3SPDA

Crystal structure of aprataxin ortholog hnt3 in complex with dna
Total Genus 65
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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
65
sequence length
200
structure length
200
Chain Sequence
SFRDNLKVYIESPESYKNVIYYDDDVVLVRDMFPKSKMHLLLMTRDPHLTHVHPLEIMMKHRSLVEKLVSYVQGDLSGLIFDEARNCLSQQLTNEALANYIKVGFHAGPSMNNLHLHIMTLDHVSPSLKNSAHYISFTSPFFVKIDTPTSNLPTRGTLTSLFQEDLKCWRCGETFGRHFTKLKAHLQEEYDDWLDKSVSM
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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 Aprataxin-like protein
publication title Crystal structures of aprataxin ortholog Hnt3 reveal the mechanism for reversal of 5'-adenylated DNA
pubmed doi rcsb
source organism Schizosaccharomyces pombe
total genus 65
structure length 200
sequence length 200
chains with identical sequence B, C, D
ec nomenclature ec 3.1.11.7: Adenosine-5'-diphospho-5'-(DNA) diphosphatase.
pdb deposition date 2011-07-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01230 HIT HIT domain
A PF16278 zf-C2HE C2HE / C2H2 / C2HC zinc-binding finger
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.428.10 Alpha Beta 2-Layer Sandwich HIT family, subunit A HIT-like 3spdA00
3O1ZA 4INIA 4NJZA 3NRDA 5BV3A 1GUQA 4NDIA 5CS2A 5IN3A 2FITA 1VLRA 1KPAA 1XMMA 4EQGA 2H39A 3FITA 4NDHA 1KPCA 1XMLA 5IPDA 3OMFA 3QGZA 5ED6A 3SZQA 3KSVA 3N1TA 4XBAA 6FITA 1GUPA 3O1XA 2Q4HA 3BL7A 4NJYA 3BL9A 3OHEA 4FITA 4YKLB 4QDVA 1HXPA 1AV5A 3P0TA 3LB5A 5I2FA 3R6FA 1FHIA 1KPFA 5IPCA 3IMIA 4EGUA 1FITA 4ZGLA 5FITA 1ZWJA 3L7XA 3OJ7A 3O1CA 5RHNA 1Z84A 5IPEA 4ZKLA 6RHNA 1HXQA 3TW2A 4NJXA 4QEBA 1ST4A 4QDEA 3SP4A 4RHNA 4INCA 2EO4A 3N1SA 3RHNA 2Q4LA 3I24A 1Y23A 2OIKA 4NDFA 5IPBA 1EMSA 3OXKA 3SPDA 3SPLA 1KPBA 1ST0A 5ED3A 3ANOA 4EQHA 4EQEA 3I4SA 4NK0A 5EMTA 4NDGA 3O0MA 3WO5A 4ZKVA 2FHIA 1KPEA 5I2EA 1RZYA 3BLAA
chains in the Genus database with same CATH superfamily
3O1ZA 4INIA 4NJZA 3NRDA 5BV3A 2R7PA 2GU0A 1GUQA 4NDIA 5CS2A 5IN3A 2FITA 1VLRA 1KPAA 1XMMA 4EQGA 2H39A 3FITA 4NDHA 1KPCA 1XMLA 5IPDA 2POFA 3OMFA 3QGZA 5ED6A 3SZQA 3KSVA 3N1TA 4XBAA 6FITA 1GUPA 3O1XA 2Q4HA 3BL7A 2R7CA 4NJYA 2LJWA 3BL9A 3OHEA 4FITA 4YKLB 4QDVA 1HXPA 1AV5A 4G0AA 3P0TA 3LB5A 5I2FA 3R6FA 1FHIA 1KPFA 5IPCA 3IMIA 4EGUA 1FITA 4ZGLA 5FITA 1ZWJA 3L7XA 3OJ7A 3O1CA 5RHNA 2R8FA 1Z84A 5IPEA 4ZKLA 6RHNA 1HXQA 3TW2A 4I5TA 4I5VA 4NJXA 4QEBA 1ST4A 4G0JA 4QDEA 3SP4A 4RHNA 4INCA 2EO4A 3N1SA 3RHNA 2Q4LA 3I24A 1Y23A 2OIKA 4NDFA 5IPBA 1L9VA 1EMSA 3OXKA 4I5WA 3SPDA 3SPLA 1KPBA 1ST0A 5ED3A 3ANOA 4EQHA 4EQEA 3I4SA 4NK0A 2R7JA 5EMTA 4NDGA 3O0MA 3WO5A 4ZKVA 2FHIA 1KPEA 5I2EA 1RZYA 3BLAA
chains in the Genus database with same CATH topology
3O1ZA 4INIA 4NJZA 3NRDA 5BV3A 1GUQA 4NDIA 5CS2A 5IN3A 2FITA 1VLRA 1KPAA 1XMMA 4EQGA 2H39A 3FITA 4NDHA 1KPCA 1XMLA 5IPDA 3OMFA 3QGZA 5ED6A 3SZQA 3KSVA 3N1TA 4XBAA 6FITA 1GUPA 3O1XA 2Q4HA 3BL7A 4NJYA 3BL9A 3OHEA 4FITA 4YKLB 4QDVA 1HXPA 1AV5A 3P0TA 3LB5A 5I2FA 3R6FA 1FHIA 1KPFA 5IPCA 3IMIA 4EGUA 1FITA 4ZGLA 5FITA 1ZWJA 3L7XA 3OJ7A 3O1CA 5RHNA 1Z84A 5IPEA 4ZKLA 6RHNA 1HXQA 3TW2A 4NJXA 4QEBA 1ST4A 4QDEA 3SP4A 4RHNA 4INCA 2EO4A 3N1SA 3RHNA 2Q4LA 3I24A 1Y23A 2OIKA 4NDFA 5IPBA 1EMSA 3OXKA 3SPDA 3SPLA 1KPBA 1ST0A 5ED3A 3ANOA 4EQHA 4EQEA 3I4SA 4NK0A 5EMTA 4NDGA 3O0MA 3WO5A 4ZKVA 2FHIA 1KPEA 5I2EA 1RZYA 3BLAA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3O1Z A;  4INI A;  4NJZ A;  3NRD A;  5BV3 A;  1GUQ A;  4NDI A;  5CS2 A;  5IN3 A;  2FIT A;  1VLR A;  1KPA A;  1XMM A;  4EQG A;  2H39 A;  3FIT A;  4NDH A;  1KPC A;  1XML A;  5IPD A;  3OMF A;  3QGZ A;  5ED6 A;  3SZQ A;  3KSV A;  3N1T A;  4XBA A;  6FIT A;  1GUP A;  3O1X A;  2Q4H A;  3BL7 A;  4NJY A;  3BL9 A;  3OHE A;  4FIT A;  4YKL B;  4QDV A;  1HXP A;  1AV5 A;  3P0T A;  3LB5 A;  5I2F A;  3R6F A;  1FHI A;  1KPF A;  5IPC A;  3IMI A;  4EGU A;  1FIT A;  4ZGL A;  5FIT A;  1ZWJ A;  3L7X A;  3OJ7 A;  3O1C A;  5RHN A;  1Z84 A;  5IPE A;  4ZKL A;  6RHN A;  1HXQ A;  3TW2 A;  4NJX A;  4QEB A;  1ST4 A;  4QDE A;  3SP4 A;  4RHN A;  4INC A;  2EO4 A;  3N1S A;  3RHN A;  2Q4L A;  3I24 A;  1Y23 A;  2OIK A;  4NDF A;  5IPB A;  1EMS A;  3OXK A;  3SPD A;  3SPL A;  1KPB A;  1ST0 A;  5ED3 A;  3ANO A;  4EQH A;  4EQE A;  3I4S A;  4NK0 A;  5EMT A;  4NDG A;  3O0M A;  3WO5 A;  4ZKV A;  2FHI A;  1KPE A;  5I2E A;  1RZY A;  3BLA A; 
#chains in the Genus database with same CATH topology
 3O1Z A;  4INI A;  4NJZ A;  3NRD A;  5BV3 A;  2R7P A;  2GU0 A;  1GUQ A;  4NDI A;  5CS2 A;  5IN3 A;  2FIT A;  1VLR A;  1KPA A;  1XMM A;  4EQG A;  2H39 A;  3FIT A;  4NDH A;  1KPC A;  1XML A;  5IPD A;  2POF A;  3OMF A;  3QGZ A;  5ED6 A;  3SZQ A;  3KSV A;  3N1T A;  4XBA A;  6FIT A;  1GUP A;  3O1X A;  2Q4H A;  3BL7 A;  2R7C A;  4NJY A;  2LJW A;  3BL9 A;  3OHE A;  4FIT A;  4YKL B;  4QDV A;  1HXP A;  1AV5 A;  4G0A A;  3P0T A;  3LB5 A;  5I2F A;  3R6F A;  1FHI A;  1KPF A;  5IPC A;  3IMI A;  4EGU A;  1FIT A;  4ZGL A;  5FIT A;  1ZWJ A;  3L7X A;  3OJ7 A;  3O1C A;  5RHN A;  2R8F A;  1Z84 A;  5IPE A;  4ZKL A;  6RHN A;  1HXQ A;  3TW2 A;  4I5T A;  4I5V A;  4NJX A;  4QEB A;  1ST4 A;  4G0J A;  4QDE A;  3SP4 A;  4RHN A;  4INC A;  2EO4 A;  3N1S A;  3RHN A;  2Q4L A;  3I24 A;  1Y23 A;  2OIK A;  4NDF A;  5IPB A;  1L9V A;  1EMS A;  3OXK A;  4I5W A;  3SPD A;  3SPL A;  1KPB A;  1ST0 A;  5ED3 A;  3ANO A;  4EQH A;  4EQE A;  3I4S A;  4NK0 A;  2R7J A;  5EMT A;  4NDG A;  3O0M A;  3WO5 A;  4ZKV A;  2FHI A;  1KPE A;  5I2E A;  1RZY A;  3BLA A; 
#chains in the Genus database with same CATH homology
 3O1Z A;  4INI A;  4NJZ A;  3NRD A;  5BV3 A;  1GUQ A;  4NDI A;  5CS2 A;  5IN3 A;  2FIT A;  1VLR A;  1KPA A;  1XMM A;  4EQG A;  2H39 A;  3FIT A;  4NDH A;  1KPC A;  1XML A;  5IPD A;  3OMF A;  3QGZ A;  5ED6 A;  3SZQ A;  3KSV A;  3N1T A;  4XBA A;  6FIT A;  1GUP A;  3O1X A;  2Q4H A;  3BL7 A;  4NJY A;  3BL9 A;  3OHE A;  4FIT A;  4YKL B;  4QDV A;  1HXP A;  1AV5 A;  3P0T A;  3LB5 A;  5I2F A;  3R6F A;  1FHI A;  1KPF A;  5IPC A;  3IMI A;  4EGU A;  1FIT A;  4ZGL A;  5FIT A;  1ZWJ A;  3L7X A;  3OJ7 A;  3O1C A;  5RHN A;  1Z84 A;  5IPE A;  4ZKL A;  6RHN A;  1HXQ A;  3TW2 A;  4NJX A;  4QEB A;  1ST4 A;  4QDE A;  3SP4 A;  4RHN A;  4INC A;  2EO4 A;  3N1S A;  3RHN A;  2Q4L A;  3I24 A;  1Y23 A;  2OIK A;  4NDF A;  5IPB A;  1EMS A;  3OXK A;  3SPD A;  3SPL A;  1KPB A;  1ST0 A;  5ED3 A;  3ANO A;  4EQH A;  4EQE A;  3I4S A;  4NK0 A;  5EMT A;  4NDG A;  3O0M A;  3WO5 A;  4ZKV A;  2FHI A;  1KPE A;  5I2E A;  1RZY A;  3BLA 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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