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 |
224
|
sequence length |
575
|
structure length |
575
|
Chain Sequence |
b'MRNQELARIFEEIGLMSEFLGDNPFRVRAYHQAARTLYDLDTPIEEIAEKGKEALMELPGVGPDLAEKILEFLRTGKVRKHEELSRKVPRGVLEVMEVPGVGPKTARLLYEGLGIDSLEKLKAALDRGDLTRLKGFGPKRAERIREGLALAQAAGKRRPLGAVLSLARSLLEAIRALPGVERAELCGSARRYKDTVGDLDFLVASREGERAVEGFVRLPQVKEVYAKGKERATVFLKNGLQVDLRVVPPESYGAGLQYLTGSAAHSIRLRALAQEKGLKLSEYGVFRGEKRIAGETEEEVYAALGLPWIPPPLREDQGEVEAALEGRLPKLLELPQVKGDLQVHSTYSDGQNTLEELWEAAKTMGYRYLAVTDHSPAVRVAGGPSPEEALKRVGEIRRFNETHGPPYLLAGAEVDIHPDGTLDYPDWVLRELDLVLVSVHSRFNLPKADQTKRLLKALENPFVHVLAHPTARLLGRRAPIEADWEAVFQKAKEKGVAVEIDGYYDRMDLPDDLARMAYGMGLWISLSTDAHQTDHLRFMELAVGTAQRAWIGPERVLNTLDYEDLLSWLKARRGV'
|
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 |
The structural basis of the kinetic mechanism of a gap-filling X-family DNA polymerase that binds Mg(2+)-dNTP before binding to DNA.
pubmed doi rcsb |
| molecule keywords |
DNA polymerase beta family (X family)
|
| source organism |
Thermus thermophilus
|
| molecule tags |
Transferase
|
| total genus |
224
|
| structure length |
575
|
| sequence length |
575
|
| ec nomenclature |
ec
2.7.7.7: DNA-directed DNA polymerase. |
| pdb deposition date | 2011-06-17 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF14520 | HHH_5 | Helix-hairpin-helix domain |
| A | PF14716 | HHH_8 | Helix-hairpin-helix domain |
| A | PF14791 | DNA_pol_B_thumb | DNA polymerase beta thumb |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | DNA polymerase; domain 1 | 5' to 3' exonuclease, C-terminal subdomain | ||
| Mainly Alpha | Orthogonal Bundle | DNA polymerase; domain 1 | DNA polymerase beta, N-terminal domain-like | ||
| Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Metal-dependent hydrolases | ||
| Alpha Beta | 2-Layer Sandwich | Beta Polymerase; domain 3 | DNA polymerase, thumb domain | ||
| Alpha Beta | 2-Layer Sandwich | Beta Polymerase; domain 2 | Beta Polymerase, domain 2 |
