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


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