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Protein

Peroxidasin-like protein

Gene

PXDNL

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Isoform PMR1: Endonuclease selectively degrading some target mRNAs while they are engaged by translating ribosomes, among which albumin and beta-globin mRNAs.1 Publication

Catalytic activityi

2 phenolic donor + H2O2 = 2 phenoxyl radical of the donor + 2 H2O.

Cofactori

Protein has several cofactor binding sites:
  • Ca2+By similarityNote: Binds 1 Ca2+ ion per subunit.By similarity
  • heme bBy similarityNote: Binds 1 heme b (iron(II)-protoporphyrin IX) group covalently per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei812Proton acceptorPROSITE-ProRule annotation1
Metal bindingi813CalciumPROSITE-ProRule annotation1
Metal bindingi891CalciumPROSITE-ProRule annotation1
Metal bindingi893Calcium; via carbonyl oxygenPROSITE-ProRule annotation1
Metal bindingi895CalciumPROSITE-ProRule annotation1
Metal bindingi897CalciumPROSITE-ProRule annotation1
Sitei960Transition state stabilizerPROSITE-ProRule annotation1
Metal bindingi1057Iron (heme axial ligand)PROSITE-ProRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionEndonuclease, Hydrolase, Nuclease, Oxidoreductase, Peroxidase
Biological processHydrogen peroxide
LigandCalcium, Heme, Iron, Metal-binding

Enzyme and pathway databases

BRENDAi1.11.1.7. 2681.

Protein family/group databases

PeroxiBasei5398. HsPxd02.
5827. HsPxd03.

Names & Taxonomyi

Protein namesi
Recommended name:
Peroxidasin-like protein (EC:1.11.1.7)
Alternative name(s):
Cardiac peroxidase
Vascular peroxidase 2
polysomal ribonuclease 1
Short name:
PRM1
Gene namesi
Name:PXDNL
Synonyms:VPO2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 8

Organism-specific databases

EuPathDBiHostDB:ENSG00000147485.12.
HGNCiHGNC:26359. PXDNL.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi137902.
OpenTargetsiENSG00000147485.
PharmGKBiPA142671110.

Polymorphism and mutation databases

BioMutaiPXDNL.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 23Sequence analysisAdd BLAST23
ChainiPRO_000033073124 – 1463Peroxidasin-like proteinAdd BLAST1440

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi255 ↔ 305By similarity
Disulfide bondi351 ↔ 398By similarity
Glycosylationi387N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi440 ↔ 488By similarity
Disulfide bondi532 ↔ 580By similarity
Disulfide bondi718 ↔ 734By similarity
Disulfide bondi832 ↔ 842By similarity
Disulfide bondi836 ↔ 859By similarity
Disulfide bondi944 ↔ 953By similarity
Disulfide bondi1160 ↔ 1217By similarity
Disulfide bondi1258 ↔ 1284By similarity

Post-translational modificationi

Phosphorylation by SRC on tyrosine residues is required for targeting to polysomes.1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

EPDiA1KZ92.
MaxQBiA1KZ92.
PaxDbiA1KZ92.
PRIDEiA1KZ92.

PTM databases

iPTMnetiA1KZ92.
PhosphoSitePlusiA1KZ92.

Expressioni

Tissue specificityi

the 57 kDa isoform PMR1 is the only form detected at protein levels in human cell lines.1 Publication

Gene expression databases

BgeeiENSG00000147485.
CleanExiHS_PXDNL.
ExpressionAtlasiA1KZ92. baseline and differential.
GenevisibleiA1KZ92. HS.

Organism-specific databases

HPAiHPA007919.

Interactioni

Protein-protein interaction databases

BioGridi126492. 7 interactors.
STRINGi9606.ENSP00000348645.

Structurei

3D structure databases

ProteinModelPortaliA1KZ92.
SMRiA1KZ92.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini24 – 50LRRNTAdd BLAST27
Repeati51 – 72LRR 1Add BLAST22
Repeati75 – 96LRR 2Add BLAST22
Repeati99 – 120LRR 3Add BLAST22
Repeati123 – 144LRR 4Add BLAST22
Repeati147 – 168LRR 5Add BLAST22
Domaini180 – 233LRRCTAdd BLAST54
Domaini234 – 322Ig-like C2-type 1Add BLAST89
Domaini330 – 414Ig-like C2-type 2Add BLAST85
Domaini419 – 504Ig-like C2-type 3Add BLAST86
Domaini507 – 596Ig-like C2-type 4Add BLAST90
Domaini1393 – 1451VWFCPROSITE-ProRule annotationAdd BLAST59

Sequence similaritiesi

Belongs to the peroxidase family. XPO subfamily.PROSITE-ProRule annotation

Keywords - Domaini

Immunoglobulin domain, Leucine-rich repeat, Repeat, Signal

Phylogenomic databases

eggNOGiKOG2408. Eukaryota.
ENOG410XPZ3. LUCA.
GeneTreeiENSGT00550000074325.
HOGENOMiHOG000016084.
HOVERGENiHBG108312.
InParanoidiA1KZ92.
OMAiHAVEWLC.
OrthoDBiEOG091G0236.
PhylomeDBiA1KZ92.
TreeFamiTF314316.

Family and domain databases

CDDicd09826. peroxidasin_like. 1 hit.
Gene3Di1.10.640.10. 1 hit.
2.60.40.10. 4 hits.
3.80.10.10. 1 hit.
InterProiView protein in InterPro
IPR000483. Cys-rich_flank_reg_C.
IPR010255. Haem_peroxidase.
IPR019791. Haem_peroxidase_animal.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR034824. Peroxidasin_peroxidase.
IPR029610. PXDNL.
IPR001007. VWF_dom.
PANTHERiPTHR11475:SF98. PTHR11475:SF98. 1 hit.
PfamiView protein in Pfam
PF03098. An_peroxidase. 1 hit.
PF07679. I-set. 3 hits.
PF13855. LRR_8. 2 hits.
PF00093. VWC. 1 hit.
PRINTSiPR00457. ANPEROXIDASE.
SMARTiView protein in SMART
SM00409. IG. 4 hits.
SM00408. IGc2. 4 hits.
SM00369. LRR_TYP. 6 hits.
SM00082. LRRCT. 1 hit.
SM00214. VWC. 1 hit.
SUPFAMiSSF48113. SSF48113. 1 hit.
SSF48726. SSF48726. 4 hits.
SSF52058. SSF52058. 1 hit.
PROSITEiView protein in PROSITE
PS50835. IG_LIKE. 4 hits.
PS51450. LRR. 6 hits.
PS50292. PEROXIDASE_3. 1 hit.
PS01208. VWFC_1. 1 hit.
PS50184. VWFC_2. 1 hit.

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: A1KZ92-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MEPRLFCWTT LFLLAGWCLP GLPCPSRCLC FKSTVRCMHL MLDHIPQVPQ
60 70 80 90 100
QTTVLDLRFN RIREIPGSAF KKLKNLNTLL LNNNHIRKIS RNAFEGLENL
110 120 130 140 150
LYLYLYKNEI HALDKQTFKG LISLEHLYIH FNQLEMLQPE TFGDLLRLER
160 170 180 190 200
LFLHNNKLSK IPAGSFSNLD SLKRLRLDSN ALVCDCDLMW LGELLQGFAQ
210 220 230 240 250
HGHTQAAATC EYPRRLHGRA VASVTVEEFN CQSPRITFEP QDVEVPSGNT
260 270 280 290 300
VYFTCRAEGN PKPEIIWIHN NHSLDLEDDT RLNVFDDGTL MIRNTRESDQ
310 320 330 340 350
GVYQCMARNS AGEAKTQSAM LRYSSLPAKP SFVIQPQDTE VLIGTSTTLE
360 370 380 390 400
CMATGHPHPL ITWTRDNGLE LDGSRHVATS SGLYLQNITQ RDHGRFTCHA
410 420 430 440 450
NNSHGTVQAA ANIIVQAPPQ FTVTPKDQVV LEEHAVEWLC EADGNPPPVI
460 470 480 490 500
VWTKTGGQLP VEGQHTVLSS GTLRIDRAAQ HDQGQYECQA VSSLGVKKVS
510 520 530 540 550
VQLTVKPKAL AVFTQLPQDT SVEVGKNINI SCHAQGEPQP IITWNKEGVQ
560 570 580 590 600
ITESGKFHVD DEGTLTIYDA GFPDQGRYEC VARNSFGLAV TNMFLTVTAI
610 620 630 640 650
QGRQAGDDFV ESSILDAVQR VDSAINSTRR HLFSQKPHTS SDLLAQFHYP
660 670 680 690 700
RDPLIVEMAR AGEIFEHTLQ LIRERVKQGL TVDLEGKEFR YNDLVSPRSL
710 720 730 740 750
SLIANLSGCT ARRPLPNCSN RCFHAKYRAH DGTCNNLQQP TWGAALTAFA
760 770 780 790 800
RLLQPAYRDG IRAPRGLGLP VGSRQPLPPP RLVATVWARA AAVTPDHSYT
810 820 830 840 850
RMLMHWGWFL EHDLDHTVPA LSTARFSDGR PCSSVCTNDP PCFPMNTRHA
860 870 880 890 900
DPRGTHAPCM LFARSSPACA SGRPSATVDS VYAREQINQQ TAYIDGSNVY
910 920 930 940 950
GSSERESQAL RDPSVPRGLL KTGFPWPPSG KPLLPFSTGP PTECARQEQE
960 970 980 990 1000
SPCFLAGDHR ANEHLALAAM HTLWFREHNR MATELSALNP HWEGNTVYQE
1010 1020 1030 1040 1050
ARKIVGAELQ HITYSHWLPK VLGDPGTRML RGYRGYNPNV NAGIINSFAT
1060 1070 1080 1090 1100
AAFRFGHTLI NPILYRLNAT LGEISEGHLP FHKALFSPSR IIKEGGIDPV
1110 1120 1130 1140 1150
LRGLFGVAAK WRAPSYLLSP ELTQRLFSAA YSAAVDSAAT IIQRGRDHGI
1160 1170 1180 1190 1200
PPYVDFRVFC NLTSVKNFED LQNEIKDSEI RQKLRKLYGS PGDIDLWPAL
1210 1220 1230 1240 1250
MVEDLIPGTR VGPTLMCLFV TQFQRLRDGD RFWYENPGVF TPAQLTQLKQ
1260 1270 1280 1290 1300
ASLSRVLCDN GDSIQQVQAD VFVKAEYPQD YLNCSEIPKV DLRVWQDCCA
1310 1320 1330 1340 1350
DCRSRGQFRA VTQESQKKRS AQYSYPVDKD MELSHLRSRQ QDKIYVGEDA
1360 1370 1380 1390 1400
RNVTVLAKTK FSQDFSTFAA EIQETITALR EQINKLEARL RQAGCTDVRG
1410 1420 1430 1440 1450
VPRKAEERWM KEDCTHCICE SGQVTCVVEI CPPAPCPSPE LVKGTCCPVC
1460
RDRGMPSDSP EKR
Length:1,463
Mass (Da):163,686
Last modified:January 11, 2011 - v3
Checksum:iF6FE8200892CCCAE
GO
Isoform 2 (identifier: A1KZ92-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1302-1316: CRSRGQFRAVTQESQ → KQAGGTPEAGRVYRC
     1317-1463: Missing.

Note: No experimental confirmation available.
Show »
Length:1,316
Mass (Da):146,935
Checksum:iB9FD640C9FF6E1FF
GO
Isoform PMR1 (identifier: A1KZ92-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-801: Missing.
     1302-1463: CRSRGQFRAV...GMPSDSPEKR → KQAGGTPEAGRVYRC

Show »
Length:515
Mass (Da):57,461
Checksum:i5A872CB698D94326
GO

Sequence cautioni

The sequence AAX70929 differs from that shown. Reason: Frameshift at positions 127 and 132.Curated
The sequence BAB71713 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BAD18663 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence EAW86707 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti781R → G in BAD18663 (PubMed:14702039).Curated1
Sequence conflicti833S → N in BAD18663 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_050488343I → T. Corresponds to variant dbSNP:rs7833909Ensembl.1
Natural variantiVAR_050489583R → Q. Corresponds to variant dbSNP:rs16916235Ensembl.1
Natural variantiVAR_050490616D → A. Corresponds to variant dbSNP:rs16916207Ensembl.1
Natural variantiVAR_050491981M → V4 PublicationsCorresponds to variant dbSNP:rs2977020Ensembl.1
Natural variantiVAR_0504921327V → D. Corresponds to variant dbSNP:rs11774588Ensembl.1
Natural variantiVAR_0504931399R → K1 PublicationCorresponds to variant dbSNP:rs7827446Ensembl.1
Natural variantiVAR_0504941452D → E1 PublicationCorresponds to variant dbSNP:rs1052704Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0442401 – 801Missing in isoform PMR1. CuratedAdd BLAST801
Alternative sequenceiVSP_0442411302 – 1463CRSRG…SPEKR → KQAGGTPEAGRVYRC in isoform PMR1. CuratedAdd BLAST162
Alternative sequenceiVSP_0330701302 – 1316CRSRG…TQESQ → KQAGGTPEAGRVYRC in isoform 2. 1 PublicationAdd BLAST15
Alternative sequenceiVSP_0330711317 – 1463Missing in isoform 2. 1 PublicationAdd BLAST147

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EU170240 mRNA. Translation: ABX24517.1.
AY877349 mRNA. Translation: AAX70929.1. Frameshift.
AC090186 Genomic DNA. No translation available.
AC103958 Genomic DNA. No translation available.
AC107374 Genomic DNA. No translation available.
AC011128 Genomic DNA. No translation available.
AC012413 Genomic DNA. No translation available.
AK058200 mRNA. Translation: BAB71713.1. Different initiation.
AK131524 mRNA. Translation: BAD18663.1. Different initiation.
CH471068 Genomic DNA. Translation: EAW86707.1. Sequence problems.
CCDSiCCDS47855.1. [A1KZ92-1]
RefSeqiNP_653252.3. NM_144651.4.
UniGeneiHs.444882.

Genome annotation databases

EnsembliENST00000356297; ENSP00000348645; ENSG00000147485. [A1KZ92-1]
GeneIDi137902.
KEGGihsa:137902.
UCSCiuc003xqu.5. human. [A1KZ92-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiPXDNL_HUMAN
AccessioniPrimary (citable) accession number: A1KZ92
Secondary accession number(s): B5ME43
, B6CGZ3, H0YBM9, Q6ZMR2, Q96LH9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 11, 2011
Last modified: September 27, 2017
This is version 102 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. SIMILARITY comments
    Index of protein domains and families