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 |
98
|
sequence length |
313
|
structure length |
313
|
Chain Sequence |
MRALFYKDGKLFTDNNFLNPVSDNNPAYEVLQHVKIPTHLTDVVVYGQTWEEALTRLIFVGSDSKGRRQYFYGKMHVQNRNAKRDRIFVRVYNVMKRINSFINKNIKKSSTDSNYQLAVFMLMETMFFIRFGKMKYLKENETVGLLTLKNKHIEISPDKIVIKFVGKDKVSHEFVVHKSNRLYKPLLKLTDDSSPEEFLFNKLSERKVYESIKQFGIRIKDLRTYGVNYTFLYNFWTNVKSISPLPSPKKLIALTIKQTAEVVGHTPSISKRAYMATTILEMVKDKNFLDVVSKTTFDEFLSIVVDHVKSSTD
|
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 |
Insights from the Structure of a Smallpox Virus Topoisomerase-DNA Transition State Mimic.
pubmed doi rcsb |
| molecule tags |
Isomerase/dna
|
| source organism |
Variola virus
|
| molecule keywords |
DNA topoisomerase 1
|
| total genus |
98
|
| structure length |
313
|
| sequence length |
313
|
| ec nomenclature |
ec
5.99.1.2: Transferred entry: 5.6.2.2. |
| pdb deposition date | 2009-07-27 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01028 | Topoisom_I | Eukaryotic DNA topoisomerase I, catalytic core |
| A | PF09266 | VirDNA-topo-I_N | Viral DNA topoisomerase I, N-terminal |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | Viral Topoisomerase I | DNA topoisomerase I domain | ||
| Alpha Beta | Alpha-Beta Complex | Topoisomerase I; Chain A, domain 3 | Topoisomerase I; Chain A, domain 3 |
#chains in the Genus database with same CATH superfamily 1K4T A; 1RR8 C; 1NH3 A; 1T8I A; 2H7F X; 1EJ9 A; 1SC7 A; 1A35 A; 2B9S A; 2H7G X; 1A36 A; 1A31 A; 3M4A A; 1VCC A; 2F4Q A; 1R49 A; 1SEU A; 1RRJ A; 1LPQ A; 1A41 A; 1K4S A; 1TL8 A; 3IGC A; #chains in the Genus database with same CATH topology 1K4T A; 1RR8 C; 1NH3 A; 1T8I A; 2H7F X; 1EJ9 A; 1SC7 A; 1A35 A; 2B9S A; 2H7G X; 1A36 A; 1A31 A; 3M4A A; 1VCC A; 2F4Q A; 1R49 A; 1SEU A; 1RRJ A; 1LPQ A; 1A41 A; 1K4S A; 1TL8 A; 3IGC A; #chains in the Genus database with same CATH homology 1K4T A; 1RR8 C; 1NH3 A; 1T8I A; 2H7F X; 1EJ9 A; 1SC7 A; 1A35 A; 2B9S A; 2H7G X; 1A36 A; 1A31 A; 3M4A A; 1VCC A; 2F4Q A; 1R49 A; 1SEU A; 1RRJ A; 1LPQ A; 1A41 A; 1K4S A; 1TL8 A; 3IGC 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...
