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TNF-like family domain assignments
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PDB chains (SCOP 1.75)

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PDB chains (SCOP 1.75) (PDB) has 40 significant domains in 40 proteins.

     

Sequence ID   Superfamily evalue   Family evalue   Region   Closest structure  
1a8mA   1.07e-53   0.00000231   10-155   4tsv A:  
1alyA   1.56e-43   0.000000751   23-146   1aly A:  
1d0gA   4.85e-60   0.000000228   7-168   1dg6 A:  
1d4vB   4.33e-60   0.000000228   2-163   1dg6 A:  
1dg6A   1.93e-59   0.000000209   30-191   1dg6 A:  
1gr3A   2.57e-60   0.00000821   32-159   1gr3 A:  
1iqaA   3.18e-56   0.000000253   6-159   1jtz X:  
1jtzX   4.16e-56   0.000000253   17-170   1jtz X:  
1kd7A   4.52e-40   0.0000016   57-163   1jh5 A:  
1kxgA   3.39e-40   0.0000016   45-151   1jh5 A:  
1o91A   1.74e-56   0.00000535   50-177   1o91 A:  
1oqeA   2.86e-40   0.0000016   37-143   1jh5 A:  
1osgA   9.05e-40   0.0000016   101-207   1jh5 A:  
1pk6A   4.15e-42   0.00000235   2-132   1pk6 A:  
1pk6B   9.27e-49   0.00000285   2-132   1pk6 B:  
1pk6C   8.05e-45   0.00000354   3-129   1pk6 C:  
1rj7A   4.96e-46   0.000000605   22-157   1rj8 A:  
1rj8A   1.59e-46   0.00000049   25-157   1rj8 A:  
1s55A   2.94e-56   0.000000253   2-155   1jtz X:  
1tnfA   1.25e-52   0.00000203   10-155   4tsv A:  
1tnrA   6.93e-45   0.00000119   1-144   1tnr A:  
1u5xA   2.69e-45   0.000000419   16-139   1xu1 A:  
1xu1A   2.52e-45   0.000000419   14-137   1xu1 A:  
2az5A   1.7e-53   0.00000203   1-146   4tsv A:  
2hevF   9.17e-57   0.00000062   13-136   2hev F:58-183  
2hewF   6.83e-56   0.000000337   12-139   2hew F:58-185  
2jg8A   4.33e-42   0.00000235   2-132   1pk6 A:  
2jg8B   1e-48   0.00000285   3-133   1pk6 B:  
2jg8C   8.57e-45   0.00000354   5-131   1pk6 C:  
2q1mA   5.72e-31   0.000000643   11-123   2q1m A:57-172  
2q8oA   3.64e-30   0.000000447   13-135   2q8o A:49-173  
2qdnA   7.19e-30   0.000000484   9-131   2q8o A:49-173  
2r30A   1.79e-30   0.000000711   11-123   2q1m A:57-172  
2r32A   1.34e-30   0.000000643   47-159   2q1m A:57-172  
2tnfA   1.51e-51   0.00000122   10-154   2tnf A:  
2tunA   9.82e-53   0.00000215   10-155   4tsv A:  
3b93A   6.25e-31   0.000000643   14-126   2q1m A:57-172  
4tsvA   5.53e-52   0.00000155   3-148   4tsv A:  
 
Weak hits:
1c28A   1.61e-52   0.017   3-131   1c28 A:  
1c3hA   1.74e-52   0.017   5-133   1c28 A:  

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Select to display   Genome       Domains   Proteins
No Yes ALL   16725 16725
No Yes Homo sapiens 76_38 Human 76 76
No Yes Pan troglodytes 76_2.1.4 Chimpanzee 24 24
No Yes Gorilla gorilla 76_3.1 Western gorilla 26 26
No Yes Pongo abelii 76_2 Sumatran orangutan 20 20
No Yes Nomascus leucogenys 76_1.0 Northern white-cheeked gibbon 22 22
No Yes Papio anubis 76 Olive baboon 23 23
No Yes Macaca mulatta 76_1 Rhesus monkey 32 32
No Yes Callithrix jacchus 76_3.2.1 White-tufted-ear marmoset 41 41
No Yes Otolemur garnettii 76_3 Small-eared galago 21 21
No Yes Microcebus murinus 76_1 Gray mouse lemur 17 17
No Yes Rattus norvegicus 76_5.0 Norway rat 23 23
No Yes Mus musculus 76_38 House mouse 41 41
No Yes Dipodomys ordii 76_1 Ord's kangaroo rat 11 11
No Yes Ictidomys tridecemlineatus 76_2 Thirteen-lined ground squirrel 20 20
No Yes Heterocephalus glaber v1.7-2 Naked mole-rat 21 21
No Yes Cavia porcellus 76_3 Domestic guinea pig 21 21
No Yes Oryctolagus cuniculus 76_2 Rabbit 23 23
No Yes Ochotona princeps 76 American pika 16 16
No Yes Tupaia belangeri 76 Northern tree shrew 17 17
No Yes Sus scrofa 76_10.2 Pig 27 27
No Yes Bos taurus 76_3.1 Cattle 26 26
No Yes Ovis aries 76_3.1 Sheep 24 24
No Yes Vicugna pacos 76_1 Alpaca 12 12
No Yes Tursiops truncatus 76_1 Bottlenose dolphin 19 19
No Yes Mustela putorius furo 76_1.0 Domestic ferret 21 21
No Yes Ailuropoda melanoleuca 76_1 Giant panda 24 24
No Yes Canis familiaris 76_3.1 Dog 25 25
No Yes Felis catus 76_6.2 Domestic cat 21 21
No Yes Equus caballus 76_2 Horse 22 22
No Yes Myotis lucifugus 76_2.0 Little brown bat 20 20
No Yes Pteropus vampyrus 76_1 Large flying fox 17 17
No Yes Sorex araneus 76_1 European shrew 11 11
No Yes Erinaceus europaeus 76 Western European hedgehog 14 14
No Yes Procavia capensis 76_1 Cape rock hyrax 16 16
No Yes Loxodonta africana 76_3 African savanna elephant 24 24
No Yes Echinops telfairi 76 Small Madagascar hedgehog 18 18
No Yes Dasypus novemcinctus 76_2 Nine-banded armadillo 25 25
No Yes Choloepus hoffmanni 76_1 Hoffmann's two-fingered sloth 13 13
No Yes Macropus eugenii 76_1.0 Tammar wallaby 13 13
No Yes Sarcophilus harrisii 76_7.0 Tasmanian devil 17 17
No Yes Monodelphis domestica 76_5 Gray short-tailed opossum 19 19
No Yes Ornithorhynchus anatinus 76_5 Platypus 17 17
No Yes Petromyzon marinus 76_7.0 Sea lamprey 6 6
No Yes Meleagris gallopavo 76_2 Turkey 19 19
No Yes Gallus gallus 76_4 Chicken 20 20
No Yes Anas platyrhynchos 76_1.0 Mallard 16 16
No Yes Taeniopygia guttata 76_3.2.4 Zebra finch 16 16
No Yes Ficedula albicollis 76_1.0 Collared flycatcher 18 18
No Yes Pelodiscus sinensis 76_1.0 Chinese soft-shelled turtle 19 19
No Yes Anolis carolinensis 76_2.0 Green anole 19 19
No Yes Xenopus laevis African clawed frog 13 13
No Yes Xenopus tropicalis 76_4.2 Tropical clawed frog 17 17
No Yes Latimeria chalumnae 76_1 Coelacanth 23 23
No Yes Lepisosteus oculatus 76 Spotted gar 22 22
No Yes Gadus morhua 76_1 Atlantic cod 14 14
No Yes Tetraodon nigroviridis 76_8 Spotted green pufferfish 19 19
No Yes Takifugu rubripes 76_4 Torafugu 37 37
No Yes Gasterosteus aculeatus 76_1 Three-spined stickleback 20 20
No Yes Oryzias latipes 76_1 Japanese medaka 19 19
No Yes Xiphophorus maculatus 76_4.4.2 Southern platyfish 18 18
No Yes Poecilia formosa 76 Amazon molly 20 20
No Yes Oreochromis niloticus 76_1.0 Nile tilapia 24 24
No Yes Astyanax mexicanus 76 Mexican tetra 19 19
No Yes Danio rerio 76_9 Zebrafish 26 26
No Yes Xenopus (Silurana) tropicalis v7.1 (annotation v7.2) Tropical clawed frog 20 20
No Yes Homo sapiens 75_37 (old version GRC) Human 84 84
No Yes Homo sapiens (NCBI version) Human 39 39
No Yes Mus musculus 63_37 (longest transcript per gene) (Duplicate) House mouse 24 24
No Yes Homo sapiens 69_37 Human 38 38
No Yes Pan troglodytes 69_2.1.4 Chimpanzee 23 23
No Yes Gorilla gorilla 69_3.1 Western gorilla 21 21
No Yes Pongo abelii 69_2 Sumatran orangutan 20 20
No Yes Nomascus leucogenys 69_1.0 Northern white-cheeked gibbon 20 20
No Yes Macaca mulatta 69_1 Rhesus monkey 20 20
No Yes Callithrix jacchus 69_3.2.1 White-tufted-ear marmoset 21 21
No Yes Otolemur garnettii 69_3 Small-eared galago 21 21
No Yes Microcebus murinus 69_1 Gray mouse lemur 17 17
No Yes Rattus norvegicus 69_3.4 Norway rat 22 22
No Yes Mus musculus 69_38 House mouse 23 23
No Yes Dipodomys ordii 69_1 Ord's kangaroo rat 11 11
No Yes Ictidomys tridecemlineatus 69_2 Thirteen-lined ground squirrel 20 20
No Yes Cavia porcellus 69_3 Domestic guinea pig 20 20
No Yes Oryctolagus cuniculus 69_2 Rabbit 21 21
No Yes Ochotona princeps 69 American pika 16 16
No Yes Tupaia belangeri 69 Northern tree shrew 17 17
No Yes Sus scrofa 69_10.2 Pig 22 22
No Yes Bos taurus 69_3.1 Cattle 23 23
No Yes Vicugna pacos 69_1 Alpaca 12 12
No Yes Tursiops truncatus 69_1 Bottlenose dolphin 19 19
No Yes Mustela putorius furo 69_1.0 Domestic ferret 21 21
No Yes Ailuropoda melanoleuca 69_1 Giant panda 22 22
No Yes Canis familiaris 69_3.1 Dog 23 23
No Yes Felis catus 69 Domestic cat 16 16
No Yes Equus caballus 69_2 Horse 22 22
No Yes Myotis lucifugus 69_2.0 Little brown bat 20 20
No Yes Pteropus vampyrus 69_1 Large flying fox 17 17
No Yes Sorex araneus 69_1 European shrew 11 11
No Yes Erinaceus europaeus 69 Western European hedgehog 14 14
No Yes Procavia capensis 69_1 Cape rock hyrax 16 16
No Yes Loxodonta africana 69_3 African savanna elephant 20 20
No Yes Echinops telfairi 69 Small Madagascar hedgehog 18 18
No Yes Dasypus novemcinctus 69_2 Nine-banded armadillo 13 13
No Yes Choloepus hoffmanni 69_1 Hoffmann's two-fingered sloth 13 13
No Yes Macropus eugenii 69_1.0 Tammar wallaby 13 13
No Yes Sarcophilus harrisii 69_7.0 Tasmanian devil 16 16
No Yes Monodelphis domestica 69_5 Gray short-tailed opossum 19 19
No Yes Ornithorhynchus anatinus 69_5 Platypus 15 15
No Yes Petromyzon marinus 69_7.0 Sea lamprey 6 6
No Yes Meleagris gallopavo 69_2 Turkey 17 17
No Yes Gallus gallus 69_2 Chicken 18 18
No Yes Taeniopygia guttata 69_3.2.4 Zebra finch 16 16
No Yes Pelodiscus sinensis 69_1.0 Chinese soft-shelled turtle 18 18
No Yes Anolis carolinensis 69_2.0 Green anole 15 15
No Yes Xenopus tropicalis 69_4.2 Tropical clawed frog 17 17
No Yes Latimeria chalumnae 69_1 Coelacanth 21 21
No Yes Gadus morhua 69_1 Atlantic cod 13 13
No Yes Tetraodon nigroviridis 69_8 Spotted green pufferfish 16 16
No Yes Takifugu rubripes 69_4 Torafugu 15 15
No Yes Gasterosteus aculeatus 69_1 Three-spined stickleback 15 15
No Yes Oryzias latipes 69_1 Japanese medaka 15 15
No Yes Xiphophorus maculatus 69_4.4.2 Southern platyfish 18 18
No Yes Oreochromis niloticus 69_1.0 Nile tilapia 20 20
No Yes Danio rerio 69_9 Zebrafish 19 19
No Yes NCBI 2017_08 genome   7413 7363
No Yes STRING v9.0.5 (STRING)   484 484
No Yes Uniprot 2018_03 genome   3706 3700
No Yes PDB chains (SCOP 1.75) (PDB)   40 40
No Yes Protein Data Bank (all PDB sequenc)   408 400
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   1093 1093
No Yes TargetDB (Targets)   2 2

Jump to [ Top of page · Assignment details · Add assignments from groups of genomes · Add assignments from individual genomes ]
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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