Yeast - Mitochondrial ribosomal proteins (MRPs)

mips


Hanns-Rüdiger Graack and Brigitte Wittmann-Liebold; Biochem. J. 329: 433-448 (1998)

Kitakawa, M., Graack, H.R., Grohmann, L., Goldschmidtreisin, S., Herfurth, E., Wittmann-Liebold, B., Nishimura, T., and Isono, K; Eur. J. Biochem. 245: 449-456 (1997)


Protein namec
Gene namec
Systematic name
Protein family name
Essential for mitochondrial function?
Amino acid residues Total

Amino acid residues Signal peptide

Calculated mol. mass of mature protein [Daa]
Apparent mol. mass of mature protein [kDab]

Calculated pI of mature protein

References
(a) Large subunit
YmL1 q
             
35
 
[24]
YmL2
MRP7, MRPL2
   YNL005c 
L27
Yes
      371 
27
40 092
40
10.61
[24, 25, 26]
YmL3
MRPL3
YMR024w
YmL3
n.d.
390
59
37 179
36
9.60
[11, 13]
YmL4
MRPL4
YLR439w
YmL4
Yes
319
14
35 295
35
6.91
[11, 27]
YmL5/7d
MRPL7
YDR237w
L5
n.d.
292
19
31 754
29
10.36
[13, 24]
YmL6e
YML6 g
YML025c
L4
n.d.
286
26
29 040
30
10.24
[13, 24]
YmL8
MRPL8
YJL063c
L17/S13
Yes
238
(1) j
26 822
28.5
10.60
[24, 28, 29]
YmL9
MRPL9
YGR220c
L3
Yes
269
19
27 553
27.5
10.92
[11, 30]
YmL10m
MRPL10
YNL284c
L15m
n.d.
272
57
29 856
28.5
11.10
[13, 24]
YmL11l
MRPL11
YDL202w
YmL11
n.d.
249
31
24 804
25
10.30
[13, 24]
YmL12 q
             
32
 
[24]
YmL13
MRPL13
YKR006c
YmL13
No
275
86
21 619
21
9.01
[24, 31]
YmL14m
MRPL14
YMR193w
L28m
n.d.
258
21
27 532
31
10.85
[13, 24]
YmL15
MRPL15
YLR312w-a
YmL15
n.d.
253
28
24 929
27
9.55
[13, 24]
YmL16e
MRPL6
YHR147c
L6
Yes
214
16
21 634
23
10.48
[24, 32]
YmL17m
MRPL17
YNL252c
YmL17m
n.d.
281
19
30 253
15
9.32
[13]
YmL18m
MRPL10
YNL284c
L15m
n.d.
272
47
29 856
24
11.10
[13, 24]
YmL19
MRPL19
YNL185c
L11
n.d.
158
n.d.
(16 670)
16
(10.68)
[13, 24]
YmL20
MRPL20
YKR085c
YmL20
Yes
195
18
20 626
19
11.00
[28, 33]
YmL21 q
             
23
 
[13]
YmL22 q
                 
[11, 24]
YmL23e
MRPL23
YOR150w
L13
n.d.
164
n.d.
(18 463)
15
(10.91)
[13, 24]
YmL24m
MRPL14
YMR193w
L28m
n.d.
258
21
27 532
17
n.d.
[13, 24]
YmL25e
MRPL25, YMR26
YGR076c
YmL25
Yes
156
(1) j
18 368
18
10.87
[24, 34]
YmL27
MRPL27
YBR282w
YmL27
Yes
146
16
14 798
15
10.90
[24, 35,36]
YmL28
MRPL28
YDR462w
YmL28
n.d.
147
26
14 387
14.5
11.11
[13, 24]
YmL29 q
             
14
 
[13]
YmL30m
MRPL17
YNL252c
YmL17m
n.d.
281
19
30 926
16
n.d.
[13, 24]
YmL31
MRPL31
YKL138c
YmL31
Yes
131
12
14 246
14.5
11.44
[11, 35, 37]
YmL32
MRPL32
YCR003w
YmL32
n.d.
183
71
13 374
11
10.68
[13, 24, 38]
YmL33
MRPL33
YMR286w
L30/L16
Yes
99
(1) j
11 012
11
11.04
[24, 39]
YmL34m
MRPL38
YKL170w
L14m
n.d.
138
57
8 812
12.5
10.27
[13, 24, 40]
YmL35e
MRPL35
YDR322w
YmL35
n.d.
367
n.d.
(42 824)
42
(10.34)
[13, 24]
YmL36
MRPL36
YBR122c
YmL36
n.d.
196
33
18 552
8.5
10.34
[13, 24]
YmL37
MRPL37
YBR268w
YmL37
n.d.
105
24
9 185
13.5
9.30
[13, 24]
YmL38m
MRPL38
YKL170w
L14m
n.d.
138
None
14 904
n.d.
10.57
[13, 24, 40]
YmL39
MRPL39
YML009c
L33
n.d.
70
(1) j
7 841
11
11.54
[13, 24]
YmL40
MRPL40
YPL173w
Potato S4
n.d.
297
n.d.
(33 749)
36
(10.26)
[13, 24]
YmL41
MRP20
YDR405w
L23
Yes
263/253
45/35
25 711
32
10.31
[24, 41]
YmL42 q
                 
[13]
YmL43 q
                 
[13]
YmL44 g
MRPL44, YMR44
YMR225c
YmL44
n.d.
98
None
11 476
13
10.38
[24, 42]
YmL45
MRPL45
YGL125w
YmL45
n.d.
599
38
63 936
26
n.d.
[13]
YmL46 q
                 
[13]
YmL47
RML16
YBL038w
L16
Yes
232
41f
(26 517)
24
(11.12)
[14, 43, 44]
YmL48 q
                 
[13]
YmL49e
MRPL49
YJL096w
YmL49
n.d.
224
n.d.
(25 402)
15
(11.37)
[13, 45]
 
MRP49
YKL167c
MRP49
No
137
19 f
(16 020)
16
10.15
[40, 41]
   
YEL050c
L2
Yes
393
n.d.
(43 785)
n.d.
(11.50)
[46]
(b) Small subunit 
var1k
var1
Q_A404
var1
Yes
396
None
46 786
40
10.73
[2, 47, 48]
 
MRP1
YDR347w
MRP1
Yes
321
n.d.
(36 628)
37
(9.81)
[49, 50]
 
MRP2
YPR166c
S14
Yes
115
15 f
(13 538)
14
(11.70)
[49, 51]
 
MRP3 q
           
60
 
[72]
 
MRP4
YHL004w
S2
Yes
394
n.d.
(44 159)
43
(9.59)
[52]
YmS2
MRPS2
YHR075c
YmS2
n.d.
400
35
40 770
40
8.51
[13]
 
MRPS9
YBR146w
S9
Yes
278
n.d.
(31 924)
n.d.
(11.07)
[53]
YmS6 q
             
35
 
[13]
YmS-A
MRP13
YGR084c
MRP13
No
324
10
34 676
35
10.60
[13, 54]
YmS-B q
             
18
 
[13]
YmS16
MRP17
YKL003c
YmS16
Yes
131
None
17 343
17
10.66
[13, 55]
YmS18
MRPS18
YNL306w
YmS18
n.d.
217
59
17 734
21
10.63
[13]
 
MRPS28
YDR337w
S15
Yes
286
33
29 467
28
10.59
[56]
 
NAM9
YNL137c
S4
Yes
485
34f
(56 509)
53
(10.22)
[57, 58]
 
PET123
YOR158w
PET123
Yes
318
n.d.
(41 650)
39
(10.61)
[59, 60, 61]
YmS-Tp
 
YDL045w-a
YmS-T
n.d.
95
(1) j
10 559
14
n.d.
[13]
(c) Subunit not determined 
 YMR-31
 
YFR049w
YMR-31
n.d.
123
8
12 792
12.5
10.09
[42, 62]
   
YDR116c r
L1
             
   
YGL068w r
L7/L12
             
   
YDR115w r
L34
             
 

Table Legend: MRPs of Yeast

pI values were taken from the literature or calculated from the mature form of the MRP using the program ISOELECTRIC (Genetics Computer Group) [63]; values in parentheses are deduced from complete protein sequences if the processed form is not known; Protein family name: families of similar r-proteins have been assigned according to the respective E. coli r-proteins of the large (Lxx) or small (Sxx) subunit unless stated otherwise; If no protein counterpart could be identified in the data banks, protein families have been termed according to the corresponding MRP; abbreviation: n.d., not determined. Key to superscript letters: a,b The molecular mass calculated from the deduced amino acid sequence is given as a. The molecular mass of the complete (unprocessed) ORF is given in parentheses if the N-terminal signal peptide has not been determined; b Molecular mass estimated by 1D SDS or 2D PAGE. c If MRPs and/or their genes have been termed differently in different publications, they are named according to the first determination of the respective sequence. In the case of amino acid sequences determined by direct biochemical methods, e.g. peptide microsequencing, incomplete sequences have also been assigned. Genes or ORFs which have been detected and termed by data resulting from the yeast genome project without any mitochondrial ribosomal location and function are given as synonyms. Protein names based on the YmL and YmS nomenclature are termed as described in [11, 13]. d YmL5 and YmL7 of [11] are two different modified forms of the same protein [13]. e Protein shows an elongated spot in the 2D PAGE owing to probable modification [13]. f Size of signal peptide deduced from properties of the N-terminal sequence. g Gene contains intron(s). h Sequence has been submitted to Swissprot databank [13]. i MRP-L27 has been mapped to chromosome 10 by [35] and to chromosome 2R by [36]. j The initiator methionine is cleaved off, hence this is not a cleavable signal sequence for mitochondrial import. k Only the shortest allele reported is considered; for other allelic forms see [64]. l YmL11 shows two different N-termini separated by four amino acid residues as found by amino acid sequencing [24]; the elongated form is presented. m Two proteins have been assigned to a single gene, see YmL10/YmL18, YmL14/YmL24, YmL17/YmL30, YmL34/YmL38. n Two mRNAs of different lengths have been detected; depending on the translational start site two different N-termini are possible. p This name is preliminary, since no 2D PAGE position according to [11] has yet been established. q Proteins have been characterized biochemically. r Yeast gene products identified by sequence similarity to eubacterial r-proteins lacking mt protein confirmation [46].


ABBREVIATIONS

MRP, mitochondrial ribosomal protein from different sources; mt, mitochondrial; ORF, open reading frame; r-protein(s), ribosomal protein(s); YmL or YmS, yeast mitochondrial ribosomal protein of the large or small ribosomal subunit respectively; 1D and 2D, one- and two-dimensional.

 

REFERENCES - Addendum

2 Hudspeth, M. E. S., Ainley, W. M., Shumard, D. S., Butow, R. A. and Grossman, L. I. (1982) Cell 30, 617626

33 García-Cantalejo, J., Baladrón, V., Estsban, P. F., Santos, M. A., Bou, G., Remacha, M. A., Revuelta, J. L., Ballesta, J. P., Jiménez, A. and del Rey, F. (1994) Yeast 10, 231-245

36 Holmstrom, K., Brandt, T. and Kallesoe, T. (1994) Yeast 10, Suppl. A, S47-S62

40 Vandenbol, M., Bolle, P. A., Dion, C., Portetelle, D. and Hilger, F. (1994) Yeast 10, Suppl. A, S25-S33

42 Matsushita, Y., Kitakawa, M. and Isono, K. (1989) Mol. Gen. Genet. 219, 1119-1124

44 Pan, C., Sirum-Connolly, K. and Mason, T. L. (1993) in The Translational Apparatus (Nierhaus, K. H., Franceschi, F., Subramanian, A. R., Erdmann, V. A. and Wittmann-Liebold, B., eds.), pp. 587-598, Plenum Press, New York

53 Kötter, P. and Entian, K.-D. (1995) Curr. Genet. 28, 26-31

63 Genetics Computer Group (1994) Program Manual for the Wisconsin Package, Version 8, September 1994, Genetics Computer Group, Madison


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