1BIXA

The crystal structure of the human dna repair endonuclease hap1 suggests the recognition of extra-helical deoxyribose at dna abasic sites
Total Genus 88
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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
88
sequence length
275
structure length
275
Chain Sequence
LYEDPPDQKTSPSGKPATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLYLAL
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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 Dna repair
molecule keywords AP ENDONUCLEASE 1
publication title The crystal structure of the human DNA repair endonuclease HAP1 suggests the recognition of extra-helical deoxyribose at DNA abasic sites.
pubmed doi rcsb
source organism Homo sapiens
total genus 88
structure length 275
sequence length 275
ec nomenclature ec 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
pdb deposition date 1998-06-19

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 1bixA00
5J3SA 1ATND 3K55A 4FPVA 1NTFA 2DDTA 1HD7A 5DG0A 3I46A 4F1HB 4A9CA 4RUWA 4AWNA 5INOA 4B5GA 4GZ1A 2DDSA 4FVAA 4K6LF 3W2YA 5HT2A 5INPA 5DFIA 5DFJA 5DFHA 3NR8A 3W3DB 2A40B 1ZWXA 3G00A 5J8NA 4B5MA 4QH9A 5J42A 2J63A 1E9NA 3NGQA 4C1RA 2VOAA 4GZ2A 5INLA 4B5FA 4CMLA 4L21A 3G3YA 3G0RA 2IMQX 2A3ZB 3DNIA 5CFEA 2UYRX 2JC4A 4GYZA 4CMNA 5INQA 3G38A 2ISIA 1DNKA 4GEWA 5EWTA 5INMA 3GA6A 3G4TA 2A42B 3FZIA 4B5HA 1DEWA 3WCXA 1DE9A 2DDRA 2XSWA 3I48A 3NGNA 2F2FB 3G8VA 1WDUA 1I9ZA 3CJCD 4F1IA 3N9VA 1SI6X 4IEMA 5DV4A 3L1WA 4F1HA 2JC5A 3G3CA 4B5JA 3G1KA 3G2DA 4GZ0A 1VYBA 3NGOA 3G91A 3MTCA 5DFFA 5CFGA 3U8UA 1SR4B 1YJHA 4L1ZA 1I9YA 5J3PA 4L1YA 3I5VA 3W2XA 1DE8A 1AKOA 4PUQA 4F1RA 5INKA 2DNJA 2EI9A 3I41A 2V0RA 3G6SA 1BIXA 3MPRA 4B5IA 1Y21A 5INNA 4LNDA 3G2CA 5A7IA 3G0AA 4JG3A 4L20A 2A41B 4QHEA 2F1NA 2O3CA 2V0SA 5J3ZA 3TEBA 2O3HA 5A7JA 4QHDA 5DV2A 2D1KB
chains in the Genus database with same CATH superfamily
5J3SA 1ATND 3K55A 4FPVA 1NTFA 2DDTA 1HD7A 5DG0A 3I46A 4F1HB 4A9CA 4RUWA 4AWNA 5INOA 4B5GA 4GZ1A 2DDSA 4FVAA 4K6LF 3W2YA 5HT2A 5INPA 5DFIA 5DFJA 5DFHA 3NR8A 3W3DB 2A40B 1ZWXA 3G00A 5J8NA 4B5MA 4QH9A 5J42A 2J63A 1E9NA 3NGQA 4C1RA 2VOAA 4GZ2A 5INLA 4B5FA 4CMLA 4L21A 3G3YA 3G0RA 2IMQX 2A3ZB 3DNIA 5CFEA 2UYRX 2JC4A 4GYZA 4CMNA 5INQA 3G38A 2ISIA 1DNKA 4GEWA 5EWTA 5INMA 3GA6A 3G4TA 2A42B 3FZIA 4B5HA 1DEWA 3WCXA 1DE9A 2DDRA 2XSWA 3I48A 3NGNA 2F2FB 3G8VA 1WDUA 1I9ZA 3CJCD 4F1IA 3N9VA 1SI6X 4IEMA 5DV4A 3L1WA 4F1HA 2JC5A 3G3CA 4B5JA 3G1KA 3G2DA 4GZ0A 1VYBA 3NGOA 3G91A 3MTCA 5DFFA 5CFGA 3U8UA 1SR4B 1YJHA 4L1ZA 1I9YA 5J3PA 4L1YA 3I5VA 3W2XA 1DE8A 1AKOA 4PUQA 4F1RA 5INKA 2DNJA 2EI9A 3I41A 2V0RA 3G6SA 1BIXA 3MPRA 4B5IA 1Y21A 5INNA 4LNDA 3G2CA 5A7IA 3G0AA 4JG3A 4L20A 2A41B 4QHEA 2F1NA 2O3CA 2V0SA 5J3ZA 3TEBA 2O3HA 5A7JA 4QHDA 5DV2A 2D1KB
chains in the Genus database with same CATH topology
5J3SA 1ATND 3K55A 4FPVA 1NTFA 2DDTA 1HD7A 5DG0A 3I46A 4F1HB 4A9CA 4RUWA 4AWNA 5INOA 4B5GA 4GZ1A 2DDSA 4FVAA 4K6LF 3W2YA 5HT2A 5INPA 5DFIA 5DFJA 5DFHA 3NR8A 3W3DB 2A40B 1ZWXA 3G00A 5J8NA 4B5MA 4QH9A 5J42A 2J63A 1E9NA 3NGQA 4C1RA 2VOAA 4GZ2A 5INLA 4B5FA 4CMLA 4L21A 3G3YA 3G0RA 2IMQX 2A3ZB 3DNIA 5CFEA 2UYRX 2JC4A 4GYZA 4CMNA 5INQA 3G38A 2ISIA 1DNKA 4GEWA 5EWTA 5INMA 3GA6A 3G4TA 2A42B 3FZIA 4B5HA 1DEWA 3WCXA 1DE9A 2DDRA 2XSWA 3I48A 3NGNA 2F2FB 3G8VA 1WDUA 1I9ZA 3CJCD 4F1IA 3N9VA 1SI6X 4IEMA 5DV4A 3L1WA 4F1HA 2JC5A 3G3CA 4B5JA 3G1KA 3G2DA 4GZ0A 1VYBA 3NGOA 3G91A 3MTCA 5DFFA 5CFGA 3U8UA 1SR4B 1YJHA 4L1ZA 1I9YA 5J3PA 4L1YA 3I5VA 3W2XA 1DE8A 1AKOA 4PUQA 4F1RA 5INKA 2DNJA 2EI9A 3I41A 2V0RA 3G6SA 1BIXA 3MPRA 4B5IA 1Y21A 5INNA 4LNDA 3G2CA 5A7IA 3G0AA 4JG3A 4L20A 2A41B 4QHEA 2F1NA 2O3CA 2V0SA 5J3ZA 3TEBA 2O3HA 5A7JA 4QHDA 5DV2A 2D1KB
chains in the Genus database with same CATH homology


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