2VOA | Genus

Total Genus 85

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

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Lyase
source organism	Archaeoglobus fulgidus
publication title	Structure and Function of the Abasic Site Specificity Pocket of an Ap Endonuclease from Archaeoglobus Fulgidus. pubmed doi rcsb
molecule keywords	EXODEOXYRIBONUCLEASE III
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	Class	Architecture	Topology	Homology	Domain
3.60.10.10	Alpha Beta	4-Layer Sandwich	Deoxyribonuclease I; Chain A	Endonuclease/exonuclease/phosphatase	2voaA00

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations