1PU6A

Crystal structure of h.pylori 3-methyladenine dna glycosylase (magiii)
Total Genus 84
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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
84
sequence length
217
structure length
216
Chain Sequence
LDSFEILKALKSLDLLKNAPAWWWPNALKFEALLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQSFENFKQEVTREWLLDQKGIGKESADAILCYACAKEVMVVDKYSYLFLKKLGIEIEDYDELQHFFEKGVQENLNSALALYENTISLAQLYARFHGIVEFSKQKLELKL
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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 keywords 3-METHYLADENINE DNA GLYCOSYLASE
publication title Crystal structures of 3-methyladenine DNA glycosylase MagIII and the recognition of alkylated bases
pubmed doi rcsb
source organism Helicobacter pylori
molecule tags Hydrolase
total genus 84
structure length 216
sequence length 217
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 1pu6A02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 1pu6A01
4OFHA 2H56A 1RRQA 1LMZA 3OGDA 3KNTA 1P7MA 3I0WA 1KO9A 1WEFA 1N39A 4E9EA 3N0UA 1KQJA 2NOEA 1KG5A 1M3HA 3OH9A 3F10A 1NKUA 2NOZA 2OFKA 1MUNA 4EVVA 1KG3A 4B21A 4B23A 1VRLA 1YQKA 1N3AA 4DK9A 3G0QA 4YPHA 3CWUA 4EW0A 4EJYA 4UOBA 3CWSA 3D4VA 3FSPA 2XHIA 4E9FA 4E9HA 1KG4A 4YOQA 4AI5A 1PU8A 4YPRA 1MUYA 2NOFA 2OFIA 1MPGA 5DPKA 5AN4A 4OFAA 1XQPA 2JHJA 1PU7A 3IH7A 1YQMA 1KG2A 1NGNA 1YQLA 3CWTA 2JHNA 3F0ZA 3OH6A 1KG6A 2I5WA 4HSBA 1EBMA 1ORPA 4EJZA 3CVTA 4AI4A 1LWVA 5CHZA 1DIZA 1M3QA 4B22A 1WEGA 2ABKA 1RRSA 2NOBA 1LWWA 2NOLA 1LWYA 4EA4A 4UNFA 3CWAA 3S6IA 1MUDA 1WEIA 1HU0A 2NOIA 3CW7A 1PU6A 3FHFA 4B24A 5KN8A 1XG7A 3IHOA 4EW4A 1ORNA 3CVSA 4OFEA 4EA5A 1P59A 5KN9A 3FHGA 4PIIA 1YQRA 1KG7A 1XQOA 3N5NX 1N3CA 3I0XA 1KEAA 2YG8A 1FN7A 2NOHA 1PVSA 3KTUA 4E9GA 2JG6A 4AIAA 2YG9A
chains in the Genus database with same CATH superfamily
4NZGA 3S3MA 4OFHA 4BACA 2H56A 2V75A 1RRQA 1LMZA 3LCNA 4BDYA 3OGDA 3KNTA 1P7MA 3I0WA 1KO9A 1WEFA 3OYLA 3OYGA 3OYEA 3L2RA 1N39A 4E9EA 3OYDA 4BE0A 3N0UA 1KQJA 4ZTJA 1KG5A 1M3HA 3OH9A 2NOEA 4BE2A 3F10A 1NKUA 2JPSA 2NOZA 3S3NA 2OFKA 5FRNA 1MUNA 4EVVA 1KG3A 4B21A 4B23A 1VRLA 5FRMA 1YQKA 1N3AA 4DK9A 3G0QA 4YPHA 3CWUA 4E7KA 3L2QA 4EW0A 4EJYA 4UOBA 3CWSA 3D4VA 3FSPA 2XHIA 3OYNA 4E9FA 4E9HA 1KG4A 4YOQA 4AI5A 3L2VA 1PU8A 3OYAA 4YPRA 3OYKA 3OYJA 1MUYA 3L2WA 2OFIA 2NOFA 1MPGA 3L2UA 5DPKA 5AN4A 4OFAA 1XQPA 2JHJA 1PU7A 3IH7A 1YQMA 1KG2A 3OYBA 3OY9A 1NGNA 4BE1A 3OYIA 1YQLA 3OS1A 3CWTA 2JHNA 3S3OA 3F0ZA 4E7JA 2W04A 3OH6A 1KG6A 2I5WA 4HSBA 1EBMA 1ORPA 3OS2A 4EJZA 3CVTA 4AI4A 1LWVA 5CHZA 1DIZA 1M3QA 3OYMA 4B22A 2W03A 1WEGA 2ABKA 1RRSA 2NOBA 1LWWA 2NOLA 1LWYA 4EA4A 4UNFA 3CWAA 3S6IA 1MUDA 1WEIA 1HU0A 2NOIA 3CW7A 1PU6A 4IKFA 3FHFA 4B24A 5KN8A 1XG7A 4ZTFA 3IHOA 3R2XC 1U84A 5FROA 4EW4A 1ORNA 3OYHA 3OS0A 3OYCA 4OFEA 3OYFA 3CVSA 4EA5A 1P59A 5KN9A 3FHGA 4PIIA 4E7HA 1YQRA 4E7IA 1KG7A 1XQOA 3N5NX 1N3CA 4E7LA 3I0XA 1KEAA 2YG8A 1FN7A 2NOHA 3NNQA 1PVSA 3KTUA 3VW4A 4BDZA 4E9GA 2JG6A 4AIAA 2YG9A
chains in the Genus database with same CATH topology
4OFHA 2H56A 1RRQA 1LMZA 3OGDA 3KNTA 1P7MA 3I0WA 1KO9A 1WEFA 1N39A 4E9EA 3N0UA 1KQJA 2NOEA 1KG5A 1M3HA 3OH9A 3F10A 1NKUA 2NOZA 2OFKA 1MUNA 4EVVA 1KG3A 4B21A 4B23A 1VRLA 1YQKA 1N3AA 4DK9A 3G0QA 4YPHA 3CWUA 4EW0A 4EJYA 4UOBA 3CWSA 3D4VA 3FSPA 2XHIA 4E9FA 4E9HA 1KG4A 4YOQA 4AI5A 1PU8A 4YPRA 1MUYA 2NOFA 2OFIA 1MPGA 5DPKA 5AN4A 4OFAA 1XQPA 2JHJA 1PU7A 3IH7A 1YQMA 1KG2A 1NGNA 1YQLA 3CWTA 2JHNA 3F0ZA 3OH6A 1KG6A 2I5WA 4HSBA 1EBMA 1ORPA 4EJZA 3CVTA 4AI4A 1LWVA 5CHZA 1DIZA 1M3QA 4B22A 1WEGA 2ABKA 1RRSA 2NOBA 1LWWA 2NOLA 1LWYA 4EA4A 4UNFA 3CWAA 3S6IA 1MUDA 1WEIA 1HU0A 2NOIA 3CW7A 1PU6A 3FHFA 4B24A 5KN8A 1XG7A 3IHOA 4EW4A 1ORNA 3CVSA 4OFEA 4EA5A 1P59A 5KN9A 3FHGA 4PIIA 1YQRA 1KG7A 1XQOA 3N5NX 1N3CA 3I0XA 1KEAA 2YG8A 1FN7A 2NOHA 1PVSA 3KTUA 4E9GA 2JG6A 4AIAA 2YG9A
chains in the Genus database with same CATH homology


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