The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.
Total Genus |
65
|
sequence length |
214
|
structure length |
214
|
Chain Sequence |
PRLRIGQINLGGAEDATRELPSIARDLGLDIVLVQEQYSMVGFLAQCGAHPKAGVYIRNRVLPCAVLHHLSSTHITVVHIGGWDLYMVSAYFQYSDPIDPYLHRLGNILDRLRGARVVICADTNAHSPLWHSLPRHYVGRGQEVADRRAKMEDFIGARRLVVHNADGHLPTFSTANGESYVDVTLSTRGVRVSEWRVTNESSSDHRLIVFGVGG
|
The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Characterization of the sequence specificity of the R1Bm endonuclease domain by structural and biochemical studies.
pubmed doi rcsb |
| molecule tags |
Gene regulation
|
| source organism |
Bombyx mori
|
| molecule keywords |
Non-LTR retrotransposon R1Bmks ORF2 protein
|
| total genus |
65
|
| structure length |
214
|
| sequence length |
214
|
| ec nomenclature | |
| pdb deposition date | 2007-03-12 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF14529 | Exo_endo_phos_2 | Endonuclease-reverse transcriptase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 4-Layer Sandwich | Deoxyribonuclease I; Chain A | Endonuclease/exonuclease/phosphatase |
#chains in the Genus database with same CATH superfamily 2V0R A; 5DFI A; 2O3H A; 4F1R A; 1Y21 A; 3FZI A; 4L21 A; 5INQ A; 4GEW A; 2DDT A; 2JC4 A; 4GZ2 A; 4LND A; 2JC5 A; 2F1N A; 2VOA A; 1YJH A; 3G4T A; 3W2Y A; 4A9C A; 5J3P A; 3G8V A; 3G38 A; 1SR4 B; 1NTF A; 5J3Z A; 2A40 B; 3I46 A; 3L1W A; 5INO A; 4CML A; 1BIX A; 5INK A; 4B5I A; 3W3D B; 4K6L F; 4B5H A; 3G3C A; 4FPV A; 1VYB A; 4C1R A; 4F1H B; 5DV2 A; 5INN A; 3G2D A; 3WCX A; 4PUQ A; 1I9Z A; 2F2F B; 4F1I A; 4RUW A; 2EI9 A; 4IEM A; 4L1Y A; 5HT2 A; 3DNI A; 3NGQ A; 3I5V A; 3U8U A; 5DV4 A; 1SI6 X; 5J8N A; 4GYZ A; 3G91 A; 3I41 A; 3TEB A; 5DG0 A; 3GA6 A; 3NGN A; 4CMN A; 4F1H A; 1DE8 A; 2A41 B; 4QHD A; 3NGO A; 5DFJ A; 1I9Y A; 4FVA A; 3MPR A; 4B5M A; 4B5G A; 4B5F A; 1DEW A; 1DE9 A; 4QHE A; 1ZWX A; 5INP A; 3G3Y A; 2XSW A; 5CFE A; 4AWN A; 2DDS A; 3G00 A; 5A7J A; 4L1Z A; 4QH9 A; 1WDU A; 3G0R A; 2V0S A; 1DNK A; 2J63 A; 3G1K A; 4GZ0 A; 3MTC A; 4JG3 A; 4B5J A; 5DFH A; 3CJC D; 3I48 A; 2D1K B; 4L20 A; 2A42 B; 3K55 A; 5INL A; 2DNJ A; 2ISI A; 3G0A A; 3N9V A; 3W2X A; 2IMQ X; 2O3C A; 5CFG A; 2DDR A; 3G2C A; 3G6S A; 1AKO A; 5EWT A; 2A3Z B; 4GZ1 A; 5A7I A; 1ATN D; 1HD7 A; 1E9N A; 5INM A; 5J3S A; 5DFF A; 3NR8 A; 2UYR X; 5J42 A; #chains in the Genus database with same CATH topology 2V0R A; 5DFI A; 2O3H A; 4F1R A; 1Y21 A; 3FZI A; 4L21 A; 5INQ A; 4GEW A; 2DDT A; 2JC4 A; 4GZ2 A; 4LND A; 2JC5 A; 2F1N A; 2VOA A; 1YJH A; 3G4T A; 3W2Y A; 4A9C A; 5J3P A; 3G8V A; 3G38 A; 1SR4 B; 1NTF A; 5J3Z A; 2A40 B; 3I46 A; 3L1W A; 5INO A; 4CML A; 1BIX A; 5INK A; 4B5I A; 3W3D B; 4K6L F; 4B5H A; 3G3C A; 4FPV A; 1VYB A; 4C1R A; 4F1H B; 5DV2 A; 5INN A; 3G2D A; 3WCX A; 4PUQ A; 1I9Z A; 2F2F B; 4F1I A; 4RUW A; 2EI9 A; 4IEM A; 4L1Y A; 5HT2 A; 3DNI A; 3NGQ A; 3I5V A; 3U8U A; 5DV4 A; 1SI6 X; 5J8N A; 4GYZ A; 3G91 A; 3I41 A; 3TEB A; 5DG0 A; 3GA6 A; 3NGN A; 4CMN A; 4F1H A; 1DE8 A; 2A41 B; 4QHD A; 3NGO A; 5DFJ A; 1I9Y A; 4FVA A; 3MPR A; 4B5M A; 4B5G A; 4B5F A; 1DEW A; 1DE9 A; 4QHE A; 1ZWX A; 5INP A; 3G3Y A; 2XSW A; 5CFE A; 4AWN A; 2DDS A; 3G00 A; 5A7J A; 4L1Z A; 4QH9 A; 1WDU A; 3G0R A; 2V0S A; 1DNK A; 2J63 A; 3G1K A; 4GZ0 A; 3MTC A; 4JG3 A; 4B5J A; 5DFH A; 3CJC D; 3I48 A; 2D1K B; 4L20 A; 2A42 B; 3K55 A; 5INL A; 2DNJ A; 2ISI A; 3G0A A; 3N9V A; 3W2X A; 2IMQ X; 2O3C A; 5CFG A; 2DDR A; 3G2C A; 3G6S A; 1AKO A; 5EWT A; 2A3Z B; 4GZ1 A; 5A7I A; 1ATN D; 1HD7 A; 1E9N A; 5INM A; 5J3S A; 5DFF A; 3NR8 A; 2UYR X; 5J42 A; #chains in the Genus database with same CATH homology 2V0R A; 5DFI A; 2O3H A; 4F1R A; 1Y21 A; 3FZI A; 4L21 A; 5INQ A; 4GEW A; 2DDT A; 2JC4 A; 4GZ2 A; 4LND A; 2JC5 A; 2F1N A; 2VOA A; 1YJH A; 3G4T A; 3W2Y A; 4A9C A; 5J3P A; 3G8V A; 3G38 A; 1SR4 B; 1NTF A; 5J3Z A; 2A40 B; 3I46 A; 3L1W A; 5INO A; 4CML A; 1BIX A; 5INK A; 4B5I A; 3W3D B; 4K6L F; 4B5H A; 3G3C A; 4FPV A; 1VYB A; 4C1R A; 4F1H B; 5DV2 A; 5INN A; 3G2D A; 3WCX A; 4PUQ A; 1I9Z A; 2F2F B; 4F1I A; 4RUW A; 2EI9 A; 4IEM A; 4L1Y A; 5HT2 A; 3DNI A; 3NGQ A; 3I5V A; 3U8U A; 5DV4 A; 1SI6 X; 5J8N A; 4GYZ A; 3G91 A; 3I41 A; 3TEB A; 5DG0 A; 3GA6 A; 3NGN A; 4CMN A; 4F1H A; 1DE8 A; 2A41 B; 4QHD A; 3NGO A; 5DFJ A; 1I9Y A; 4FVA A; 3MPR A; 4B5M A; 4B5G A; 4B5F A; 1DEW A; 1DE9 A; 4QHE A; 1ZWX A; 5INP A; 3G3Y A; 2XSW A; 5CFE A; 4AWN A; 2DDS A; 3G00 A; 5A7J A; 4L1Z A; 4QH9 A; 1WDU A; 3G0R A; 2V0S A; 1DNK A; 2J63 A; 3G1K A; 4GZ0 A; 3MTC A; 4JG3 A; 4B5J A; 5DFH A; 3CJC D; 3I48 A; 2D1K B; 4L20 A; 2A42 B; 3K55 A; 5INL A; 2DNJ A; 2ISI A; 3G0A A; 3N9V A; 3W2X A; 2IMQ X; 2O3C A; 5CFG A; 2DDR A; 3G2C A; 3G6S A; 1AKO A; 5EWT A; 2A3Z B; 4GZ1 A; 5A7I A; 1ATN D; 1HD7 A; 1E9N A; 5INM A; 5J3S A; 5DFF A; 3NR8 A; 2UYR X; 5J42 A;
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