4GYZA

Mus musculus tdp2 bound to damp and mg2+
Total Genus 69
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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
69
sequence length
248
structure length
246
Chain Sequence
TISFITWNIDGLDGCNLPERARGVCSCLALYSPDVVFLQEVIPPYCAYLKKRAASYTIITGNEEGYFTAILLKKGRVKFKSQEIIPFPNTKMMRNLLCVNVSLGGNEFCLMTSHLESTREHSAERIRQLKTVLGKMQEAPDSTTVIFAGDTNLRDQEVIKCGGLPDNVFDAWEFLGKPKHCQYTWDTKANNNLRIPAAYKHRFDRIFFRAGHLIPQSLDLVGLEKLDCGRFPSDHWGLLCTLNVVL
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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 Hydrolase
molecule keywords Tyrosyl-DNA phosphodiesterase 2
publication title Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2.
pubmed doi rcsb
source organism Mus musculus
total genus 69
structure length 246
sequence length 248
chains with identical sequence B, C, D, E, F, G, H, I
ec nomenclature ec 3.1.4.-:
pdb deposition date 2012-09-05

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 4gyzA00
3G1KA 4B5MA 1SR4B 5DG0A 3W2XA 5A7IA 4GEWA 2DDRA 5INLA 5A7JA 4L20A 2A3ZB 1SI6X 4B5FA 4C1RA 4GZ2A 3DNIA 2D1KB 2J63A 5J3PA 2O3CA 2V0SA 4F1IA 4B5GA 1E9NA 1I9ZA 1YJHA 4B5HA 2DNJA 4GZ0A 5INOA 2A40B 5DFHA 4F1RA 3NR8A 4A9CA 4LNDA 3I5VA 3G0AA 3U8UA 3N9VA 1DE8A 2IMQX 4K6LF 4FVAA 4AWNA 1ZWXA 4F1HB 3MTCA 2A42B 5J42A 5INMA 5J3SA 3GA6A 5HT2A 3G38A 1Y21A 4CMNA 2EI9A 2V0RA 2VOAA 5INQA 3G6SA 4L21A 3G3YA 5J3ZA 1AKOA 1BIXA 3G8VA 2UYRX 3L1WA 5DFIA 5EWTA 3CJCD 3FZIA 3TEBA 5INNA 3W2YA 2F1NA 4QHEA 4L1YA 1VYBA 2O3HA 1WDUA 3I48A 3NGOA 5CFEA 4QHDA 5J8NA 5CFGA 3MPRA 5INPA 4GYZA 3G2DA 5DV4A 3G4TA 5DFFA 4GZ1A 4QH9A 1I9YA 4JG3A 3I41A 5INKA 4IEMA 1DEWA 3W3DB 2JC5A 2JC4A 3G91A 3G00A 3G3CA 4FPVA 2ISIA 1DE9A 1HD7A 3NGNA 2DDSA 3NGQA 2F2FB 1NTFA 2DDTA 5DV2A 1ATND 4B5JA 5DFJA 3G0RA 4B5IA 3I46A 4PUQA 3WCXA 4RUWA 3G2CA 4F1HA 2A41B 1DNKA 2XSWA 4L1ZA 3K55A 4CMLA
chains in the Genus database with same CATH superfamily
3G1KA 4B5MA 1SR4B 5DG0A 3W2XA 5A7IA 4GEWA 2DDRA 5INLA 5A7JA 4L20A 2A3ZB 1SI6X 4B5FA 4C1RA 4GZ2A 3DNIA 2D1KB 2J63A 5J3PA 2O3CA 2V0SA 4F1IA 4B5GA 1E9NA 1I9ZA 1YJHA 4B5HA 2DNJA 4GZ0A 5INOA 2A40B 5DFHA 4F1RA 3NR8A 4A9CA 4LNDA 3I5VA 3G0AA 3U8UA 3N9VA 1DE8A 2IMQX 4K6LF 4FVAA 4AWNA 1ZWXA 4F1HB 3MTCA 2A42B 5J42A 5INMA 5J3SA 3GA6A 5HT2A 3G38A 1Y21A 4CMNA 2EI9A 2V0RA 2VOAA 5INQA 3G6SA 4L21A 3G3YA 5J3ZA 1AKOA 1BIXA 3G8VA 2UYRX 3L1WA 5DFIA 5EWTA 3CJCD 3FZIA 3TEBA 5INNA 3W2YA 2F1NA 4QHEA 4L1YA 1VYBA 2O3HA 1WDUA 3I48A 3NGOA 5CFEA 4QHDA 5J8NA 5CFGA 3MPRA 5INPA 4GYZA 3G2DA 5DV4A 3G4TA 5DFFA 4GZ1A 4QH9A 1I9YA 4JG3A 3I41A 5INKA 4IEMA 1DEWA 3W3DB 2JC5A 2JC4A 3G91A 3G00A 3G3CA 4FPVA 2ISIA 1DE9A 1HD7A 3NGNA 2DDSA 3NGQA 2F2FB 1NTFA 2DDTA 5DV2A 1ATND 4B5JA 5DFJA 3G0RA 4B5IA 3I46A 4PUQA 3WCXA 4RUWA 3G2CA 4F1HA 2A41B 1DNKA 2XSWA 4L1ZA 3K55A 4CMLA
chains in the Genus database with same CATH topology
3G1KA 4B5MA 1SR4B 5DG0A 3W2XA 5A7IA 4GEWA 2DDRA 5INLA 5A7JA 4L20A 2A3ZB 1SI6X 4B5FA 4C1RA 4GZ2A 3DNIA 2D1KB 2J63A 5J3PA 2O3CA 2V0SA 4F1IA 4B5GA 1E9NA 1I9ZA 1YJHA 4B5HA 2DNJA 4GZ0A 5INOA 2A40B 5DFHA 4F1RA 3NR8A 4A9CA 4LNDA 3I5VA 3G0AA 3U8UA 3N9VA 1DE8A 2IMQX 4K6LF 4FVAA 4AWNA 1ZWXA 4F1HB 3MTCA 2A42B 5J42A 5INMA 5J3SA 3GA6A 5HT2A 3G38A 1Y21A 4CMNA 2EI9A 2V0RA 2VOAA 5INQA 3G6SA 4L21A 3G3YA 5J3ZA 1AKOA 1BIXA 3G8VA 2UYRX 3L1WA 5DFIA 5EWTA 3CJCD 3FZIA 3TEBA 5INNA 3W2YA 2F1NA 4QHEA 4L1YA 1VYBA 2O3HA 1WDUA 3I48A 3NGOA 5CFEA 4QHDA 5J8NA 5CFGA 3MPRA 5INPA 4GYZA 3G2DA 5DV4A 3G4TA 5DFFA 4GZ1A 4QH9A 1I9YA 4JG3A 3I41A 5INKA 4IEMA 1DEWA 3W3DB 2JC5A 2JC4A 3G91A 3G00A 3G3CA 4FPVA 2ISIA 1DE9A 1HD7A 3NGNA 2DDSA 3NGQA 2F2FB 1NTFA 2DDTA 5DV2A 1ATND 4B5JA 5DFJA 3G0RA 4B5IA 3I46A 4PUQA 3WCXA 4RUWA 3G2CA 4F1HA 2A41B 1DNKA 2XSWA 4L1ZA 3K55A 4CMLA
chains in the Genus database with same CATH homology


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