4F1HB

Crystal structure of tdp2 from danio rerio complexed with a single strand dna
Total Genus 80
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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
80
sequence length
251
structure length
251
Chain Sequence
EDSKLSIISWNVDGLDTLNLADRARGLCSYLALYTPDVVFLQELIPAYVQYLKKRAVSYLFFEGSDDGYFTGIMLRKSRVKFLESEIICFPTTQMMRNLLIAQVTFSGQKLYLMTSHLESCKNQSQERTKQLRVVLQKIKEAPEDAIVIFAGDTNLRDAEVANVGGLPAGVCDVWEQLGKQEHCRYTWDTKANSNKTVPYVSRCRFDRIFLRSAKTAPPVTPDHMALIGMEKLDCGRYTSDHWGIYCTFNT
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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 Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2.
pubmed doi rcsb
molecule tags Hydrolase/dna
source organism Danio rerio
molecule keywords DNA (5'-D(P*TP*GP*CP*AP*G)-3')
total genus 80
structure length 251
sequence length 251
ec nomenclature ec 3.1.4.-:
pdb deposition date 2012-05-06

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B 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 4f1hB00
4CMNA 5DFJA 2O3HA 1SI6X 4F1RA 2F2FB 3I41A 4K6LF 5A7JA 5DV2A 5DFHA 1HD7A 4GEWA 3I48A 5CFEA 2JC4A 4GZ2A 5A7IA 4IEMA 5DFIA 2XSWA 5EWTA 3W2YA 2EI9A 2A40B 2DDRA 3L1WA 5CFGA 4B5FA 1DE9A 3I46A 1YJHA 4CMLA 5INNA 4F1HA 5INKA 5J8NA 3MPRA 2A41B 4FPVA 2A42B 2DDSA 1I9YA 4QHEA 1SR4B 3G2CA 3G4TA 5INMA 4GYZA 4L21A 4L1YA 4B5HA 3N9VA 3G6SA 1I9ZA 3WCXA 3GA6A 4F1IA 3DNIA 4L20A 5INLA 1AKOA 5J3ZA 1Y21A 2DNJA 3K55A 4FVAA 5DV4A 3G00A 1DNKA 1NTFA 4GZ0A 4F1HB 4AWNA 2DDTA 2JC5A 2V0SA 5J42A 3I5VA 3FZIA 2IMQX 4C1RA 4GZ1A 2J63A 1ZWXA 2V0RA 3NGNA 4A9CA 4RUWA 3TEBA 5DFFA 2D1KB 3G1KA 1VYBA 1DE8A 3G3CA 1WDUA 4QH9A 4PUQA 2A3ZB 5J3SA 4B5JA 2VOAA 1E9NA 4LNDA 1ATND 3CJCD 3NR8A 5INPA 2UYRX 3MTCA 4L1ZA 5INQA 3G0RA 4B5IA 5INOA 3W2XA 3U8UA 5DG0A 4B5MA 3W3DB 3G3YA 4B5GA 3G91A 3G8VA 4JG3A 4QHDA 5J3PA 5HT2A 2O3CA 3G2DA 3G0AA 3G38A 2ISIA 1BIXA 1DEWA 3NGQA 2F1NA 3NGOA
chains in the Genus database with same CATH superfamily
4CMNA 5DFJA 2O3HA 1SI6X 4F1RA 2F2FB 3I41A 4K6LF 5A7JA 5DV2A 5DFHA 1HD7A 4GEWA 3I48A 5CFEA 2JC4A 4GZ2A 5A7IA 4IEMA 5DFIA 2XSWA 5EWTA 3W2YA 2EI9A 2A40B 2DDRA 3L1WA 5CFGA 4B5FA 1DE9A 3I46A 1YJHA 4CMLA 5INNA 4F1HA 5INKA 5J8NA 3MPRA 2A41B 4FPVA 2A42B 2DDSA 1I9YA 4QHEA 1SR4B 3G2CA 3G4TA 5INMA 4GYZA 4L21A 4L1YA 4B5HA 3N9VA 3G6SA 1I9ZA 3WCXA 3GA6A 4F1IA 3DNIA 4L20A 5INLA 1AKOA 5J3ZA 1Y21A 2DNJA 3K55A 4FVAA 5DV4A 3G00A 1DNKA 1NTFA 4GZ0A 4F1HB 4AWNA 2DDTA 2JC5A 2V0SA 5J42A 3I5VA 3FZIA 2IMQX 4C1RA 4GZ1A 2J63A 1ZWXA 2V0RA 3NGNA 4A9CA 4RUWA 3TEBA 5DFFA 2D1KB 3G1KA 1VYBA 1DE8A 3G3CA 1WDUA 4QH9A 4PUQA 2A3ZB 5J3SA 4B5JA 2VOAA 1E9NA 4LNDA 1ATND 3CJCD 3NR8A 5INPA 2UYRX 3MTCA 4L1ZA 5INQA 3G0RA 4B5IA 5INOA 3W2XA 3U8UA 5DG0A 4B5MA 3W3DB 3G3YA 4B5GA 3G91A 3G8VA 4JG3A 4QHDA 5J3PA 5HT2A 2O3CA 3G2DA 3G0AA 3G38A 2ISIA 1BIXA 1DEWA 3NGQA 2F1NA 3NGOA
chains in the Genus database with same CATH topology
4CMNA 5DFJA 2O3HA 1SI6X 4F1RA 2F2FB 3I41A 4K6LF 5A7JA 5DV2A 5DFHA 1HD7A 4GEWA 3I48A 5CFEA 2JC4A 4GZ2A 5A7IA 4IEMA 5DFIA 2XSWA 5EWTA 3W2YA 2EI9A 2A40B 2DDRA 3L1WA 5CFGA 4B5FA 1DE9A 3I46A 1YJHA 4CMLA 5INNA 4F1HA 5INKA 5J8NA 3MPRA 2A41B 4FPVA 2A42B 2DDSA 1I9YA 4QHEA 1SR4B 3G2CA 3G4TA 5INMA 4GYZA 4L21A 4L1YA 4B5HA 3N9VA 3G6SA 1I9ZA 3WCXA 3GA6A 4F1IA 3DNIA 4L20A 5INLA 1AKOA 5J3ZA 1Y21A 2DNJA 3K55A 4FVAA 5DV4A 3G00A 1DNKA 1NTFA 4GZ0A 4F1HB 4AWNA 2DDTA 2JC5A 2V0SA 5J42A 3I5VA 3FZIA 2IMQX 4C1RA 4GZ1A 2J63A 1ZWXA 2V0RA 3NGNA 4A9CA 4RUWA 3TEBA 5DFFA 2D1KB 3G1KA 1VYBA 1DE8A 3G3CA 1WDUA 4QH9A 4PUQA 2A3ZB 5J3SA 4B5JA 2VOAA 1E9NA 4LNDA 1ATND 3CJCD 3NR8A 5INPA 2UYRX 3MTCA 4L1ZA 5INQA 3G0RA 4B5IA 5INOA 3W2XA 3U8UA 5DG0A 4B5MA 3W3DB 3G3YA 4B5GA 3G91A 3G8VA 4JG3A 4QHDA 5J3PA 5HT2A 2O3CA 3G2DA 3G0AA 3G38A 2ISIA 1BIXA 1DEWA 3NGQA 2F1NA 3NGOA
chains in the Genus database with same CATH homology


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