1P59A

Structure of a non-covalent endonuclease iii-dna complex
Total Genus 73

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
73
sequence length
214
structure length
214
Chain Sequence
MLTKQQIRYCLDEMAKMFPDAHCELVHRNPFELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNGEVPRDRDELMKLPGVGRKTANVVVSTAFGVPAIAVDTHVERVSKRLGFCRWDDSVLEVEKTLMKIIPKEEWSITHHRMIFFGRYHCKAQSPQCPSCPLLHLCREGKKRMRK

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
EMPTYTIV4 (150-153)AH1 (4-17)TIV1 (18-21)AH2 (30-40)AH6 (83-101)TII1 (40-43)TI1 (77-80)AH4 (62-66)AH5 (70-77)TIV2 (78-81)TIV3 (80-83)AH7 (109-114)AH8 (120-131)TII2 (115-118)AH11 (173-188)TI2 (153-156)TI4 (199-202)3H1 (196-198)TVIII1 (191-194)3H2 (202-204)AH12 (206-213)AH3 (45-58)TI'1 (101-104)AH10 (158-168)AH9 (140-149)TIV5 (190-193)TI3 (170-173)Updating...
connected with : NaN
publication title Structure of a Trapped Endonuclease III-DNA Covalent Intermediate
pubmed doi rcsb
molecule tags Hydrolase/dna
source organism Geobacillus stearothermophilus
molecule keywords 5'-D(*AP*AP*GP*AP*CP*GP*(5IU)P*GP*GP*AP*C)-3'
total genus 73
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2003-04-25
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 1p59A01
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 1p59A02
1YQRA 2NOZA 4EJYA 1MUDA 1EBMA 3OGDA 2XHIA 1RRQA 2NOFA 4E9EA 4YOQA 2OFIA 3OH9A 4E9GA 3FHFA 1RRSA 4UOBA 3IH7A 1N3CA 2NOBA 2YG9A 1KG3A 4YPHA 2NOIA 1LMZA 1FN7A 1MPGA 2JG6A 3G0QA 5AN4A 1LWVA 2I5WA 3N5NX 4AI4A 1XQOA 1YQLA 3CW7A 3KTUA 3OH6A 1KG7A 1KEAA 1NKUA 3I0WA 1DIZA 3I0XA 2NOHA 1P7MA 4B24A 1PVSA 4HSBA 1WEFA 2NOLA 4OFHA 5CHZA 4DK9A 2H56A 4AI5A 1KG2A 1M3QA 4OFAA 1YQKA 1ORPA 3IHOA 2NOEA 3FSPA 1LWYA 2YG8A 4EVVA 4EW4A 4EW0A 4UNFA 3F0ZA 4B23A 4AIAA 2OFKA 3FHGA 2JHNA 1PU6A 2ABKA 1KG6A 1MUNA 1N39A 4YPRA 1XG7A 1ORNA 4B22A 5KN8A 1KG4A 3F10A 1N3AA 1LWWA 4PIIA 1KQJA 4EA4A 1VRLA 3CWUA 3S6IA 1YQMA 4EJZA 3D4VA 5KN9A 1KO9A 3CVSA 1MUYA 1XQPA 1P59A 4OFEA 3N0UA 1M3HA 1PU8A 1KG5A 2JHJA 4B21A 1WEIA 4E9FA 5DPKA 3CWSA 1HU0A 1WEGA 1PU7A 3CWTA 3CVTA 1NGNA 4EA5A 3CWAA 4E9HA 3KNTA
chains in the Genus database with same CATH superfamily
3OYFA 1YQRA 2NOZA 4EJYA 1MUDA 4BE0A 4BDYA 4ZTFA 1EBMA 3OGDA 3LCNA 2XHIA 3L2WA 1RRQA 2NOFA 4E9EA 4YOQA 2OFIA 3OH9A 4E9GA 3FHFA 1RRSA 5FRMA 4UOBA 5FRNA 3L2QA 3IH7A 1N3CA 2NOBA 2YG9A 1KG3A 4YPHA 2NOIA 1LMZA 3OY9A 1FN7A 1MPGA 2JG6A 3L2UA 3G0QA 5AN4A 3OYAA 1LWVA 2I5WA 3N5NX 3L2VA 4AI4A 1XQOA 1YQLA 3CW7A 3OYMA 3KTUA 3OH6A 3L2RA 1KG7A 1KEAA 2V75A 1NKUA 3I0WA 1DIZA 3I0XA 2NOHA 3VW4A 1P7MA 4B24A 1PVSA 4HSBA 4BDZA 1WEFA 4E7IA 2NOLA 4OFHA 5CHZA 3OYGA 4DK9A 1U84A 2H56A 4AI5A 1KG2A 2W04A 3OYLA 1M3QA 4OFAA 1YQKA 3NNQA 3OYCA 3OYDA 4BE1A 1ORPA 3OYIA 3IHOA 2NOEA 3FSPA 4E7JA 3S3MA 1LWYA 2YG8A 4E7KA 4EVVA 4EW4A 4EW0A 4UNFA 3OS0A 3F0ZA 2JPSA 3R2XC 3OS1A 4B23A 4AIAA 3OYJA 2OFKA 2W03A 3FHGA 3OYNA 2JHNA 3OYEA 4BE2A 1PU6A 2ABKA 1KG6A 1MUNA 3S3OA 1N39A 4NZGA 4YPRA 1XG7A 3S3NA 4B22A 1ORNA 5KN8A 1KG4A 3F10A 3KNTA 4ZTJA 1N3AA 1LWWA 4PIIA 1KQJA 4EA4A 4IKFA 4E7LA 1VRLA 3CWUA 3S6IA 1YQMA 4EJZA 3D4VA 5KN9A 1KO9A 3CVSA 1MUYA 1XQPA 1P59A 4E7HA 4OFEA 3N0UA 1M3HA 1PU8A 1KG5A 2JHJA 4B21A 1WEIA 4BACA 4E9FA 5DPKA 3CWSA 1HU0A 1WEGA 3OYBA 1PU7A 5FROA 3CWTA 3CVTA 1NGNA 4EA5A 3OYHA 3CWAA 4E9HA 3OYKA 3OS2A
chains in the Genus database with same CATH topology
1YQRA 2NOZA 4EJYA 1MUDA 1EBMA 3OGDA 2XHIA 1RRQA 2NOFA 4E9EA 4YOQA 2OFIA 3OH9A 4E9GA 3FHFA 1RRSA 4UOBA 3IH7A 1N3CA 2NOBA 2YG9A 1KG3A 4YPHA 2NOIA 1LMZA 1FN7A 1MPGA 2JG6A 3G0QA 5AN4A 1LWVA 2I5WA 3N5NX 4AI4A 1XQOA 1YQLA 3CW7A 3KTUA 3OH6A 1KG7A 1KEAA 1NKUA 3I0WA 1DIZA 3I0XA 2NOHA 1P7MA 4B24A 1PVSA 4HSBA 1WEFA 2NOLA 4OFHA 5CHZA 4DK9A 2H56A 4AI5A 1KG2A 1M3QA 4OFAA 1YQKA 1ORPA 3IHOA 2NOEA 3FSPA 1LWYA 2YG8A 4EVVA 4EW4A 4EW0A 4UNFA 3F0ZA 4B23A 4AIAA 2OFKA 3FHGA 2JHNA 1PU6A 2ABKA 1KG6A 1MUNA 1N39A 4YPRA 1XG7A 1ORNA 4B22A 5KN8A 1KG4A 3F10A 1N3AA 1LWWA 4PIIA 1KQJA 4EA4A 1VRLA 3CWUA 3S6IA 1YQMA 4EJZA 3D4VA 5KN9A 1KO9A 3CVSA 1MUYA 1XQPA 1P59A 4OFEA 3N0UA 1M3HA 1PU8A 1KG5A 2JHJA 4B21A 1WEIA 4E9FA 5DPKA 3CWSA 1HU0A 1WEGA 1PU7A 3CWTA 3CVTA 1NGNA 4EA5A 3CWAA 4E9HA 3KNTA
chains in the Genus database with same CATH homology


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

 
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#similar chains, but unknotted
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