1PU8A

Crystal structure of h.pylori 3-methyladenine dna glycosylase (magiii) bound to 1,n6-ethenoadenine
Total Genus 85
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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
85
sequence length
215
structure length
214
Chain Sequence
LDSFEILKALKSLDLLKNAPAWWWPNALKFEALLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQSFENFKQEVTREWLLDQKGIGKESADAILCYACAKEVMVVDKYSYLFLKKLGIEIEDYDELQHFFEKGVQENLNSALALYENTISLAQLYARFHGIVEFSKQKLEL
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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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publication title Crystal structures of 3-methyladenine DNA glycosylase MagIII and the recognition of alkylated bases
pubmed doi rcsb
molecule keywords 3-METHYLADENINE DNA GLYCOSYLASE
source organism Helicobacter pylori
molecule tags Hydrolase
total genus 85
structure length 214
sequence length 215
chains with identical sequence B
ec nomenclature
pdb deposition date 2003-06-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00633 HHH Helix-hairpin-helix motif
A PF00730 HhH-GPD HhH-GPD superfamily base excision DNA repair protein
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 1pu8A02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 1pu8A01
4AIAA 4B22A 4HSBA 4UOBA 1M3QA 1RRSA 3F0ZA 1LMZA 1XG7A 2JG6A 3I0WA 4UNFA 4OFAA 2NOFA 4PIIA 1KG4A 3FHFA 1KG6A 4EA4A 1MUDA 2OFKA 3CWAA 1KG7A 5KN8A 2NOIA 3IH7A 1KG3A 3D4VA 2H56A 1LWVA 2NOHA 3N0UA 3OGDA 4AI4A 1EBMA 5KN9A 1VRLA 5CHZA 2YG9A 1LWWA 1DIZA 2JHJA 3CWUA 3S6IA 1YQRA 3CWTA 3CVTA 2NOLA 3OH9A 3KNTA 1KG5A 3CVSA 3N5NX 4E9GA 4EJYA 5AN4A 4EVVA 1PU7A 1P59A 3G0QA 1M3HA 1N3CA 3KTUA 4YOQA 3IHOA 3CW7A 2XHIA 1XQPA 4EW4A 1ORPA 1WEFA 1XQOA 2OFIA 1P7MA 4AI5A 1KG2A 2I5WA 4E9HA 3CWSA 4DK9A 1YQKA 2YG8A 1NGNA 4OFEA 1N39A 4B24A 4B21A 1KQJA 4E9EA 1NKUA 1PU6A 1HU0A 1KEAA 5DPKA 1KO9A 4YPHA 1YQMA 1PVSA 2JHNA 1WEGA 1WEIA 4E9FA 2NOBA 4EW0A 3I0XA 1MUNA 4EA5A 1LWYA 3FSPA 2ABKA 1ORNA 1MUYA 4EJZA 3OH6A 2NOZA 1YQLA 1MPGA 1RRQA 4YPRA 2NOEA 4B23A 3FHGA 3F10A 4OFHA 1FN7A 1N3AA 1PU8A
chains in the Genus database with same CATH superfamily
3L2RA 3OYDA 4AIAA 4B22A 4HSBA 4UOBA 1M3QA 1RRSA 3F0ZA 1LMZA 1XG7A 2V75A 2JG6A 3I0WA 4UNFA 4OFAA 3L2UA 2NOFA 4PIIA 1KG4A 3NNQA 3FHFA 1KG6A 4EA4A 1MUDA 2OFKA 3CWAA 3OYEA 1KG7A 5KN8A 2NOIA 3IH7A 3R2XC 1KG3A 4BACA 3D4VA 2H56A 1LWVA 2NOHA 3OYAA 3N0UA 3OGDA 4AI4A 3LCNA 1EBMA 5KN9A 3OY9A 3OYCA 1VRLA 3OYFA 1U84A 5CHZA 2YG9A 4ZTJA 1LWWA 1DIZA 4E7HA 2JHJA 3CWUA 3OYGA 3VW4A 3S6IA 1YQRA 4BDYA 3CWTA 3CVTA 2NOLA 3OYJA 3OH9A 3KNTA 1KG5A 3OYHA 3CVSA 3N5NX 4E7KA 4E9GA 4EJYA 5AN4A 4EVVA 1PU7A 1P59A 3G0QA 1M3HA 5FRMA 3OS1A 5FROA 1N3CA 3KTUA 4YOQA 3IHOA 3CW7A 2XHIA 1XQPA 4EW4A 1ORPA 2W04A 4ZTFA 1WEFA 1XQOA 2OFIA 3L2WA 3OYBA 1P7MA 4BE1A 4AI5A 3OYIA 3OS0A 1KG2A 3OS2A 3L2VA 2I5WA 2W03A 4E9HA 3OYNA 3CWSA 4NZGA 4DK9A 3S3OA 2YG8A 3S3NA 1NGNA 1YQKA 3L2QA 4OFEA 3OYKA 1N39A 4B24A 4B21A 1KQJA 4E9EA 1NKUA 1PU6A 1HU0A 1KEAA 4E7LA 4BE0A 5DPKA 1KO9A 4YPHA 1YQMA 1PVSA 2JHNA 1WEGA 1WEIA 4E9FA 2NOBA 4EW0A 3I0XA 1MUNA 4EA5A 1LWYA 3FSPA 4E7JA 3OYLA 2ABKA 4BE2A 3S3MA 1ORNA 1MUYA 4EJZA 4IKFA 3OH6A 2NOZA 1YQLA 5FRNA 1MPGA 4BDZA 1RRQA 2JPSA 3OYMA 4YPRA 4E7IA 2NOEA 4B23A 3FHGA 3F10A 4OFHA 1FN7A 1N3AA 1PU8A
chains in the Genus database with same CATH topology
4AIAA 4B22A 4HSBA 4UOBA 1M3QA 1RRSA 3F0ZA 1LMZA 1XG7A 2JG6A 3I0WA 4UNFA 4OFAA 2NOFA 4PIIA 1KG4A 3FHFA 1KG6A 4EA4A 1MUDA 2OFKA 3CWAA 1KG7A 5KN8A 2NOIA 3IH7A 1KG3A 3D4VA 2H56A 1LWVA 2NOHA 3N0UA 3OGDA 4AI4A 1EBMA 5KN9A 1VRLA 5CHZA 2YG9A 1LWWA 1DIZA 2JHJA 3CWUA 3S6IA 1YQRA 3CWTA 3CVTA 2NOLA 3OH9A 3KNTA 1KG5A 3CVSA 3N5NX 4E9GA 4EJYA 5AN4A 4EVVA 1PU7A 1P59A 3G0QA 1M3HA 1N3CA 3KTUA 4YOQA 3IHOA 3CW7A 2XHIA 1XQPA 4EW4A 1ORPA 1WEFA 1XQOA 2OFIA 1P7MA 4AI5A 1KG2A 2I5WA 4E9HA 3CWSA 4DK9A 1YQKA 2YG8A 1NGNA 4OFEA 1N39A 4B24A 4B21A 1KQJA 4E9EA 1NKUA 1PU6A 1HU0A 1KEAA 5DPKA 1KO9A 4YPHA 1YQMA 1PVSA 2JHNA 1WEGA 1WEIA 4E9FA 2NOBA 4EW0A 3I0XA 1MUNA 4EA5A 1LWYA 3FSPA 2ABKA 1ORNA 1MUYA 4EJZA 3OH6A 2NOZA 1YQLA 1MPGA 1RRQA 4YPRA 2NOEA 4B23A 3FHGA 3F10A 4OFHA 1FN7A 1N3AA 1PU8A
chains in the Genus database with same CATH homology


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