2J63A

Crystal structure of ap endonuclease lmap from leishmania major
Total Genus 115
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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
115
sequence length
358
structure length
333
Chain Sequence
IRTAEALAALNAKKSEKEIWSDVVPFVRRTTDSDFDPSRMYKFITWNVAGLRGLLKKNASALRAFMEAEKPDVLCLQETKLNVDEADANATLGVVDGYSFVDHPCAFKRGYSGTRTYMKNSTTVKGLHARCTRGFALPSELVEGAGDEEGRVLTTFLSPDPDSSRIALVNTYVANSGMGLTRLPYRVQSFDPSMREYLHRLDTWATENAASSPHGFIWAGDLNVAERDYDRYYAGTFKSMQECSGFAPEERMSFRETMQRTNSVDIFRQLYPQAGPVYSFWSQRINGRPRNLGWRLDYFVVSSRLASYVVDCFPMPTVMGSDHCPFQMWMRHP
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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 Crystal Structure and DNA Repair Activities of the Ap Endonuclease from Leishmania Major.
pubmed doi rcsb
molecule tags Lyase
source organism Leishmania major
molecule keywords AP-ENDONUCLEASE
total genus 115
structure length 333
sequence length 358
chains with identical sequence B
ec nomenclature ec 4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
pdb deposition date 2006-09-25

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 2j63A00
3U8UA 2D1KB 3G38A 3GA6A 3NGOA 5HT2A 4GZ1A 1ATND 4GYZA 2EI9A 2A42B 2UYRX 2V0RA 3I5VA 2VOAA 4CMLA 3I41A 5DFFA 5INNA 3G3YA 2DDRA 1YJHA 4PUQA 4L20A 2O3CA 2F2FB 2A40B 3W2YA 4CMNA 4B5MA 5INLA 3MTCA 4F1HB 5J3SA 3MPRA 1VYBA 3TEBA 3G8VA 4RUWA 5DG0A 5EWTA 3N9VA 4B5HA 1I9YA 5J8NA 2IMQX 4B5IA 2F1NA 3W2XA 5CFGA 1HD7A 3NR8A 3CJCD 5DFJA 3G2DA 1SI6X 3W3DB 1E9NA 2J63A 4FPVA 4F1HA 5INOA 2DDTA 2XSWA 4A9CA 1DEWA 4F1RA 4F1IA 3I48A 3G3CA 5CFEA 4L1YA 4C1RA 3G1KA 1I9ZA 2O3HA 1NTFA 5DV2A 5J3ZA 1WDUA 2DNJA 1BIXA 3G91A 4B5FA 5J3PA 5INMA 3NGNA 3L1WA 2JC4A 4GZ2A 2JC5A 4L1ZA 4GZ0A 5DFHA 1Y21A 1SR4B 5INKA 5INPA 3G0AA 2A41B 3G00A 4B5GA 3WCXA 4K6LF 2V0SA 1DNKA 5A7IA 1ZWXA 3G2CA 1DE8A 3K55A 4FVAA 5INQA 3FZIA 4QHDA 3DNIA 4QHEA 5J42A 5DFIA 3G6SA 4AWNA 4B5JA 5A7JA 4JG3A 4QH9A 3G0RA 2A3ZB 2DDSA 2ISIA 4IEMA 1AKOA 1DE9A 3I46A 3G4TA 3NGQA 4LNDA 5DV4A 4L21A 4GEWA
chains in the Genus database with same CATH superfamily
3U8UA 2D1KB 3G38A 3GA6A 3NGOA 5HT2A 4GZ1A 1ATND 4GYZA 2EI9A 2A42B 2UYRX 2V0RA 3I5VA 2VOAA 4CMLA 3I41A 5DFFA 5INNA 3G3YA 2DDRA 1YJHA 4PUQA 4L20A 2O3CA 2F2FB 2A40B 3W2YA 4CMNA 4B5MA 5INLA 3MTCA 4F1HB 5J3SA 3MPRA 1VYBA 3TEBA 3G8VA 4RUWA 5DG0A 5EWTA 3N9VA 4B5HA 1I9YA 5J8NA 2IMQX 4B5IA 2F1NA 3W2XA 5CFGA 1HD7A 3NR8A 3CJCD 5DFJA 3G2DA 1SI6X 3W3DB 1E9NA 2J63A 4FPVA 4F1HA 5INOA 2DDTA 2XSWA 4A9CA 1DEWA 4F1RA 4F1IA 3I48A 3G3CA 5CFEA 4L1YA 4C1RA 3G1KA 1I9ZA 2O3HA 1NTFA 5DV2A 5J3ZA 1WDUA 2DNJA 1BIXA 3G91A 4B5FA 5J3PA 5INMA 3NGNA 3L1WA 2JC4A 4GZ2A 2JC5A 4L1ZA 4GZ0A 5DFHA 1Y21A 1SR4B 5INKA 5INPA 3G0AA 2A41B 3G00A 4B5GA 3WCXA 4K6LF 2V0SA 1DNKA 5A7IA 1ZWXA 3G2CA 1DE8A 3K55A 4FVAA 5INQA 3FZIA 4QHDA 3DNIA 4QHEA 5J42A 5DFIA 3G6SA 4AWNA 4B5JA 5A7JA 4JG3A 4QH9A 3G0RA 2A3ZB 2DDSA 2ISIA 4IEMA 1AKOA 1DE9A 3I46A 3G4TA 3NGQA 4LNDA 5DV4A 4L21A 4GEWA
chains in the Genus database with same CATH topology
3U8UA 2D1KB 3G38A 3GA6A 3NGOA 5HT2A 4GZ1A 1ATND 4GYZA 2EI9A 2A42B 2UYRX 2V0RA 3I5VA 2VOAA 4CMLA 3I41A 5DFFA 5INNA 3G3YA 2DDRA 1YJHA 4PUQA 4L20A 2O3CA 2F2FB 2A40B 3W2YA 4CMNA 4B5MA 5INLA 3MTCA 4F1HB 5J3SA 3MPRA 1VYBA 3TEBA 3G8VA 4RUWA 5DG0A 5EWTA 3N9VA 4B5HA 1I9YA 5J8NA 2IMQX 4B5IA 2F1NA 3W2XA 5CFGA 1HD7A 3NR8A 3CJCD 5DFJA 3G2DA 1SI6X 3W3DB 1E9NA 2J63A 4FPVA 4F1HA 5INOA 2DDTA 2XSWA 4A9CA 1DEWA 4F1RA 4F1IA 3I48A 3G3CA 5CFEA 4L1YA 4C1RA 3G1KA 1I9ZA 2O3HA 1NTFA 5DV2A 5J3ZA 1WDUA 2DNJA 1BIXA 3G91A 4B5FA 5J3PA 5INMA 3NGNA 3L1WA 2JC4A 4GZ2A 2JC5A 4L1ZA 4GZ0A 5DFHA 1Y21A 1SR4B 5INKA 5INPA 3G0AA 2A41B 3G00A 4B5GA 3WCXA 4K6LF 2V0SA 1DNKA 5A7IA 1ZWXA 3G2CA 1DE8A 3K55A 4FVAA 5INQA 3FZIA 4QHDA 3DNIA 4QHEA 5J42A 5DFIA 3G6SA 4AWNA 4B5JA 5A7JA 4JG3A 4QH9A 3G0RA 2A3ZB 2DDSA 2ISIA 4IEMA 1AKOA 1DE9A 3I46A 3G4TA 3NGQA 4LNDA 5DV4A 4L21A 4GEWA
chains in the Genus database with same CATH homology


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