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Protein

Prolyl 3-hydroxylase OGFOD1

Gene

OGFOD1

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

Functioni

Prolyl 3-hydroxylase that catalyzes 3-hydroxylation of 'Pro-62' of small ribosomal subunit uS12 (RPS23), thereby regulating protein translation termination efficiency. Involved in stress granule formation.3 Publications

Catalytic activityi

[ribosomal protein uS12]-L-proline + 2-oxoglutarate + O2 = [ribosomal protein uS12]-(3S)-3-hydroxy-L-proline + succinate + CO2.1 Publication1 Publication

Cofactori

Protein has several cofactor binding sites:
  • Fe2+PROSITE-ProRule annotationNote: Binds 1 Fe2+ ion per subunit.PROSITE-ProRule annotation
  • L-ascorbateBy similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi155Iron; via tele nitrogenPROSITE-ProRule annotation1 Publication1
Metal bindingi157IronPROSITE-ProRule annotation1 Publication1
Binding sitei1692-oxoglutarate1 Publication1
Metal bindingi218Iron; via tele nitrogenPROSITE-ProRule annotation1 Publication1
Binding sitei2302-oxoglutaratePROSITE-ProRule annotation1 Publication1

GO - Molecular functioni

  • iron ion binding Source: InterPro
  • L-ascorbic acid binding Source: UniProtKB-KW
  • peptidyl-proline 3-dioxygenase activity Source: UniProtKB
  • peptidyl-proline dioxygenase activity Source: UniProtKB

GO - Biological processi

  • cell proliferation Source: UniProtKB
  • peptidyl-proline hydroxylation Source: CACAO
  • protein hydroxylation Source: UniProtKB
  • regulation of translational termination Source: UniProtKB
  • stress granule assembly Source: UniProtKB

Keywordsi

Molecular functionDioxygenase, Oxidoreductase
LigandIron, Metal-binding, Vitamin C

Names & Taxonomyi

Protein namesi
Recommended name:
Prolyl 3-hydroxylase OGFOD1 (EC:1.14.11.-)
Alternative name(s):
2-oxoglutarate and iron-dependent oxygenase domain-containing protein 1
Termination and polyadenylation 1 homolog
uS12 prolyl 3-hydroxylase1 Publication
Gene namesi
Name:OGFOD1
Synonyms:KIAA1612, TPA1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 16

Organism-specific databases

EuPathDBiHostDB:ENSG00000087263.16.
HGNCiHGNC:25585. OGFOD1.

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, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi155H → A: Loss of function. 1 Publication1
Mutagenesisi157D → A: Loss of function. 1 Publication1

Organism-specific databases

DisGeNETi55239.
OpenTargetsiENSG00000087263.
PharmGKBiPA143485568.

Chemistry databases

DrugBankiDB00126. Vitamin C.

Polymorphism and mutation databases

BioMutaiOGFOD1.
DMDMi74728942.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002889741 – 542Prolyl 3-hydroxylase OGFOD1Add BLAST542

Proteomic databases

EPDiQ8N543.
MaxQBiQ8N543.
PaxDbiQ8N543.
PeptideAtlasiQ8N543.
PRIDEiQ8N543.

PTM databases

iPTMnetiQ8N543.
PhosphoSitePlusiQ8N543.

Expressioni

Gene expression databases

BgeeiENSG00000087263.
CleanExiHS_OGFOD1.
ExpressionAtlasiQ8N543. baseline and differential.
GenevisibleiQ8N543. HS.

Organism-specific databases

HPAiHPA003215.

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi120532. 33 interactors.
IntActiQ8N543. 1 interactor.
STRINGi9606.ENSP00000457258.

Structurei

Secondary structure

1542
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi28 – 30Combined sources3
Helixi33 – 44Combined sources12
Beta strandi55 – 57Combined sources3
Beta strandi59 – 61Combined sources3
Beta strandi63 – 68Combined sources6
Helixi73 – 84Combined sources12
Beta strandi88 – 102Combined sources15
Helixi104 – 106Combined sources3
Helixi110 – 120Combined sources11
Helixi122 – 131Combined sources10
Beta strandi141 – 146Combined sources6
Beta strandi151 – 155Combined sources5
Beta strandi162 – 169Combined sources8
Helixi176 – 178Combined sources3
Beta strandi182 – 187Combined sources6
Beta strandi193 – 200Combined sources8
Beta strandi207 – 211Combined sources5
Beta strandi218 – 220Combined sources3
Beta strandi230 – 238Combined sources9
Helixi266 – 269Combined sources4
Helixi272 – 275Combined sources4
Helixi277 – 290Combined sources14
Beta strandi291 – 297Combined sources7
Helixi301 – 313Combined sources13
Beta strandi318 – 321Combined sources4
Turni324 – 326Combined sources3
Beta strandi327 – 332Combined sources6
Helixi334 – 336Combined sources3
Helixi339 – 349Combined sources11
Helixi351 – 361Combined sources11
Beta strandi434 – 442Combined sources9
Beta strandi459 – 467Combined sources9
Helixi473 – 475Combined sources3
Beta strandi479 – 483Combined sources5
Beta strandi489 – 493Combined sources5
Beta strandi500 – 505Combined sources6
Beta strandi509 – 513Combined sources5
Helixi518 – 525Combined sources8
Beta strandi532 – 541Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4NHXX-ray2.10A1-542[»]
4NHYX-ray2.60A/B/C/D1-542[»]
ProteinModelPortaliQ8N543.
SMRiQ8N543.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini134 – 239Fe2OG dioxygenasePROSITE-ProRule annotationAdd BLAST106

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi4 – 20Nuclear localization signalCuratedAdd BLAST17

Sequence similaritiesi

Belongs to the TPA1 family.Curated

Phylogenomic databases

eggNOGiKOG3844. Eukaryota.
COG3751. LUCA.
GeneTreeiENSGT00390000002349.
HOGENOMiHOG000007015.
HOVERGENiHBG056995.
InParanoidiQ8N543.
OMAiFSFVYYE.
OrthoDBiEOG091G08PF.
PhylomeDBiQ8N543.
TreeFamiTF105920.

Family and domain databases

InterProiView protein in InterPro
IPR005123. Oxoglu/Fe-dep_dioxygenase.
IPR019601. Oxoglutarate/Fe-dep_Oase_C.
IPR006620. Pro_4_hyd_alph.
PfamiView protein in Pfam
PF10637. Ofd1_CTDD. 1 hit.
SMARTiView protein in SMART
SM00702. P4Hc. 1 hit.
PROSITEiView protein in PROSITE
PS51471. FE2OG_OXY. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8N543-1) [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
MNGKRPAEPG PARVGKKGKK EVMAEFSDAV TEETLKKQVA EAWSRRTPFS
60 70 80 90 100
HEVIVMDMDP FLHCVIPNFI QSQDFLEGLQ KELMNLDFHE KYNDLYKFQQ
110 120 130 140 150
SDDLKKRREP HISTLRKILF EDFRSWLSDI SKIDLESTID MSCAKYEFTD
160 170 180 190 200
ALLCHDDELE GRRIAFILYL VPPWDRSMGG TLDLYSIDEH FQPKQIVKSL
210 220 230 240 250
IPSWNKLVFF EVSPVSFHQV SEVLSEEKSR LSISGWFHGP SLTRPPNYFE
260 270 280 290 300
PPIPRSPHIP QDHEILYDWI NPTYLDMDYQ VQIQEEFEES SEILLKEFLK
310 320 330 340 350
PEKFTKVCEA LEHGHVEWSS RGPPNKRFYE KAEESKLPEI LKECMKLFRS
360 370 380 390 400
EALFLLLSNF TGLKLHFLAP SEEDEMNDKK EAETTDITEE GTSHSPPEPE
410 420 430 440 450
NNQMAISNNS QQSNEQTDPE PEENETKKES SVPMCQGELR HWKTGHYTLI
460 470 480 490 500
HDHSKAEFAL DLILYCGCEG WEPEYGGFTS YIAKGEDEEL LTVNPESNSL
510 520 530 540
ALVYRDRETL KFVKHINHRS LEQKKTFPNR TGFWDFSFIY YE
Length:542
Mass (Da):63,246
Last modified:October 1, 2002 - v1
Checksum:i8834BB200D5D8D85
GO
Isoform 2 (identifier: Q8N543-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-140: Missing.

Note: No experimental confirmation available.
Show »
Length:402
Mass (Da):46,861
Checksum:i8309970C9ED3AEB8
GO

Sequence cautioni

The sequence BAB13438 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence BAB14880 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti50S → G in BAB13967 (PubMed:14702039).Curated1
Sequence conflicti112I → V in BAB14226 (PubMed:14702039).Curated1
Sequence conflicti343E → G in BAB14880 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_032545173P → S1 PublicationCorresponds to variant dbSNP:rs34883368Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0258521 – 140Missing in isoform 2. 1 PublicationAdd BLAST140

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB046832 mRNA. Translation: BAB13438.1. Different initiation.
AK001688 mRNA. Translation: BAA91838.1.
AK022130 mRNA. Translation: BAB13967.1.
AK022752 mRNA. Translation: BAB14226.1.
AK024314 mRNA. Translation: BAB14880.1. Different initiation.
AC092140 Genomic DNA. No translation available.
BC032919 mRNA. Translation: AAH32919.1.
CCDSiCCDS10761.2. [Q8N543-1]
RefSeqiNP_001311291.1. NM_001324362.1. [Q8N543-2]
NP_060703.3. NM_018233.3.
UniGeneiHs.231883.

Genome annotation databases

EnsembliENST00000566157; ENSP00000457258; ENSG00000087263. [Q8N543-1]
GeneIDi55239.
KEGGihsa:55239.
UCSCiuc002ejb.4. human. [Q8N543-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiOGFD1_HUMAN
AccessioniPrimary (citable) accession number: Q8N543
Secondary accession number(s): H3BUQ2
, Q9H7U5, Q9H9J9, Q9HA87, Q9HCG0, Q9NVB6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 29, 2007
Last sequence update: October 1, 2002
Last modified: October 25, 2017
This is version 122 of the entry and version 1 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

Caution

According to a report, it is incorporated into stress granules upon arsenite-induced stress and associates with heme-regulated kinase and eIF-2-alpha (EIF2S1) in regulating eIF-2-alpha phosphorylation (PubMed:20154146). However, no effect in eIF-2-alpha phosphorylation have been observed by another study (PubMed:24550447).2 Publications

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 16
    Human chromosome 16: 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. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families