4GZ1A

Mus musculus tdp2 reaction product (5'-phosphorylated dna)-mg2+ complex at 1.5 angstroms resolution
Total Genus 79
Loading diagram...

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
79
sequence length
255
structure length
254
Chain Sequence
NGLEDSSTISFITWNIDGLDGCNLPERARGVCSCLALYSPDVVFLQEVIPPYCAYLKKRAASYTIITGNEEGYFTAILLKKGRVKFKSQEIIPFPNTKMMRNLLCVNVSLGGNEFCLMTSHLESTREHSAERIRQLKTVLGKMQEAPDSTTVIFAGDTNLRDQEVIKCGGLPDNVFDAWEFLGKPKHCQYTWDTKANNNLRIPAAYKHRFDRIFFRAEGHLIPQSLDLVGLEKLDCGRFPSDHWGLLCTLNVVL
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
publication title Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2.
pubmed doi rcsb
molecule tags Hydrolase/dna
source organism Mus musculus
molecule keywords Tyrosyl-DNA phosphodiesterase 2
total genus 79
structure length 254
sequence length 255
chains with identical sequence B
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 4gz1A00
1NTFA 5DFIA 5INKA 3W3DB 3L1WA 2JC4A 4AWNA 3G3YA 4B5IA 3I46A 5J8NA 3G6SA 3MTCA 2UYRX 4FVAA 4CMLA 3NR8A 3I48A 4GZ1A 1VYBA 1ATND 4QH9A 5DV4A 3G2DA 3I41A 3U8UA 3NGOA 4QHEA 4IEMA 5DFHA 5INMA 4F1HB 5DFJA 3I5VA 5CFGA 5HT2A 4B5HA 4GZ2A 3NGNA 4B5FA 2O3HA 3W2YA 1DE9A 1SR4B 4B5GA 4L1YA 4A9CA 3G3CA 5J42A 2J63A 4QHDA 2JC5A 4L1ZA 4B5MA 2VOAA 2A40B 2EI9A 4C1RA 1DNKA 5DFFA 1ZWXA 1BIXA 2V0RA 1AKOA 2O3CA 4LNDA 2A42B 3GA6A 2A3ZB 1I9ZA 3N9VA 5J3PA 3G38A 2F1NA 2ISIA 5DV2A 2DNJA 1Y21A 5J3ZA 3NGQA 4FPVA 2A41B 5DG0A 1HD7A 3FZIA 4K6LF 4L20A 3MPRA 4CMNA 1SI6X 3G0AA 1DEWA 5INLA 4RUWA 3TEBA 2D1KB 3G2CA 2XSWA 5INOA 4F1HA 3G4TA 4JG3A 3G1KA 4GYZA 3K55A 4B5JA 3WCXA 3G0RA 5INPA 4GZ0A 3DNIA 3G8VA 4PUQA 1YJHA 4F1IA 1WDUA 1DE8A 1I9YA 2IMQX 2V0SA 2F2FB 1E9NA 2DDTA 4GEWA 3W2XA 4L21A 5INNA 3G00A 3G91A 5EWTA 5CFEA 5A7IA 2DDRA 5J3SA 2DDSA 3CJCD 5INQA 5A7JA 4F1RA
chains in the Genus database with same CATH superfamily
1NTFA 5DFIA 5INKA 3W3DB 3L1WA 2JC4A 4AWNA 3G3YA 4B5IA 3I46A 5J8NA 3G6SA 3MTCA 2UYRX 4FVAA 4CMLA 3NR8A 3I48A 4GZ1A 1VYBA 1ATND 4QH9A 5DV4A 3G2DA 3I41A 3U8UA 3NGOA 4QHEA 4IEMA 5DFHA 5INMA 4F1HB 5DFJA 3I5VA 5CFGA 5HT2A 4B5HA 4GZ2A 3NGNA 4B5FA 2O3HA 3W2YA 1DE9A 1SR4B 4B5GA 4L1YA 4A9CA 3G3CA 5J42A 2J63A 4QHDA 2JC5A 4L1ZA 4B5MA 2VOAA 2A40B 2EI9A 4C1RA 1DNKA 5DFFA 1ZWXA 1BIXA 2V0RA 1AKOA 2O3CA 4LNDA 2A42B 3GA6A 2A3ZB 1I9ZA 3N9VA 5J3PA 3G38A 2F1NA 2ISIA 5DV2A 2DNJA 1Y21A 5J3ZA 3NGQA 4FPVA 2A41B 5DG0A 1HD7A 3FZIA 4K6LF 4L20A 3MPRA 4CMNA 1SI6X 3G0AA 1DEWA 5INLA 4RUWA 3TEBA 2D1KB 3G2CA 2XSWA 5INOA 4F1HA 3G4TA 4JG3A 3G1KA 4GYZA 3K55A 4B5JA 3WCXA 3G0RA 5INPA 4GZ0A 3DNIA 3G8VA 4PUQA 1YJHA 4F1IA 1WDUA 1DE8A 1I9YA 2IMQX 2V0SA 2F2FB 1E9NA 2DDTA 4GEWA 3W2XA 4L21A 5INNA 3G00A 3G91A 5EWTA 5CFEA 5A7IA 2DDRA 5J3SA 2DDSA 3CJCD 5INQA 5A7JA 4F1RA
chains in the Genus database with same CATH topology
1NTFA 5DFIA 5INKA 3W3DB 3L1WA 2JC4A 4AWNA 3G3YA 4B5IA 3I46A 5J8NA 3G6SA 3MTCA 2UYRX 4FVAA 4CMLA 3NR8A 3I48A 4GZ1A 1VYBA 1ATND 4QH9A 5DV4A 3G2DA 3I41A 3U8UA 3NGOA 4QHEA 4IEMA 5DFHA 5INMA 4F1HB 5DFJA 3I5VA 5CFGA 5HT2A 4B5HA 4GZ2A 3NGNA 4B5FA 2O3HA 3W2YA 1DE9A 1SR4B 4B5GA 4L1YA 4A9CA 3G3CA 5J42A 2J63A 4QHDA 2JC5A 4L1ZA 4B5MA 2VOAA 2A40B 2EI9A 4C1RA 1DNKA 5DFFA 1ZWXA 1BIXA 2V0RA 1AKOA 2O3CA 4LNDA 2A42B 3GA6A 2A3ZB 1I9ZA 3N9VA 5J3PA 3G38A 2F1NA 2ISIA 5DV2A 2DNJA 1Y21A 5J3ZA 3NGQA 4FPVA 2A41B 5DG0A 1HD7A 3FZIA 4K6LF 4L20A 3MPRA 4CMNA 1SI6X 3G0AA 1DEWA 5INLA 4RUWA 3TEBA 2D1KB 3G2CA 2XSWA 5INOA 4F1HA 3G4TA 4JG3A 3G1KA 4GYZA 3K55A 4B5JA 3WCXA 3G0RA 5INPA 4GZ0A 3DNIA 3G8VA 4PUQA 1YJHA 4F1IA 1WDUA 1DE8A 1I9YA 2IMQX 2V0SA 2F2FB 1E9NA 2DDTA 4GEWA 3W2XA 4L21A 5INNA 3G00A 3G91A 5EWTA 5CFEA 5A7IA 2DDRA 5J3SA 2DDSA 3CJCD 5INQA 5A7JA 4F1RA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...