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


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

 
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