2VOAA

Structure of an ap endonuclease from archaeoglobus fulgidus
Total Genus 85
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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
85
sequence length
257
structure length
256
Chain Sequence
MLKIATFNVNSIRSRLHIVIPWLKENKPDILCMQETKVENRKFPEADFHRIGYHVVFSGSKGRNGVAIASLEEPEDVSFGLDSEPKDEDRLIRAKIAGIDVINTYVPQGFKIDSEKYQYKLQWLERLYHYLQKTVDFRSFAVWCGDMNVAPEPIDVHSPDKLKNHVFHEDARRAYKKILELGFVDVLRKIHPNERIYTFYDYRVKGAIERGLGWRGDAILATPPLAERCVDCYADIKPRLAEKPSDHLPLVAVFDV
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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 Lyase
molecule keywords EXODEOXYRIBONUCLEASE III
publication title Structure and Function of the Abasic Site Specificity Pocket of an Ap Endonuclease from Archaeoglobus Fulgidus.
pubmed doi rcsb
source organism Archaeoglobus fulgidus
total genus 85
structure length 256
sequence length 257
chains with identical sequence B
ec nomenclature ec 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
pdb deposition date 2008-02-11

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 2voaA00
3MPRA 5DV4A 3G3YA 1ZWXA 4GZ2A 5INNA 4LNDA 4A9CA 4CMNA 3NR8A 5A7JA 4QHDA 2F2FB 1DE9A 4GYZA 5J3SA 3GA6A 4L1YA 5EWTA 4L1ZA 3I5VA 3MTCA 4K6LF 2J63A 1DE8A 5DFIA 2DDTA 4B5MA 4GEWA 3NGQA 3G38A 3G3CA 3G00A 2JC4A 2UYRX 2XSWA 5INOA 1HD7A 3I48A 3TEBA 3K55A 2V0RA 1DEWA 4QHEA 5HT2A 4GZ0A 2A41B 3DNIA 5J3PA 2EI9A 5J42A 3NGOA 2ISIA 5DFJA 3G8VA 4AWNA 2DDSA 5CFEA 4FPVA 5A7IA 4CMLA 3CJCD 4JG3A 2F1NA 3N9VA 1Y21A 3U8UA 3W2YA 2VOAA 4B5GA 4F1IA 2DDRA 4PUQA 2V0SA 1E9NA 1BIXA 4B5JA 5DV2A 1YJHA 2A40B 2DNJA 1NTFA 5INKA 4IEMA 5INPA 1SR4B 3L1WA 2A42B 3G6SA 1ATND 2A3ZB 5INLA 4C1RA 2IMQX 1DNKA 5J8NA 3NGNA 4GZ1A 4F1HB 4RUWA 4QH9A 1I9YA 1WDUA 2O3CA 3W2XA 3WCXA 4FVAA 1I9ZA 3G0RA 3G91A 3G2DA 1AKOA 5DFFA 5DG0A 2D1KB 2O3HA 3G1KA 3I46A 4B5IA 2JC5A 3FZIA 3G2CA 4L21A 4B5HA 1VYBA 3G4TA 5J3ZA 1SI6X 3G0AA 5INMA 5DFHA 4L20A 5INQA 4F1HA 3W3DB 3I41A 4F1RA 4B5FA 5CFGA
chains in the Genus database with same CATH superfamily
3MPRA 5DV4A 3G3YA 1ZWXA 4GZ2A 5INNA 4LNDA 4A9CA 4CMNA 3NR8A 5A7JA 4QHDA 2F2FB 1DE9A 4GYZA 5J3SA 3GA6A 4L1YA 5EWTA 4L1ZA 3I5VA 3MTCA 4K6LF 2J63A 1DE8A 5DFIA 2DDTA 4B5MA 4GEWA 3NGQA 3G38A 3G3CA 3G00A 2JC4A 2UYRX 2XSWA 5INOA 1HD7A 3I48A 3TEBA 3K55A 2V0RA 1DEWA 4QHEA 5HT2A 4GZ0A 2A41B 3DNIA 5J3PA 2EI9A 5J42A 3NGOA 2ISIA 5DFJA 3G8VA 4AWNA 2DDSA 5CFEA 4FPVA 5A7IA 4CMLA 3CJCD 4JG3A 2F1NA 3N9VA 1Y21A 3U8UA 3W2YA 2VOAA 4B5GA 4F1IA 2DDRA 4PUQA 2V0SA 1E9NA 1BIXA 4B5JA 5DV2A 1YJHA 2A40B 2DNJA 1NTFA 5INKA 4IEMA 5INPA 1SR4B 3L1WA 2A42B 3G6SA 1ATND 2A3ZB 5INLA 4C1RA 2IMQX 1DNKA 5J8NA 3NGNA 4GZ1A 4F1HB 4RUWA 4QH9A 1I9YA 1WDUA 2O3CA 3W2XA 3WCXA 4FVAA 1I9ZA 3G0RA 3G91A 3G2DA 1AKOA 5DFFA 5DG0A 2D1KB 2O3HA 3G1KA 3I46A 4B5IA 2JC5A 3FZIA 3G2CA 4L21A 4B5HA 1VYBA 3G4TA 5J3ZA 1SI6X 3G0AA 5INMA 5DFHA 4L20A 5INQA 4F1HA 3W3DB 3I41A 4F1RA 4B5FA 5CFGA
chains in the Genus database with same CATH topology
3MPRA 5DV4A 3G3YA 1ZWXA 4GZ2A 5INNA 4LNDA 4A9CA 4CMNA 3NR8A 5A7JA 4QHDA 2F2FB 1DE9A 4GYZA 5J3SA 3GA6A 4L1YA 5EWTA 4L1ZA 3I5VA 3MTCA 4K6LF 2J63A 1DE8A 5DFIA 2DDTA 4B5MA 4GEWA 3NGQA 3G38A 3G3CA 3G00A 2JC4A 2UYRX 2XSWA 5INOA 1HD7A 3I48A 3TEBA 3K55A 2V0RA 1DEWA 4QHEA 5HT2A 4GZ0A 2A41B 3DNIA 5J3PA 2EI9A 5J42A 3NGOA 2ISIA 5DFJA 3G8VA 4AWNA 2DDSA 5CFEA 4FPVA 5A7IA 4CMLA 3CJCD 4JG3A 2F1NA 3N9VA 1Y21A 3U8UA 3W2YA 2VOAA 4B5GA 4F1IA 2DDRA 4PUQA 2V0SA 1E9NA 1BIXA 4B5JA 5DV2A 1YJHA 2A40B 2DNJA 1NTFA 5INKA 4IEMA 5INPA 1SR4B 3L1WA 2A42B 3G6SA 1ATND 2A3ZB 5INLA 4C1RA 2IMQX 1DNKA 5J8NA 3NGNA 4GZ1A 4F1HB 4RUWA 4QH9A 1I9YA 1WDUA 2O3CA 3W2XA 3WCXA 4FVAA 1I9ZA 3G0RA 3G91A 3G2DA 1AKOA 5DFFA 5DG0A 2D1KB 2O3HA 3G1KA 3I46A 4B5IA 2JC5A 3FZIA 3G2CA 4L21A 4B5HA 1VYBA 3G4TA 5J3ZA 1SI6X 3G0AA 5INMA 5DFHA 4L20A 5INQA 4F1HA 3W3DB 3I41A 4F1RA 4B5FA 5CFGA
chains in the Genus database with same CATH homology


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