suggest that His108 and a substrate molecule are involved in the reductive pathway while His172 and Tyr79 are important in the catalytic pathway in the copper-centered electron transfer catalyzed by peptidylglycine monooxygenase. (PMID:26982589)
  • The ancient ability of PAM to localize to ciliary membranes, which release bioactive ectosomes, may be related to its ability to accumulate in intralumenal vesicles and exosomes (PMID:28377049)
  • PAM single nucleotide polymorphism rs13175330 is associated with hypertension and insulin resistance in a Korean population. (PMID:29162152)
  • PAM polyubiquitinates NMNAT2 and regulates NMNAT2 protein stability and degradation by the proteasome. (PMID:29997255)
  • A role for PAM in beta-cell function. (PMID:30054598)
  • The T2D risk-associated rs35658696 (p.Asp563Gly) allele of PAM confers decreased PAM expression in human islets. (PMID:30054598)
  • The T2D risk-associated rs35658696 (p.Asp563Gly) allele of PAM confers reduced amidating activity. (PMID:30054598)
  • siRNA-mediated knockdown of PAM in EndoC-BetaH1 cells caused reductions in insulin secretion and content. These effects were also observed in primary islets from human donors heterozygous for the T2D risk-associated rs35658696 variant. (PMID:30054598)
  • PAM haploinsufficiency does not accelerate the development of diet- and human IAPP-induced diabetes in mice. (PMID:31984442)
  • Mitochondrial Oxidative Stress Induces Rapid Intermembrane Space/Matrix Translocation of Apurinic/Apyrimidinic Endonuclease 1 Protein through TIM23 Complex. (PMID:33197464)
  • PAM variants were associated with type 2 diabetes mellitus risk in the Chinese population. (PMID:35394266)
  • Peptidylglycine alpha-amidating monooxygenase and adrenomedullin measurement in patients with hepatic cirrhosis. (PMID:37812053)
  • PAM variants in patients with thyrotrophinomas, cyclical Cushing’s disease and prolactinomas. (PMID:38075079)

Cross-species orthologs

6 orthologs

OrganismSymbolGene ID
danio_reriopamENSDARG00000100170
mus_musculusPamENSMUSG00000026335
rattus_norvegicusPamENSRNOG00000033280
drosophila_melanogasterPal2FBGN0262728
drosophila_melanogasterPal1FBGN0283510
caenorhabditis_eleganspgal-1WBGENE00017671

Mouse-model phenotypes

Observed phenotypes of the mouse ortholog (MGI:97475) from MGI (Alliance of Genome Resources) — knockout/mutant phenotypes, ranked by annotation count. 8 distinct phenotype terms.

Mouse phenotype (MP)Records
edema1
abnormal artery morphology1
abnormal vitelline vasculature morphology1
impaired glucose tolerance1
increased total body fat amount1
abnormal bronchus epithelium morphology1
lethality throughout fetal growth and development, complete penetrance1
umbilical vein stenosis1

Additional cross-species homologs

Sequence homologs in species beyond Ensembl Compara’s model organisms, by Diamond local protein alignment (% sequence identity; best hit per species). Lower-identity rows are more distant homologs. The matched accessions’ gene symbols aren’t in biobtree yet, so each row shows the UniProt accession.

OrganismUniProtIdentityMethod
Bos taurusP1073192.4%Diamond
Xenopus laevisP0847886.7%Diamond

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

SymbolTypeEntrez
SLCO6A1-DTncRNA124901035
LINC00491ncRNA285708
LINC00492ncRNA100861468
PPIP5K2protein-coding23262
GIN1protein-coding54826

Protein

Protein identifiers

Peptidyl-glycine alpha-amidating monooxygenase — P19021 (reviewed: P19021)

All UniProt accessions (19): A0A804HI59, A0A804HIQ0, A0A804HJJ2, A0A804HK31, A0A804HKM7, A0A804HKV8, A0A804HLE0, A0A804HLJ2, A0A8C8KD64, D6R961, D6RAQ2, D6RCD5, D6RDU2, D6RF09, D6RG20, P19021, F8W8D9, H0Y9I4, H7BYD9

UniProt curated annotations — full annotation on UniProt →

Function. Bifunctional enzyme that catalyzes amidation of the C-terminus of proteins. Alpha-amidation is present at the C-terminus of many endocrine hormones and neuropeptides and is required for their activity. C-terminal amidation also takes place in response to protein fragmentation triggered by oxidative stress, promoting degradation of amidated protein fragments by the proteasome. Alpha-amidation involves two sequential reactions, both of which are catalyzed by separate catalytic domains of the enzyme. The first step, catalyzed by peptidyl alpha-hydroxylating monooxygenase (PHM) domain, is the copper-, ascorbate-, and O2- dependent stereospecific hydroxylation (with S stereochemistry) at the alpha-carbon (C-alpha) of the C-terminal glycine of the peptidylglycine substrate. The second step, catalyzed by the peptidylglycine amidoglycolate lyase (PAL) domain, is the zinc-dependent cleavage of the N-C-alpha bond, producing the alpha-amidated peptide and glyoxylate. Similarly, catalyzes the two-step conversion of an N-fatty acylglycine to a primary fatty acid amide and glyoxylate.

Subunit / interactions. Monomer. Interacts with RASSF9.

Subcellular location. Cytoplasmic vesicle. Secretory vesicle membrane Membrane Membrane Secreted Secreted.

Activity regulation. PAM activity is inhibited by EDTA, phenylglyoxal and diethyl pyrocarbonate. PAL activity is stimulated by cadmium and inhibited by mercury.

Cofactor. Binds one Zn(2+) ion per subunit. Binds 2 Cu(2+) ions per subunit.

Miscellaneous. Soluble. Soluble.

Similarity. In the C-terminal section; belongs to the peptidyl-alpha-hydroxyglycine alpha-amidating lyase family. In the N-terminal section; belongs to the copper type II ascorbate-dependent monooxygenase family.

Isoforms (6)

UniProt IDNamesCanonical?
P19021-11yes
P19021-22
P19021-33
P19021-44
P19021-55
P19021-66

RefSeq proteins (20): NP_000910, NP_001170777, NP_001306872, NP_001351511, NP_001351512, NP_001351513, NP_001351514, NP_001351515, NP_001351516, NP_001351517, NP_001351518, NP_001351519, NP_001351520, NP_001351521, NP_001351522, NP_001351523, NP_001425375, NP_620121, NP_620176, NP_620177 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000323Cu2_ascorb_mOase_NDomain
IPR000720PHM/PALFamily
IPR001258NHL_repeatRepeat
IPR008977PHM/PNGase_F_dom_sfHomologous_superfamily
IPR0110426-blade_b-propeller_TolB-likeHomologous_superfamily
IPR014783Cu2_ascorb_mOase_CS-2Conserved_site
IPR014784Cu2_ascorb_mOase-like_CHomologous_superfamily
IPR020611Cu2_ascorb_mOase_CS-1Conserved_site
IPR024548Cu2_monoox_CDomain
IPR036939Cu2_ascorb_mOase_N_sfHomologous_superfamily

Pfam: PF01082, PF01436, PF03712

Enzyme classification (BRENDA)

  • EC 1.14.17.3 — peptidylglycine monooxygenase (BRENDA: 16 organisms, 234 substrates, 143 inhibitors, 170 Km, 30 kcat entries)
  • EC 4.3.2.5 — peptidylamidoglycolate lyase (BRENDA: 28 organisms, 21 substrates, 22 inhibitors, 30 Km, 6 kcat entries)

Substrate kinetics (BRENDA)

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

SubstrateKm (mM)Measurements
NALPHA-ACETYL-TYR-VAL-ALPHA-HYDROXYGLYCINE0.0102–0.3310
O20.1–658.19
DANSYL-D-TYR-VAL-GLY0.0009–0.86
N-ACETYL-TYR-VAL-GLY0.0012–0.00986
N-ACETYLGLYCINE9.3–185
TRINITROPHENYL-D-TYR-L-VAL-ALPHA-HYDROXY-GLY0.014–0.0335
D-TYR-PRO-GLY-GLY0.033–0.2894
D-TYR-VAL-GLY0.007–0.224
DANSYL-L-TYR-L-VAL-GLY0.0033–0.01944
PEPTIDYLGLYCINE0.009–0.0184
N-DANSYL-L-TYR-L-PHE-GLY3.5–4.53
N-DECANOYLGLYCINE0.1–0.23
ALPHA-N-ACETYL-TYR-VAL-ALPHA-HYDROXYGLYCINE0.013–0.2383
ACETYL-L-TYR-L-PHE-GLY0.0003–1.392
DABSYL-GLY-PHE-GLY0.022–0.1432

Catalyzed reactions (Rhea)

  • a [peptide]-C-terminal (2S)-2-hydroxyglycine = a [peptide]-C-terminal amide + glyoxylate (RHEA:20924)
  • a [peptide]-C-terminal glycine + 2 L-ascorbate + O2 = a [peptide]-C-terminal (2S)-2-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:21452)
  • N-dodecanoylglycine + 2 L-ascorbate + O2 = N-dodecanoyl-(2S)-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:58540)
  • N-tetradecanoylglycine + 2 L-ascorbate + O2 = N-tetradecanoyl-(2S)-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:58544)
  • N-(9Z,12Z,15Z)-octadecatrienoylglycine + 2 L-ascorbate + O2 = N-(9Z,12Z,15Z)-octadecatrienoyl-(2S)-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:58548)
  • N-(9Z-octadecenoyl)glycine + 2 L-ascorbate + O2 = N-(9Z-octadecenoyl)-(2S)-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:58600)
  • N-decanoylglycine + 2 L-ascorbate + O2 = N-decanoyl-(2S)-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:58608)
  • N-octanoylglycine + 2 L-ascorbate + O2 = N-octanoyl-(2S)-hydroxyglycine + 2 monodehydro-L-ascorbate radical + H2O (RHEA:58612)
  • N-octanoyl-(2S)-hydroxyglycine = octanamide + glyoxylate (RHEA:58616)
  • N-decanoyl-(2S)-hydroxyglycine = decanamide + glyoxylate (RHEA:58620)
  • N-dodecanoyl-(2S)-hydroxyglycine = dodecanamide + glyoxylate (RHEA:58624)
  • N-tetradecanoyl-(2S)-hydroxyglycine = tetradecamide + glyoxylate (RHEA:58632)

UniProt features (58 total): binding site 15, modified residue 8, disulfide bond 7, repeat 5, splice variant 5, region of interest 4, sequence conflict 4, compositionally biased region 2, topological domain 2, signal peptide 1, propeptide 1, chain 1, glycosylation site 1, transmembrane region 1, sequence variant 1

Structure

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P19021-F171.540.44

Human Protein Atlas

Protein class: Enzymes, ENZYME proteins, Transferases, Metabolic proteins, Predicted intracellular proteins

Protein evidence: Evidence at protein level

Subcellular location (HPA, imaging): nucleoplasm; cytosol; vesicles

Antibody reliability (HPA): IF supported

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 (15)

PositionRole
102Cu(2+)
103Cu(2+)
167Cu(2+)
237Cu(2+)
239Cu(2+)
309Cu(2+)
517Ca(2+)
530a protein
582Zn(2+)
584Ca(2+)
651a protein
687Zn(2+)
703a protein
783Zn(2+)
784Ca(2+)

Post-translational modifications (8)

TypePositions
Phosphoserine918, 929, 942, 946, 957
Phosphothreonine943
Sulfotyrosine893, 875

Disulfide bonds (7)

TypePositions
Disulfide bond42–181, 76–121, 109–126, 222–329, 288–310, 631–652, 699–710

Glycosylation sites (1)

TypePositions
N-linked (glcnac…) asparagine762

Function

Pathways and Gene Ontology

Reactome pathways

0 curated (TAS) of 0; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).

MSigDB gene sets: 322 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_BRAIN_TUMORAL_MACROPHAGE_DN, VERHAAK_AML_WITH_NPM1_MUTATED_DN, MODULE_93, ZHAN_LATE_DIFFERENTIATION_GENES_UP, GOBP_RESPONSE_TO_ZINC_ION, GGTGTGT_MIR329, GOMF_OXIDOREDUCTASE_ACTIVITY_ACTING_ON_PAIRED_DONORS_WITH_INCORPORATION_OR_REDUCTION_OF_MOLECULAR_OXYGEN, GOCC_SECRETORY_GRANULE, GCANCTGNY_MYOD_Q6, KAAB_HEART_ATRIUM_VS_VENTRICLE_UP, SHAFFER_IRF4_TARGETS_IN_ACTIVATED_B_LYMPHOCYTE, ACEVEDO_LIVER_CANCER_WITH_H3K27ME3_UP, CAGCTG_AP4_Q5, GOBP_RESPONSE_TO_METAL_ION, SHAFFER_IRF4_TARGETS_IN_PLASMA_CELL_VS_MATURE_B_LYMPHOCYTE

GO Biological Process (6): peptide amidation (GO:0001519), response to zinc ion (GO:0010043), cellular response to oxidative stress (GO:0034599), fatty acid primary amide biosynthetic process (GO:0062112), peptide metabolic process (GO:0006518), lipid metabolic process (GO:0006629)

GO Molecular Function (13): peptidylglycine monooxygenase activity (GO:0004504), peptidylamidoglycolate lyase activity (GO:0004598), copper ion binding (GO:0005507), calcium ion binding (GO:0005509), zinc ion binding (GO:0008270), L-ascorbic acid binding (GO:0031418), catalytic activity (GO:0003824), monooxygenase activity (GO:0004497), protein binding (GO:0005515), oxidoreductase activity (GO:0016491), oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen (GO:0016715), lyase activity (GO:0016829), metal ion binding (GO:0046872)

GO Cellular Component (6): extracellular region (GO:0005576), membrane (GO:0016020), transport vesicle membrane (GO:0030658), secretory granule membrane (GO:0030667), extracellular exosome (GO:0070062), cytoplasmic vesicle (GO:0031410)

GO top-level categories

32 GO namespaces:

CategoryTerms
transition metal ion binding2
catalytic activity2
cellular anatomical structure2
cytoplasmic vesicle membrane2
bounding membrane of organelle2
peptide modification1
response to metal ion1
response to oxidative stress1
cellular response to chemical stress1
fatty acid primary amide metabolic process1
fatty acid derivative biosynthetic process1
metabolic process1
primary metabolic process1
oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen1
amidine-lyase activity1
catalytic activity, acting on a protein1
metal ion binding1
vitamin binding1
carboxylic acid binding1
monosaccharide binding1
heterocyclic compound binding1
molecular_function1
oxidoreductase activity1
binding1
monooxygenase activity1
oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen1
cation binding1
transport vesicle1
secretory granule1
extracellular vesicle1
cytoplasm1
intracellular vesicle1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 7 of 25 annotations. The rest are phylogenetic / computational / electronic (IEA).

7 experimentally-supported GO terms:

GO termNSEvidence
peptide amidationBPdirect assay
response to zinc ionBPdirect assay
extracellular exosomeCChigh-throughput assay
membraneCChigh-throughput assay
peptidylamidoglycolate lyase activityMFdirect assay
peptidylglycine monooxygenase activityMFdirect assay
zinc ion bindingMFdirect assay

Protein interactions and networks

STRING

showing 15 of 492 interactions by confidence (×1000):

Protein AProtein BPartner UniProtScore
PAMCYB561P49447846
PAMTOR2AQ5JU69830
PAMKALRNO60229806
PAMRASSF9O75901719
PAMCPEP16870697
PAMPCSK1P29120625
PAMDAPK1P53355552
PAMIAPPP10997526
PAMATP7AQ04656512
PAMMCF2P10911504
PAMPCSK2P16519500
PAMSHDQ96IW2497
PAMTOR1AO14656494
PAMCHGAP10645487
PAMF11RQ9Y624481

IntAct

Human interaction partners of PAM in IntAct, one row per partner (best MIscore; records = supporting IntAct interaction records).

4 partners by confidence:

PartnerInteraction typeMIscoreRecords
UBR2association0.5301
DEDDphysical association0.0001
DISC1physical association0.0001
PRKAR1Aphysical association0.0001

BioGRID (78 interactions; top human partners by supporting records): ART3 (Affinity Capture-MS; 3 records), B3GNT2 (Affinity Capture-MS; 3 records), PTCH1 (Affinity Capture-MS; 3 records), SERPINA6 (Affinity Capture-MS; 3 records), TAZ (Affinity Capture-MS; 3 records), TMEM25 (Affinity Capture-MS; 3 records), TSC2 (Two-hybrid; 3 records), UBR2 (Affinity Capture-MS; 3 records), DKKL1 (Affinity Capture-MS; 2 records), GAA (Affinity Capture-MS; 2 records), IDS (Affinity Capture-MS; 2 records), KALRN (Two-hybrid; 2 records), RALB (Affinity Capture-MS; 2 records), RASSF9 (Two-hybrid; 2 records), ADAMTS12 (Affinity Capture-MS)

SIGNOR signaling

2 signaling interactions:

AEffectBMechanism
UHMK1unknownPAMphosphorylation
PAM“up-regulates activity”Oxytocincleavage

Disease & clinical

Genetic variants

Variant evidence for PAM: 113 ClinVar records (0 pathogenic / likely pathogenic).

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance77
Likely benign4
Benign7

AlphaMissense

2,006 missense substitutions predicted likely pathogenic (of 6,412 scored), across 492 residues. Top 20 hotspot residues, ranked by the number of likely-pathogenic substitutions (of those reachable by a single-nucleotide change), then by mean score:

ResidueLikely-pathogenic substitutionsMean am_pathogenicityMax am_pathogenicity
M30990.9760.995
M31590.8670.984
H10380.9940.997
H16780.9900.998
H23780.9870.997
D18080.9840.996
F26980.9780.998
D64980.9780.995
H23980.9760.993
D59680.9760.995
F23280.9720.997
F15180.9660.998
F54080.9650.997
H58280.9640.990
H10280.9630.987
F29080.9630.997
H60080.9630.991
F17480.9620.995
D28280.9600.987
F9280.9530.997

HPA cancer prognostics

RNA cancer specificity: Low cancer specificity

Human Protein Atlas survival analysis — favorable = higher expression predicts better survival.

1 prognostic cancer types:

CancerPrognosticp-value
Kidney Renal Clear Cell Carcinoma (TCGA)favorable3.37e-06

Disease associations

OMIM: gene MIM:170270 | disease phenotypes:

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL2544 (SINGLE PROTEIN)

PharmGKB: 1 entry (CPIC guideline: no)

Binding affinities (BindingDB)

16 measured of 16 human assays (17 total across all organisms); most potent 16 below. Values come from heterogeneous assays and are not directly comparable.

LigandMeasureValue
((E)-Styrylsulfanyl)-acetic acidKI0.1 nM
Phenylethynylsulfanyl-acetic acidKI0.19 nM
CHEMBL2207130IC502000 nM
CHEMBL2207128IC503000 nM
CHEMBL2207127IC5011000 nM
CHEMBL2207143IC5012000 nM
CHEMBL2207129IC5038000 nM
CHEMBL2207141IC50120000 nM
CHEMBL2207133IC50160000 nM
CHEMBL2207142IC50180000 nM
CHEMBL2207145IC50290000 nM
CHEMBL2207132IC50350000 nM
CHEMBL2207144IC50500000 nM
CHEMBL2207131IC501.1e+06 nM
CHEMBL2207146IC501.1e+06 nM
CHEMBL2207140IC501.8e+06 nM

ChEMBL bioactivities

14 potent at pChembl≥5 of 25 total, top 14 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
10.00Ki0.1nMCHEMBL127222
9.72Ki0.19nMCHEMBL335660
7.40IC5040nMCHEMBL3221589
7.30IC5050nMCHEMBL3221589
7.22IC5060nMCHEMBL3221585
7.02Ki96nMCHEMBL2269608
6.92IC50120nMCHEMBL3221589
5.70IC502000nMCHEMBL2207130
5.70IC502000nMCHEMBL3217795
5.52IC503000nMCHEMBL2207128
5.30IC505000nMCHEMBL2207127
5.22IC506000nMCHEMBL2207129
5.22IC506000nMCHEMBL2207127
5.05IC509000nMCHEMBL2207128

PubChem BioAssay actives

5 with measured affinity, of 68 total; 4 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
2-[(2S)-2-[[(2S)-2-[[(2S)-1-[(4R,7S,10S,13S,16S,19R)-19-amino-7-(2-amino-2-oxoethyl)-10-(3-amino-3-oxopropyl)-13-[(2S)-butan-2-yl]-16-[(4-hydroxyphenyl)methyl]-6,9,12,15,18-pentaoxo-1,2-dithia-5,8,11,14,17-pentazacycloicosane-4-carbonyl]pyrrolidine-2-carbonyl]amino]-4-methylpentanoyl]amino]-3-phenylpropanoyl]oxyacetic acid717278: Competitive inhibition of PAM in human DMS53 cells using as(R)-Tyr-(S)-Val-Gly as substrate after 2 hrs by HPLC analysisic502.0000uM
2-[(2S)-2-[[(2S)-2-acetamido-4-methylpentanoyl]amino]-3-phenylpropanoyl]oxyacetic acid717278: Competitive inhibition of PAM in human DMS53 cells using as(R)-Tyr-(S)-Val-Gly as substrate after 2 hrs by HPLC analysisic503.0000uM
2-[(2S)-2-acetamido-3-phenylpropanoyl]oxyacetic acid717278: Competitive inhibition of PAM in human DMS53 cells using as(R)-Tyr-(S)-Val-Gly as substrate after 2 hrs by HPLC analysisic505.0000uM
2-[(2S)-2-[[(2S)-2-[[(2S)-1-acetylpyrrolidine-2-carbonyl]amino]-4-methylpentanoyl]amino]-3-phenylpropanoyl]oxyacetic acid717278: Competitive inhibition of PAM in human DMS53 cells using as(R)-Tyr-(S)-Val-Gly as substrate after 2 hrs by HPLC analysisic506.0000uM

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, increases expression3
Cadmium Chloridedecreases expression, increases abundance, increases expression3
sodium arsenitedecreases expression, affects cotreatment, increases abundance2
Air Pollutantsincreases abundance, increases oxidation, decreases expression, affects cotreatment2
Estradiolincreases expression, affects cotreatment, decreases expression2
Oxygenincreases expression2
Tobacco Smoke Pollutionaffects expression, increases expression2
aristolochic acid Idecreases expression1
FR900359increases phosphorylation1
triphenyl phosphateaffects expression1
alpha-pineneaffects cotreatment, increases oxidation, increases abundance1
bisphenol Adecreases methylation1
terbufosincreases methylation1
beta-lapachonedecreases expression1
arseniteaffects expression1
nickel sulfatedecreases expression1
methacrylaldehydeaffects cotreatment, increases oxidation, increases abundance1
chloropicrindecreases expression1
jinfukangaffects cotreatment, decreases expression1
NSC 689534increases expression1
Irinotecandecreases expression1
Temozolomidedecreases expression1
Sunitinibdecreases expression1
Acroleinaffects cotreatment, increases oxidation, increases abundance1
Ethanolaffects cotreatment, increases expression1
Allergensdecreases expression1
Arsenicaffects cotreatment, decreases expression, increases abundance1
Benzo(a)pyreneaffects methylation1
Cadmiumincreases abundance, increases expression1
Cisplatinaffects cotreatment, decreases expression1

ChEMBL screening assays

14 unique, capped per target: 14 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL2211742BindingBinding affinity to secreted PAM in human DMS53 cell culture medium after 2 hrs by HPLC analysisProhormone-substrate peptide sequence recognition by peptidylglycine α-amidating monooxygenase and its reflection in increased glycolate inhibitor potency. — *Bioorg Med Chem Lett*

Cellosaurus cell lines

1 cell lines: 1 transformed cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_YB09EndoC-betaH1 PAM-KOTransformed cell lineFemale

Clinical trials (associated diseases)

Via MONDO — disease-level, not drug-specific.

Predicted chemistry — Sugi Predict

The predicted patent-compound landscape for PAM across ~30M SureChEMBL compounds — explore on Sugi Predict.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.