5INNA

Mouse tdp2 d358n protein, apo state with increased disorder amongst variable dna-binding grasp conformations
Total Genus 70
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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
70
sequence length
248
structure length
242
Chain Sequence
STISFITWNIDGLDGCNLPERARGVCSCLALYSPDVVFLQEVIPPYCAYLKKRAASYTIITGNEEGYFTAILLKKGRVKFKSQEIIPFPNTKMMRNLLCVNVSLGGNEFCLMTSHLESTREHSAERIRQLKTVLGKMQEAPDSTTVIFAGDTNLRDQEVIKCGGLPDNVFDAWEFLGKPKHCQYTWDTKANNNLKHRFDRIFFRAEEGHLIPQSLDLVGLEKLDCGRFPSNHWGLLCTLNVV
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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 Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
pubmed doi rcsb
molecule tags Hydrolase
source organism Mus musculus
molecule keywords Tyrosyl-DNA phosphodiesterase 2
total genus 70
structure length 242
sequence length 248
chains with identical sequence B, C, D, E
ec nomenclature ec 3.1.4.-:
pdb deposition date 2016-03-07

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 5innA00
4F1HB 4L1YA 4B5GA 5J3SA 4L1ZA 3I41A 4A9CA 2ISIA 3G38A 2A40B 2EI9A 1WDUA 3W2XA 4L21A 4B5JA 3CJCD 1E9NA 3TEBA 5J42A 4B5FA 5A7IA 3G0RA 3G4TA 4IEMA 5J8NA 3G2DA 4FVAA 2O3HA 4JG3A 4L20A 5A7JA 3NGOA 3G00A 5CFGA 2IMQX 2DDTA 4GZ0A 5J3ZA 1YJHA 4FPVA 3K55A 2A3ZB 3G8VA 3MPRA 2VOAA 3N9VA 3DNIA 3G1KA 1I9ZA 3FZIA 1BIXA 3G3CA 4B5HA 5INOA 1Y21A 3G6SA 3L1WA 3G91A 1NTFA 5DV4A 3W2YA 3NGQA 5INQA 4GYZA 3WCXA 4B5IA 2O3CA 4QHEA 2A42B 4QH9A 2UYRX 3G2CA 5HT2A 4LNDA 2D1KB 1VYBA 3G0AA 2V0RA 4QHDA 2DDRA 4F1HA 4C1RA 1DNKA 1ATND 4GZ1A 1I9YA 2F2FB 1DEWA 4K6LF 3MTCA 5DFIA 5DFJA 5CFEA 4GZ2A 2DNJA 5INPA 2JC4A 3NGNA 4PUQA 2DDSA 5INLA 2V0SA 3GA6A 4CMLA 3I5VA 5DG0A 4B5MA 3W3DB 5INMA 5DFHA 2JC5A 4F1RA 1AKOA 1SI6X 4F1IA 5DFFA 1ZWXA 1DE9A 5DV2A 3U8UA 3I48A 2J63A 2F1NA 5J3PA 5INKA 2XSWA 1SR4B 3I46A 4AWNA 4RUWA 1HD7A 4GEWA 4CMNA 2A41B 5INNA 5EWTA 1DE8A 3NR8A 3G3YA
chains in the Genus database with same CATH superfamily
4F1HB 4L1YA 4B5GA 5J3SA 4L1ZA 3I41A 4A9CA 2ISIA 3G38A 2A40B 2EI9A 1WDUA 3W2XA 4L21A 4B5JA 3CJCD 1E9NA 3TEBA 5J42A 4B5FA 5A7IA 3G0RA 3G4TA 4IEMA 5J8NA 3G2DA 4FVAA 2O3HA 4JG3A 4L20A 5A7JA 3NGOA 3G00A 5CFGA 2IMQX 2DDTA 4GZ0A 5J3ZA 1YJHA 4FPVA 3K55A 2A3ZB 3G8VA 3MPRA 2VOAA 3N9VA 3DNIA 3G1KA 1I9ZA 3FZIA 1BIXA 3G3CA 4B5HA 5INOA 1Y21A 3G6SA 3L1WA 3G91A 1NTFA 5DV4A 3W2YA 3NGQA 5INQA 4GYZA 3WCXA 4B5IA 2O3CA 4QHEA 2A42B 4QH9A 2UYRX 3G2CA 5HT2A 4LNDA 2D1KB 1VYBA 3G0AA 2V0RA 4QHDA 2DDRA 4F1HA 4C1RA 1DNKA 1ATND 4GZ1A 1I9YA 2F2FB 1DEWA 4K6LF 3MTCA 5DFIA 5DFJA 5CFEA 4GZ2A 2DNJA 5INPA 2JC4A 3NGNA 4PUQA 2DDSA 5INLA 2V0SA 3GA6A 4CMLA 3I5VA 5DG0A 4B5MA 3W3DB 5INMA 5DFHA 2JC5A 4F1RA 1AKOA 1SI6X 4F1IA 5DFFA 1ZWXA 1DE9A 5DV2A 3U8UA 3I48A 2J63A 2F1NA 5J3PA 5INKA 2XSWA 1SR4B 3I46A 4AWNA 4RUWA 1HD7A 4GEWA 4CMNA 2A41B 5INNA 5EWTA 1DE8A 3NR8A 3G3YA
chains in the Genus database with same CATH topology
4F1HB 4L1YA 4B5GA 5J3SA 4L1ZA 3I41A 4A9CA 2ISIA 3G38A 2A40B 2EI9A 1WDUA 3W2XA 4L21A 4B5JA 3CJCD 1E9NA 3TEBA 5J42A 4B5FA 5A7IA 3G0RA 3G4TA 4IEMA 5J8NA 3G2DA 4FVAA 2O3HA 4JG3A 4L20A 5A7JA 3NGOA 3G00A 5CFGA 2IMQX 2DDTA 4GZ0A 5J3ZA 1YJHA 4FPVA 3K55A 2A3ZB 3G8VA 3MPRA 2VOAA 3N9VA 3DNIA 3G1KA 1I9ZA 3FZIA 1BIXA 3G3CA 4B5HA 5INOA 1Y21A 3G6SA 3L1WA 3G91A 1NTFA 5DV4A 3W2YA 3NGQA 5INQA 4GYZA 3WCXA 4B5IA 2O3CA 4QHEA 2A42B 4QH9A 2UYRX 3G2CA 5HT2A 4LNDA 2D1KB 1VYBA 3G0AA 2V0RA 4QHDA 2DDRA 4F1HA 4C1RA 1DNKA 1ATND 4GZ1A 1I9YA 2F2FB 1DEWA 4K6LF 3MTCA 5DFIA 5DFJA 5CFEA 4GZ2A 2DNJA 5INPA 2JC4A 3NGNA 4PUQA 2DDSA 5INLA 2V0SA 3GA6A 4CMLA 3I5VA 5DG0A 4B5MA 3W3DB 5INMA 5DFHA 2JC5A 4F1RA 1AKOA 1SI6X 4F1IA 5DFFA 1ZWXA 1DE9A 5DV2A 3U8UA 3I48A 2J63A 2F1NA 5J3PA 5INKA 2XSWA 1SR4B 3I46A 4AWNA 4RUWA 1HD7A 4GEWA 4CMNA 2A41B 5INNA 5EWTA 1DE8A 3NR8A 3G3YA
chains in the Genus database with same CATH homology


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

 
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