4NDHA

Human aprataxin (aptx) bound to dna, amp, and zn - product complex
Total Genus 56
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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
56
sequence length
180
structure length
180
Chain Sequence
GSHMGHWSQGLKISMQDPKMQVYKDEQVVVIKDKYPKARYHWLVLPWTSISSLKAVAREHLELLKHMHTVGEKVIVDFAGSSKLRFRLGYHAIPSMSHVHLHVISQDFDSPCLKNKKHWNSFNTEYFLESQAVIEMVQEAGRVTVRDGMPELLKLPLRCHECQQLLPSIPQLKEHLRKHW
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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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publication title Aprataxin resolves adenylated RNA-DNA junctions to maintain genome integrity.
pubmed doi rcsb
molecule tags Dna binding protein/dna
source organism Homo sapiens
molecule keywords Aprataxin
total genus 56
structure length 180
sequence length 180
chains with identical sequence B
ec nomenclature ec 3.1.11.7: Adenosine-5'-diphospho-5'-(DNA) diphosphatase.
pdb deposition date 2013-10-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF11969 DcpS_C Scavenger mRNA decapping enzyme C-term binding
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 4ndhA00
2H39A 4RHNA 4NDFA 4FITA 3N1SA 3LB5A 5FITA 3FITA 1XMLA 5I2FA 4EGUA 3OXKA 1KPFA 1ST4A 6FITA 4QEBA 1EMSA 5RHNA 4ZGLA 1FITA 3NRDA 1AV5A 3IMIA 4XBAA 3OHEA 6RHNA 1Z84A 3TW2A 1FHIA 1HXQA 3OMFA 4YKLB 5IPBA 3QGZA 3O1XA 4INIA 1ZWJA 1XMMA 3I4SA 4QDEA 2Q4HA 1VLRA 2FITA 2EO4A 3SPLA 4ZKLA 2OIKA 4NJYA 1RZYA 5IN3A 5IPDA 5EMTA 3BL9A 3RHNA 1GUQA 1KPCA 1HXPA 3KSVA 4NJZA 4NK0A 4EQEA 4NDIA 3WO5A 3R6FA 2FHIA 1ST0A 3L7XA 3ANOA 3OJ7A 4NDGA 5BV3A 4INCA 1KPAA 4ZKVA 5IPEA 3SZQA 3P0TA 3SPDA 4QDVA 5IPCA 4NDHA 5CS2A 3O1CA 1KPEA 3I24A 1KPBA 3BL7A 5I2EA 5ED6A 3BLAA 4EQGA 2Q4LA 1Y23A 3SP4A 4EQHA 1GUPA 3N1TA 3O0MA 4NJXA 5ED3A 3O1ZA
chains in the Genus database with same CATH superfamily
2H39A 4RHNA 4NDFA 4FITA 3N1SA 3LB5A 5FITA 3FITA 1XMLA 2GU0A 5I2FA 4EGUA 2R7PA 3OXKA 1KPFA 1ST4A 6FITA 4QEBA 1EMSA 5RHNA 4ZGLA 1FITA 3NRDA 1AV5A 3IMIA 4XBAA 3OHEA 6RHNA 1Z84A 3TW2A 1FHIA 1HXQA 3OMFA 4YKLB 5IPBA 3QGZA 2POFA 3O1XA 4INIA 1ZWJA 1XMMA 3I4SA 4QDEA 2Q4HA 1VLRA 2FITA 2EO4A 2R8FA 3SPLA 4ZKLA 1L9VA 2OIKA 2R7JA 1RZYA 4NJYA 5IN3A 5IPDA 4G0JA 5EMTA 3BL9A 4I5WA 3RHNA 1GUQA 4G0AA 1KPCA 1HXPA 3KSVA 2LJWA 4I5VA 4NJZA 4NK0A 4EQEA 4NDIA 3WO5A 3R6FA 2FHIA 1ST0A 3L7XA 3ANOA 3OJ7A 4NDGA 5BV3A 4INCA 1KPAA 4ZKVA 5IPEA 3SZQA 3P0TA 3SPDA 4QDVA 5IPCA 4NDHA 5CS2A 3O1CA 1KPEA 3I24A 1KPBA 3BL7A 5I2EA 5ED6A 3BLAA 4I5TA 4EQGA 2Q4LA 1Y23A 3SP4A 2R7CA 4EQHA 1GUPA 3N1TA 3O0MA 4NJXA 5ED3A 3O1ZA
chains in the Genus database with same CATH topology
2H39A 4RHNA 4NDFA 4FITA 3N1SA 3LB5A 5FITA 3FITA 1XMLA 5I2FA 4EGUA 3OXKA 1KPFA 1ST4A 6FITA 4QEBA 1EMSA 5RHNA 4ZGLA 1FITA 3NRDA 1AV5A 3IMIA 4XBAA 3OHEA 6RHNA 1Z84A 3TW2A 1FHIA 1HXQA 3OMFA 4YKLB 5IPBA 3QGZA 3O1XA 4INIA 1ZWJA 1XMMA 3I4SA 4QDEA 2Q4HA 1VLRA 2FITA 2EO4A 3SPLA 4ZKLA 2OIKA 4NJYA 1RZYA 5IN3A 5IPDA 5EMTA 3BL9A 3RHNA 1GUQA 1KPCA 1HXPA 3KSVA 4NJZA 4NK0A 4EQEA 4NDIA 3WO5A 3R6FA 2FHIA 1ST0A 3L7XA 3ANOA 3OJ7A 4NDGA 5BV3A 4INCA 1KPAA 4ZKVA 5IPEA 3SZQA 3P0TA 3SPDA 4QDVA 5IPCA 4NDHA 5CS2A 3O1CA 1KPEA 3I24A 1KPBA 3BL7A 5I2EA 5ED6A 3BLAA 4EQGA 2Q4LA 1Y23A 3SP4A 4EQHA 1GUPA 3N1TA 3O0MA 4NJXA 5ED3A 3O1ZA
chains in the Genus database with same CATH homology


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