Reviewed, UniProtKB/Swiss-Prot Q42290 (MPPB_ARATH)

Names and origin

Protein names

Recommended name:
    Probable mitochondrial-processing peptidase subunit beta
    EC=3.4.24.64
Alternative name(s):
    Beta-MPP

Gene names

Ordered Locus Names:	At3g02090
ORF Names:	F1C9.12

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	531 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	Cleaves presequences (transit peptides) from mitochondrial protein precursors By similarity.
Catalytic activity	Release of N-terminal transit peptides from precursor proteins imported into the mitochondrion, typically with Arg in position P2.
Cofactor	Binds 1 zinc ion per subunit By similarity.
Subunit structure	Heterodimer of alpha and beta subunits By similarity.
Subcellular location	Mitochondrion. Ref.4
Sequence similarities	Belongs to the peptidase M16 family.

Ontologies

Keywords
Cellular component	Mitochondrion
Coding sequence diversity	Alternative splicing
Domain	Transit peptide
Ligand	Metal-binding Zinc
Molecular function	Hydrolase Metalloprotease Oxidoreductase Protease
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW proteolysis Inferred from electronic annotation. Source: InterPro
Cellular component	cell wall Inferred from direct assay. Source: TAIR chloroplast Inferred from direct assay. Source: TAIR mitochondrial intermembrane space Inferred from direct assay. Source: TAIR mitochondrial matrix Inferred from direct assay. Source: TAIR mitochondrial outer membrane Inferred from direct assay. Source: TAIR mitochondrial respiratory chain complex III Inferred from direct assay. Source: TAIR nucleolus Inferred from direct assay. Source: TAIR plasma membrane Inferred from direct assay. Source: TAIR
Molecular function	metalloendopeptidase activity Inferred from electronic annotation. Source: InterPro oxidoreductase activity Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q42290-1)

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: Q42290-2)

The sequence of this isoform differs from the canonical sequence as follows:
     504-531: DIAISAIGPIQDLPDYNKFRRRTYWNRY → VRHCNLSYWSNPRFARLQQIQTQNLLEPVLRL

Note: Derived from EST data. May be due to a competing donor splice site. No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Transit peptide	1 – 25	25	Mitochondrion Potential
	Chain	26 – 531	506	Probable mitochondrial-processing peptidase subunit beta		PRO_0000045852
Regions
	Compositional bias	25 – 30	6	Poly-Ser
	Compositional bias	46 – 49	4	Poly-Pro
Sites
	Active site	144	1	Proton acceptor By similarity
	Active site	214	1	By similarity
	Metal binding	141	1	Zinc By similarity
	Metal binding	145	1	Zinc By similarity
	Metal binding	221	1	Zinc By similarity
Natural variations
	Alternative sequence	504 – 531	28	DIAIS…YWNRY → VRHCNLSYWSNPRFARLQQI QTQNLLEPVLRL in isoform 2.		VSP_018097

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified January 24, 2006. Version 2. Checksum: 08A3953AD192E6B5	FASTA	531	59,160
	10 20 30 40 50 60 MAMKNLLSLA RRSQRRLFLT QATRSSSSFS AIDSVPASAS PTALSPPPPH LMPYDHAAEI 70 80 90 100 110 120 IKNKIKKLEN PDKRFLKYAS PHPILASHNH ILSAPETRVT TLPNGLRVAT ESNLSAKTAT 130 140 150 160 170 180 VGVWIDAGSR FESDETNGTA HFLEHMIFKG TDRRTVRALE EEIEDIGGHL NAYTSREQTT 190 200 210 220 230 240 YYAKVLDSNV NQALDVLADI LQNSKFEEQR INRERDVILR EMQEVEGQTD EVVLDHLHAT 250 260 270 280 290 300 AFQYTPLGRT ILGPAQNVKS ITREDLQNYI KTHYTASRMV IAAAGAVKHE EVVEQVKKLF 310 320 330 340 350 360 TKLSSDPTTT SQLVANEPAS FTGSEVRMID DDLPLAQFAV AFEGASWTDP DSVALMVMQT 370 380 390 400 410 420 MLGSWNKNVG GGKHVGSDLT QRVAINEIAE SIMAFNTNYK DTGLFGVYAV AKADCLDDLS 430 440 450 460 470 480 YAIMYEVTKL AYRVSDADVT RARNQLKSSL LLHMDGTSPI AEDIGRQLLT YGRRIPTAEL 490 500 510 520 530 FARIDAVDAS TVKRVANKYI YDKDIAISAI GPIQDLPDYN KFRRRTYWNR Y
	Isoform 2. Checksum: E5D83B408D218D8A	FASTA	535	59,612
	10 20 30 40 50 60 MAMKNLLSLA RRSQRRLFLT QATRSSSSFS AIDSVPASAS PTALSPPPPH LMPYDHAAEI 70 80 90 100 110 120 IKNKIKKLEN PDKRFLKYAS PHPILASHNH ILSAPETRVT TLPNGLRVAT ESNLSAKTAT 130 140 150 160 170 180 VGVWIDAGSR FESDETNGTA HFLEHMIFKG TDRRTVRALE EEIEDIGGHL NAYTSREQTT 190 200 210 220 230 240 YYAKVLDSNV NQALDVLADI LQNSKFEEQR INRERDVILR EMQEVEGQTD EVVLDHLHAT 250 260 270 280 290 300 AFQYTPLGRT ILGPAQNVKS ITREDLQNYI KTHYTASRMV IAAAGAVKHE EVVEQVKKLF 310 320 330 340 350 360 TKLSSDPTTT SQLVANEPAS FTGSEVRMID DDLPLAQFAV AFEGASWTDP DSVALMVMQT 370 380 390 400 410 420 MLGSWNKNVG GGKHVGSDLT QRVAINEIAE SIMAFNTNYK DTGLFGVYAV AKADCLDDLS 430 440 450 460 470 480 YAIMYEVTKL AYRVSDADVT RARNQLKSSL LLHMDGTSPI AEDIGRQLLT YGRRIPTAEL 490 500 510 520 530 FARIDAVDAS TVKRVANKYI YDKVRHCNLS YWSNPRFARL QQIQTQNLLE PVLRL

References

[1]	"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana." Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. Nature 408:820-822(2000) [PubMed: 11130713] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[2]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Strain: cv. Columbia.
[3]	"Further progress towards a catalogue of all Arabidopsis genes: analysis of a set of 5000 non-redundant ESTs." Cooke R., Raynal M., Laudie M., Grellet F., Delseny M., Morris P.-C., Guerrier D., Giraudat J., Quigley F., Clabault G., Li Y.-F., Mache R., Krivitzky M., Gy I.J.-J., Kreis M., Lecharny A., Parmentier Y., Marbach J. , Fleck J., Clement B., Philipps G., Herve C., Bardet C., Tremousaygue D., Lescure B., Lacomme C., Roby D., Jourjon M.-F., Chabrier P., Charpenteau J.-L., Desprez T., Amselem J., Chiapello H., Hoefte H. Plant J. 9:101-124(1996) [PubMed: 8580968] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 321-421. Strain: cv. Columbia. Tissue: Leaf.
[4]	"Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins." Heazlewood J.L., Tonti-Filippini J.S., Gout A.M., Day D.A., Whelan J., Millar A.H. Plant Cell 16:241-256(2004) [PubMed: 14671022] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AC011664 Genomic DNA. Translation: AAF14827.1. AY126990 mRNA. Translation: AAM83217.1. BT000830 mRNA. Translation: AAN33205.1. BT000662 mRNA. Translation: AAN31809.1. BT001915 mRNA. Translation: AAN71914.1. Z35354 mRNA. Translation: CAA84561.1.
IPI	IPI00530627. IPI00539775.
RefSeq	NP_186858.1. NP_850500.1.
UniGene	At.23364 At.69050
3D structure databases
HSSP	HSSP built from PDB template 1HR6 based on UniProtKB P10507.
ModBase	Search...
Protein family/group databases
MEROPS	M16.003.
Proteomic databases
PRIDE	Q42290.
Genome annotation databases
GeneID	821084.
GenomeReviews	Gene locus AT3G02090 in contig BA000014_GR.
KEGG	ath:AT3G02090.
NMPDR	fig|3702.1.peg.12145.
Organism-specific databases
GeneFarm	2127. 202.
TAIR	At3g02090.
Phylogenomic databases
OMA	Q42290. FAQSGAY.
Enzyme and pathway databases
BRENDA	3.4.24.64. 302.
Gene expression databases
GermOnline	AT3G02090. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR011237. Pept_M16_core. IPR011765. Pept_M16_N. IPR001431. Pept_M16_Zn_BS. IPR007863. Peptidase_M16_C. [Graphical view]
Gene3D	G3DSA:3.30.830.10. Pept_M16_core. 2 hits.
Pfam	PF00675. Peptidase_M16. 1 hit. PF05193. Peptidase_M16_C. 1 hit. [Graphical view]
PROSITE	PS00143. INSULINASE. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

MPPB_ARATH

Accession

Primary (citable) accession number: Q42290
Secondary accession number(s): Q9SGA7

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 24, 2006
Last sequence update:	January 24, 2006
Last modified:	June 16, 2009
This is version 58 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)