4DK9A

Crystal structure of mbd4 catalytic domain bound to abasic dna
Total Genus 47
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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
47
sequence length
140
structure length
140
Chain Sequence
WTPPRSPFNLVQETLFHDPWKLLIATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIFCVNEWKQVHPEDHKLNKYHDWLWENHEKL
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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.

molecule keywords 5'-D(*AP*AP*GP*AP*CP*GP*TP*GP*GP*AP*C)-3'
publication title Crystal Structure of Human Methyl-Binding Domain IV Glycosylase Bound to Abasic DNA.
pubmed doi rcsb
source organism Homo sapiens
molecule tags Hydrolase/dna
total genus 47
structure length 140
sequence length 140
ec nomenclature ec 3.2.2.-:
pdb deposition date 2012-02-03
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 4dk9A00
3F10A 1MUDA 4B23A 4EJZA 2ABKA 1YQLA 1KEAA 3CWTA 1LWVA 3CWAA 5KN9A 2OFKA 3I0WA 3CW7A 2YG9A 1KG5A 4EVVA 2JG6A 1N3AA 2NOLA 3OGDA 1KQJA 3KTUA 4EA5A 4EJYA 2JHNA 2XHIA 1P59A 1NGNA 1KO9A 4OFEA 1PU7A 3CWUA 4B24A 4E9GA 2NOIA 1KG7A 2OFIA 1FN7A 1RRSA 3FHGA 1KG3A 1LWWA 4UNFA 1ORPA 1DIZA 3N5NX 1HU0A 3OH9A 1ORNA 1M3QA 2NOFA 1N39A 1RRQA 4YPHA 3IH7A 1KG6A 1EBMA 1MUYA 3FSPA 1KG2A 4OFAA 1MUNA 4UOBA 3CWSA 1PU6A 3I0XA 1N3CA 3KNTA 5KN8A 4EW0A 2NOZA 4E9FA 1XQPA 5AN4A 4PIIA 4EA4A 2H56A 1YQKA 2I5WA 1WEIA 3CVSA 1VRLA 4AI4A 1YQMA 1WEFA 4DK9A 3S6IA 4AI5A 3D4VA 3FHFA 4B21A 3CVTA 1YQRA 2YG8A 4OFHA 1XQOA 1MPGA 4E9EA 4EW4A 1LWYA 1P7MA 4B22A 5DPKA 1LMZA 4E9HA 5CHZA 3N0UA 3G0QA 1PU8A 1WEGA 2NOBA 1M3HA 2NOEA 3OH6A 4YOQA 1KG4A 2NOHA 4AIAA 1NKUA 3F0ZA 4YPRA 1PVSA 3IHOA 4HSBA 1XG7A 2JHJA
chains in the Genus database with same CATH superfamily
3F10A 1MUDA 3OY9A 4B23A 4EJZA 1U84A 4IKFA 2ABKA 4BE1A 3OS2A 3L2QA 1YQLA 2V75A 3OYIA 1KEAA 3R2XC 3L2WA 3CWTA 4BACA 1LWVA 3CWAA 4BDZA 5KN9A 2OFKA 3I0WA 3OYMA 4ZTFA 4E7LA 3CW7A 2YG9A 3OYCA 1KG5A 4E7KA 2JG6A 4EVVA 1N3AA 2NOLA 3OYJA 3OGDA 1KQJA 2W04A 3KTUA 4EA5A 4EJYA 2JHNA 4ZTJA 3L2RA 2XHIA 1P59A 1NGNA 1KO9A 4OFEA 1PU7A 3CWUA 4B24A 4NZGA 3OS0A 4E9GA 2NOIA 1KG7A 2OFIA 1FN7A 1RRSA 3FHGA 3VW4A 1KG3A 1LWWA 3OYGA 4UNFA 4E7HA 1ORPA 1DIZA 3N5NX 3L2VA 1HU0A 5FRMA 3OH9A 1ORNA 1M3QA 2NOFA 4BE2A 1N39A 1RRQA 4YPHA 3IH7A 3S3OA 1KG6A 3OYAA 1EBMA 1MUYA 3FSPA 1KG2A 4OFAA 1MUNA 4UOBA 3OYDA 3CWSA 1PU6A 3I0XA 1N3CA 3KNTA 5KN8A 4EW0A 2NOZA 4E9FA 3NNQA 3OYKA 1XQPA 3OYFA 2W03A 5AN4A 5FROA 2JPSA 4PIIA 3OYNA 4EA4A 2H56A 3OYEA 3OYLA 1YQKA 2I5WA 1WEIA 3CVSA 1VRLA 4AI4A 1YQMA 1WEFA 4DK9A 3S6IA 4AI5A 3OS1A 3D4VA 3FHFA 4B21A 3CVTA 1YQRA 2YG8A 4OFHA 1XQOA 4E7IA 3S3MA 3LCNA 1MPGA 4E7JA 4E9EA 4EW4A 1LWYA 1P7MA 4B22A 5DPKA 1LMZA 4E9HA 5CHZA 4BDYA 3N0UA 3G0QA 1PU8A 1WEGA 2NOBA 1M3HA 3OYBA 2NOEA 3OH6A 5FRNA 3OYHA 4YOQA 1KG4A 2NOHA 4BE0A 4AIAA 1NKUA 3F0ZA 4YPRA 1PVSA 3IHOA 3L2UA 3S3NA 4HSBA 1XG7A 2JHJA
chains in the Genus database with same CATH topology
3F10A 1MUDA 4B23A 4EJZA 2ABKA 1YQLA 1KEAA 3CWTA 1LWVA 3CWAA 5KN9A 2OFKA 3I0WA 3CW7A 2YG9A 1KG5A 4EVVA 2JG6A 1N3AA 2NOLA 3OGDA 1KQJA 3KTUA 4EA5A 4EJYA 2JHNA 2XHIA 1P59A 1NGNA 1KO9A 4OFEA 1PU7A 3CWUA 4B24A 4E9GA 2NOIA 1KG7A 2OFIA 1FN7A 1RRSA 3FHGA 1KG3A 1LWWA 4UNFA 1ORPA 1DIZA 3N5NX 1HU0A 3OH9A 1ORNA 1M3QA 2NOFA 1N39A 1RRQA 4YPHA 3IH7A 1KG6A 1EBMA 1MUYA 3FSPA 1KG2A 4OFAA 1MUNA 4UOBA 3CWSA 1PU6A 3I0XA 1N3CA 3KNTA 5KN8A 4EW0A 2NOZA 4E9FA 1XQPA 5AN4A 4PIIA 4EA4A 2H56A 1YQKA 2I5WA 1WEIA 3CVSA 1VRLA 4AI4A 1YQMA 1WEFA 4DK9A 3S6IA 4AI5A 3D4VA 3FHFA 4B21A 3CVTA 1YQRA 2YG8A 4OFHA 1XQOA 1MPGA 4E9EA 4EW4A 1LWYA 1P7MA 4B22A 5DPKA 1LMZA 4E9HA 5CHZA 3N0UA 3G0QA 1PU8A 1WEGA 2NOBA 1M3HA 2NOEA 3OH6A 4YOQA 1KG4A 2NOHA 4AIAA 1NKUA 3F0ZA 4YPRA 1PVSA 3IHOA 4HSBA 1XG7A 2JHJA
chains in the Genus database with same CATH homology


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