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 |
139
|
sequence length |
507
|
structure length |
499
|
Chain Sequence |
RTSRNCSSNEERKRRKYFHMLYLVCLMVHGFIRNEWINSKRLSRKLSNLVPEKVFELLHPQKDEELPLRSTRKLLDGLKKCMELWQKHWKITKKYDNEGLYMRTWKEIEMSANNKRKFKTLKRSDFLRAVSKGHGDPDISVQGFVAMLRACNVNARLIMSCQPPDFTNMKIDTSLNGNNAYKDMVKYPIFWCEVWDKFSKKWITVDPVNLKTIEQVRLHSKLAPKGVACCERNMLRYVIAYDRKYGCRDVTRRYAQWMNSKVRKRRITKDDFGEKWFRKVITALHHRKRTKIDDYEDQYFFRRDESEGIPDSVQDLKNHPYYVLEQDIKQTQIVKPGCKECGYLKVHGKVGKVLKVYAKRDIADLKSARQWYMNGRILKTGSRCKKVIKRTEEEDERLYSFEDTELYIPPLASASGEITKNTFGNIEVFAPTMIPGNCCLVENPVAIKAARFLGVEFAPAVTSFKFERGSTVKPVLSGIVVAKWLREAIETAIDGIEFI
|
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 |
Kinetic gating mechanism of DNA damage recognition by Rad4/XPC.
pubmed doi rcsb |
| molecule tags |
Dna binding protein/dna
|
| source organism |
Saccharomyces cerevisiae (strain atcc 204508 / s288c)
|
| molecule keywords |
DNA repair protein RAD4
|
| total genus |
139
|
| structure length |
499
|
| sequence length |
507
|
| ec nomenclature | |
| pdb deposition date | 2015-03-02 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF03835 | Rad4 | Rad4 transglutaminase-like domain |
| A | PF10403 | BHD_1 | Rad4 beta-hairpin domain 1 |
| A | PF10405 | BHD_3 | Rad4 beta-hairpin domain 3 |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Beta | Single Sheet | Anthopleurin-A | Anthopleurin-A | ||
| Mainly Beta | Single Sheet | Anthopleurin-A | Anthopleurin-A | ||
| Alpha Beta | Alpha-Beta Complex | Coagulation Factor XIII; Chain A, domain 2 | Transglutaminase-like |
#chains in the Genus database with same CATH superfamily 1L9M A; 1EVU A; 3S3J A; 1L9N A; 3S3S A; 3LY6 A; 1EX0 A; 1FIE A; 4YIR A; 1NUF A; 1NUD A; 4KTY A; 1QRK A; 2QSG A; 3S3P A; 1G0D A; 2QSF A; 1GGT A; 1KV3 A; 1F13 A; 2Q3Z A; 1GGU A; 2QSH A; 1GGY A; 4PYG A; 1NUG A; #chains in the Genus database with same CATH topology 2BDS A; 1BDS A; 1APF A; 1L9M A; 1GKU B; 1EVU A; 2DLA A; 2K2X A; 3D4U B; 3S3J A; 1L9N A; 2MN3 A; 2HJ9 C; 2RNG A; 1ATX A; 1AHL A; 3MYV A; 3S3S A; 1ZUF A; 1WQK A; 2IKD A; 1ZLI B; 2XXL A; 3MCX A; 3LY6 A; 1SHI A; 1EX0 A; 3IF4 A; 2MUB A; 1B8W A; 4YIR A; 1FIE A; 2IKE A; 1NUF A; 1NUD A; 1QRK A; 4KTY A; 1ZHH B; 3C38 A; 1EL6 A; 2QSG A; 4GV5 A; 3S3P A; 2HJE A; 1G0D A; 1SH1 A; 1H5O A; 2QSF A; 1GGT A; 3C30 A; 2H9X A; 3LMS B; 1F13 A; 1KV3 A; 2Q3Z A; 1GL9 B; 2JTO A; 1D6B A; 1GGU A; 2QSH A; 1ZUE A; 1WXN A; 2B9K A; 1ZLH B; 2JR3 A; 2SH1 A; 3KEZ A; 1GGY A; 4PYG A; 1NUG A; 1Z99 A; #chains in the Genus database with same CATH homology 2BDS A; 1BDS A; 1APF A; 1L9M A; 1EVU A; 2DLA A; 2K2X A; 3D4U B; 3S3J A; 1L9N A; 2MN3 A; 2HJ9 C; 2RNG A; 1ATX A; 1AHL A; 3MYV A; 3S3S A; 1ZUF A; 1WQK A; 2IKD A; 1ZLI B; 2XXL A; 3MCX A; 3LY6 A; 1SHI A; 1EX0 A; 2MUB A; 1B8W A; 4YIR A; 1FIE A; 2IKE A; 1NUF A; 1NUD A; 1QRK A; 4KTY A; 1ZHH B; 3C38 A; 2QSG A; 4GV5 A; 3S3P A; 2HJE A; 1G0D A; 1SH1 A; 1H5O A; 2QSF A; 1GGT A; 3C30 A; 2H9X A; 3LMS B; 1F13 A; 1KV3 A; 2Q3Z A; 1GGU A; 2JTO A; 1D6B A; 2QSH A; 1ZUE A; 1WXN A; 2B9K A; 1ZLH B; 2JR3 A; 2SH1 A; 3KEZ A; 1GGY A; 4PYG A; 1NUG A; 1Z99 A;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
