4YISA

Crystal structure of laglidadg meganuclease i-cpami bound to uncleaved dna
Total Genus 87
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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
87
sequence length
295
structure length
295
Chain Sequence
SFNPWFLTGFSDAECSFSILIQANSKYSTGWRIKPVFAIGLHKKDNELLKRIQSYLGVGKIHIHGKDSIQFRIDSPKELEVIINHFENYPLVTAKQADYTLFKKALDVIKNKEHLSQKGLLKLVGIKASLNLGLNGSLKEAFPNWEELQIDRPSYVNKGIPDPNWISGFASGDSSFNVKISNSPTSLLNKRVQLRFGIGLNIREKALIQYLVAYFDLSDNLKNIYFDLNSARFEVVKFSDITDKIIPFFDKYSIQGKKSQDYQNFKEVADIIKSKNHLTSEGFQEILDIKASMNK
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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.


  Genus data interpretation
Chord Diagram
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publication title Indirect DNA Sequence Recognition and Its Impact on Nuclease Cleavage Activity.
pubmed doi rcsb
molecule tags Hydrolase/dna
source organism Cryphonectria parasitica
molecule keywords Meganuclease I-CpaMI
total genus 87
structure length 295
sequence length 295
chains with identical sequence B
ec nomenclature
pdb deposition date 2015-03-02

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00961 LAGLIDADG_1 LAGLIDADG endonuclease
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 4yisA01
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 4yisA02
5E63A 4Z20A 3HYJA 2VBJB 3MXBA 5AK9A 3UVFA 4YITA 1AF5A 3MXAA 3OOLA 3MISA 1LWSA 1DQ3A 1UM2A 3FD2A 2VBOB 2VBJA 5E67A 2EX5A 4AAEA 3R7PA 1G9YA 4AQXA 4AQUA 4UN8G 2FLDA 3HYIA 5A78A 2VBOA 1T9JA 5A74A 5AKMA 2I3PA 3C0XA 5A0WA 2VS7A 4UNBA 3MX9A 5E5OA 5A77A 1LWTA 2CW8A 4Z1XA 5A72A 4UN9G 4D6NA 1MOWA 1JVAA 5E5SA 4UNAA 4UT0A 4Z1ZA 1VDEA 2VBLB 1U0DA 4UN8A 4AAFA 3QQYA 1M5XA 4UN7G 3C0WA 2VBLA 2VBNB 1T9IA 2O7MA 3EH8A 2VS8A 4UN9A 1N3FA 4AAGA 4AADA 2CW7A 2VBNA 2AB5A 4EFJA 3OORA 4UNCA 1R7MA 4UN7A 1BP7A 4YISA 2XE0B 3E54A 5AKNA 2DCHX 1U0CA 3KO2A 5A0MB 3MIPA 2XE0A 4LQ0A 5AKFA 1P8KZ 4AABA 1N3EA 1EF0A 3MXBB 1G9ZA 5A0MA 2QOJZ 2I3QA 1B24A 4LOXA 1DFAA 4D6OA 4YHXA
chains in the Genus database with same CATH superfamily
5E63A 4Z20A 3HYJA 2VBJB 3MXBA 5AK9A 3UVFA 4YITA 1AF5A 3MXAA 3OOLA 3MISA 1LWSA 1DQ3A 1UM2A 3FD2A 2VBOB 2VBJA 5E67A 2EX5A 4AAEA 3R7PA 1G9YA 4AQXA 4AQUA 4UN8G 2FLDA 3HYIA 5A78A 2VBOA 1T9JA 5A74A 5AKMA 2I3PA 3C0XA 5A0WA 2VS7A 4UNBA 3MX9A 5E5OA 5A77A 1LWTA 2CW8A 4Z1XA 5A72A 4UN9G 4D6NA 1MOWA 1JVAA 5E5SA 4UNAA 4UT0A 4Z1ZA 1VDEA 2VBLB 1U0DA 4UN8A 4AAFA 3QQYA 1M5XA 4UN7G 3C0WA 2VBLA 2F4LA 2VBNB 1T9IA 2O7MA 3EH8A 2VS8A 4UN9A 1N3FA 4AAGA 4AADA 2CW7A 2VBNA 2AB5A 4EFJA 3OORA 4UNCA 1R7MA 4UN7A 1BP7A 4YISA 2XE0B 3E54A 5AKNA 4KZSA 2DCHX 1U0CA 3KO2A 5A0MB 3MIPA 2XE0A 4LQ0A 5AKFA 1P8KZ 4AABA 1N3EA 1EF0A 3MXBB 1G9ZA 5A0MA 2QOJZ 2I3QA 1B24A 4LOXA 1DFAA 4D6OA 4YHXA
chains in the Genus database with same CATH topology
5E63A 4Z20A 3HYJA 2VBJB 3MXBA 5AK9A 3UVFA 4YITA 1AF5A 3MXAA 3OOLA 3MISA 1LWSA 1DQ3A 1UM2A 3FD2A 2VBOB 2VBJA 5E67A 2EX5A 4AAEA 3R7PA 1G9YA 4AQXA 4AQUA 4UN8G 2FLDA 3HYIA 5A78A 2VBOA 1T9JA 5A74A 5AKMA 2I3PA 3C0XA 5A0WA 2VS7A 4UNBA 3MX9A 5E5OA 5A77A 1LWTA 2CW8A 4Z1XA 5A72A 4UN9G 4D6NA 1MOWA 1JVAA 5E5SA 4UNAA 4UT0A 4Z1ZA 1VDEA 2VBLB 1U0DA 4UN8A 4AAFA 3QQYA 1M5XA 4UN7G 3C0WA 2VBLA 2VBNB 1T9IA 2O7MA 3EH8A 2VS8A 4UN9A 1N3FA 4AAGA 4AADA 2CW7A 2VBNA 2AB5A 4EFJA 3OORA 4UNCA 1R7MA 4UN7A 1BP7A 4YISA 2XE0B 3E54A 5AKNA 2DCHX 1U0CA 3KO2A 5A0MB 3MIPA 2XE0A 4LQ0A 5AKFA 1P8KZ 4AABA 1N3EA 1EF0A 3MXBB 1G9ZA 5A0MA 2QOJZ 2I3QA 1B24A 4LOXA 1DFAA 4D6OA 4YHXA
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 5E63 A;  4Z20 A;  3HYJ A;  2VBJ B;  3MXB A;  5AK9 A;  3UVF A;  4YIT A;  1AF5 A;  3MXA A;  3OOL A;  3MIS A;  1LWS A;  1DQ3 A;  1UM2 A;  3FD2 A;  2VBO B;  2VBJ A;  5E67 A;  2EX5 A;  4AAE A;  3R7P A;  1G9Y A;  4AQX A;  4AQU A;  4UN8 G;  2FLD A;  3HYI A;  5A78 A;  2VBO A;  1T9J A;  5A74 A;  5AKM A;  2I3P A;  3C0X A;  5A0W A;  2VS7 A;  4UNB A;  3MX9 A;  5E5O A;  5A77 A;  1LWT A;  2CW8 A;  4Z1X A;  5A72 A;  4UN9 G;  4D6N A;  1MOW A;  1JVA A;  5E5S A;  4UNA A;  4UT0 A;  4Z1Z A;  1VDE A;  2VBL B;  1U0D A;  4UN8 A;  4AAF A;  3QQY A;  1M5X A;  4UN7 G;  3C0W A;  2VBL A;  2VBN B;  1T9I A;  2O7M A;  3EH8 A;  2VS8 A;  4UN9 A;  1N3F A;  4AAG A;  4AAD A;  2CW7 A;  2VBN A;  2AB5 A;  4EFJ A;  3OOR A;  4UNC A;  1R7M A;  4UN7 A;  1BP7 A;  4YIS A;  2XE0 B;  3E54 A;  5AKN A;  2DCH X;  1U0C A;  3KO2 A;  5A0M B;  3MIP A;  2XE0 A;  4LQ0 A;  5AKF A;  1P8K Z;  4AAB A;  1N3E A;  1EF0 A;  3MXB B;  1G9Z A;  5A0M A;  2QOJ Z;  2I3Q A;  1B24 A;  4LOX A;  1DFA A;  4D6O A;  4YHX A; 
#chains in the Genus database with same CATH topology
 5E63 A;  4Z20 A;  3HYJ A;  2VBJ B;  3MXB A;  5AK9 A;  3UVF A;  4YIT A;  1AF5 A;  3MXA A;  3OOL A;  3MIS A;  1LWS A;  1DQ3 A;  1UM2 A;  3FD2 A;  2VBO B;  2VBJ A;  5E67 A;  2EX5 A;  4AAE A;  3R7P A;  1G9Y A;  4AQX A;  4AQU A;  4UN8 G;  2FLD A;  3HYI A;  5A78 A;  2VBO A;  1T9J A;  5A74 A;  5AKM A;  2I3P A;  3C0X A;  5A0W A;  2VS7 A;  4UNB A;  3MX9 A;  5E5O A;  5A77 A;  1LWT A;  2CW8 A;  4Z1X A;  5A72 A;  4UN9 G;  4D6N A;  1MOW A;  1JVA A;  5E5S A;  4UNA A;  4UT0 A;  4Z1Z A;  1VDE A;  2VBL B;  1U0D A;  4UN8 A;  4AAF A;  3QQY A;  1M5X A;  4UN7 G;  3C0W A;  2VBL A;  2F4L A;  2VBN B;  1T9I A;  2O7M A;  3EH8 A;  2VS8 A;  4UN9 A;  1N3F A;  4AAG A;  4AAD A;  2CW7 A;  2VBN A;  2AB5 A;  4EFJ A;  3OOR A;  4UNC A;  1R7M A;  4UN7 A;  1BP7 A;  4YIS A;  2XE0 B;  3E54 A;  5AKN A;  4KZS A;  2DCH X;  1U0C A;  3KO2 A;  5A0M B;  3MIP A;  2XE0 A;  4LQ0 A;  5AKF A;  1P8K Z;  4AAB A;  1N3E A;  1EF0 A;  3MXB B;  1G9Z A;  5A0M A;  2QOJ Z;  2I3Q A;  1B24 A;  4LOX A;  1DFA A;  4D6O A;  4YHX A; 
#chains in the Genus database with same CATH homology
 5E63 A;  4Z20 A;  3HYJ A;  2VBJ B;  3MXB A;  5AK9 A;  3UVF A;  4YIT A;  1AF5 A;  3MXA A;  3OOL A;  3MIS A;  1LWS A;  1DQ3 A;  1UM2 A;  3FD2 A;  2VBO B;  2VBJ A;  5E67 A;  2EX5 A;  4AAE A;  3R7P A;  1G9Y A;  4AQX A;  4AQU A;  4UN8 G;  2FLD A;  3HYI A;  5A78 A;  2VBO A;  1T9J A;  5A74 A;  5AKM A;  2I3P A;  3C0X A;  5A0W A;  2VS7 A;  4UNB A;  3MX9 A;  5E5O A;  5A77 A;  1LWT A;  2CW8 A;  4Z1X A;  5A72 A;  4UN9 G;  4D6N A;  1MOW A;  1JVA A;  5E5S A;  4UNA A;  4UT0 A;  4Z1Z A;  1VDE A;  2VBL B;  1U0D A;  4UN8 A;  4AAF A;  3QQY A;  1M5X A;  4UN7 G;  3C0W A;  2VBL A;  2VBN B;  1T9I A;  2O7M A;  3EH8 A;  2VS8 A;  4UN9 A;  1N3F A;  4AAG A;  4AAD A;  2CW7 A;  2VBN A;  2AB5 A;  4EFJ A;  3OOR A;  4UNC A;  1R7M A;  4UN7 A;  1BP7 A;  4YIS A;  2XE0 B;  3E54 A;  5AKN A;  2DCH X;  1U0C A;  3KO2 A;  5A0M B;  3MIP A;  2XE0 A;  4LQ0 A;  5AKF A;  1P8K Z;  4AAB A;  1N3E A;  1EF0 A;  3MXB B;  1G9Z A;  5A0M A;  2QOJ Z;  2I3Q A;  1B24 A;  4LOX A;  1DFA A;  4D6O A;  4YHX 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)

  
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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