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 |
253
|
structure length |
253
|
Chain Sequence |
AAESQLKRVIETLRRLGIEEVLKLERRDPQYRAVCNVVKRHGETVGSRLAMLNALISYRLTGKGEEHWEYFGKYFSQLEVIDLCRDFLKYIETSPFLKIGVEARKKRALKACDYVPNLEDLGLTLRQLSHIVGARREQKTLVFTIKILNYAYMCSRGVNRVLPFDIPIPVDYRVARLTWCAGLIDFPPEEALRRYEAVQKIWDAVARETGIPPLHLDTLLWLAGRAVLYGENLHGVPKEVIALFQWRGGCRPP
|
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 |
A DNA glycosylase from Pyrobaculum aerophilum with an 8-oxoguanine binding mode and a noncanonical helix-hairpin-helix structure
pubmed doi rcsb |
| molecule tags |
Lyase
|
| source organism |
Pyrobaculum aerophilum
|
| molecule keywords |
8-oxoguanine DNA glycosylase
|
| total genus |
98
|
| structure length |
253
|
| sequence length |
253
|
| ec nomenclature |
ec
4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase. |
| pdb deposition date | 2004-10-13 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF09171 | AGOG | N-glycosylase/DNA lyase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | Endonuclease III; domain 1 | Hypothetical protein; domain 2 | ||
| Mainly Alpha | Orthogonal Bundle | Endonuclease Iii, domain 2 | Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) |
#chains in the Genus database with same CATH superfamily 3OGD A; 4OFE A; 1VRL A; 5DPK A; 3N5N X; 3F0Z A; 3I0X A; 2I5W A; 4E9G A; 4EW0 A; 1N3C A; 4OFH A; 4EVV A; 4EA4 A; 1FN7 A; 1MUN A; 4AIA A; 3CW7 A; 3F10 A; 3KNT A; 2OFI A; 4B22 A; 4EJY A; 3S6I A; 2JG6 A; 4UNF A; 1PU6 A; 2YG9 A; 4EJZ A; 1MPG A; 1NGN A; 5CHZ A; 4HSB A; 3IHO A; 1WEG A; 1KG2 A; 1LMZ A; 1WEI A; 1ORN A; 5KN8 A; 3CWU A; 4YOQ A; 1RRS A; 2NOE A; 1LWY A; 2NOL A; 3CVT A; 1PVS A; 4YPH A; 4B24 A; 1KG7 A; 1LWV A; 1RRQ A; 4EA5 A; 3CVS A; 1KEA A; 1PU7 A; 1KQJ A; 1ORP A; 4B23 A; 1NKU A; 1N39 A; 1WEF A; 1DIZ A; 4UOB A; 2NOI A; 3FHG A; 2JHN A; 3IH7 A; 3OH9 A; 3D4V A; 4E9H A; 2NOZ A; 1XG7 A; 2XHI A; 3CWA A; 1M3Q A; 1KG3 A; 2H56 A; 1YQK A; 3FHF A; 1N3A A; 1YQL A; 4E9E A; 4E9F A; 3G0Q A; 2ABK A; 4EW4 A; 2OFK A; 1XQO A; 1KG6 A; 1EBM A; 3CWS A; 1KG4 A; 3CWT A; 1P7M A; 4AI5 A; 3FSP A; 4B21 A; 4AI4 A; 1KG5 A; 5AN4 A; 1M3H A; 3I0W A; 2NOH A; 2NOB A; 1MUY A; 4PII A; 1KO9 A; 2NOF A; 1YQM A; 1YQR A; 3OH6 A; 5KN9 A; 1P59 A; 4DK9 A; 1PU8 A; 1XQP A; 4YPR A; 3KTU A; 1LWW A; 2YG8 A; 3N0U A; 1HU0 A; 1MUD A; 2JHJ A; 4OFA A; #chains in the Genus database with same CATH topology 3OGD A; 4OFE A; 1VRL A; 5DPK A; 3N5N X; 3F0Z A; 3I0X A; 3NNQ A; 2I5W A; 4E9G A; 4EW0 A; 1N3C A; 4OFH A; 4EVV A; 4EA4 A; 3OYA A; 1FN7 A; 1MUN A; 2V75 A; 3OYF A; 3OYK A; 4AIA A; 3CW7 A; 3F10 A; 3KNT A; 3L2W A; 3OYJ A; 3S3M A; 4BDZ A; 2OFI A; 2JPS A; 4B22 A; 4EJY A; 3S6I A; 2JG6 A; 4UNF A; 1PU6 A; 2W03 A; 2YG9 A; 4EJZ A; 1MPG A; 1NGN A; 5CHZ A; 4IKF A; 3L2Q A; 4HSB A; 3IHO A; 3OYD A; 1WEG A; 1KG2 A; 4ZTJ A; 1LMZ A; 1WEI A; 1ORN A; 5KN8 A; 3CWU A; 4YOQ A; 1RRS A; 2NOE A; 1U84 A; 1LWY A; 2NOL A; 3CVT A; 1PVS A; 4YPH A; 3S3N A; 4B24 A; 1KG7 A; 5FRO A; 3OYH A; 1LWV A; 1RRQ A; 4EA5 A; 3CVS A; 1KEA A; 1PU7 A; 4BE2 A; 4ZTF A; 1KQJ A; 1ORP A; 4B23 A; 3OS1 A; 4BDY A; 1NKU A; 1N39 A; 1WEF A; 4E7I A; 1DIZ A; 4UOB A; 2NOI A; 3OYM A; 3FHG A; 2JHN A; 3IH7 A; 3S3O A; 4E7L A; 3OH9 A; 3D4V A; 4E9H A; 2NOZ A; 1XG7 A; 3VW4 A; 3OYN A; 3OYB A; 4BE1 A; 2XHI A; 3CWA A; 1M3Q A; 1KG3 A; 4BE0 A; 2H56 A; 1YQK A; 3FHF A; 1N3A A; 3LCN A; 1YQL A; 4E9E A; 3OS0 A; 4E9F A; 4E7K A; 3G0Q A; 2ABK A; 4EW4 A; 2OFK A; 1XQO A; 1KG6 A; 1EBM A; 2W04 A; 3CWS A; 5FRN A; 3R2X C; 1KG4 A; 3CWT A; 1P7M A; 4AI5 A; 3FSP A; 3L2R A; 4B21 A; 3L2V A; 4AI4 A; 4NZG A; 4BAC A; 1KG5 A; 5AN4 A; 3OYG A; 1M3H A; 3OYI A; 4E7J A; 3I0W A; 2NOH A; 2NOB A; 1MUY A; 5FRM A; 4PII A; 3OYL A; 1KO9 A; 2NOF A; 3OS2 A; 1YQM A; 1YQR A; 3L2U A; 3OH6 A; 5KN9 A; 1P59 A; 4DK9 A; 1PU8 A; 1XQP A; 4YPR A; 3OYC A; 3KTU A; 1LWW A; 2YG8 A; 3N0U A; 3OY9 A; 1HU0 A; 1MUD A; 2JHJ A; 3OYE A; 4OFA A; 4E7H A; #chains in the Genus database with same CATH homology 3OGD A; 4OFE A; 1VRL A; 5DPK A; 3N5N X; 3F0Z A; 3I0X A; 2I5W A; 4E9G A; 4EW0 A; 1N3C A; 4OFH A; 4EVV A; 4EA4 A; 1FN7 A; 1MUN A; 4AIA A; 3CW7 A; 3F10 A; 3KNT A; 2OFI A; 4B22 A; 4EJY A; 3S6I A; 2JG6 A; 4UNF A; 1PU6 A; 2YG9 A; 4EJZ A; 1MPG A; 1NGN A; 5CHZ A; 4HSB A; 3IHO A; 1WEG A; 1KG2 A; 1LMZ A; 1WEI A; 1ORN A; 5KN8 A; 3CWU A; 4YOQ A; 1RRS A; 2NOE A; 1LWY A; 2NOL A; 3CVT A; 1PVS A; 4YPH A; 4B24 A; 1KG7 A; 1LWV A; 1RRQ A; 4EA5 A; 3CVS A; 1KEA A; 1PU7 A; 1KQJ A; 1ORP A; 4B23 A; 1NKU A; 1N39 A; 1WEF A; 1DIZ A; 4UOB A; 2NOI A; 3FHG A; 2JHN A; 3IH7 A; 3OH9 A; 3D4V A; 4E9H A; 2NOZ A; 1XG7 A; 2XHI A; 3CWA A; 1M3Q A; 1KG3 A; 2H56 A; 1YQK A; 3FHF A; 1N3A A; 1YQL A; 4E9E A; 4E9F A; 3G0Q A; 2ABK A; 4EW4 A; 2OFK A; 1XQO A; 1KG6 A; 1EBM A; 3CWS A; 1KG4 A; 3CWT A; 1P7M A; 4AI5 A; 3FSP A; 4B21 A; 4AI4 A; 1KG5 A; 5AN4 A; 1M3H A; 3I0W A; 2NOH A; 2NOB A; 1MUY A; 4PII A; 1KO9 A; 2NOF A; 1YQM A; 1YQR A; 3OH6 A; 5KN9 A; 1P59 A; 4DK9 A; 1PU8 A; 1XQP A; 4YPR A; 3KTU A; 1LWW A; 2YG8 A; 3N0U A; 1HU0 A; 1MUD A; 2JHJ A; 4OFA A;
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