Human Gene PAM (ENST00000438793.8_8) from GENCODE V47lift37
  Description: peptidylglycine alpha-amidating monooxygenase, transcript variant 11 (from RefSeq NM_001364584.2)
Gencode Transcript: ENST00000438793.8_8
Gencode Gene: ENSG00000145730.21_20
Transcript (Including UTRs)
   Position: hg19 chr5:102,091,009-102,365,420 Size: 274,412 Total Exon Count: 26 Strand: +
Coding Region
   Position: hg19 chr5:102,201,900-102,364,769 Size: 162,870 Coding Exon Count: 25 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:102,091,009-102,365,420)mRNA (may differ from genome)Protein (973 aa)
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-  Comments and Description Text from UniProtKB
  ID: AMD_HUMAN
DESCRIPTION: RecName: Full=Peptidyl-glycine alpha-amidating monooxygenase; Short=PAM; Includes: RecName: Full=Peptidylglycine alpha-hydroxylating monooxygenase; Short=PHM; EC=1.14.17.3; Includes: RecName: Full=Peptidyl-alpha-hydroxyglycine alpha-amidating lyase; EC=4.3.2.5; AltName: Full=Peptidylamidoglycolate lyase; Short=PAL; Flags: Precursor;
FUNCTION: Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.
CATALYTIC ACTIVITY: Peptidylglycine + ascorbate + O(2) = peptidyl(2-hydroxyglycine) + dehydroascorbate + H(2)O.
CATALYTIC ACTIVITY: Peptidylamidoglycolate = peptidyl amide + glyoxylate.
COFACTOR: Zinc; for the lyase reaction.
COFACTOR: Binds 2 copper ions per subunit; For the monoxygenase reaction.
ENZYME REGULATION: Inhibited by EDTA, phenylglyoxal and diethyl pyrocarbonate.
SUBUNIT: Monomer. Interacts with RASSF9 (By similarity).
SUBCELLULAR LOCATION: Isoform 1: Membrane; Single-pass type I membrane protein.
SUBCELLULAR LOCATION: Isoform 2: Membrane; Single-pass type I membrane protein.
SUBCELLULAR LOCATION: Isoform 3: Secreted. Note=Secreted from secretory granules.
SUBCELLULAR LOCATION: Isoform 4: Secreted. Note=Secreted from secretory granules.
SIMILARITY: In the C-terminal section; belongs to the peptidyl- alpha-hydroxyglycine alpha-amidating lyase family.
SIMILARITY: In the N-terminal section; belongs to the copper type II ascorbate-dependent monooxygenase family.
SIMILARITY: Contains 5 NHL repeats.
SEQUENCE CAUTION: Sequence=AAD01439.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PAM
Diseases sorted by gene-association score: menkes disease (12), phaeohyphomycosis (11), gestational trophoblastic neoplasm (9), peptic esophagitis (8), postpoliomyelitis syndrome (7), trophoblastic neoplasm (6), hiatus hernia (5), germ cell and embryonal cancer (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D003300 Copper
  • D013749 Tetrachlorodibenzodioxin
  • C006253 pirinixic acid
  • C025205 1,10-phenanthroline
  • C049325 1,2-dithiol-3-thione
  • D015058 1-Naphthylisothiocyanate
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C054919 2,2-(2-chlorophenyl-4'-chlorophenyl)-1,1-dichloroethene
  • C014024 2,4,5,2',4',5'-hexachlorobiphenyl
  • C028451 3,4,3',4'-tetrachlorobiphenyl
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 279.09 RPKM in Heart - Atrial Appendage
Total median expression: 1552.36 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -210.60417-0.505 Picture PostScript Text
3' UTR -136.80651-0.210 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011042 - 6-blade_b-propeller_TolB-like
IPR014784 - Cu2_ascorb_mOase-like_C
IPR020611 - Cu2_ascorb_mOase_CS-1
IPR014783 - Cu2_ascorb_mOase_CS-2
IPR000323 - Cu2_ascorb_mOase_N
IPR001258 - NHL_repeat
IPR013017 - NHL_repeat_subgr
IPR000720 - Pep_amidat_mOase
IPR008977 - PHM/PNGase_F_dom

Pfam Domains:
PF01082 - Copper type II ascorbate-dependent monooxygenase, N-terminal domain
PF01436 - NHL repeat
PF03712 - Copper type II ascorbate-dependent monooxygenase, C-terminal domain

SCOP Domains:
49742 - PHM/PNGase F
50952 - Soluble quinoprotein glucose dehydrogenase
50956 - Thermostable phytase (3-phytase)
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like

ModBase Predicted Comparative 3D Structure on P19021
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003824 catalytic activity
GO:0004497 monooxygenase activity
GO:0004504 peptidylglycine monooxygenase activity
GO:0004598 peptidylamidoglycolate lyase activity
GO:0005507 copper ion binding
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016491 oxidoreductase activity
GO:0016715 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:0016829 lyase activity
GO:0019901 protein kinase binding
GO:0031418 L-ascorbic acid binding
GO:0046872 metal ion binding

Biological Process:
GO:0001519 peptide amidation
GO:0001666 response to hypoxia
GO:0001676 long-chain fatty acid metabolic process
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006518 peptide metabolic process
GO:0007417 central nervous system development
GO:0007507 heart development
GO:0007595 lactation
GO:0008152 metabolic process
GO:0009268 response to pH
GO:0009404 toxin metabolic process
GO:0018032 protein amidation
GO:0019538 protein metabolic process
GO:0022602 ovulation cycle process
GO:0032355 response to estradiol
GO:0032956 regulation of actin cytoskeleton organization
GO:0042476 odontogenesis
GO:0042493 response to drug
GO:0046688 response to copper ion
GO:0050708 regulation of protein secretion
GO:0051260 protein homooligomerization
GO:0051384 response to glucocorticoid
GO:0055114 oxidation-reduction process
GO:0060135 maternal process involved in female pregnancy
GO:0060173 limb development

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005802 trans-Golgi network
GO:0005886 plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030141 secretory granule
GO:0030667 secretory granule membrane
GO:0043005 neuron projection
GO:0043025 neuronal cell body
GO:0043204 perikaryon
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC018127 - Homo sapiens peptidylglycine alpha-amidating monooxygenase, mRNA (cDNA clone MGC:9210 IMAGE:3887394), complete cds.
M37721 - Human peptidylglycine alpha-amidating monooxygenase mRNA, complete cds.
AK296521 - Homo sapiens cDNA FLJ53473 complete cds, highly similar to Peptidyl-glycine alpha-amidating monooxygenase precursor (EC 1.14.17.3).
E02516 - cDNA encoding C-terminus alpha amidinotransferase(chT201).
AK290158 - Homo sapiens cDNA FLJ77034 complete cds, highly similar to Homo sapiens peptidylglycine alpha-amidating monooxygenase (PAM), transcript variant 1, mRNA.
S75037 - pancreatic peptidylglycine alpha-amidating monooxygenase=membrane-bound isoform {alternatively spliced, clone PAM-3, transmembrane domain (Ba region)} [human, islet cell tumor cell line QGP-1, mRNA Partial, 2994 nt].
S75038 - pancreatic peptidylglycine alpha-amidating monooxygenase=secretory isoform {clone PAM-15} [human, islet cell tumor cell line QCP-1, mRNA Partial, 2795 nt].
E02518 - cDNA encoding C-terminus alpha amidinotransferase(chT101).
AB527419 - Synthetic construct DNA, clone: pF1KB5095, Homo sapiens PAM gene for peptidylglycine alpha-amidating monooxygenase, without stop codon, in Flexi system.
BT007419 - Homo sapiens peptidylglycine alpha-amidating monooxygenase mRNA, complete cds.
AB095007 - Homo sapiens mRNA for peptidylglycine alpha-amidating monooxygenase, complete cds.
AF010472 - Homo sapiens alpha-amidating monooxygenase mRNA, complete cds.
JD267791 - Sequence 248815 from Patent EP1572962.
JD236142 - Sequence 217166 from Patent EP1572962.
JD083735 - Sequence 64759 from Patent EP1572962.
JD461917 - Sequence 442941 from Patent EP1572962.
JD460769 - Sequence 441793 from Patent EP1572962.
JD158177 - Sequence 139201 from Patent EP1572962.
JD343204 - Sequence 324228 from Patent EP1572962.
JD458768 - Sequence 439792 from Patent EP1572962.
E02517 - cDNA encoding C-terminus alpha amidinotransferase(chT2).
U19965 - Homo sapiens peptidylglycine alpha-amidating monooxygenase mRNA, splice variant hPAM-C, partial cds.
U19966 - Homo sapiens peptidylglycine alpha-amidating monooxygenase mRNA, splice variant hPAM-D, partial cds.
AF035320 - Homo sapiens clone 23731 peptidylglycine alpha-amidating monooxygenase mRNA, partial cds.
JD166526 - Sequence 147550 from Patent EP1572962.
JD348886 - Sequence 329910 from Patent EP1572962.
JD027479 - Sequence 8503 from Patent EP1572962.
JD557256 - Sequence 538280 from Patent EP1572962.
JD030817 - Sequence 11841 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NMR0, A8K293, AMD_HUMAN, ENST00000438793.1, ENST00000438793.2, ENST00000438793.3, ENST00000438793.4, ENST00000438793.5, ENST00000438793.6, ENST00000438793.7, NM_001364584, O43211, O95080, P19021, PAM , Q16252, Q16253, Q54A45, Q86U53, Q8WVC7, Q9UCG0, uc320gzz.1, uc320gzz.2
UCSC ID: ENST00000438793.8_8
RefSeq Accession: NM_001177306.2
Protein: P19021 (aka AMD_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.