4B5GA

Substrate bound neisseria ap endonuclease in absence of metal ions (crystal form 2)
Total Genus 82
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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
82
sequence length
259
structure length
259
Chain Sequence
MLKIISANVNGIRSAYKKGFYEYIAASGADIVCVQELKAQEADLSADMKNPHGMHGHWHCAEKRGYSGVAVYSKRKPDNVQIGMGIEEFDREGRFVRCDFGRLSVISLYLPSGSSAEERQQVKYRFLDAFYPMLEAMKNEGRDIVVCGDWNIAHQNIDLKNWKGNQKNSGFLPEEREWIGKVIHKLGWTDMWRTLYPDVPGYTWWSNRGQAYAKDVGWRIDYQMVTPELAAKAVSAHVYKDEKFSDHAPLVVEYDYAAE
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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 EXODEOXYRIBONUCLEASE
publication title Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis.
pubmed doi rcsb
source organism Neisseria meningitidis
total genus 82
structure length 259
sequence length 259
chains with identical sequence B, C
ec nomenclature ec 3.1.11.2: Exodeoxyribonuclease III.
pdb deposition date 2012-08-03

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 4b5gA00
1BIXA 2A42B 4B5HA 4GZ2A 4F1IA 3G2DA 3I5VA 3I48A 5DV4A 3G2CA 5INMA 1Y21A 1DE9A 4FPVA 2ISIA 4B5MA 3WCXA 2DDTA 5J3PA 1WDUA 5INPA 4QHEA 4QHDA 1DEWA 2DNJA 2A3ZB 2V0SA 4F1RA 3W2XA 3G6SA 4AWNA 3NGQA 1SI6X 5DFJA 3G91A 3G0AA 5INKA 4CMNA 2EI9A 4RUWA 3G4TA 4GZ1A 5DFFA 5CFEA 4A9CA 2XSWA 3G38A 5DV2A 1YJHA 5J3SA 3W3DB 3TEBA 2JC4A 4L21A 4QH9A 3U8UA 3G3CA 4B5JA 5DG0A 1SR4B 1AKOA 1DNKA 4LNDA 4L1YA 4L1ZA 4GEWA 2O3HA 4B5GA 5J3ZA 5HT2A 2A41B 4B5IA 5INQA 3NR8A 4B5FA 2F2FB 5EWTA 3G0RA 3L1WA 1ATND 2J63A 4L20A 2D1KB 3MTCA 4F1HA 1HD7A 2V0RA 3CJCD 3G8VA 4JG3A 3G00A 3GA6A 3W2YA 4PUQA 5DFHA 2DDRA 3NGOA 2DDSA 1DE8A 3I46A 1I9YA 1ZWXA 5A7IA 4C1RA 4F1HB 1VYBA 4FVAA 3G3YA 4IEMA 2F1NA 2JC5A 5A7JA 2IMQX 5J42A 3N9VA 3DNIA 4GZ0A 3MPRA 1E9NA 2A40B 2O3CA 4GYZA 1I9ZA 4CMLA 5INOA 5INLA 2VOAA 3I41A 5CFGA 5J8NA 3G1KA 4K6LF 1NTFA 3NGNA 3FZIA 2UYRX 5DFIA 3K55A 5INNA
chains in the Genus database with same CATH superfamily
1BIXA 2A42B 4B5HA 4GZ2A 4F1IA 3G2DA 3I5VA 3I48A 5DV4A 3G2CA 5INMA 1Y21A 1DE9A 4FPVA 2ISIA 4B5MA 3WCXA 2DDTA 5J3PA 1WDUA 5INPA 4QHEA 4QHDA 1DEWA 2DNJA 2A3ZB 2V0SA 4F1RA 3W2XA 3G6SA 4AWNA 3NGQA 1SI6X 5DFJA 3G91A 3G0AA 5INKA 4CMNA 2EI9A 4RUWA 3G4TA 4GZ1A 5DFFA 5CFEA 4A9CA 2XSWA 3G38A 5DV2A 1YJHA 5J3SA 3W3DB 3TEBA 2JC4A 4L21A 4QH9A 3U8UA 3G3CA 4B5JA 5DG0A 1SR4B 1AKOA 1DNKA 4LNDA 4L1YA 4L1ZA 4GEWA 2O3HA 4B5GA 5J3ZA 5HT2A 2A41B 4B5IA 5INQA 3NR8A 4B5FA 2F2FB 5EWTA 3G0RA 3L1WA 1ATND 2J63A 4L20A 2D1KB 3MTCA 4F1HA 1HD7A 2V0RA 3CJCD 3G8VA 4JG3A 3G00A 3GA6A 3W2YA 4PUQA 5DFHA 2DDRA 3NGOA 2DDSA 1DE8A 3I46A 1I9YA 1ZWXA 5A7IA 4C1RA 4F1HB 1VYBA 4FVAA 3G3YA 4IEMA 2F1NA 2JC5A 5A7JA 2IMQX 5J42A 3N9VA 3DNIA 4GZ0A 3MPRA 1E9NA 2A40B 2O3CA 4GYZA 1I9ZA 4CMLA 5INOA 5INLA 2VOAA 3I41A 5CFGA 5J8NA 3G1KA 4K6LF 1NTFA 3NGNA 3FZIA 2UYRX 5DFIA 3K55A 5INNA
chains in the Genus database with same CATH topology
1BIXA 2A42B 4B5HA 4GZ2A 4F1IA 3G2DA 3I5VA 3I48A 5DV4A 3G2CA 5INMA 1Y21A 1DE9A 4FPVA 2ISIA 4B5MA 3WCXA 2DDTA 5J3PA 1WDUA 5INPA 4QHEA 4QHDA 1DEWA 2DNJA 2A3ZB 2V0SA 4F1RA 3W2XA 3G6SA 4AWNA 3NGQA 1SI6X 5DFJA 3G91A 3G0AA 5INKA 4CMNA 2EI9A 4RUWA 3G4TA 4GZ1A 5DFFA 5CFEA 4A9CA 2XSWA 3G38A 5DV2A 1YJHA 5J3SA 3W3DB 3TEBA 2JC4A 4L21A 4QH9A 3U8UA 3G3CA 4B5JA 5DG0A 1SR4B 1AKOA 1DNKA 4LNDA 4L1YA 4L1ZA 4GEWA 2O3HA 4B5GA 5J3ZA 5HT2A 2A41B 4B5IA 5INQA 3NR8A 4B5FA 2F2FB 5EWTA 3G0RA 3L1WA 1ATND 2J63A 4L20A 2D1KB 3MTCA 4F1HA 1HD7A 2V0RA 3CJCD 3G8VA 4JG3A 3G00A 3GA6A 3W2YA 4PUQA 5DFHA 2DDRA 3NGOA 2DDSA 1DE8A 3I46A 1I9YA 1ZWXA 5A7IA 4C1RA 4F1HB 1VYBA 4FVAA 3G3YA 4IEMA 2F1NA 2JC5A 5A7JA 2IMQX 5J42A 3N9VA 3DNIA 4GZ0A 3MPRA 1E9NA 2A40B 2O3CA 4GYZA 1I9ZA 4CMLA 5INOA 5INLA 2VOAA 3I41A 5CFGA 5J8NA 3G1KA 4K6LF 1NTFA 3NGNA 3FZIA 2UYRX 5DFIA 3K55A 5INNA
chains in the Genus database with same CATH homology


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