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1.
Figure 2

Figure 2. From: Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes.

Alignment of Pop1 domain showing insertions in fungal sequences. The Pop1 domain of Pop1 protein sequences from Metazoa, Fungi and protozoa were aligned using ClustalW (). Alignment is visualized with Jalview () and conserved residues are highlighted.

Magnus Alm Rosenblad, et al. Nucleic Acids Res. 2006 October;34(18):5145-5156.
2.
Figure 6

Figure 6. From: Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes.

K-turn and K-loop motifs in P and MRP RNAs. K-turn motifs are part of helix P12 in both P and MRP RNAs. Organisms shown are Tetrahymena thermophila, A.mellifera, Brugia malayi, H.sapiens, L.bicolor and Thermoplasma volcanium. For Pezizomycotina and Basidiomycota two alternative structures are shown for the K-loop motif.

Magnus Alm Rosenblad, et al. Nucleic Acids Res. 2006 October;34(18):5145-5156.
3.
Figure 1

Figure 1. From: Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes.

Phylogenetic distribution of RNase P and MRP protein subunits and inferred homologies between fungal and metazoan proteins. Boxes with shaded background represent organisms where a protein homologue was identified with profile-based searches such as PSI-BLAST. ‘Sa-core’ are organisms closely related to S.cerevisiae; ‘Sa-oth’ are other Saccharomycotina except Yarrowia; ‘Sc’ is Schizosaccharomyces and ‘Pe’ is Pezizomycotina. P and MRP RNA sequences new to this publication are indicated. Homologies between fungal and metazoan proteins are suggested by profile-based searches as described in the text and they are indicated by arrows on top of the table.

Magnus Alm Rosenblad, et al. Nucleic Acids Res. 2006 October;34(18):5145-5156.
4.
Figure 5

Figure 5. From: Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes.

Relationship between Rpp25 and C9orf23 homologues. Protein sequences related to human Rpp25 and C9orf23 were subjected to phylogenetic analysis and a consensus tree was derived from neighbour joining, parsimony and maximum likelihood methods as described under Materials and Methods. Rpp25 and C9orf23 homologues are found in all vertebrates. Fishes appear to have two different Rpp25-related proteins. Organisms represented in tree are A.gambiae, A.thaliana, C.briggsae, C.elegans, C.intestinalis, Chlamydomonas reinhardtii, Caenorhabtidis remanei, C.savignyi, Dictyostelium discoideum, D.melanogaster, D.pseudoobscura, D.rerio, F.rubripes, H.sapiens, O.sativa, Oxytricha trifallax, Plasmodium berghei, Plasmodium chabaudi, Plasmodium falciparum, Plasmodium yoelii, R.norvegicus, S.purpuratus, Trypanosoma brucei, Tribolium castaneum, Toxoplasma gondii, T.nigroviridis, X.laevis, and X.tropicalis.

Magnus Alm Rosenblad, et al. Nucleic Acids Res. 2006 October;34(18):5145-5156.
5.
Figure 4

Figure 4. From: Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes.

Classification of Rpp14/Pop5/Pop8 proteins. Rpp14, Pop5 and Pop8 protein sequences were subjected to phylogenetic analysis and a consensus tree was derived from neighbour joining, parsimony and maximum likelihood methods as described under Materials and Methods. Organisms represented in tree are Anopheles gambiae, A.gossypii, Apis mellifera, A.nidulans, Aeropyrum pernix, A.thaliana, C.albicans, Caenorhabditis briggsae, C.elegans, C.merolae, Cryptococcus neoformans, D.hansenii, Drosophila melanogaster, Drosophila pseudoobscura, D.rerio, F.rubripes, G.gallus, Haloarcula marismortui, H.sapiens, Halobacterium sp., K.lactis, Methanosarcina acetivorans, Methanosarcina barkeri, Methanococcoides burtonii, M.grisea, Methanocaldococcus jannaschii, Methanopyrus kandleri, Methanococcus maripaludis, Methanothermobacter thermautotrophicus, Pyrococcus abyssi, Pyrococcus furiosus, R.norvegicus, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Sulfolobus solfataricus, Sulfolobus tokodaii, Thermococcus kodakaraensis, Ustilago maydis and Xenopus tropicalis.

Magnus Alm Rosenblad, et al. Nucleic Acids Res. 2006 October;34(18):5145-5156.
6.
Figure 3

Figure 3. From: Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes.

Phylogenetic tree of L7Ae family of proteins. Sequences of Rpp38 and Pop3 as well as other proteins with the L7Ae domain were subjected to phylogenetic analysis and a consensus tree was derived from neighbour joining, parsimony and maximum likelihood methods as described under Materials and Methods. The proximity of Rpp38 and Pop3 is consistent with an orthology relationship between these two proteins. Organisms shown for Rpp38/Pop3 are A.gossypii, Arabidopsis thaliana, Bos taurus, Candida albicans, C.cinereus, Canis familiaris, C.glabrata, Ciona savignyi, D.hansenii, F.rubripes, Gallus gallus, G.zeae, Homo sapiens, K.lactis, K.waltii, M.grisea, N.crassa, Oryza sativa, P.chrysosporium, Rattus norvegicus, S.cerevisiae, Saccharomyces pombe, Strongylocentrotus purpuratus, Xenopus laevis and Yarrowia lipolytica. Proteins that are not Rpp38 or Pop3 are Swiss-Prot entries with the L7Ae domain. SEBP2_HUMAN is a SECIS-binding protein and YLXQ_BACSU, RL30E_PYRFU, RL7A_HUMAN, RL30_HUMAN, RXL7_BACSU, RL7A_PYRFU, RS12A_ARATH and RS12_HUMAN are ribosomal proteins. NHPX_HUMAN is a U4 RNP and NOLA2_HUMAN and NHP2_YEAST are H/ACA RNPs. GA45A_HUMAN, GA45B_HUMAN, Q5TCA7_HUMAN and GA45G_HUMAN are growth arrest and DNA-damage-inducible proteins and K0256_HUMAN is a protein with unknown function.

Magnus Alm Rosenblad, et al. Nucleic Acids Res. 2006 October;34(18):5145-5156.

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