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  Home > Genomes > PDB chains (SCOP 1.75) > Ribosome inactivating proteins (RIP) domains


Ribosome inactivating proteins (RIP) superfamily domain assignments
in
PDB chains (SCOP 1.75)

Network of domain occurrence in all genomes

Assignment details

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PDB chains (SCOP 1.75) (PDB) has 45 significant domains in 45 proteins.

     

Sequence ID   Evalue   Region   Family  
1abrA   1.25e-82   3-249   Plant cytotoxins  
1ahcA   6.96e-77   1-245   Plant cytotoxins  
1apaA   1.1e-88   7-264   Plant cytotoxins  
1bryY   1.32e-77   2-246   Plant cytotoxins  
1ce7A   3.08e-69   13-240   Plant cytotoxins  
1cf5A   8.06e-79   1-244   Plant cytotoxins  
1d6aA   3.08e-89   2-261   Plant cytotoxins  
1d8vA   8.06e-79   1-244   Plant cytotoxins  
1dm0A   1.03e-78   2-285   Shiga toxin, A-chain  
1f8qA   3.59e-76   1-245   Plant cytotoxins  
1ggpA   8.06e-62   2-230   Plant cytotoxins  
1gisA   5.79e-79   2-246   Plant cytotoxins  
1giuA   3.08e-79   1-245   Plant cytotoxins  
1hwmA   5.13e-83   2-249   Plant cytotoxins  
1iftA   1.54e-79   6-262   Plant cytotoxins  
1il4A   2.57e-80   6-266   Plant cytotoxins  
1j1mA   4.47e-80   7-267   Plant cytotoxins  
1j1qA   1.1e-85   2-260   Plant cytotoxins  
1j4gA   3.52e-79   2-246   Plant cytotoxins  
1llnA   3.59e-76   1-259   Plant cytotoxins  
1lp8A   2.57e-75   3-252   Plant cytotoxins  
1m2tA   8.06e-74   6-247   Plant cytotoxins  
1momA   8.06e-77   1-245   Plant cytotoxins  
1mrgA   6.16e-76   1-245   Plant cytotoxins  
1mrjA   3.44e-79   1-245   Plant cytotoxins  
1nioA   5.79e-76   3-244   Plant cytotoxins  
1nliA   6.67e-76   2-246   Plant cytotoxins  
1obsA   6.82e-79   6-266   Plant cytotoxins  
1onkA   4.25e-78   2-244   Plant cytotoxins  
1oqlA   1.76e-79   2-244   Plant cytotoxins  
1pumA   2.93e-74   6-247   Plant cytotoxins  
1qi7A   3.08e-74   2-251   Plant cytotoxins  
1r4pA   1.32e-77   2-295   Shiga toxin, A-chain  
1r4qA   1.17e-78   2-285   Shiga toxin, A-chain  
1rl0A   3.59e-75   3-252   Plant cytotoxins  
1rzoA   2.57e-76   5-261   Plant cytotoxins  
1sz6A   6.3e-74   6-247   Plant cytotoxins  
1uq4A   6.01e-80   2-262   Plant cytotoxins  
1uq5A   1.61e-79   2-262   Plant cytotoxins  
1yf8A   5.35e-73   13-239   Plant cytotoxins  
2jdlA   8.8e-79   2-245   Plant cytotoxins  
2mllA   8.8e-69   13-240   Plant cytotoxins  
2pjoA   2.64e-80   7-267   Plant cytotoxins  
2q3nA   6.89e-76   4-248   Plant cytotoxins  
3ctkA   2.35e-79   4-246   Plant cytotoxins  

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View all assignments containing a Ribosome inactivating proteins (RIP) domain in each group of genomes.

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Select to display   Genome       Domains   Proteins
No Yes ALL   7944 7944
No Yes Aedes aegypti 55 (Not maintained) Yellow fever mosquito 2 2
No Yes Culex pipiens quinquefasciatus Southern house mosquito 1 1
No Yes Sphaerobolus stellatus v1.0   2 2
No Yes Daldinia eschscholzii EC12 v1.0   1 1
No Yes Magnaporthe poae ATCC 64411 22   1 1
No Yes Theobroma cacao B97-61/B2 v1 Cacao 4 4
No Yes Gossypium raimondii v221   3 3
No Yes Cucumis sativus v122 Cucumber 1 1
No Yes Malus domestica v196 Apple 9 9
No Yes Prunus persica v139 Peach 2 2
No Yes Manihot esculenta v147 Cassava 4 4
No Yes Populus trichocarpa v156 Black cottonwood 3 3
No Yes Triticum urartu 22   25 25
No Yes Triticum aestivum 22 Bread wheat 17 17
No Yes Aegilops tauschii 22   27 27
No Yes Brachypodium distachyon Stiff brome 6 6
No Yes Oryza barthii 22 African wild rice 38 36
No Yes Oryza meridionalis 22   31 30
No Yes Oryza glumaepatula 22   34 32
No Yes Oryza glaberrima African rice 21 21
No Yes Oryza punctata 22   33 30
No Yes Oryza nivara 22   36 33
No Yes Oryza brachyantha 22 Malo sina 13 13
No Yes Oryza sativa ssp. japonica 5.0 Japanese rice 39 39
No Yes Oryza sativa v193 Rice 39 39
No Yes Phyllostachys heterocyclavar. pubescens Kikko-chiku 4 4
No Yes Panicum virgatum v202 Switchgrass 60 60
No Yes Setaria italica v164 Foxtail millet 15 15
No Yes Zea mays subsp. mays Maize 10 10
No Yes Zea mays v181 Maize 14 14
No Yes Sorghum bicolor Sorghum 10 10
No Yes Streptomyces coelicolor A3(2)   1 1
No Yes Streptomyces scabiei 87.22   2 2
No Yes Melioribacter roseus P3M   1 1
No Yes Flavobacterium columnare ATCC 49512   1 1
No Yes Burkholderia sp. CCGE1002   1 1
No Yes Xanthomonas axonopodis pv. citri str. 306   1 1
No Yes Shigella dysenteriae Sd197   1 1
No Yes Theobroma cacao Matina 1-6 v0.9 Cacao 6 6
No Yes Hordeum vulgare 22 Domesticated barley 18 18
No Yes Oryza sativa ssp. Indica (Subspecies) Long-grained rice 43 42
No Yes Oscillatoria nigro-viridis PCC 7112   1 1
No Yes Calothrix parietina Calothrix sp. PCC 6303   1 1
No Yes Corynebacterium ulcerans 809   1 1
No Yes Corynebacterium diphtheriae BH8   1 1
No Yes Corynebacterium diphtheriae INCA 402   1 1
No Yes Corynebacterium diphtheriae VA01   1 1
No Yes Corynebacterium diphtheriae HC04   1 1
No Yes Corynebacterium diphtheriae HC03   1 1
No Yes Corynebacterium diphtheriae HC02   1 1
No Yes Corynebacterium diphtheriae HC01   1 1
No Yes Corynebacterium diphtheriae 241   1 1
No Yes Corynebacterium diphtheriae CDCE 8392   1 1
No Yes Corynebacterium diphtheriae PW8   1 1
No Yes Corynebacterium diphtheriae C7 (beta)   1 1
No Yes Corynebacterium diphtheriae 31A   1 1
No Yes Burkholderia ambifaria MC40-6   1 1
No Yes Burkholderia cenocepacia J2315   1 1
No Yes Xanthomonas citri subsp. citri Aw12879   1 1
No Yes Xanthomonas axonopodis Xac29-1   1 1
No Yes Shigella dysenteriae 1617   1 1
No Yes Escherichia coli O104:H4 str. 2009EL-2050   1 1
No Yes Escherichia coli O104:H4 str. 2009EL-2071   1 1
No Yes Escherichia coli O104:H4 str. 2011C-3493   1 1
No Yes Escherichia coli Xuzhou21   2 2
No Yes Escherichia coli O103:H2 str. 12009   2 2
No Yes Escherichia coli O26:H11 str. 11368   1 1
No Yes Escherichia coli O111:H- str. 11128   2 2
No Yes Escherichia coli O157:H7 str. TW14359   2 2
No Yes Escherichia coli O157:H7 str. EC4115   2 2
No Yes Escherichia coli O157:H7 str. Sakai   2 2
No Yes Escherichia coli O157:H7 str. EDL933   2 2
No Yes Malus x domestica (Duplicate) Apple 9 9
No Yes Ricinus communis (Early assembly) Castor bean 20 20
No Yes Combined (meta-genome)   1 1
No Yes Endophytic microbiome from Rice (meta-genome)   3 3
No Yes Fossil microbial community from Whale Fall at Santa Cruz Basin of the Pacific Ocean Sample #3 (meta-genome)   1 1
No Yes Guerrero Negro salt ponds hypersaline mat 09(Y) (meta-genome)   1 1
No Yes NCBI 2017_08 genome   3398 3393
No Yes STRING v9.0.5 (STRING)   115 114
No Yes Uniprot 2018_03 genome   2164 2112
No Yes NCBI plasmid sequences (Plasmids)   1 1
No Yes NCBI viral sequences (Viral)   13 13
No Yes PDB chains (SCOP 1.75) (PDB)   45 45
No Yes Protein Data Bank (all PDB sequenc)   301 299
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   1030 1030
No Yes UniProt viral sequences (Viral)   51 51

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Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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