P13674 (P4HA1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Prolyl 4-hydroxylase subunit alpha-1
Short name=4-PH alpha-1
EC=1.14.11.2

Alternative name(s):
Procollagen-proline,2-oxoglutarate-4-dioxygenase subunit alpha-1

Gene names

Name:	P4HA1
Synonyms:	P4HA

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	534 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Catalyzes the post-translational formation of 4-hydroxyproline in -Xaa-Pro-Gly- sequences in collagens and other proteins.
Catalytic activity	L-proline-[procollagen] + 2-oxoglutarate + O2 = trans-4-hydroxy-L-proline-[procollagen] + succinate + CO2.
Cofactor	Binds 1 Fe2+ ion per subunit. Ascorbate.
Subunit structure	Heterotetramer of two alpha-1 chains and two beta chains (the beta chain is the multi-functional PDI). Ref.8
Subcellular location	Endoplasmic reticulum lumen.
Sequence similarities	Belongs to the P4HA family. Contains 1 Fe2OG dioxygenase domain. Contains 1 TPR repeat.

Ontologies

Keywords
Cellular component	Endoplasmic reticulum
Coding sequence diversity	Alternative splicing
Domain	Signal TPR repeat
Ligand	Iron Metal-binding Vitamin C
Molecular function	Dioxygenase Oxidoreductase
PTM	Glycoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	collagen fibril organization Inferred from electronic annotation. Source: Compara peptidyl-proline hydroxylation to 4-hydroxy-L-proline Inferred from electronic annotation. Source: Compara
Cellular_component	endoplasmic reticulum Inferred from direct assay. Source: HPA endoplasmic reticulum lumen Inferred from electronic annotation. Source: UniProtKB-SubCell mitochondrion Inferred from direct assay. Source: HPA
Molecular_function	L-ascorbic acid binding Inferred from electronic annotation. Source: UniProtKB-KW iron ion binding Inferred from electronic annotation. Source: InterPro oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen Inferred from electronic annotation. Source: UniProtKB-KW procollagen-proline 4-dioxygenase activity Traceable author statement Ref.1. Source: ProtInc
Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: P13674-1)

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.

Isoform 2 (identifier: P13674-2)

The sequence of this isoform differs from the canonical sequence as follows:
     361-380: RRATISNPITGDLETVHYRI → SRATVHDPETGKLTTAQYRV

Isoform 3 (identifier: P13674-3)

The sequence of this isoform differs from the canonical sequence as follows:
     361-380: RRATISNPITGDLETVHYRI → SRATVHDPETGKLTTAQYRV
     417-434: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 17

17

Chain

18 – 534

517

Prolyl 4-hydroxylase subunit alpha-1

PRO_0000022723

Regions

Repeat

205 – 238

34

TPR

Domain

411 – 519

109

Fe2OG dioxygenase

Sites

Metal binding

429

1

Iron By similarity

Metal binding

431

1

Iron By similarity

Metal binding

500

1

Iron By similarity

Binding site

510

1

2-oxoglutarate Potential

Amino acid modifications

Glycosylation

113

1

N-linked (GlcNAc...) Ref.6

Glycosylation

259

1

N-linked (GlcNAc...)

Natural variations

Alternative sequence

361 – 380

20

RRATI…VHYRI → SRATVHDPETGKLTTAQYRV in isoform 2 and isoform 3.

VSP_004504

Alternative sequence

417 – 434

18

Missing in isoform 3.

VSP_044578

Experimental info

Mutagenesis

210

1

Y → A: Strongly reduced affinity for peptide substrate. Ref.8

Mutagenesis

213

1

Y → A: Strongly reduced affinity for peptide substrate. Ref.8

Mutagenesis

247

1

Y → A: Strongly reduced affinity for peptide substrate. Ref.8

Sequence conflict

119 – 122

4

QYFP → PVLS in AAA36534. Ref.1

Sequence conflict

119 – 122

4

QYFP → PVLS in AAA36535. Ref.1

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

534

Helix Strand Turn

Details...

Helix

164 – 176

13

Helix

180 – 195

16

Helix

204 – 217

14

Helix

221 – 234

14

Helix

239 – 255

17

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified November 1, 1997. Version 2. Checksum: EBAFA8CCF09A1DDB	FASTA	534	61,049
	10 20 30 40 50 60 MIWYILIIGI LLPQSLAHPG FFTSIGQMTD LIHTEKDLVT SLKDYIKAEE DKLEQIKKWA 70 80 90 100 110 120 EKLDRLTSTA TKDPEGFVGH PVNAFKLMKR LNTEWSELEN LVLKDMSDGF ISNLTIQRQY 130 140 150 160 170 180 FPNDEDQVGA AKALLRLQDT YNLDTDTISK GNLPGVKHKS FLTAEDCFEL GKVAYTEADY 190 200 210 220 230 240 YHTELWMEQA LRQLDEGEIS TIDKVSVLDY LSYAVYQQGD LDKALLLTKK LLELDPEHQR 250 260 270 280 290 300 ANGNLKYFEY IMAKEKDVNK SASDDQSDQK TTPKKKGVAV DYLPERQKYE MLCRGEGIKM 310 320 330 340 350 360 TPRRQKKLFC RYHDGNRNPK FILAPAKQED EWDKPRIIRF HDIISDAEIE IVKDLAKPRL 370 380 390 400 410 420 RRATISNPIT GDLETVHYRI SKSAWLSGYE NPVVSRINMR IQDLTGLDVS TAEELQVANY 430 440 450 460 470 480 GVGGQYEPHF DFARKDEPDA FKELGTGNRI ATWLFYMSDV SAGGATVFPE VGASVWPKKG 490 500 510 520 530 TAVFWYNLFA SGEGDYSTRH AACPVLVGNK WVSNKWLHER GQEFRRPCTL SELE
	Isoform 2 [UniParc]. Checksum: 5FE1B10A8AC5E792	FASTA	534	60,967
	10 20 30 40 50 60 MIWYILIIGI LLPQSLAHPG FFTSIGQMTD LIHTEKDLVT SLKDYIKAEE DKLEQIKKWA 70 80 90 100 110 120 EKLDRLTSTA TKDPEGFVGH PVNAFKLMKR LNTEWSELEN LVLKDMSDGF ISNLTIQRQY 130 140 150 160 170 180 FPNDEDQVGA AKALLRLQDT YNLDTDTISK GNLPGVKHKS FLTAEDCFEL GKVAYTEADY 190 200 210 220 230 240 YHTELWMEQA LRQLDEGEIS TIDKVSVLDY LSYAVYQQGD LDKALLLTKK LLELDPEHQR 250 260 270 280 290 300 ANGNLKYFEY IMAKEKDVNK SASDDQSDQK TTPKKKGVAV DYLPERQKYE MLCRGEGIKM 310 320 330 340 350 360 TPRRQKKLFC RYHDGNRNPK FILAPAKQED EWDKPRIIRF HDIISDAEIE IVKDLAKPRL 370 380 390 400 410 420 SRATVHDPET GKLTTAQYRV SKSAWLSGYE NPVVSRINMR IQDLTGLDVS TAEELQVANY 430 440 450 460 470 480 GVGGQYEPHF DFARKDEPDA FKELGTGNRI ATWLFYMSDV SAGGATVFPE VGASVWPKKG 490 500 510 520 530 TAVFWYNLFA SGEGDYSTRH AACPVLVGNK WVSNKWLHER GQEFRRPCTL SELE
	Isoform 3 [UniParc]. Checksum: ED30BECCFB48CD7E	FASTA	516	58,958
	10 20 30 40 50 60 MIWYILIIGI LLPQSLAHPG FFTSIGQMTD LIHTEKDLVT SLKDYIKAEE DKLEQIKKWA 70 80 90 100 110 120 EKLDRLTSTA TKDPEGFVGH PVNAFKLMKR LNTEWSELEN LVLKDMSDGF ISNLTIQRQY 130 140 150 160 170 180 FPNDEDQVGA AKALLRLQDT YNLDTDTISK GNLPGVKHKS FLTAEDCFEL GKVAYTEADY 190 200 210 220 230 240 YHTELWMEQA LRQLDEGEIS TIDKVSVLDY LSYAVYQQGD LDKALLLTKK LLELDPEHQR 250 260 270 280 290 300 ANGNLKYFEY IMAKEKDVNK SASDDQSDQK TTPKKKGVAV DYLPERQKYE MLCRGEGIKM 310 320 330 340 350 360 TPRRQKKLFC RYHDGNRNPK FILAPAKQED EWDKPRIIRF HDIISDAEIE IVKDLAKPRL 370 380 390 400 410 420 SRATVHDPET GKLTTAQYRV SKSAWLSGYE NPVVSRINMR IQDLTGLDVS TAEELQKDEP 430 440 450 460 470 480 DAFKELGTGN RIATWLFYMS DVSAGGATVF PEVGASVWPK KGTAVFWYNL FASGEGDYST 490 500 510 RHAACPVLVG NKWVSNKWLH ERGQEFRRPC TLSELE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular cloning of the alpha-subunit of human prolyl 4-hydroxylase: the complete cDNA-derived amino acid sequence and evidence for alternative splicing of RNA transcripts." Helaakoski T., Vuori K., Myllylae R., Kivirikko K.I., Pihlajaniemi T. Proc. Natl. Acad. Sci. U.S.A. 86:4392-4396(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
[2]	"Structure and expression of the human gene for the alpha subunit of prolyl 4-hydroxylase. The two alternatively spliced types of mRNA correspond to two homologous exons the sequences of which are expressed in a variety of tissues." Helaakoski T., Veijola J., Vuori K., Rehn M., Chow L.T., Taillon-Miller P., Kivirikko K.I., Pihlajaniemi T. J. Biol. Chem. 269:27847-27854(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], ALTERNATIVE SPLICING.
[3]	"PCR isolation and cloning of novel splice variant mRNAs from known drug target genes." Jin P., Fu G.K., Wilson A.D., Yang J., Chien D., Hawkins P.R., Au-Young J., Stuve L.L. Genomics 83:566-571(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
[4]	"The DNA sequence and comparative analysis of human chromosome 10." Deloukas P., Earthrowl M.E., Grafham D.V., Rubenfield M., French L., Steward C.A., Sims S.K., Jones M.C., Searle S., Scott C., Howe K., Hunt S.E., Andrews T.D., Gilbert J.G.R., Swarbreck D., Ashurst J.L., Taylor A., Battles J. , Bird C.P., Ainscough R., Almeida J.P., Ashwell R.I.S., Ambrose K.D., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Bates K., Beasley H., Bray-Allen S., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Cahill P., Camire D., Carter N.P., Chapman J.C., Clark S.Y., Clarke G., Clee C.M., Clegg S., Corby N., Coulson A., Dhami P., Dutta I., Dunn M., Faulkner L., Frankish A., Frankland J.A., Garner P., Garnett J., Gribble S., Griffiths C., Grocock R., Gustafson E., Hammond S., Harley J.L., Hart E., Heath P.D., Ho T.P., Hopkins B., Horne J., Howden P.J., Huckle E., Hynds C., Johnson C., Johnson D., Kana A., Kay M., Kimberley A.M., Kershaw J.K., Kokkinaki M., Laird G.K., Lawlor S., Lee H.M., Leongamornlert D.A., Laird G., Lloyd C., Lloyd D.M., Loveland J., Lovell J., McLaren S., McLay K.E., McMurray A., Mashreghi-Mohammadi M., Matthews L., Milne S., Nickerson T., Nguyen M., Overton-Larty E., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K., Rice C.M., Rogosin A., Ross M.T., Sarafidou T., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Standring L., Sycamore N., Tester J., Thorpe A., Torcasso W., Tracey A., Tromans A., Tsolas J., Wall M., Walsh J., Wang H., Weinstock K., West A.P., Willey D.L., Whitehead S.L., Wilming L., Wray P.W., Young L., Chen Y., Lovering R.C., Moschonas N.K., Siebert R., Fechtel K., Bentley D., Durbin R.M., Hubbard T., Doucette-Stamm L., Beck S., Smith D.R., Rogers J. Nature 429:375-381(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Brain.
[6]	"Glycoproteomics analysis of human liver tissue by combination of multiple enzyme digestion and hydrazide chemistry." Chen R., Jiang X., Sun D., Han G., Wang F., Ye M., Wang L., Zou H. J. Proteome Res. 8:651-661(2009) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-113, MASS SPECTROMETRY. Tissue: Liver.
[7]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[8]	"The peptide-substrate-binding domain of collagen prolyl 4-hydroxylases is a tetratricopeptide repeat domain with functional aromatic residues." Pekkala M., Hieta R., Bergmann U., Kivirikko K.I., Wierenga R.K., Myllyharju J. J. Biol. Chem. 279:52255-52261(2004) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 161-261, SUBUNIT, MUTAGENESIS OF TYR-210; TYR-213 AND TYR-247.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M24486 mRNA. Translation: AAA36534.1.
M24487 mRNA. Translation: AAA36535.1.
U14620 , U14607, U14605, U14608, U14609, U14611, U14610, U14612, U14614, U14615, U14616, U14617, U14618, U14619 Genomic DNA. Translation: AAA59068.1.
U14620 , U14607, U14605, U14608, U14609, U14611, U14610, U14612, U14613, U14615, U14616, U14617, U14618, U14619 Genomic DNA. Translation: AAA59069.1.
CD013929 Genomic DNA. No translation available.
AL731563 Genomic DNA. Translation: CAH72754.1.
BC034998 mRNA. Translation: AAH34998.1.

IPI

IPI00009923.
IPI00218682.
IPI00916535.

PIR

DAHUA1. A33919.
DAHUA2. I37173.

RefSeq

NP_000908.2. NM_000917.3.
NP_001017962.1. NM_001017962.2.
NP_001136067.1. NM_001142595.1.
NP_001136068.1. NM_001142596.1.

UniGene

Hs.500047.
Hs.593005.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1TJC	X-ray	2.30	A/B	161-261	[»]
2V5F	X-ray	2.03	A	161-263	[»]

ProteinModelPortal

P13674.

ModBase

Search...

Protein-protein interaction databases

IntAct

P13674. 4 interactions.

MINT

MINT-4657265.

STRING

9606.ENSP00000263556.

PTM databases

PhosphoSite

P13674.

Polymorphism databases

DMDM

2507090.

Proteomic databases

PaxDb

P13674.

PRIDE

P13674.

Protocols and materials databases

DNASU

5033.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000263556; ENSP00000263556; ENSG00000122884.
ENST00000307116; ENSP00000307318; ENSG00000122884.
ENST00000373008; ENSP00000362099; ENSG00000122884.
ENST00000394890; ENSP00000378353; ENSG00000122884.
ENST00000412021; ENSP00000411688; ENSG00000122884.
ENST00000440381; ENSP00000414464; ENSG00000122884.

GeneID

5033.

KEGG

hsa:5033.

UCSC

uc001jtg.3. human.
uc010qkb.2. human.

Organism-specific databases

CTD

5033.

GeneCards

GC10M074767.

HGNC

HGNC:8546. P4HA1.

HPA

HPA007599.
HPA026593.

MIM

176710. gene.

neXtProt

NX_P13674.

PharmGKB

PA32874.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG78926.

HOGENOM

HOG000230465.

HOVERGEN

HBG006834.

InParanoid

P13674.

KO

K00472.

OMA

QYSTEMS.

OrthoDB

EOG4MKNG2.

Enzyme and pathway databases

BRENDA

1.14.11.2. 2681.

Gene expression databases

ArrayExpress

P13674.

Bgee

P13674.

CleanEx

HS_P4HA1.

Genevestigator

P13674.

GermOnline

ENSG00000122884. Homo sapiens.

Family and domain databases

Gene3D

1.25.40.10. 2 hits.

InterPro

IPR005123. Oxoglu/Fe-dep_dioxygenase.
IPR006620. Pro_4_hyd_alph.
IPR013547. Pro_4_hyd_alph_N.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical.
IPR019734. TPR_repeat.
[Graphical view]

Pfam

PF03171. 2OG-FeII_Oxy. 1 hit.
PF08336. P4Ha_N. 1 hit.
[Graphical view]

SMART

SM00702. P4Hc. 1 hit.
[Graphical view]

PROSITE

PS51471. FE2OG_OXY. 1 hit.
PS50005. TPR. 1 hit.
PS50293. TPR_REGION. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

ChEMBL

CHEMBL1250350.

DrugBank

DB01275. Hydralazine.
DB00172. L-Proline.
DB00139. Succinic acid.
DB00126. Vitamin C.

EvolutionaryTrace

P13674.

GenomeRNAi

5033.

NextBio

19392.

SOURCE

Search...

Entry information

Entry name

P4HA1_HUMAN

Accession

Primary (citable) accession number: P13674
Secondary accession number(s): C9JL12 , Q15082, Q15083, Q5VSQ5

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1990
Last sequence update:	November 1, 1997
Last modified:	May 29, 2013
This is version 153 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.