1XQPA

Crystal structure of 8-oxoguanosine complexed pa-agog, 8-oxoguanine dna glycosylase from pyrobaculum aerophilum
Total Genus 95
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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
95
sequence length
252
structure length
252
Chain Sequence
AESQLKRVIETLRRLGIEEVLKLERRDPQYRAVCNVVKRHGETVGSRLAMLNALISYRLTGKGEEHWEYFGKYFSQLEVIDLCRDFLKYIETSPFLKIGVEARKKRALKACDYVPNLEDLGLTLRQLSHIVGARREQKTLVFTIKILNYAYMCSRGVNRVLPFDIPIPVDYRVARLTWCAGLIDFPPEEALRRYEAVQKIWDAVARETGIPPLHLDTLLWLAGRAVLYGENLHGVPKEVIALFQWRGGCRPP
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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.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Lyase
source organism Pyrobaculum aerophilum
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 keywords 8-oxoguanine DNA glycosylase
total genus 95
structure length 252
sequence length 252
ec nomenclature ec 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
pdb deposition date 2004-10-13

pfam database annotations

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
ClassArchitectureTopologyHomologyDomain
1.10.340.30 Mainly Alpha Orthogonal Bundle Endonuclease III; domain 1 Hypothetical protein; domain 2 1xqpA02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 1xqpA01
2NOIA 3I0XA 4B21A 1WEFA 1KG2A 1M3QA 2NOBA 1M3HA 2NOFA 1EBMA 3IH7A 3CWTA 4UNFA 4OFAA 1RRSA 5KN9A 1KQJA 4B24A 2H56A 3CWSA 1LWYA 4EVVA 4E9EA 4HSBA 3CWUA 2OFKA 1YQKA 4AIAA 4OFHA 3CVTA 4OFEA 1KG6A 4EW4A 5CHZA 1PU8A 3OGDA 1MUYA 1HU0A 4EA4A 4YOQA 1NKUA 1XG7A 2JHJA 3FSPA 1N39A 5KN8A 1XQOA 4B23A 5DPKA 1RRQA 3OH9A 3KTUA 3CVSA 1YQRA 4B22A 1WEIA 2JG6A 1PU6A 1MUDA 3F10A 1VRLA 1PU7A 4AI5A 1PVSA 1YQLA 1NGNA 2JHNA 3D4VA 4E9GA 2I5WA 1KG7A 4EJZA 2NOZA 1ORNA 1P7MA 1YQMA 1KO9A 3N5NX 1MPGA 3FHGA 3I0WA 4EW0A 4EJYA 1KEAA 2NOLA 1MUNA 3CWAA 1XQPA 2YG8A 4UOBA 4YPRA 3KNTA 1KG3A 1FN7A 3S6IA 1N3CA 2ABKA 2YG9A 1LWVA 3CW7A 4PIIA 4DK9A 1P59A 5AN4A 1KG4A 1KG5A 1LWWA 3IHOA 2OFIA 1LMZA 2NOHA 1WEGA 2NOEA 2XHIA 3OH6A 4YPHA 3G0QA 1ORPA 3N0UA 3F0ZA 1N3AA 4AI4A 1DIZA 4E9FA 4E9HA 3FHFA 4EA5A
chains in the Genus database with same CATH superfamily
2NOIA 4EA5A 3OYLA 3I0XA 4B21A 4ZTFA 1WEFA 1KG2A 3L2VA 1M3QA 2NOBA 4BE0A 1M3HA 2NOFA 5FRMA 3VW4A 1EBMA 3IH7A 3CWTA 4UNFA 3OS2A 4OFAA 1RRSA 5KN9A 1KQJA 4B24A 2H56A 3CWSA 1LWYA 4EVVA 4BDZA 4E9EA 4HSBA 3CWUA 2OFKA 3L2RA 4NZGA 4ZTJA 1YQKA 3LCNA 4AIAA 3OY9A 4OFHA 3CVTA 4OFEA 1KG6A 4EW4A 5CHZA 3OYNA 1PU8A 3OGDA 1MUYA 4E7KA 4EA4A 1HU0A 4YOQA 1NKUA 1XG7A 2JHJA 3FSPA 1N39A 5KN8A 1XQOA 5FRNA 5FROA 3OS0A 4B23A 1U84A 4IKFA 5DPKA 1RRQA 3OYGA 3OH9A 3L2WA 3OYHA 3KTUA 3S3MA 3R2XC 3OYAA 3OYFA 3CVSA 2JPSA 1YQRA 3OYCA 4B22A 3OYBA 1WEIA 2JG6A 1PU6A 4BE2A 1MUDA 3F10A 4E7HA 1VRLA 1PU7A 4AI5A 1PVSA 4BDYA 1YQLA 1NGNA 2JHNA 3S3NA 3D4VA 4E9GA 2I5WA 1KG7A 3OYMA 3OYDA 4EJZA 2NOZA 1ORNA 4E7JA 1P7MA 4E7IA 1YQMA 1KO9A 3N5NX 1MPGA 3FHGA 3I0WA 4EW0A 4EJYA 1KEAA 3S3OA 2NOLA 4E7LA 1MUNA 3CWAA 1XQPA 2YG8A 4UOBA 4YPRA 3OYIA 3KNTA 1KG3A 1FN7A 3OYEA 3S6IA 1N3CA 3L2QA 4BACA 2ABKA 2YG9A 3OYJA 3L2UA 1LWVA 3CW7A 4PIIA 4DK9A 1P59A 5AN4A 3NNQA 1KG4A 1KG5A 1LWWA 3IHOA 3OS1A 2OFIA 1LMZA 2NOHA 1WEGA 2NOEA 2W03A 2XHIA 3OH6A 4YPHA 3G0QA 1ORPA 2V75A 4BE1A 3N0UA 3F0ZA 1N3AA 2W04A 4AI4A 1DIZA 4E9FA 4E9HA 3FHFA 3OYKA
chains in the Genus database with same CATH topology
2NOIA 3I0XA 4B21A 1WEFA 1KG2A 1M3QA 2NOBA 1M3HA 2NOFA 1EBMA 3IH7A 3CWTA 4UNFA 4OFAA 1RRSA 5KN9A 1KQJA 4B24A 2H56A 3CWSA 1LWYA 4EVVA 4E9EA 4HSBA 3CWUA 2OFKA 1YQKA 4AIAA 4OFHA 3CVTA 4OFEA 1KG6A 4EW4A 5CHZA 1PU8A 3OGDA 1MUYA 1HU0A 4EA4A 4YOQA 1NKUA 1XG7A 2JHJA 3FSPA 1N39A 5KN8A 1XQOA 4B23A 5DPKA 1RRQA 3OH9A 3KTUA 3CVSA 1YQRA 4B22A 1WEIA 2JG6A 1PU6A 1MUDA 3F10A 1VRLA 1PU7A 4AI5A 1PVSA 1YQLA 1NGNA 2JHNA 3D4VA 4E9GA 2I5WA 1KG7A 4EJZA 2NOZA 1ORNA 1P7MA 1YQMA 1KO9A 3N5NX 1MPGA 3FHGA 3I0WA 4EW0A 4EJYA 1KEAA 2NOLA 1MUNA 3CWAA 1XQPA 2YG8A 4UOBA 4YPRA 3KNTA 1KG3A 1FN7A 3S6IA 1N3CA 2ABKA 2YG9A 1LWVA 3CW7A 4PIIA 4DK9A 1P59A 5AN4A 1KG4A 1KG5A 1LWWA 3IHOA 2OFIA 1LMZA 2NOHA 1WEGA 2NOEA 2XHIA 3OH6A 4YPHA 3G0QA 1ORPA 3N0UA 3F0ZA 1N3AA 4AI4A 1DIZA 4E9FA 4E9HA 3FHFA 4EA5A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2NOI A;  3I0X A;  4B21 A;  1WEF A;  1KG2 A;  1M3Q A;  2NOB A;  1M3H A;  2NOF A;  1EBM A;  3IH7 A;  3CWT A;  4UNF A;  4OFA A;  1RRS A;  5KN9 A;  1KQJ A;  4B24 A;  2H56 A;  3CWS A;  1LWY A;  4EVV A;  4E9E A;  4HSB A;  3CWU A;  2OFK A;  1YQK A;  4AIA A;  4OFH A;  3CVT A;  4OFE A;  1KG6 A;  4EW4 A;  5CHZ A;  1PU8 A;  3OGD A;  1MUY A;  1HU0 A;  4EA4 A;  4YOQ A;  1NKU A;  1XG7 A;  2JHJ A;  3FSP A;  1N39 A;  5KN8 A;  1XQO A;  4B23 A;  5DPK A;  1RRQ A;  3OH9 A;  3KTU A;  3CVS A;  1YQR A;  4B22 A;  1WEI A;  2JG6 A;  1PU6 A;  1MUD A;  3F10 A;  1VRL A;  1PU7 A;  4AI5 A;  1PVS A;  1YQL A;  1NGN A;  2JHN A;  3D4V A;  4E9G A;  2I5W A;  1KG7 A;  4EJZ A;  2NOZ A;  1ORN A;  1P7M A;  1YQM A;  1KO9 A;  3N5N X;  1MPG A;  3FHG A;  3I0W A;  4EW0 A;  4EJY A;  1KEA A;  2NOL A;  1MUN A;  3CWA A;  1XQP A;  2YG8 A;  4UOB A;  4YPR A;  3KNT A;  1KG3 A;  1FN7 A;  3S6I A;  1N3C A;  2ABK A;  2YG9 A;  1LWV A;  3CW7 A;  4PII A;  4DK9 A;  1P59 A;  5AN4 A;  1KG4 A;  1KG5 A;  1LWW A;  3IHO A;  2OFI A;  1LMZ A;  2NOH A;  1WEG A;  2NOE A;  2XHI A;  3OH6 A;  4YPH A;  3G0Q A;  1ORP A;  3N0U A;  3F0Z A;  1N3A A;  4AI4 A;  1DIZ A;  4E9F A;  4E9H A;  3FHF A;  4EA5 A; 
#chains in the Genus database with same CATH topology
 2NOI A;  4EA5 A;  3OYL A;  3I0X A;  4B21 A;  4ZTF A;  1WEF A;  1KG2 A;  3L2V A;  1M3Q A;  2NOB A;  4BE0 A;  1M3H A;  2NOF A;  5FRM A;  3VW4 A;  1EBM A;  3IH7 A;  3CWT A;  4UNF A;  3OS2 A;  4OFA A;  1RRS A;  5KN9 A;  1KQJ A;  4B24 A;  2H56 A;  3CWS A;  1LWY A;  4EVV A;  4BDZ A;  4E9E A;  4HSB A;  3CWU A;  2OFK A;  3L2R A;  4NZG A;  4ZTJ A;  1YQK A;  3LCN A;  4AIA A;  3OY9 A;  4OFH A;  3CVT A;  4OFE A;  1KG6 A;  4EW4 A;  5CHZ A;  3OYN A;  1PU8 A;  3OGD A;  1MUY A;  4E7K A;  4EA4 A;  1HU0 A;  4YOQ A;  1NKU A;  1XG7 A;  2JHJ A;  3FSP A;  1N39 A;  5KN8 A;  1XQO A;  5FRN A;  5FRO A;  3OS0 A;  4B23 A;  1U84 A;  4IKF A;  5DPK A;  1RRQ A;  3OYG A;  3OH9 A;  3L2W A;  3OYH A;  3KTU A;  3S3M A;  3R2X C;  3OYA A;  3OYF A;  3CVS A;  2JPS A;  1YQR A;  3OYC A;  4B22 A;  3OYB A;  1WEI A;  2JG6 A;  1PU6 A;  4BE2 A;  1MUD A;  3F10 A;  4E7H A;  1VRL A;  1PU7 A;  4AI5 A;  1PVS A;  4BDY A;  1YQL A;  1NGN A;  2JHN A;  3S3N A;  3D4V A;  4E9G A;  2I5W A;  1KG7 A;  3OYM A;  3OYD A;  4EJZ A;  2NOZ A;  1ORN A;  4E7J A;  1P7M A;  4E7I A;  1YQM A;  1KO9 A;  3N5N X;  1MPG A;  3FHG A;  3I0W A;  4EW0 A;  4EJY A;  1KEA A;  3S3O A;  2NOL A;  4E7L A;  1MUN A;  3CWA A;  1XQP A;  2YG8 A;  4UOB A;  4YPR A;  3OYI A;  3KNT A;  1KG3 A;  1FN7 A;  3OYE A;  3S6I A;  1N3C A;  3L2Q A;  4BAC A;  2ABK A;  2YG9 A;  3OYJ A;  3L2U A;  1LWV A;  3CW7 A;  4PII A;  4DK9 A;  1P59 A;  5AN4 A;  3NNQ A;  1KG4 A;  1KG5 A;  1LWW A;  3IHO A;  3OS1 A;  2OFI A;  1LMZ A;  2NOH A;  1WEG A;  2NOE A;  2W03 A;  2XHI A;  3OH6 A;  4YPH A;  3G0Q A;  1ORP A;  2V75 A;  4BE1 A;  3N0U A;  3F0Z A;  1N3A A;  2W04 A;  4AI4 A;  1DIZ A;  4E9F A;  4E9H A;  3FHF A;  3OYK A; 
#chains in the Genus database with same CATH homology
 2NOI A;  3I0X A;  4B21 A;  1WEF A;  1KG2 A;  1M3Q A;  2NOB A;  1M3H A;  2NOF A;  1EBM A;  3IH7 A;  3CWT A;  4UNF A;  4OFA A;  1RRS A;  5KN9 A;  1KQJ A;  4B24 A;  2H56 A;  3CWS A;  1LWY A;  4EVV A;  4E9E A;  4HSB A;  3CWU A;  2OFK A;  1YQK A;  4AIA A;  4OFH A;  3CVT A;  4OFE A;  1KG6 A;  4EW4 A;  5CHZ A;  1PU8 A;  3OGD A;  1MUY A;  1HU0 A;  4EA4 A;  4YOQ A;  1NKU A;  1XG7 A;  2JHJ A;  3FSP A;  1N39 A;  5KN8 A;  1XQO A;  4B23 A;  5DPK A;  1RRQ A;  3OH9 A;  3KTU A;  3CVS A;  1YQR A;  4B22 A;  1WEI A;  2JG6 A;  1PU6 A;  1MUD A;  3F10 A;  1VRL A;  1PU7 A;  4AI5 A;  1PVS A;  1YQL A;  1NGN A;  2JHN A;  3D4V A;  4E9G A;  2I5W A;  1KG7 A;  4EJZ A;  2NOZ A;  1ORN A;  1P7M A;  1YQM A;  1KO9 A;  3N5N X;  1MPG A;  3FHG A;  3I0W A;  4EW0 A;  4EJY A;  1KEA A;  2NOL A;  1MUN A;  3CWA A;  1XQP A;  2YG8 A;  4UOB A;  4YPR A;  3KNT A;  1KG3 A;  1FN7 A;  3S6I A;  1N3C A;  2ABK A;  2YG9 A;  1LWV A;  3CW7 A;  4PII A;  4DK9 A;  1P59 A;  5AN4 A;  1KG4 A;  1KG5 A;  1LWW A;  3IHO A;  2OFI A;  1LMZ A;  2NOH A;  1WEG A;  2NOE A;  2XHI A;  3OH6 A;  4YPH A;  3G0Q A;  1ORP A;  3N0U A;  3F0Z A;  1N3A A;  4AI4 A;  1DIZ A;  4E9F A;  4E9H A;  3FHF A;  4EA5 A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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