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
5A78A 1M5XA 4YHXA 4D6OA 2VBNA 3FD2A 1JVAA 3MISA 4Z1ZA 3MX9A 2I3PA 2XE0B 2VBJB 4UN8G 2VBOB 1U0DA 4UN9G 3MXBB 1R7MA 4AQXA 3KO2A 3C0XA 4AAGA 4AAFA 1BP7A 4AAEA 2DCHX 3E54A 2VBLB 4Z1XA 5A0MB 1U0CA 5E67A 2VS8A 5AKNA 1B24A 1LWTA 4UT0A 4Z20A 4UNBA 1N3FA 4AABA 5AK9A 1N3EA 4AADA 1G9ZA 3MXAA 4UN7A 1MOWA 3UVFA 2FLDA 2VBNB 3R7PA 1AF5A 3HYJA 5A74A 1P8KZ 5AKMA 3HYIA 1DFAA 3QQYA 1T9IA 2EX5A 4EFJA 1UM2A 5E5OA 4LOXA 2VBOA 5A0WA 4UNCA 5A77A 3MXBA 4UNAA 5AKFA 1EF0A 2O7MA 3C0WA 4UN7G 5A72A 4AQUA 5E63A 2VBLA 2AB5A 2I3QA 5A0MA 2CW8A 1VDEA 3EH8A 2CW7A 4LQ0A 4YITA 1LWSA 2XE0A 3OORA 4UN8A 2VBJA 2VS7A 1G9YA 4D6NA 4YISA 4UN9A 1DQ3A 3OOLA 5E5SA 2QOJZ 1T9JA 3MIPA
chains in the Genus database with same CATH superfamily
5A78A 1M5XA 4YHXA 4D6OA 2VBNA 3FD2A 1JVAA 3MISA 4Z1ZA 3MX9A 2I3PA 2XE0B 2VBJB 4UN8G 2VBOB 1U0DA 4UN9G 3MXBB 1R7MA 4AQXA 3KO2A 3C0XA 4AAGA 4AAFA 4KZSA 1BP7A 4AAEA 2DCHX 3E54A 2VBLB 4Z1XA 5A0MB 1U0CA 5E67A 2VS8A 5AKNA 1B24A 1LWTA 4UT0A 4Z20A 4UNBA 1N3FA 4AABA 5AK9A 1N3EA 4AADA 1G9ZA 3MXAA 4UN7A 1MOWA 3UVFA 2FLDA 2VBNB 3R7PA 1AF5A 3HYJA 5A74A 1P8KZ 5AKMA 3HYIA 1DFAA 3QQYA 1T9IA 2EX5A 4EFJA 1UM2A 5E5OA 4LOXA 2VBOA 5A0WA 4UNCA 5A77A 3MXBA 4UNAA 5AKFA 1EF0A 2O7MA 3C0WA 4UN7G 5A72A 4AQUA 5E63A 2VBLA 2AB5A 2I3QA 5A0MA 2CW8A 1VDEA 3EH8A 2F4LA 2CW7A 4LQ0A 4YITA 1LWSA 2XE0A 3OORA 4UN8A 2VBJA 2VS7A 1G9YA 4D6NA 4YISA 4UN9A 1DQ3A 3OOLA 5E5SA 2QOJZ 1T9JA 3MIPA
chains in the Genus database with same CATH topology
5A78A 1M5XA 4YHXA 4D6OA 2VBNA 3FD2A 1JVAA 3MISA 4Z1ZA 3MX9A 2I3PA 2XE0B 2VBJB 4UN8G 2VBOB 1U0DA 4UN9G 3MXBB 1R7MA 4AQXA 3KO2A 3C0XA 4AAGA 4AAFA 1BP7A 4AAEA 2DCHX 3E54A 2VBLB 4Z1XA 5A0MB 1U0CA 5E67A 2VS8A 5AKNA 1B24A 1LWTA 4UT0A 4Z20A 4UNBA 1N3FA 4AABA 5AK9A 1N3EA 4AADA 1G9ZA 3MXAA 4UN7A 1MOWA 3UVFA 2FLDA 2VBNB 3R7PA 1AF5A 3HYJA 5A74A 1P8KZ 5AKMA 3HYIA 1DFAA 3QQYA 1T9IA 2EX5A 4EFJA 1UM2A 5E5OA 4LOXA 2VBOA 5A0WA 4UNCA 5A77A 3MXBA 4UNAA 5AKFA 1EF0A 2O7MA 3C0WA 4UN7G 5A72A 4AQUA 5E63A 2VBLA 2AB5A 2I3QA 5A0MA 2CW8A 1VDEA 3EH8A 2CW7A 4LQ0A 4YITA 1LWSA 2XE0A 3OORA 4UN8A 2VBJA 2VS7A 1G9YA 4D6NA 4YISA 4UN9A 1DQ3A 3OOLA 5E5SA 2QOJZ 1T9JA 3MIPA
chains in the Genus database with same CATH homology

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