Q9Y3C8 (UFC1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Ubiquitin-fold modifier-conjugating enzyme 1
Short name=Ufm1-conjugating enzyme 1

Gene names

Name:	UFC1
ORF Names:	CGI-126, HSPC155

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	167 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	E2-like enzyme which forms an intermediate with UFM1 via a thioester linkage. Ref.1
Subunit structure	Interacts with UBA5. Interacts with UFL1. Ref.8 Ref.11
Sequence similarities	Belongs to the ubiquitin-conjugating enzyme family. UFC1 subfamily.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Coding sequence diversity	Polymorphism
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	protein ufmylation Inferred from direct assay Ref.1. Source: UniProtKB
Molecular_function	UFM1 conjugating enzyme activity Inferred from direct assay Ref.1. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 167

167

Ubiquitin-fold modifier-conjugating enzyme 1

PRO_0000082613

Sites

Active site

116

1

Glycyl thioester intermediate

Natural variations

Natural variant

90

1

Y → C. Ref.7
Corresponds to variant rs17849932 [ dbSNP | Ensembl ].

VAR_028312

Experimental info

Mutagenesis

30

1

Q → A: Does not affect neither UBA5-binding nor thioester formation with UFM1. Ref.11

Mutagenesis

33

1

K → A: Impairs binding to UBA5 and thioester formation with UFM1. Ref.11

Mutagenesis

116

1

C → S: Instead of the formation of an intermediate complex with a thiol ester bond between UFC1 (E2-like enzyme) and UFM1 (substrate), a stable complex with an O-ester bond is formed. Ref.1

Sequence conflict

159

1

I → N in BAF85465. Ref.4

Sequence conflict

160

1

Q → H in BAD15374. Ref.1

Sequence conflict

160

1

Q → H in AAF29119. Ref.3

Secondary structure

1

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167

Helix Strand Turn

Details...

Helix

2 – 10

9

Helix

26 – 48

23

Beta strand

54 – 58

5

Beta strand

64 – 73

10

Beta strand

76 – 85

10

Turn

88 – 92

5

Helix

100 – 102

3

Turn

103 – 105

3

Beta strand

107 – 109

3

Beta strand

113 – 115

3

Helix

121 – 128

8

Helix

134 – 140

7

Helix

142 – 156

15

Beta strand

162 – 164

3

Sequences

	Sequence		Length	Mass (Da)
	Q9Y3C8 [UniParc]. Last modified October 17, 2006. Version 3. Checksum: 1675D9187DC43E14	FASTA	167	19,458
	10 20 30 40 50 60 MADEATRRVV SEIPVLKTNA GPRDRELWVQ RLKEEYQSLI RYVENNKNAD NDWFRLESNK 70 80 90 100 110 120 EGTRWFGKCW YIHDLLKYEF DIEFDIPITY PTTAPEIAVP ELDGKTAKMY RGGKICLTDH 130 140 150 160 FKPLWARNVP KFGLAHLMAL GLGPWLAVEI PDLIQKGVIQ HKEKCNQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A novel protein-conjugating system for Ufm1, a ubiquitin-fold modifier." Komatsu M., Chiba T., Tatsumi K., Iemura S., Tanida I., Okazaki N., Ueno T., Kominami E., Natsume T., Tanaka K. EMBO J. 23:1977-1986(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, MUTAGENESIS OF CYS-116.
[2]	"Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics." Lai C.-H., Chou C.-Y., Ch'ang L.-Y., Liu C.-S., Lin W.-C. Genome Res. 10:703-713(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[3]	"Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells." Zhang Q.-H., Ye M., Wu X.-Y., Ren S.-X., Zhao M., Zhao C.-J., Fu G., Shen Y., Fan H.-Y., Lu G., Zhong M., Xu X.-R., Han Z.-G., Zhang J.-W., Tao J., Huang Q.-H., Zhou J., Hu G.-X. , Gu J., Chen S.-J., Chen Z. Genome Res. 10:1546-1560(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Umbilical cord blood.
[4]	"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]. Tissue: Trachea.
[5]	"The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R. Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[7]	"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], VARIANT CYS-90. Tissue: Urinary bladder.
[8]	"A novel type of E3 ligase for the Ufm1 conjugation system." Tatsumi K., Sou Y.S., Tada N., Nakamura E., Iemura S., Natsume T., Kang S.H., Chung C.H., Kasahara M., Kominami E., Yamamoto M., Tanaka K., Komatsu M. J. Biol. Chem. 285:5417-5427(2010) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH UFL1.
[9]	"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].
[10]	"GFT NMR based resonance assignment for the 21 kDa human protein UFC1." Liu G., Aramini J., Atreya H.S., Eletsky A., Xiao R., Acton T., Ma L., Montelione G.T., Szyperski T. J. Biomol. NMR 32:261-261(2005) [PubMed] [Europe PMC] [Abstract] Cited for: PRELIMINARY STRUCTURE BY NMR.
[11]	"Crystal structure of Ufc1, the Ufm1-conjugating enzyme." Mizushima T., Tatsumi K., Ozaki Y., Kawakami T., Suzuki A., Ogasahara K., Komatsu M., Kominami E., Tanaka K., Yamane T. Biochem. Biophys. Res. Commun. 362:1079-1084(2007) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS), INTERACTION WITH UBA5, MUTAGENESIS OF GLN-30 AND LYS-33.
[12]	"NMR and X-RAY structures of human E2-like ubiquitin-fold modifier conjugating enzyme 1 (UFC1) reveal structural and functional conservation in the metazoan UFM1-UBA5-UFC1 ubiquination pathway." Liu G., Forouhar F., Eletsky A., Atreya H.S., Aramini J.M., Xiao R., Huang Y.J., Abashidze M., Seetharaman J., Liu J., Rost B., Acton T., Montelione G.T., Hunt J.F., Szyperski T. J. Struct. Funct. Genomics 10:127-136(2009) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.54 ANGSTROMS), STRUCTURE BY NMR.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AB154405 mRNA. Translation: BAD15374.1.
AF151884 mRNA. Translation: AAD34121.1.
AF161504 mRNA. Translation: AAF29119.1.
AK292776 mRNA. Translation: BAF85465.1.
AL590714 Genomic DNA. Translation: CAH72141.1.
CH471121 Genomic DNA. Translation: EAW52646.1.
CH471121 Genomic DNA. Translation: EAW52647.1.
BC005187 mRNA. Translation: AAH05187.1.

IPI

IPI00294495.

RefSeq

NP_057490.2. NM_016406.3.

UniGene

Hs.301412.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2K07	NMR	-	A	1-167	[»]
2Z6O	X-ray	1.60	A	1-167	[»]
2Z6P	X-ray	1.80	A	1-167	[»]
3EVX	X-ray	2.54	A/B/C/D	1-167	[»]

ProteinModelPortal

Q9Y3C8.

ModBase

Search...

Protein-protein interaction databases

IntAct

Q9Y3C8. 1 interaction.

STRING

9606.ENSP00000356982.

PTM databases

PhosphoSite

Q9Y3C8.

Polymorphism databases

DMDM

116242840.

Proteomic databases

PaxDb

Q9Y3C8.

PeptideAtlas

Q9Y3C8.

PRIDE

Q9Y3C8.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000368003; ENSP00000356982; ENSG00000143222.

GeneID

51506.

KEGG

hsa:51506.

UCSC

uc001fyd.4. human.

Organism-specific databases

CTD

51506.

GeneCards

GC01P161122.

HGNC

HGNC:26941. UFC1.

HPA

HPA027481.
HPA028722.

MIM

610554. gene.

neXtProt

NX_Q9Y3C8.

PharmGKB

PA142670644.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG318908.

HOVERGEN

HBG054254.

InParanoid

Q9Y3C8.

KO

K12165.

OMA

GTKWFGK.

OrthoDB

EOG4C87TH.

Gene expression databases

Bgee

Q9Y3C8.

CleanEx

HS_UFC1.

Genevestigator

Q9Y3C8.

GermOnline

ENSG00000143222. Homo sapiens.

Family and domain databases

InterPro

IPR016135. UBQ-conjugating_enzyme/RWD.
IPR014806. Ufc1.
[Graphical view]

PANTHER

PTHR12921. PTHR12921. 1 hit.

Pfam

PF08694. UFC1. 1 hit.
[Graphical view]

PIRSF

PIRSF008716. DUF1782. 1 hit.

SUPFAM

SSF54495. UBQ-conjugat/RWD-like. 1 hit.

ProtoNet

Search...

Other

ChiTaRS

UFC1. human.

EvolutionaryTrace

Q9Y3C8.

GenomeRNAi

51506.

NextBio

55190.

SOURCE

Search...

Entry information

Entry name

UFC1_HUMAN

Accession

Primary (citable) accession number: Q9Y3C8
Secondary accession number(s): A8K9R1 , D3DVF9, Q549X0, Q5VTX1, Q9BS96, Q9P009

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	October 17, 2006
Last modified:	May 1, 2013
This is version 116 of the entry and version 3 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.