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Protein

Interferon-related developmental regulator 1

Gene

IFRD1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Could play a role in regulating gene activity in the proliferative and/or differentiative pathways induced by NGF. May be an autocrine factor that attenuates or amplifies the initial ligand-induced signal (By similarity).By similarity

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation

Names & Taxonomyi

Protein namesi
Recommended name:
Interferon-related developmental regulator 1
Alternative name(s):
Nerve growth factor-inducible protein PC4
Gene namesi
Name:IFRD1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

HGNCiHGNC:5456. IFRD1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

MalaCardsiIFRD1.
Orphaneti98771. Spinocerebellar ataxia type 18.
PharmGKBiPA29691.

Polymorphism and mutation databases

BioMutaiIFRD1.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 451451Interferon-related developmental regulator 1PRO_0000153285Add
BLAST

Proteomic databases

EPDiO00458.
MaxQBiO00458.
PaxDbiO00458.
PRIDEiO00458.

PTM databases

iPTMnetiO00458.
PhosphoSiteiO00458.

Expressioni

Tissue specificityi

Expressed in a variety of tissues.

Gene expression databases

BgeeiO00458.
CleanExiHS_IFRD1.
ExpressionAtlasiO00458. baseline and differential.
GenevisibleiO00458. HS.

Organism-specific databases

HPAiHPA024122.

Interactioni

Subunit structurei

Interacts with PSIP1/LEDGF.1 Publication

Protein-protein interaction databases

BioGridi109697. 15 interactions.
IntActiO00458. 4 interactions.
MINTiMINT-1433046.
STRINGi9606.ENSP00000005558.

Structurei

3D structure databases

ProteinModelPortaliO00458.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi17 – 226Poly-Gly
Compositional biasi23 – 319Poly-Ala
Compositional biasi144 – 1496Poly-Ala

Sequence similaritiesi

Belongs to the IFRD family.Curated

Phylogenomic databases

eggNOGiKOG2842. Eukaryota.
ENOG410XSIZ. LUCA.
GeneTreeiENSGT00390000013347.
HOGENOMiHOG000252918.
HOVERGENiHBG052089.
InParanoidiO00458.
OMAiCFIATED.
PhylomeDBiO00458.
TreeFamiTF313638.

Family and domain databases

Gene3Di1.25.10.10. 2 hits.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR006921. Interferon-rel_develop_reg_C.
IPR007701. Interferon-rel_develop_reg_N.
[Graphical view]
PfamiPF05004. IFRD. 1 hit.
PF04836. IFRD_C. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: O00458-1) [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
MPKNKKRNTP HRGSSAGGGG SGAAAATAAT AGGQHRNVQP FSDEDASIET
60 70 80 90 100
MSHCSGYSDP SSFAEDGPEV LDEEGTQEDL EYKLKGLIDL TLDKSAKTRQ
110 120 130 140 150
AALEGIKNAL ASKMLYEFIL ERRMTLTDSI ERCLKKGKSD EQRAAAALAS
160 170 180 190 200
VLCIQLGPGI ESEEILKTLG PILKKIICDG SASMQARQTC ATCFGVCCFI
210 220 230 240 250
ATDDITELYS TLECLENIFT KSYLKEKDTT VICSTPNTVL HISSLLAWTL
260 270 280 290 300
LLTICPINEV KKKLEMHFHK LPSLLSCDDV NMRIAAGESL ALLFELARGI
310 320 330 340 350
ESDFFYEDME SLTQMLRALA TDGNKHRAKV DKRKQRSVFR DVLRAVEERD
360 370 380 390 400
FPTETIKFGP ERMYIDCWVK KHTYDTFKEV LGSGMQYHLQ SNEFLRNVFE
410 420 430 440 450
LGPPVMLDAA TLKTMKISRF ERHLYNSAAF KARTKARSKC RDKRADVGEF

F
Length:451
Mass (Da):50,269
Last modified:July 5, 2005 - v4
Checksum:iE1A086D34E471709
GO
Isoform 2 (identifier: O00458-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-50: Missing.

Show »
Length:401
Mass (Da):45,336
Checksum:i44DCB525C3F3DE55
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti44 – 441E → D in AAV38693 (Ref. 3) Curated
Sequence conflicti84 – 841L → R in CAA71366 (PubMed:9722946).Curated
Sequence conflicti314 – 3141Q → R in AAV38693 (Ref. 3) Curated
Sequence conflicti388 – 3925HLQSN → PLAVKM in CAA71366 (PubMed:9722946).Curated
Sequence conflicti396 – 3961R → E in CAA71366 (PubMed:9722946).Curated
Sequence conflicti401 – 41111LGPPVMLDAAT → TWTPSDALMLQR in CAA71366 (PubMed:9722946).CuratedAdd
BLAST

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti39 – 391Q → K Found in a renal cell carcinoma sample; somatic mutation. 1 Publication
VAR_064723

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 5050Missing in isoform 2. 1 PublicationVSP_044304Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y10313 mRNA. Translation: CAA71366.1.
AK298894 mRNA. Translation: BAH12897.1.
AK315967 mRNA. Translation: BAH14338.1.
BT019889 mRNA. Translation: AAV38692.1.
BT019890 mRNA. Translation: AAV38693.1.
AC002459 Genomic DNA. No translation available.
AC005192 Genomic DNA. Translation: AAC24562.1.
AC079741 Genomic DNA. No translation available.
BC001272 mRNA. Translation: AAH01272.1.
CCDSiCCDS34736.1. [O00458-1]
CCDS56504.1. [O00458-2]
RefSeqiNP_001007246.1. NM_001007245.2. [O00458-1]
NP_001184008.1. NM_001197079.1. [O00458-2]
NP_001184009.1. NM_001197080.1. [O00458-2]
NP_001541.2. NM_001550.3. [O00458-1]
UniGeneiHs.744747.
Hs.7879.

Genome annotation databases

EnsembliENST00000005558; ENSP00000005558; ENSG00000006652. [O00458-1]
ENST00000403825; ENSP00000384477; ENSG00000006652. [O00458-1]
ENST00000535603; ENSP00000439188; ENSG00000006652. [O00458-2]
ENST00000621379; ENSP00000483255; ENSG00000006652. [O00458-2]
GeneIDi3475.
KEGGihsa:3475.
UCSCiuc003vgh.4. human. [O00458-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y10313 mRNA. Translation: CAA71366.1.
AK298894 mRNA. Translation: BAH12897.1.
AK315967 mRNA. Translation: BAH14338.1.
BT019889 mRNA. Translation: AAV38692.1.
BT019890 mRNA. Translation: AAV38693.1.
AC002459 Genomic DNA. No translation available.
AC005192 Genomic DNA. Translation: AAC24562.1.
AC079741 Genomic DNA. No translation available.
BC001272 mRNA. Translation: AAH01272.1.
CCDSiCCDS34736.1. [O00458-1]
CCDS56504.1. [O00458-2]
RefSeqiNP_001007246.1. NM_001007245.2. [O00458-1]
NP_001184008.1. NM_001197079.1. [O00458-2]
NP_001184009.1. NM_001197080.1. [O00458-2]
NP_001541.2. NM_001550.3. [O00458-1]
UniGeneiHs.744747.
Hs.7879.

3D structure databases

ProteinModelPortaliO00458.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi109697. 15 interactions.
IntActiO00458. 4 interactions.
MINTiMINT-1433046.
STRINGi9606.ENSP00000005558.

PTM databases

iPTMnetiO00458.
PhosphoSiteiO00458.

Polymorphism and mutation databases

BioMutaiIFRD1.

Proteomic databases

EPDiO00458.
MaxQBiO00458.
PaxDbiO00458.
PRIDEiO00458.

Protocols and materials databases

DNASUi3475.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000005558; ENSP00000005558; ENSG00000006652. [O00458-1]
ENST00000403825; ENSP00000384477; ENSG00000006652. [O00458-1]
ENST00000535603; ENSP00000439188; ENSG00000006652. [O00458-2]
ENST00000621379; ENSP00000483255; ENSG00000006652. [O00458-2]
GeneIDi3475.
KEGGihsa:3475.
UCSCiuc003vgh.4. human. [O00458-1]

Organism-specific databases

CTDi3475.
GeneCardsiIFRD1.
HGNCiHGNC:5456. IFRD1.
HPAiHPA024122.
MalaCardsiIFRD1.
MIMi603502. gene.
neXtProtiNX_O00458.
Orphaneti98771. Spinocerebellar ataxia type 18.
PharmGKBiPA29691.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2842. Eukaryota.
ENOG410XSIZ. LUCA.
GeneTreeiENSGT00390000013347.
HOGENOMiHOG000252918.
HOVERGENiHBG052089.
InParanoidiO00458.
OMAiCFIATED.
PhylomeDBiO00458.
TreeFamiTF313638.

Miscellaneous databases

ChiTaRSiIFRD1. human.
GeneWikiiIFRD1.
GenomeRNAii3475.
PROiO00458.
SOURCEiSearch...

Gene expression databases

BgeeiO00458.
CleanExiHS_IFRD1.
ExpressionAtlasiO00458. baseline and differential.
GenevisibleiO00458. HS.

Family and domain databases

Gene3Di1.25.10.10. 2 hits.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR006921. Interferon-rel_develop_reg_C.
IPR007701. Interferon-rel_develop_reg_N.
[Graphical view]
PfamiPF05004. IFRD. 1 hit.
PF04836. IFRD_C. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning of the human interferon-related developmental regulator (IFRD1) gene coding for the PC4 protein, a member of a novel family of developmentally regulated genes."
    Buanne P., Incerti B., Guardavaccaro D., Avvantaggiato V., Simeone A., Tirone F.
    Genomics 51:233-242(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Tissue: Brain.
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Amygdala.
  3. "Cloning of human full-length CDSs in BD Creator(TM) system donor vector."
    Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A.
    Submitted (OCT-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
  4. "The DNA sequence of human chromosome 7."
    Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L.
    , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K.
    Nature 424:157-164(2003) [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: Cervix.
  6. "Isolation of cDNAs encoding novel transcription coactivators p52 and p75 reveals an alternate regulatory mechanism of transcriptional activation."
    Ge H., Si Y., Roeder R.G.
    EMBO J. 17:6723-6729(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH PSIP1.
  7. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  8. Cited for: VARIANT LYS-39.

Entry informationi

Entry nameiIFRD1_HUMAN
AccessioniPrimary (citable) accession number: O00458
Secondary accession number(s): B7Z5G1
, O75234, Q5U013, Q9BVE4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: July 5, 2005
Last modified: June 8, 2016
This is version 123 of the entry and version 4 of the sequence. [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 7
    Human chromosome 7: 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. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.