5J3ZA

Crystal structure of m2htdp2-cat in complex with a small molecule inhibitor
Total Genus 78
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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
78
sequence length
249
structure length
249
Chain Sequence
STISFITWNIDGLDGCNLPERARGVCSCLALYSPDVVFLQEVIPPYCAYLKKRAASYTIITGNEEGYFTAILLKKGRVKFKSQEIIPFPNTKMMRNLLCVNVSLGGNEFCLMTSHLESTRGHSAERIRQLKTVLGKMQEAPDSTTVIFAGDTNLRDREVIKCGGLPDNVFDAWEFLGKPKHCQYTWDTKANNNLRIPAACKLRFDRIFFRAEEGHLIPQSLDLVGLEKLDCGRFPSDHWGLLCTLNVVL
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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 Mode of action of DNA-competitive small molecule inhibitors of tyrosyl DNA phosphodiesterase 2.
pubmed doi rcsb
molecule tags Hydrolase
source organism Mus musculus
molecule keywords Tyrosyl-DNA phosphodiesterase 2
total genus 78
structure length 249
sequence length 249
chains with identical sequence B
ec nomenclature ec 3.1.4.-:
pdb deposition date 2016-03-31

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 5j3zA00
4L1YA 4B5MA 4RUWA 2A3ZB 5INLA 3G38A 1VYBA 2V0SA 1HD7A 2O3CA 1DE8A 5DG0A 5INPA 4QHEA 3G00A 5DV4A 5CFGA 4F1HA 4L1ZA 4LNDA 2XSWA 1SI6X 1I9ZA 4CMLA 4F1IA 3G0RA 2F1NA 3FZIA 3WCXA 5J3PA 5DV2A 4FPVA 3W2YA 5INOA 4PUQA 5INQA 2V0RA 5A7IA 2A42B 5DFJA 1Y21A 4CMNA 3G8VA 5J42A 4A9CA 4B5JA 3NGOA 4B5FA 4IEMA 3N9VA 4K6LF 3W3DB 4B5IA 3NGQA 3CJCD 1NTFA 4L20A 3G2CA 4GZ1A 2O3HA 2DNJA 2D1KB 2ISIA 5INMA 3I41A 3MPRA 3U8UA 3G3CA 1ATND 5DFHA 4GYZA 5J8NA 4QH9A 3TEBA 4FVAA 3G3YA 1DE9A 3DNIA 4GEWA 5J3SA 3I5VA 3I48A 4AWNA 4QHDA 5INNA 2IMQX 1YJHA 2DDTA 2UYRX 4L21A 2EI9A 1I9YA 3GA6A 5A7JA 1AKOA 3G91A 1DNKA 2VOAA 4GZ2A 2DDSA 4F1RA 3W2XA 1ZWXA 2JC4A 2A40B 5CFEA 2F2FB 3NR8A 1WDUA 5HT2A 1DEWA 4GZ0A 3G2DA 3L1WA 2A41B 5EWTA 4B5HA 5INKA 2JC5A 3G1KA 4F1HB 4C1RA 5DFIA 5DFFA 2J63A 3I46A 3K55A 3NGNA 5J3ZA 2DDRA 1BIXA 4B5GA 3G4TA 1E9NA 3MTCA 3G0AA 3G6SA 4JG3A 1SR4B
chains in the Genus database with same CATH superfamily
4L1YA 4B5MA 4RUWA 2A3ZB 5INLA 3G38A 1VYBA 2V0SA 1HD7A 2O3CA 1DE8A 5DG0A 5INPA 4QHEA 3G00A 5DV4A 5CFGA 4F1HA 4L1ZA 4LNDA 2XSWA 1SI6X 1I9ZA 4CMLA 4F1IA 3G0RA 2F1NA 3FZIA 3WCXA 5J3PA 5DV2A 4FPVA 3W2YA 5INOA 4PUQA 5INQA 2V0RA 5A7IA 2A42B 5DFJA 1Y21A 4CMNA 3G8VA 5J42A 4A9CA 4B5JA 3NGOA 4B5FA 4IEMA 3N9VA 4K6LF 3W3DB 4B5IA 3NGQA 3CJCD 1NTFA 4L20A 3G2CA 4GZ1A 2O3HA 2DNJA 2D1KB 2ISIA 5INMA 3I41A 3MPRA 3U8UA 3G3CA 1ATND 5DFHA 4GYZA 5J8NA 4QH9A 3TEBA 4FVAA 3G3YA 1DE9A 3DNIA 4GEWA 5J3SA 3I5VA 3I48A 4AWNA 4QHDA 5INNA 2IMQX 1YJHA 2DDTA 2UYRX 4L21A 2EI9A 1I9YA 3GA6A 5A7JA 1AKOA 3G91A 1DNKA 2VOAA 4GZ2A 2DDSA 4F1RA 3W2XA 1ZWXA 2JC4A 2A40B 5CFEA 2F2FB 3NR8A 1WDUA 5HT2A 1DEWA 4GZ0A 3G2DA 3L1WA 2A41B 5EWTA 4B5HA 5INKA 2JC5A 3G1KA 4F1HB 4C1RA 5DFIA 5DFFA 2J63A 3I46A 3K55A 3NGNA 5J3ZA 2DDRA 1BIXA 4B5GA 3G4TA 1E9NA 3MTCA 3G0AA 3G6SA 4JG3A 1SR4B
chains in the Genus database with same CATH topology
4L1YA 4B5MA 4RUWA 2A3ZB 5INLA 3G38A 1VYBA 2V0SA 1HD7A 2O3CA 1DE8A 5DG0A 5INPA 4QHEA 3G00A 5DV4A 5CFGA 4F1HA 4L1ZA 4LNDA 2XSWA 1SI6X 1I9ZA 4CMLA 4F1IA 3G0RA 2F1NA 3FZIA 3WCXA 5J3PA 5DV2A 4FPVA 3W2YA 5INOA 4PUQA 5INQA 2V0RA 5A7IA 2A42B 5DFJA 1Y21A 4CMNA 3G8VA 5J42A 4A9CA 4B5JA 3NGOA 4B5FA 4IEMA 3N9VA 4K6LF 3W3DB 4B5IA 3NGQA 3CJCD 1NTFA 4L20A 3G2CA 4GZ1A 2O3HA 2DNJA 2D1KB 2ISIA 5INMA 3I41A 3MPRA 3U8UA 3G3CA 1ATND 5DFHA 4GYZA 5J8NA 4QH9A 3TEBA 4FVAA 3G3YA 1DE9A 3DNIA 4GEWA 5J3SA 3I5VA 3I48A 4AWNA 4QHDA 5INNA 2IMQX 1YJHA 2DDTA 2UYRX 4L21A 2EI9A 1I9YA 3GA6A 5A7JA 1AKOA 3G91A 1DNKA 2VOAA 4GZ2A 2DDSA 4F1RA 3W2XA 1ZWXA 2JC4A 2A40B 5CFEA 2F2FB 3NR8A 1WDUA 5HT2A 1DEWA 4GZ0A 3G2DA 3L1WA 2A41B 5EWTA 4B5HA 5INKA 2JC5A 3G1KA 4F1HB 4C1RA 5DFIA 5DFFA 2J63A 3I46A 3K55A 3NGNA 5J3ZA 2DDRA 1BIXA 4B5GA 3G4TA 1E9NA 3MTCA 3G0AA 3G6SA 4JG3A 1SR4B
chains in the Genus database with same CATH homology


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

 
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