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PR01250

Identifier
RIBOSOMALL34  [View Relations]  [View Alignment]  
Accession
PR01250
No. of Motifs
4
Creation Date
19-SEP-1999
Title
Ribosomal protein L34 signature
Database References

PROSITE; PS01145 RIBOSOMAL_L34E
BLOCKS; BL01145
PFAM; PF01199 Ribosomal_L34e
INTERPRO; IPR001284
Literature References
1. GOLDEN, B.L., RAMAKRISHNAN, V. AND WHITE, S.W.
Ribosomal protein L: structural evidence of gene duplication from a 
primitive RNA binding protein.
EMBO J. 12 4901-4908 (1993).
 
2. LAN, Q., NIU, L.L. AND FALLON, A.M.
Mosquito ribosomal protein rpL31 resembles rat rpL34: cDNA and deduced 
amino acid sequence.
BIOCHIM.BIOPHYS.ACTA 1218 460-462 (1994).
 
3. GAO, J., KIM, S.R., CHUNG, Y.Y., LEE, J.M. AND AN, G.
Developmental and environmental regulation of two ribosomal protein genes
in tobacco.
PLANT MOL.BIOL. 25 761-770 (1994).

Documentation
Protein synthesis is co-ordinated in all cells by ribosomes, ribonucleo-
protein particles containing more than 50 different proteins and several
large RNAs [1]. Low resolution models show the protein arrangement in both
the large and small ribosomal subunits, but higher resolution structures are
required to reveal the detailed mechanistic functioning of the complex [2].
 
Ribosomal protein L34 contains 89-129 amino acid residues. On the basis of
sequence similarity, the ribosomal L34 family can be shown to include:
mammalian L34; mosquito L31 [1]; plant L34 [2]; yeast putative ribosomal
protein YIL052c; and Methanococcus jannaschii MJ0655.
 
RIBOSOMALL34 is a 4-element fingerprint that provides a signature for
ribosomal L34 proteins. The fingerprint was derived from an initial 
alignment of 10 sequences: the motifs were drawn from conserved regions
spanning virtually the full alignment length - motif 1 spans the region
encoded by PROSITE pattern RIBOSOMAL_L34E (PS01145). Two iterations on 
SPTR37_10f were required to reach convergence, at which point a true set
comprising 14 sequences was identified.
Summary Information
14 codes involving  4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
414141414
30000
20000
1234
True Positives
R34A_YEAST    R34B_YEAST    RL34_AEDAL    RL34_ARATH    
RL34_HUMAN RL34_METJA RL34_METTH RL34_PEA
RL34_PIG RL34_PYRHO RL34_RAT RL34_SCHPO
RL34_SULAC RL34_TOBAC
Sequence Titles
R34A_YEAST  60S RIBOSOMAL PROTEIN L34-A - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST). 
R34B_YEAST 60S RIBOSOMAL PROTEIN L34-B - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
RL34_AEDAL 60S RIBOSOMAL PROTEIN L34 (L31) - AEDES ALBOPICTUS (FOREST DAY MOSQUITO).
RL34_ARATH 60S RIBOSOMAL PROTEIN L34 - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
RL34_HUMAN 60S RIBOSOMAL PROTEIN L34 - HOMO SAPIENS (HUMAN).
RL34_METJA 50S RIBOSOMAL PROTEIN L34E - METHANOCOCCUS JANNASCHII.
RL34_METTH 50S RIBOSOMAL PROTEIN L34E - METHANOBACTERIUM THERMOAUTOTROPHICUM.
RL34_PEA 60S RIBOSOMAL PROTEIN L34 - PISUM SATIVUM (GARDEN PEA).
RL34_PIG 60S RIBOSOMAL PROTEIN L34 - SUS SCROFA (PIG).
RL34_PYRHO 50S RIBOSOMAL PROTEIN L34E - PYROCOCCUS HORIKOSHII.
RL34_RAT 60S RIBOSOMAL PROTEIN L34 - RATTUS NORVEGICUS (RAT).
RL34_SCHPO 60S RIBOSOMAL PROTEIN L34 - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
RL34_SULAC 50S RIBOSOMAL PROTEIN L34E - SULFOLOBUS ACIDOCALDARIUS.
RL34_TOBAC 60S RIBOSOMAL PROTEIN L34 - NICOTIANA TABACUM (COMMON TOBACCO).
Scan History
SPTR37_10f 2  100  NSINGLE    
Initial Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
YNTASNKTRLSRTP RL34_HUMAN 12 12 -
YATKSNQHRVVKTP RL34_PEA 13 13 -
YATKSNQHRIVKTP RL34_ARATH 13 13 -
YATKSNQHRVVKTP RL34_TOBAC 13 13 -
YNTASNKTRLSRTP RL34_PIG 12 12 -
YNTKSNKRRVVRTP RL34_AEDAL 12 12 -
YNTASNKTRLSRTP RL34_RAT 12 12 -
YRSRSYKRIFKKTP RL34_METTH 6 6 -
YRSRSYRRIYRRTP RL34_METJA 6 6 -
QRSGSFRKVFVKLP RL34_SULAC 6 6 -

Motif 2 width=18
Element Seqn Id St Int Rpt
PGNRIVYLYTKKVGKAPK RL34_HUMAN 25 -1 -
PGGKLVYQTTKKRASGPK RL34_PEA 26 -1 -
PGGKLVYQTTKKRASGPK RL34_ARATH 26 -1 -
PGGKLIYQSTKKRASGPK RL34_TOBAC 26 -1 -
PGNRIVYLYTKKVGKAPK RL34_PIG 25 -1 -
PGGRLVYLYVKKQRTVPK RL34_AEDAL 25 -1 -
PGNRIVYLYTKKVGKAPK RL34_RAT 25 -1 -
PGGRTVTHYRRKKPSKHV RL34_METTH 19 -1 -
PGGRIVIHYKRRKPGKPK RL34_METJA 19 -1 -
PSGKSTIHYERRKDNIAR RL34_SULAC 19 -1 -

Motif 3 width=11
Element Seqn Id St Int Rpt
CGVCPGKLRGV RL34_HUMAN 45 2 -
CPVTGKRIQGI RL34_PEA 44 0 -
CPVTGKRIQGI RL34_ARATH 44 0 -
CPVTGKRIQGI RL34_TOBAC 44 0 -
CGVCPGRLRGV RL34_PIG 45 2 -
CGQCKEKLSGI RL34_AEDAL 43 0 -
CGVLPGRLRGV RL34_RAT 45 2 -
CAGCGKPLHGV RL34_METTH 37 0 -
CAICGAELHGV RL34_METJA 37 0 -
CGMCKKPLNGV RL34_SULAC 37 0 -

Motif 4 width=23
Element Seqn Id St Int Rpt
RLSKTKKHVSRAYGGSMCAKCVR RL34_HUMAN 65 9 -
RLSRNRRTVNRAYGGVLSGGAVR RL34_PEA 66 11 -
RLSRNRRTVNRAYGGVLSGSAVR RL34_ARATH 66 11 -
RLSRNRRTVNRAYGGVLSGSAVR RL34_TOBAC 66 11 -
RLSKTKKHVQPGLWWFHVAKCVR RL34_PIG 65 9 -
RMCRRLKTVTRTFGGVLCHRCLR RL34_AEDAL 63 9 -
RLSKTKKHVQQGLWWLHVRQVCP RL34_RAT 65 9 -
KLSKSKKRPNRPYGGYYCSSCAR RL34_METTH 57 9 -
KLPKSQRRPERPYGGYLCPRCLK RL34_METJA 57 9 -
KYSKTEKRPERVYGGYLCHKCLE RL34_SULAC 54 6 -
Final Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
YNTASNKTRLSRTP RL34_HUMAN 12 12 -
YNTRSNKIKVVKTP R34A_YEAST 13 13 -
YNTRSNKIKVVKTP R34B_YEAST 13 13 -
YATKSNQHRVVKTP RL34_PEA 13 13 -
YATKSNQHRIVKTP RL34_ARATH 13 13 -
YATKSNQHRVVKTP RL34_TOBAC 13 13 -
YNTASNKTRLSRTP RL34_PIG 12 12 -
YNTRSNRTRIIKTP RL34_SCHPO 13 13 -
YNTKSNKRRVVRTP RL34_AEDAL 12 12 -
YNTASNKTRLSRTP RL34_RAT 12 12 -
YRSRSYKRIFKKTP RL34_METTH 6 6 -
YRSRSYRRIYRRTP RL34_METJA 6 6 -
YRSRSWRRKYVRTP RL34_PYRHO 8 8 -
QRSGSFRKVFVKLP RL34_SULAC 6 6 -

Motif 2 width=18
Element Seqn Id St Int Rpt
PGNRIVYLYTKKVGKAPK RL34_HUMAN 25 -1 -
PGGILRAQHVKKLATRPK R34A_YEAST 26 -1 -
PGGILRAQHVKKLATRPK R34B_YEAST 26 -1 -
PGGKLVYQTTKKRASGPK RL34_PEA 26 -1 -
PGGKLVYQTTKKRASGPK RL34_ARATH 26 -1 -
PGGKLIYQSTKKRASGPK RL34_TOBAC 26 -1 -
PGNRIVYLYTKKVGKAPK RL34_PIG 25 -1 -
PGNNIRYLHIKKLGTIPR RL34_SCHPO 26 -1 -
PGGRLVYLYVKKQRTVPK RL34_AEDAL 25 -1 -
PGNRIVYLYTKKVGKAPK RL34_RAT 25 -1 -
PGGRTVTHYRRKKPSKHV RL34_METTH 19 -1 -
PGGRIVIHYKRRKPGKPK RL34_METJA 19 -1 -
PGGRVVVHFERKKPKIAH RL34_PYRHO 21 -1 -
PSGKSTIHYERRKDNIAR RL34_SULAC 19 -1 -

Motif 3 width=11
Element Seqn Id St Int Rpt
CGVCPGKLRGV RL34_HUMAN 45 2 -
CGDCGSALQGI R34A_YEAST 44 0 -
CGDCGSALQGI R34B_YEAST 44 0 -
CPVTGKRIQGI RL34_PEA 44 0 -
CPVTGKRIQGI RL34_ARATH 44 0 -
CPVTGKRIQGI RL34_TOBAC 44 0 -
CGVCPGRLRGV RL34_PIG 45 2 -
CGDTGVPLQGI RL34_SCHPO 44 0 -
CGQCKEKLSGI RL34_AEDAL 43 0 -
CGVLPGRLRGV RL34_RAT 45 2 -
CAGCGKPLHGV RL34_METTH 37 0 -
CAICGAELHGV RL34_METJA 37 0 -
CAICGRPLNGI RL34_PYRHO 39 0 -
CGMCKKPLNGV RL34_SULAC 37 0 -

Motif 4 width=23
Element Seqn Id St Int Rpt
RLSKTKKHVSRAYGGSMCAKCVR RL34_HUMAN 65 9 -
TVSKTHKTVSRAYGGSRCANCVK R34A_YEAST 64 9 -
TVSKTHKTVSRAYGGSRCANCVK R34B_YEAST 64 9 -
RLSRNRRTVNRAYGGVLSGGAVR RL34_PEA 66 11 -
RLSRNRRTVNRAYGGVLSGSAVR RL34_ARATH 66 11 -
RLSRNRRTVNRAYGGVLSGSAVR RL34_TOBAC 66 11 -
RLSKTKKHVQPGLWWFHVAKCVR RL34_PIG 65 9 -
RLSHNKKTVQRAYGGCLSANAVK RL34_SCHPO 64 9 -
RMCRRLKTVTRTFGGVLCHRCLR RL34_AEDAL 63 9 -
RLSKTKKHVQQGLWWLHVRQVCP RL34_RAT 65 9 -
KLSKSKKRPNRPYGGYYCSSCAR RL34_METTH 57 9 -
KLPKSQRRPERPYGGYLCPRCLK RL34_METJA 57 9 -
KLPKTKKRPERPMPYLCPRCMRR RL34_PYRHO 59 9 -
KYSKTEKRPERVYGGYLCHKCLE RL34_SULAC 54 6 -