4QH9A

Crystal structure of mn2+ bound human ape1
Total Genus 95
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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
95
sequence length
281
structure length
281
Chain Sequence
ASEGPALYEDPPDQKTSPSGKPATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPSDKEGYSGVGLLSRQAPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLYLAL
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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 High-resolution crystal structures reveal plasticity in the metal binding site of apurinic/apyrimidinic endonuclease I.
pubmed doi rcsb
molecule tags Lyase
source organism Homo sapiens
molecule keywords DNA-(apurinic or apyrimidinic site) lyase
total genus 95
structure length 281
sequence length 281
ec nomenclature ec 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
pdb deposition date 2014-05-27

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 4qh9A00
4B5GA 3TEBA 1Y21A 2A41B 3G38A 2V0RA 4AWNA 2DDRA 2D1KB 3WCXA 5CFEA 3NGNA 4B5IA 3W2YA 4K6LF 2O3HA 1DNKA 5DFFA 4IEMA 4QHEA 4F1HA 5HT2A 3I48A 3N9VA 5CFGA 2A42B 5INKA 4FPVA 3L1WA 4PUQA 4QH9A 4L21A 3GA6A 1VYBA 2J63A 2F1NA 5J42A 4B5JA 3I46A 5A7IA 1BIXA 2A3ZB 4C1RA 2DDSA 1DE9A 5J3SA 2JC5A 3MTCA 5EWTA 3CJCD 5A7JA 4F1IA 3G2CA 2JC4A 1SR4B 5INQA 4GZ2A 1HD7A 1I9ZA 4L20A 1ATND 4CMLA 2IMQX 4L1YA 3K55A 4GZ1A 3NR8A 3G4TA 1WDUA 1YJHA 3G91A 5DV4A 1I9YA 4L1ZA 4GEWA 1ZWXA 2DNJA 3DNIA 3W2XA 2O3CA 2EI9A 3NGQA 1DEWA 3G3YA 2DDTA 4QHDA 5DG0A 3FZIA 4CMNA 2A40B 4B5MA 4GZ0A 4B5FA 1SI6X 4A9CA 3G8VA 3G2DA 2UYRX 2XSWA 3I5VA 5J3PA 4B5HA 2ISIA 4GYZA 4F1HB 4FVAA 1E9NA 3MPRA 5INMA 3G0RA 5DFJA 3U8UA 2V0SA 3W3DB 5INPA 3I41A 4RUWA 5J3ZA 3G00A 2VOAA 5DFIA 1AKOA 2F2FB 4F1RA 3G1KA 5INNA 3NGOA 1DE8A 5J8NA 4LNDA 4JG3A 5DV2A 5DFHA 3G0AA 3G3CA 5INOA 1NTFA 3G6SA 5INLA
chains in the Genus database with same CATH superfamily
4B5GA 3TEBA 1Y21A 2A41B 3G38A 2V0RA 4AWNA 2DDRA 2D1KB 3WCXA 5CFEA 3NGNA 4B5IA 3W2YA 4K6LF 2O3HA 1DNKA 5DFFA 4IEMA 4QHEA 4F1HA 5HT2A 3I48A 3N9VA 5CFGA 2A42B 5INKA 4FPVA 3L1WA 4PUQA 4QH9A 4L21A 3GA6A 1VYBA 2J63A 2F1NA 5J42A 4B5JA 3I46A 5A7IA 1BIXA 2A3ZB 4C1RA 2DDSA 1DE9A 5J3SA 2JC5A 3MTCA 5EWTA 3CJCD 5A7JA 4F1IA 3G2CA 2JC4A 1SR4B 5INQA 4GZ2A 1HD7A 1I9ZA 4L20A 1ATND 4CMLA 2IMQX 4L1YA 3K55A 4GZ1A 3NR8A 3G4TA 1WDUA 1YJHA 3G91A 5DV4A 1I9YA 4L1ZA 4GEWA 1ZWXA 2DNJA 3DNIA 3W2XA 2O3CA 2EI9A 3NGQA 1DEWA 3G3YA 2DDTA 4QHDA 5DG0A 3FZIA 4CMNA 2A40B 4B5MA 4GZ0A 4B5FA 1SI6X 4A9CA 3G8VA 3G2DA 2UYRX 2XSWA 3I5VA 5J3PA 4B5HA 2ISIA 4GYZA 4F1HB 4FVAA 1E9NA 3MPRA 5INMA 3G0RA 5DFJA 3U8UA 2V0SA 3W3DB 5INPA 3I41A 4RUWA 5J3ZA 3G00A 2VOAA 5DFIA 1AKOA 2F2FB 4F1RA 3G1KA 5INNA 3NGOA 1DE8A 5J8NA 4LNDA 4JG3A 5DV2A 5DFHA 3G0AA 3G3CA 5INOA 1NTFA 3G6SA 5INLA
chains in the Genus database with same CATH topology
4B5GA 3TEBA 1Y21A 2A41B 3G38A 2V0RA 4AWNA 2DDRA 2D1KB 3WCXA 5CFEA 3NGNA 4B5IA 3W2YA 4K6LF 2O3HA 1DNKA 5DFFA 4IEMA 4QHEA 4F1HA 5HT2A 3I48A 3N9VA 5CFGA 2A42B 5INKA 4FPVA 3L1WA 4PUQA 4QH9A 4L21A 3GA6A 1VYBA 2J63A 2F1NA 5J42A 4B5JA 3I46A 5A7IA 1BIXA 2A3ZB 4C1RA 2DDSA 1DE9A 5J3SA 2JC5A 3MTCA 5EWTA 3CJCD 5A7JA 4F1IA 3G2CA 2JC4A 1SR4B 5INQA 4GZ2A 1HD7A 1I9ZA 4L20A 1ATND 4CMLA 2IMQX 4L1YA 3K55A 4GZ1A 3NR8A 3G4TA 1WDUA 1YJHA 3G91A 5DV4A 1I9YA 4L1ZA 4GEWA 1ZWXA 2DNJA 3DNIA 3W2XA 2O3CA 2EI9A 3NGQA 1DEWA 3G3YA 2DDTA 4QHDA 5DG0A 3FZIA 4CMNA 2A40B 4B5MA 4GZ0A 4B5FA 1SI6X 4A9CA 3G8VA 3G2DA 2UYRX 2XSWA 3I5VA 5J3PA 4B5HA 2ISIA 4GYZA 4F1HB 4FVAA 1E9NA 3MPRA 5INMA 3G0RA 5DFJA 3U8UA 2V0SA 3W3DB 5INPA 3I41A 4RUWA 5J3ZA 3G00A 2VOAA 5DFIA 1AKOA 2F2FB 4F1RA 3G1KA 5INNA 3NGOA 1DE8A 5J8NA 4LNDA 4JG3A 5DV2A 5DFHA 3G0AA 3G3CA 5INOA 1NTFA 3G6SA 5INLA
chains in the Genus database with same CATH homology


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

 
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