P40037 (HMF1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Protein HMF1

Alternative name(s):
High dosage growth inhibitor

Gene names

Name:	HMF1
Synonyms:	HIG1
Ordered Locus Names:	YER057C

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	129 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Subcellular location	Cytoplasm. Nucleus Ref.1 Ref.5.
Miscellaneous	Present with 672 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the RutC family.

Ontologies

Keywords
Cellular component	Cytoplasm Nucleus
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	cytosol Inferred from direct assay Ref.5. Source: SGD mitochondrial intermembrane space Inferred from direct assay PubMed 22984289. Source: SGD nucleus Inferred from direct assay Ref.1. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
RPA34	P47006	1	EBI-8389,EBI-26109
YPR097W	Q06839	1	EBI-8389,EBI-33913

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 129

129

Protein HMF1

PRO_0000170312

Amino acid modifications

Modified residue

3

1

Phosphothreonine Ref.7

Secondary structure

1

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129

Helix Strand Turn

Details...

Beta strand

5 – 8

4

Beta strand

17 – 19

3

Beta strand

22 – 26

5

Beta strand

29 – 35

7

Helix

49 – 66

18

Helix

71 – 73

3

Beta strand

74 – 82

9

Helix

84 – 86

3

Helix

87 – 97

11

Beta strand

98 – 101

4

Beta strand

104 – 109

6

Helix

114 – 116

3

Beta strand

118 – 126

9

Sequences

	Sequence		Length	Mass (Da)
	P40037 [UniParc]. Last modified February 1, 1995. Version 1. Checksum: D1D252BBA47F81E8	FASTA	129	13,906
	10 20 30 40 50 60 MVTTLTPVIC ESAPAAAASY SHAMKVNNLI FLSGQIPVTP DNKLVEGSIA DKAEQVIQNI 70 80 90 100 110 120 KNVLEASNSS LDRVVKVNIF LADINHFAEF NSVYAKYFNT HKPARSCVAV AALPLGVDME MEAIAAERD

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A member of the YER057c/yjgf/Uk114 family links isoleucine biosynthesis and intact mitochondria maintenance in Saccharomyces cerevisiae." Kim J.-M., Yoshikawa H., Shirahige K. Genes Cells 6:507-517(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], SUBCELLULAR LOCATION.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome V." Dietrich F.S., Mulligan J.T., Hennessy K.M., Yelton M.A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Guzman E., Hartzell G., Hunicke-Smith S., Hyman R.W. , Kayser A., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Norgren R., Oefner P., Oh C., Petel F.X., Roberts D., Sehl P., Schramm S., Shogren T., Smith V., Taylor P., Wei Y., Botstein D., Davis R.W. Nature 387:78-81(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	"Mmf1p, a novel yeast mitochondrial protein conserved throughout evolution and involved in maintenance of the mitochondrial genome." Oxelmark E., Marchini A., Malanchi I., Magherini F., Jaquet L., Hajibagheri M.A., Blight K.J., Jauniaux J.-C., Tommasino M. Mol. Cell. Biol. 20:7784-7797(2000) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION.
[6]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[7]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-3, MASS SPECTROMETRY.
[8]	"X-ray structure of Saccharomyces cerevisiae homologous mitochondrial matrix factor 1 (Hmf1)." Deaconescu A.M., Roll-Mecak A., Bonanno J.B., Gerchman S.E., Kycia H., Studier F.W., Burley S.K. Proteins 48:431-436(2002) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS).
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AB050475 Genomic DNA. Translation: BAB20815.1.
U18813 Genomic DNA. Translation: AAB64593.1.
AY558456 Genomic DNA. Translation: AAS56782.1.
BK006939 Genomic DNA. Translation: DAA07715.1.

PIR

S50560.

RefSeq

NP_010978.3. NM_001178948.3.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1JD1	X-ray	1.70	A/B/C/D/E/F	1-129	[»]

ProteinModelPortal

P40037.

SMR

P40037. Positions 3-128.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-4314N.

IntAct

P40037. 2 interactions.

MINT

MINT-555220.

STRING

4932.YER057C.

Proteomic databases

PaxDb

P40037.

PeptideAtlas

P40037.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YER057C; YER057C; YER057C.

GeneID

856785.

KEGG

sce:YER057C.
sce:YER060W.

Organism-specific databases

CYGD

YER057c.

SGD

S000000859. HMF1.

Phylogenomic databases

eggNOG

COG0251.

GeneTree

ENSGT00420000029792.

HOGENOM

HOG000267215.

OMA

PYNQAVV.

OrthoDB

EOG483HF3.

Gene expression databases

Genevestigator

P40037.

GermOnline

YER057C. Saccharomyces cerevisiae.

Family and domain databases

Gene3D

3.30.1330.40. 1 hit.

InterPro

IPR013813. Endoribo_LPSP/chorism_mut-like.
IPR006056. YjgF-like.
IPR019897. YjgF-like_CS.
IPR006175. YjgF/Yer057p/UK114.
[Graphical view]

PANTHER

PTHR11803. PTHR11803. 1 hit.

Pfam

PF01042. Ribonuc_L-PSP. 1 hit.
[Graphical view]

SUPFAM

SSF55298. YjgF/chorismate_mutase-like. 1 hit.

TIGRFAMs

TIGR00004. TIGR00004. 1 hit.

PROSITE

PS01094. UPF0076. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P40037.

NextBio

983003.

Entry information

Entry name

HMF1_YEAST

Accession

Primary (citable) accession number: P40037
Secondary accession number(s): D3DLW1

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	April 3, 2013
This is version 129 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program