4B5GA

Substrate bound neisseria ap endonuclease in absence of metal ions (crystal form 2)
Total Genus 82
Loading diagram...

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
Loading diagram...

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


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...