1ORPA

Structure of a trapped endonuclease iii-dna covalent intermediate: estranged-adenine complex
Total Genus 75
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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
75
sequence length
213
structure length
213
Chain Sequence
MLTKQQIRYCLDEMAKMFPDAHCELVHRNPFELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNGEVPRDRDELMKLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSKRLGFCRWDDSVLEVEKTLMKIIPKEEWSITHHRMIFFGRYHCKAQSPQCPSCPLLHLCREGKKRMR
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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 Hydrolase/dna
molecule keywords 5'-D(*AP*AP*GP*AP*CP*AP*TP*GP*GP*AP*C)-3'
publication title Structure of a Trapped Endonuclease III-DNA Covalent Intermediate
pubmed doi rcsb
source organism Geobacillus stearothermophilus
total genus 75
structure length 213
sequence length 213
ec nomenclature
pdb deposition date 2003-03-14
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 1orpA01
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 1orpA02
4YPHA 1NGNA 3F0ZA 3N5NX 3OH9A 3CWTA 3FHGA 1XQPA 4YOQA 1ORNA 1XG7A 1MPGA 2H56A 4UOBA 4YPRA 3KNTA 2NOIA 1KG2A 4EJZA 2I5WA 4EVVA 5CHZA 2YG9A 1RRQA 4B21A 2ABKA 3CWUA 4EJYA 4B22A 4E9GA 4E9EA 4OFAA 1KG6A 1P7MA 4B24A 1KG5A 1HU0A 3CWAA 1YQLA 1P59A 4HSBA 3KTUA 1KG3A 4PIIA 3G0QA 3D4VA 5AN4A 2NOBA 3FSPA 2JHNA 4B23A 3OH6A 1N3CA 1N39A 3N0UA 4AI5A 2JG6A 1WEGA 1M3HA 2NOEA 4EW4A 4DK9A 3CVTA 3IH7A 2NOZA 1LMZA 3FHFA 1PU7A 1PVSA 1KG4A 4OFHA 4E9FA 1WEIA 4AI4A 1MUYA 3S6IA 3IHOA 1MUDA 4EA4A 1ORPA 3F10A 3I0WA 4EA5A 5DPKA 2OFIA 3CW7A 1PU8A 1XQOA 1LWYA 4UNFA 1NKUA 5KN8A 1FN7A 1KG7A 1M3QA 1N3AA 2NOHA 2JHJA 1PU6A 1MUNA 2OFKA 4OFEA 1KQJA 3CWSA 3CVSA 4E9HA 1LWVA 4AIAA 1YQRA 1RRSA 1WEFA 2NOLA 1YQKA 5KN9A 1EBMA 1KEAA 1VRLA 3I0XA 3OGDA 1YQMA 2YG8A 1KO9A 2XHIA 1DIZA 4EW0A 2NOFA 1LWWA
chains in the Genus database with same CATH superfamily
4YPHA 3OYDA 3VW4A 1NGNA 3F0ZA 3N5NX 3OH9A 3CWTA 3OS1A 3FHGA 4E7KA 1XQPA 4YOQA 3OS0A 1ORNA 3OYKA 1XG7A 3OYNA 4ZTFA 5FRNA 1MPGA 2H56A 4UOBA 4YPRA 3OY9A 3KNTA 2NOIA 1KG2A 4E7HA 3OYEA 4EJZA 2I5WA 4EVVA 5FRMA 5CHZA 2YG9A 1RRQA 4BE2A 3L2WA 4B21A 2ABKA 3CWUA 4EJYA 4B22A 4E9GA 4E9EA 4OFAA 1KG6A 1P7MA 4B24A 1KG5A 1HU0A 3CWAA 1U84A 1YQLA 1P59A 4HSBA 4BDYA 3KTUA 1KG3A 4PIIA 3OYHA 3G0QA 3D4VA 5AN4A 2NOBA 3FSPA 2JHNA 4B23A 3OH6A 2W03A 3NNQA 4E7JA 4NZGA 3N0UA 1N3CA 1N39A 3LCNA 4AI5A 2JG6A 1WEGA 3S3OA 1M3HA 2NOEA 4EW4A 4DK9A 3L2QA 3CVTA 3S3NA 3OYFA 3IH7A 4BACA 4BDZA 3R2XC 1LMZA 2NOZA 3FHFA 1PU7A 1PVSA 3OYGA 1KG4A 4OFHA 3OS2A 1WEIA 4AI4A 1MUYA 4E9FA 3S6IA 3IHOA 1MUDA 4EA4A 1ORPA 3F10A 3I0WA 4EA5A 5DPKA 2OFIA 3CW7A 1PU8A 1XQOA 4BE1A 1LWYA 4UNFA 3L2VA 1NKUA 5KN8A 4E7LA 1FN7A 1KG7A 1M3QA 3OYLA 5FROA 1N3AA 3OYIA 2NOHA 2JHJA 1PU6A 3L2RA 3L2UA 3S3MA 1MUNA 2JPSA 2OFKA 4OFEA 1KQJA 3OYMA 4ZTJA 3CWSA 3CVSA 4E9HA 1LWVA 3OYJA 4AIAA 3OYAA 1YQRA 2W04A 3OYCA 1RRSA 1WEFA 2NOLA 1YQKA 5KN9A 1EBMA 1KEAA 1VRLA 3I0XA 3OYBA 3OGDA 1YQMA 2YG8A 1KO9A 4IKFA 4E7IA 2XHIA 1DIZA 4EW0A 4BE0A 2V75A 2NOFA 1LWWA
chains in the Genus database with same CATH topology
4YPHA 1NGNA 3F0ZA 3N5NX 3OH9A 3CWTA 3FHGA 1XQPA 4YOQA 1ORNA 1XG7A 1MPGA 2H56A 4UOBA 4YPRA 3KNTA 2NOIA 1KG2A 4EJZA 2I5WA 4EVVA 5CHZA 2YG9A 1RRQA 4B21A 2ABKA 3CWUA 4EJYA 4B22A 4E9GA 4E9EA 4OFAA 1KG6A 1P7MA 4B24A 1KG5A 1HU0A 3CWAA 1YQLA 1P59A 4HSBA 3KTUA 1KG3A 4PIIA 3G0QA 3D4VA 5AN4A 2NOBA 3FSPA 2JHNA 4B23A 3OH6A 1N3CA 1N39A 3N0UA 4AI5A 2JG6A 1WEGA 1M3HA 2NOEA 4EW4A 4DK9A 3CVTA 3IH7A 2NOZA 1LMZA 3FHFA 1PU7A 1PVSA 1KG4A 4OFHA 4E9FA 1WEIA 4AI4A 1MUYA 3S6IA 3IHOA 1MUDA 4EA4A 1ORPA 3F10A 3I0WA 4EA5A 5DPKA 2OFIA 3CW7A 1PU8A 1XQOA 1LWYA 4UNFA 1NKUA 5KN8A 1FN7A 1KG7A 1M3QA 1N3AA 2NOHA 2JHJA 1PU6A 1MUNA 2OFKA 4OFEA 1KQJA 3CWSA 3CVSA 4E9HA 1LWVA 4AIAA 1YQRA 1RRSA 1WEFA 2NOLA 1YQKA 5KN9A 1EBMA 1KEAA 1VRLA 3I0XA 3OGDA 1YQMA 2YG8A 1KO9A 2XHIA 1DIZA 4EW0A 2NOFA 1LWWA
chains in the Genus database with same CATH homology


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