3FD2A

Crystal structure of mmsoi/dna complex with calcium
Total Genus 104
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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
104
sequence length
366
structure length
338
Chain Sequence
NTLQPTEAAYIAGFLDGDGSIYAKLIPRPDYKDIKYQVSLAISFIQRKDKFPYLQDIYDQLGKRGNLRKDRGDGIADYTIIGSTHLSIILPDLVPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADELKSTNYDRLLEEFLKAGKIESSPTGSGSGSKKNTLQPTEAAYIAGFLDGDGSIYAKLIPRPDYKDIKYQVSLAISFIQRKDKFPYLQDIYDQLGKRGNLRKDRGDGIADYTIIGSTHLSIILPDLVPYLRIKKKQANRILHIINLYPQAQKNPSKFLDLVKIVDDVQNLNKRADELKSTNYDRLLEEFLKAGKIE
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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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publication title Generation of single-chain LAGLIDADG homing endonucleases from native homodimeric precursor proteins.
pubmed doi rcsb
molecule tags Hydrolase/dna
source organism Monomastix sp. (strain oke-1)
molecule keywords Site-specific DNA endonuclease I-MsoI
total genus 104
structure length 338
sequence length 366
ec nomenclature ec 3.1.-.-:
pdb deposition date 2008-11-24

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 3fd2A02
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 3fd2A01
3FD2A 4Z1XA 2XE0B 2FLDA 5AKNA 1B24A 4UN8G 4AQXA 4UNAA 2AB5A 3MXAA 4UT0A 1MOWA 2VBJA 4AAGA 5A74A 1G9YA 4UN9A 2CW7A 4AADA 4UNBA 1LWTA 2EX5A 1P8KZ 2VBOB 4UNCA 1U0CA 5A77A 3MXBA 3KO2A 3C0WA 5A0MA 4UN7G 1BP7A 4YISA 3HYIA 2VBJB 2VS8A 4AQUA 1T9JA 2VBLB 1VDEA 5A72A 1N3EA 3R7PA 3EH8A 1UM2A 5A0WA 5E67A 4UN8A 1M5XA 1AF5A 5AK9A 3MXBB 3E54A 5A0MB 3QQYA 5AKMA 1G9ZA 3MIPA 1T9IA 4YHXA 5E63A 1EF0A 4Z1ZA 4LQ0A 4AABA 3OOLA 5A78A 4UN9G 2VBNA 5E5SA 2CW8A 2QOJZ 3MISA 2I3PA 3OORA 4Z20A 2XE0A 2O7MA 4AAFA 1N3FA 4UN7A 4YITA 2I3QA 3HYJA 2DCHX 1DFAA 1DQ3A 5E5OA 4D6NA 1R7MA 3MX9A 4LOXA 2VBLA 1JVAA 4EFJA 4D6OA 1LWSA 3C0XA 2VBNB 3UVFA 4AAEA 2VBOA 5AKFA 2VS7A 1U0DA
chains in the Genus database with same CATH superfamily
3FD2A 4Z1XA 2XE0B 2FLDA 5AKNA 1B24A 4UN8G 4AQXA 4UNAA 2AB5A 3MXAA 4UT0A 1MOWA 4KZSA 2VBJA 4AAGA 5A74A 1G9YA 4UN9A 2CW7A 4AADA 4UNBA 1LWTA 2EX5A 1P8KZ 2VBOB 4UNCA 1U0CA 5A77A 3MXBA 3KO2A 3C0WA 5A0MA 4UN7G 1BP7A 4YISA 3HYIA 2VBJB 2VS8A 4AQUA 1T9JA 2VBLB 1VDEA 5A72A 1N3EA 3R7PA 3EH8A 1UM2A 5A0WA 5E67A 4UN8A 1M5XA 1AF5A 5AK9A 3MXBB 3E54A 5A0MB 3QQYA 5AKMA 1G9ZA 3MIPA 1T9IA 4YHXA 5E63A 1EF0A 4Z1ZA 4LQ0A 4AABA 3OOLA 5A78A 4UN9G 2VBNA 5E5SA 2CW8A 2QOJZ 3MISA 2I3PA 3OORA 4Z20A 2XE0A 2O7MA 4AAFA 1N3FA 4UN7A 4YITA 2I3QA 3HYJA 2DCHX 1DFAA 1DQ3A 5E5OA 4D6NA 1R7MA 3MX9A 4LOXA 2VBLA 1JVAA 4EFJA 4D6OA 1LWSA 3C0XA 2VBNB 3UVFA 4AAEA 2VBOA 5AKFA 2VS7A 2F4LA 1U0DA
chains in the Genus database with same CATH topology
3FD2A 4Z1XA 2XE0B 2FLDA 5AKNA 1B24A 4UN8G 4AQXA 4UNAA 2AB5A 3MXAA 4UT0A 1MOWA 2VBJA 4AAGA 5A74A 1G9YA 4UN9A 2CW7A 4AADA 4UNBA 1LWTA 2EX5A 1P8KZ 2VBOB 4UNCA 1U0CA 5A77A 3MXBA 3KO2A 3C0WA 5A0MA 4UN7G 1BP7A 4YISA 3HYIA 2VBJB 2VS8A 4AQUA 1T9JA 2VBLB 1VDEA 5A72A 1N3EA 3R7PA 3EH8A 1UM2A 5A0WA 5E67A 4UN8A 1M5XA 1AF5A 5AK9A 3MXBB 3E54A 5A0MB 3QQYA 5AKMA 1G9ZA 3MIPA 1T9IA 4YHXA 5E63A 1EF0A 4Z1ZA 4LQ0A 4AABA 3OOLA 5A78A 4UN9G 2VBNA 5E5SA 2CW8A 2QOJZ 3MISA 2I3PA 3OORA 4Z20A 2XE0A 2O7MA 4AAFA 1N3FA 4UN7A 4YITA 2I3QA 3HYJA 2DCHX 1DFAA 1DQ3A 5E5OA 4D6NA 1R7MA 3MX9A 4LOXA 2VBLA 1JVAA 4EFJA 4D6OA 1LWSA 3C0XA 2VBNB 3UVFA 4AAEA 2VBOA 5AKFA 2VS7A 1U0DA
chains in the Genus database with same CATH homology


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