4F1HA

Crystal structure of tdp2 from danio rerio complexed with a single strand dna
Total Genus 79
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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
79
sequence length
250
structure length
250
Chain Sequence
DSKLSIISWNVDGLDTLNLADRARGLCSYLALYTPDVVFLQELIPAYVQYLKKRAVSYLFFEGSDDGYFTGIMLRKSRVKFLESEIICFPTTQMMRNLLIAQVTFSGQKLYLMTSHLESCKNQSQERTKQLRVVLQKIKEAPEDAIVIFAGDTNLRDAEVANVGGLPAGVCDVWEQLGKQEHCRYTWDTKANSNKTVPYVSRCRFDRIFLRSAKTAPPVTPDHMALIGMEKLDCGRYTSDHWGIYCTFNT
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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/dna
molecule keywords DNA (5'-D(P*TP*GP*CP*AP*G)-3')
publication title Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2.
pubmed doi rcsb
source organism Danio rerio
total genus 79
structure length 250
sequence length 250
ec nomenclature ec 3.1.4.-:
pdb deposition date 2012-05-06

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 4f1hA00
1DEWA 3G2DA 1E9NA 3G6SA 4LNDA 3NGNA 2F2FB 2J63A 2VOAA 2DNJA 4GEWA 2A40B 3MTCA 4A9CA 3GA6A 1YJHA 4L20A 2JC5A 2EI9A 1Y21A 2O3CA 4L21A 1DE9A 4IEMA 2ISIA 3MPRA 4F1HB 3K55A 5DFHA 2XSWA 1I9YA 3N9VA 2DDSA 3G3YA 3G2CA 5J42A 5J3SA 1SI6X 3I46A 3G0AA 5DFFA 1VYBA 1DNKA 4C1RA 4GZ0A 5INMA 2A3ZB 3W2YA 5INQA 3G00A 5DFJA 4QH9A 3W2XA 5INNA 5CFGA 4F1HA 1DE8A 4GZ1A 4B5HA 4QHEA 4F1IA 2UYRX 4GYZA 3W3DB 3WCXA 3G3CA 5INOA 5A7IA 4AWNA 2F1NA 3U8UA 1NTFA 4B5GA 4B5JA 4QHDA 3TEBA 4L1YA 2DDTA 4B5IA 1I9ZA 2V0SA 3FZIA 5DG0A 5CFEA 3G1KA 3G4TA 5J8NA 5INLA 3NGOA 4GZ2A 2O3HA 4K6LF 3NGQA 5EWTA 5INPA 5INKA 3I41A 1BIXA 1ATND 5DFIA 5DV2A 4B5FA 2D1KB 3I48A 4L1ZA 4CMLA 2A42B 1HD7A 3DNIA 4PUQA 5DV4A 5J3ZA 4JG3A 4FVAA 4F1RA 3L1WA 2JC4A 4RUWA 3I5VA 1AKOA 1SR4B 5HT2A 3G91A 3NR8A 4B5MA 3G0RA 2V0RA 3G38A 4FPVA 1ZWXA 5J3PA 5A7JA 3G8VA 3CJCD 2IMQX 2DDRA 4CMNA 1WDUA 2A41B
chains in the Genus database with same CATH superfamily
1DEWA 3G2DA 1E9NA 3G6SA 4LNDA 3NGNA 2F2FB 2J63A 2VOAA 2DNJA 4GEWA 2A40B 3MTCA 4A9CA 3GA6A 1YJHA 4L20A 2JC5A 2EI9A 1Y21A 2O3CA 4L21A 1DE9A 4IEMA 2ISIA 3MPRA 4F1HB 3K55A 5DFHA 2XSWA 1I9YA 3N9VA 2DDSA 3G3YA 3G2CA 5J42A 5J3SA 1SI6X 3I46A 3G0AA 5DFFA 1VYBA 1DNKA 4C1RA 4GZ0A 5INMA 2A3ZB 3W2YA 5INQA 3G00A 5DFJA 4QH9A 3W2XA 5INNA 5CFGA 4F1HA 1DE8A 4GZ1A 4B5HA 4QHEA 4F1IA 2UYRX 4GYZA 3W3DB 3WCXA 3G3CA 5INOA 5A7IA 4AWNA 2F1NA 3U8UA 1NTFA 4B5GA 4B5JA 4QHDA 3TEBA 4L1YA 2DDTA 4B5IA 1I9ZA 2V0SA 3FZIA 5DG0A 5CFEA 3G1KA 3G4TA 5J8NA 5INLA 3NGOA 4GZ2A 2O3HA 4K6LF 3NGQA 5EWTA 5INPA 5INKA 3I41A 1BIXA 1ATND 5DFIA 5DV2A 4B5FA 2D1KB 3I48A 4L1ZA 4CMLA 2A42B 1HD7A 3DNIA 4PUQA 5DV4A 5J3ZA 4JG3A 4FVAA 4F1RA 3L1WA 2JC4A 4RUWA 3I5VA 1AKOA 1SR4B 5HT2A 3G91A 3NR8A 4B5MA 3G0RA 2V0RA 3G38A 4FPVA 1ZWXA 5J3PA 5A7JA 3G8VA 3CJCD 2IMQX 2DDRA 4CMNA 1WDUA 2A41B
chains in the Genus database with same CATH topology
1DEWA 3G2DA 1E9NA 3G6SA 4LNDA 3NGNA 2F2FB 2J63A 2VOAA 2DNJA 4GEWA 2A40B 3MTCA 4A9CA 3GA6A 1YJHA 4L20A 2JC5A 2EI9A 1Y21A 2O3CA 4L21A 1DE9A 4IEMA 2ISIA 3MPRA 4F1HB 3K55A 5DFHA 2XSWA 1I9YA 3N9VA 2DDSA 3G3YA 3G2CA 5J42A 5J3SA 1SI6X 3I46A 3G0AA 5DFFA 1VYBA 1DNKA 4C1RA 4GZ0A 5INMA 2A3ZB 3W2YA 5INQA 3G00A 5DFJA 4QH9A 3W2XA 5INNA 5CFGA 4F1HA 1DE8A 4GZ1A 4B5HA 4QHEA 4F1IA 2UYRX 4GYZA 3W3DB 3WCXA 3G3CA 5INOA 5A7IA 4AWNA 2F1NA 3U8UA 1NTFA 4B5GA 4B5JA 4QHDA 3TEBA 4L1YA 2DDTA 4B5IA 1I9ZA 2V0SA 3FZIA 5DG0A 5CFEA 3G1KA 3G4TA 5J8NA 5INLA 3NGOA 4GZ2A 2O3HA 4K6LF 3NGQA 5EWTA 5INPA 5INKA 3I41A 1BIXA 1ATND 5DFIA 5DV2A 4B5FA 2D1KB 3I48A 4L1ZA 4CMLA 2A42B 1HD7A 3DNIA 4PUQA 5DV4A 5J3ZA 4JG3A 4FVAA 4F1RA 3L1WA 2JC4A 4RUWA 3I5VA 1AKOA 1SR4B 5HT2A 3G91A 3NR8A 4B5MA 3G0RA 2V0RA 3G38A 4FPVA 1ZWXA 5J3PA 5A7JA 3G8VA 3CJCD 2IMQX 2DDRA 4CMNA 1WDUA 2A41B
chains in the Genus database with same CATH homology


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