5DFFA

Human ape1 product complex
Total Genus 86
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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
86
sequence length
276
structure length
276
Chain Sequence
ALYEDPPDQKTSPSGKPATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLYLAL
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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 Lyase/dna
molecule keywords DNA-(apurinic or apyrimidinic site) lyase
publication title Capturing snapshots of APE1 processing DNA damage.
pubmed doi rcsb
source organism Homo sapiens
total genus 86
structure length 276
sequence length 276
chains with identical sequence B
ec nomenclature ec 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
pdb deposition date 2015-08-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03372 Exo_endo_phos Endonuclease/Exonuclease/phosphatase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.60.10.10 Alpha Beta 4-Layer Sandwich Deoxyribonuclease I; Chain A Endonuclease/exonuclease/phosphatase 5dffA00
2EI9A 3G3CA 3NR8A 3MPRA 4B5JA 3TEBA 4FVAA 1I9ZA 1ATND 4L20A 2F1NA 3W2YA 3G3YA 3G00A 2A40B 5INMA 3G1KA 5EWTA 5DG0A 4F1HB 4L1YA 5J8NA 3G2CA 4AWNA 3WCXA 2A41B 3NGQA 4L1ZA 4B5GA 4K6LF 1ZWXA 4JG3A 5INKA 3L1WA 1HD7A 4B5IA 3I41A 3G2DA 4GZ0A 5CFGA 5INQA 3I46A 5INLA 4C1RA 4QHDA 1DNKA 2DNJA 3W2XA 3K55A 2D1KB 2DDRA 5CFEA 4GEWA 4L21A 1DE8A 2F2FB 3I5VA 4F1RA 1WDUA 5DFFA 4F1HA 4A9CA 2V0RA 1BIXA 1DEWA 4B5FA 3U8UA 4B5MA 1I9YA 2J63A 4FPVA 4GYZA 1AKOA 3G8VA 5DV4A 2DDTA 3G4TA 5DFHA 2VOAA 1SI6X 3G0RA 4QHEA 2DDSA 3G91A 3I48A 4GZ2A 3G38A 2JC5A 2A3ZB 4GZ1A 5A7IA 3N9VA 4IEMA 1VYBA 2ISIA 5INPA 2O3CA 5INOA 3CJCD 3NGOA 4QH9A 5A7JA 1DE9A 2O3HA 3W3DB 3DNIA 3FZIA 5HT2A 5DFIA 1SR4B 5J42A 5J3ZA 4RUWA 1E9NA 2IMQX 5INNA 3G0AA 2UYRX 4F1IA 5DFJA 2V0SA 2XSWA 1NTFA 4CMNA 1YJHA 4PUQA 3G6SA 1Y21A 4B5HA 4CMLA 5J3SA 4LNDA 3NGNA 5DV2A 2A42B 5J3PA 2JC4A 3GA6A 3MTCA
chains in the Genus database with same CATH superfamily
2EI9A 3G3CA 3NR8A 3MPRA 4B5JA 3TEBA 4FVAA 1I9ZA 1ATND 4L20A 2F1NA 3W2YA 3G3YA 3G00A 2A40B 5INMA 3G1KA 5EWTA 5DG0A 4F1HB 4L1YA 5J8NA 3G2CA 4AWNA 3WCXA 2A41B 3NGQA 4L1ZA 4B5GA 4K6LF 1ZWXA 4JG3A 5INKA 3L1WA 1HD7A 4B5IA 3I41A 3G2DA 4GZ0A 5CFGA 5INQA 3I46A 5INLA 4C1RA 4QHDA 1DNKA 2DNJA 3W2XA 3K55A 2D1KB 2DDRA 5CFEA 4GEWA 4L21A 1DE8A 2F2FB 3I5VA 4F1RA 1WDUA 5DFFA 4F1HA 4A9CA 2V0RA 1BIXA 1DEWA 4B5FA 3U8UA 4B5MA 1I9YA 2J63A 4FPVA 4GYZA 1AKOA 3G8VA 5DV4A 2DDTA 3G4TA 5DFHA 2VOAA 1SI6X 3G0RA 4QHEA 2DDSA 3G91A 3I48A 4GZ2A 3G38A 2JC5A 2A3ZB 4GZ1A 5A7IA 3N9VA 4IEMA 1VYBA 2ISIA 5INPA 2O3CA 5INOA 3CJCD 3NGOA 4QH9A 5A7JA 1DE9A 2O3HA 3W3DB 3DNIA 3FZIA 5HT2A 5DFIA 1SR4B 5J42A 5J3ZA 4RUWA 1E9NA 2IMQX 5INNA 3G0AA 2UYRX 4F1IA 5DFJA 2V0SA 2XSWA 1NTFA 4CMNA 1YJHA 4PUQA 3G6SA 1Y21A 4B5HA 4CMLA 5J3SA 4LNDA 3NGNA 5DV2A 2A42B 5J3PA 2JC4A 3GA6A 3MTCA
chains in the Genus database with same CATH topology
2EI9A 3G3CA 3NR8A 3MPRA 4B5JA 3TEBA 4FVAA 1I9ZA 1ATND 4L20A 2F1NA 3W2YA 3G3YA 3G00A 2A40B 5INMA 3G1KA 5EWTA 5DG0A 4F1HB 4L1YA 5J8NA 3G2CA 4AWNA 3WCXA 2A41B 3NGQA 4L1ZA 4B5GA 4K6LF 1ZWXA 4JG3A 5INKA 3L1WA 1HD7A 4B5IA 3I41A 3G2DA 4GZ0A 5CFGA 5INQA 3I46A 5INLA 4C1RA 4QHDA 1DNKA 2DNJA 3W2XA 3K55A 2D1KB 2DDRA 5CFEA 4GEWA 4L21A 1DE8A 2F2FB 3I5VA 4F1RA 1WDUA 5DFFA 4F1HA 4A9CA 2V0RA 1BIXA 1DEWA 4B5FA 3U8UA 4B5MA 1I9YA 2J63A 4FPVA 4GYZA 1AKOA 3G8VA 5DV4A 2DDTA 3G4TA 5DFHA 2VOAA 1SI6X 3G0RA 4QHEA 2DDSA 3G91A 3I48A 4GZ2A 3G38A 2JC5A 2A3ZB 4GZ1A 5A7IA 3N9VA 4IEMA 1VYBA 2ISIA 5INPA 2O3CA 5INOA 3CJCD 3NGOA 4QH9A 5A7JA 1DE9A 2O3HA 3W3DB 3DNIA 3FZIA 5HT2A 5DFIA 1SR4B 5J42A 5J3ZA 4RUWA 1E9NA 2IMQX 5INNA 3G0AA 2UYRX 4F1IA 5DFJA 2V0SA 2XSWA 1NTFA 4CMNA 1YJHA 4PUQA 3G6SA 1Y21A 4B5HA 4CMLA 5J3SA 4LNDA 3NGNA 5DV2A 2A42B 5J3PA 2JC4A 3GA6A 3MTCA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2EI9 A;  3G3C A;  3NR8 A;  3MPR A;  4B5J A;  3TEB A;  4FVA A;  1I9Z A;  1ATN D;  4L20 A;  2F1N A;  3W2Y A;  3G3Y A;  3G00 A;  2A40 B;  5INM A;  3G1K A;  5EWT A;  5DG0 A;  4F1H B;  4L1Y A;  5J8N A;  3G2C A;  4AWN A;  3WCX A;  2A41 B;  3NGQ A;  4L1Z A;  4B5G A;  4K6L F;  1ZWX A;  4JG3 A;  5INK A;  3L1W A;  1HD7 A;  4B5I A;  3I41 A;  3G2D A;  4GZ0 A;  5CFG A;  5INQ A;  3I46 A;  5INL A;  4C1R A;  4QHD A;  1DNK A;  2DNJ A;  3W2X A;  3K55 A;  2D1K B;  2DDR A;  5CFE A;  4GEW A;  4L21 A;  1DE8 A;  2F2F B;  3I5V A;  4F1R A;  1WDU A;  5DFF A;  4F1H A;  4A9C A;  2V0R A;  1BIX A;  1DEW A;  4B5F A;  3U8U A;  4B5M A;  1I9Y A;  2J63 A;  4FPV A;  4GYZ A;  1AKO A;  3G8V A;  5DV4 A;  2DDT A;  3G4T A;  5DFH A;  2VOA A;  1SI6 X;  3G0R A;  4QHE A;  2DDS A;  3G91 A;  3I48 A;  4GZ2 A;  3G38 A;  2JC5 A;  2A3Z B;  4GZ1 A;  5A7I A;  3N9V A;  4IEM A;  1VYB A;  2ISI A;  5INP A;  2O3C A;  5INO A;  3CJC D;  3NGO A;  4QH9 A;  5A7J A;  1DE9 A;  2O3H A;  3W3D B;  3DNI A;  3FZI A;  5HT2 A;  5DFI A;  1SR4 B;  5J42 A;  5J3Z A;  4RUW A;  1E9N A;  2IMQ X;  5INN A;  3G0A A;  2UYR X;  4F1I A;  5DFJ A;  2V0S A;  2XSW A;  1NTF A;  4CMN A;  1YJH A;  4PUQ A;  3G6S A;  1Y21 A;  4B5H A;  4CML A;  5J3S A;  4LND A;  3NGN A;  5DV2 A;  2A42 B;  5J3P A;  2JC4 A;  3GA6 A;  3MTC A; 
#chains in the Genus database with same CATH topology
 2EI9 A;  3G3C A;  3NR8 A;  3MPR A;  4B5J A;  3TEB A;  4FVA A;  1I9Z A;  1ATN D;  4L20 A;  2F1N A;  3W2Y A;  3G3Y A;  3G00 A;  2A40 B;  5INM A;  3G1K A;  5EWT A;  5DG0 A;  4F1H B;  4L1Y A;  5J8N A;  3G2C A;  4AWN A;  3WCX A;  2A41 B;  3NGQ A;  4L1Z A;  4B5G A;  4K6L F;  1ZWX A;  4JG3 A;  5INK A;  3L1W A;  1HD7 A;  4B5I A;  3I41 A;  3G2D A;  4GZ0 A;  5CFG A;  5INQ A;  3I46 A;  5INL A;  4C1R A;  4QHD A;  1DNK A;  2DNJ A;  3W2X A;  3K55 A;  2D1K B;  2DDR A;  5CFE A;  4GEW A;  4L21 A;  1DE8 A;  2F2F B;  3I5V A;  4F1R A;  1WDU A;  5DFF A;  4F1H A;  4A9C A;  2V0R A;  1BIX A;  1DEW A;  4B5F A;  3U8U A;  4B5M A;  1I9Y A;  2J63 A;  4FPV A;  4GYZ A;  1AKO A;  3G8V A;  5DV4 A;  2DDT A;  3G4T A;  5DFH A;  2VOA A;  1SI6 X;  3G0R A;  4QHE A;  2DDS A;  3G91 A;  3I48 A;  4GZ2 A;  3G38 A;  2JC5 A;  2A3Z B;  4GZ1 A;  5A7I A;  3N9V A;  4IEM A;  1VYB A;  2ISI A;  5INP A;  2O3C A;  5INO A;  3CJC D;  3NGO A;  4QH9 A;  5A7J A;  1DE9 A;  2O3H A;  3W3D B;  3DNI A;  3FZI A;  5HT2 A;  5DFI A;  1SR4 B;  5J42 A;  5J3Z A;  4RUW A;  1E9N A;  2IMQ X;  5INN A;  3G0A A;  2UYR X;  4F1I A;  5DFJ A;  2V0S A;  2XSW A;  1NTF A;  4CMN A;  1YJH A;  4PUQ A;  3G6S A;  1Y21 A;  4B5H A;  4CML A;  5J3S A;  4LND A;  3NGN A;  5DV2 A;  2A42 B;  5J3P A;  2JC4 A;  3GA6 A;  3MTC A; 
#chains in the Genus database with same CATH homology
 2EI9 A;  3G3C A;  3NR8 A;  3MPR A;  4B5J A;  3TEB A;  4FVA A;  1I9Z A;  1ATN D;  4L20 A;  2F1N A;  3W2Y A;  3G3Y A;  3G00 A;  2A40 B;  5INM A;  3G1K A;  5EWT A;  5DG0 A;  4F1H B;  4L1Y A;  5J8N A;  3G2C A;  4AWN A;  3WCX A;  2A41 B;  3NGQ A;  4L1Z A;  4B5G A;  4K6L F;  1ZWX A;  4JG3 A;  5INK A;  3L1W A;  1HD7 A;  4B5I A;  3I41 A;  3G2D A;  4GZ0 A;  5CFG A;  5INQ A;  3I46 A;  5INL A;  4C1R A;  4QHD A;  1DNK A;  2DNJ A;  3W2X A;  3K55 A;  2D1K B;  2DDR A;  5CFE A;  4GEW A;  4L21 A;  1DE8 A;  2F2F B;  3I5V A;  4F1R A;  1WDU A;  5DFF A;  4F1H A;  4A9C A;  2V0R A;  1BIX A;  1DEW A;  4B5F A;  3U8U A;  4B5M A;  1I9Y A;  2J63 A;  4FPV A;  4GYZ A;  1AKO A;  3G8V A;  5DV4 A;  2DDT A;  3G4T A;  5DFH A;  2VOA A;  1SI6 X;  3G0R A;  4QHE A;  2DDS A;  3G91 A;  3I48 A;  4GZ2 A;  3G38 A;  2JC5 A;  2A3Z B;  4GZ1 A;  5A7I A;  3N9V A;  4IEM A;  1VYB A;  2ISI A;  5INP A;  2O3C A;  5INO A;  3CJC D;  3NGO A;  4QH9 A;  5A7J A;  1DE9 A;  2O3H A;  3W3D B;  3DNI A;  3FZI A;  5HT2 A;  5DFI A;  1SR4 B;  5J42 A;  5J3Z A;  4RUW A;  1E9N A;  2IMQ X;  5INN A;  3G0A A;  2UYR X;  4F1I A;  5DFJ A;  2V0S A;  2XSW A;  1NTF A;  4CMN A;  1YJH A;  4PUQ A;  3G6S A;  1Y21 A;  4B5H A;  4CML A;  5J3S A;  4LND A;  3NGN A;  5DV2 A;  2A42 B;  5J3P A;  2JC4 A;  3GA6 A;  3MTC 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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