5AKNA

The crystal structure of i-dmoi q42ak120m in complex with its target dna nicked in the non-coding strand b and in the presence of 2mm mn
Total Genus 54

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
54
sequence length
178
structure length
178
Chain Sequence
NVSGISAYLLGLIIGDGGLYKLKYKGNRSEYRVVITAKSENLIKQHIAPLMQFLIDELNVKSKIQIVKGDTRYELRVSSKKLYYYFANMLERIRLFNMREQIAFIKGLYVAEGDMTLKRLRIWNKNKALLEIVSRWLNNLGVRNTIHLDDHRHGVYVLNISLRDRIKFVHTILSSHLN

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
AH1 (6-21)AH3 (85-96)TIV1 (29-32)TI1 (74-77)TIV2 (30-33)S2 (34-42)S3 (69-73)AH2 (45-63)EMPTYS4 (78-83)AH4 (103-117)S5 (118-119)S8 (160-165)TI2 (119-122)TI3 (155-158)S6 (126-129)TVIII1 (122-125)TVIII2 (153-156)3H2 (167-169)AH5 (132-145)TI4 (156-159)AH6 (170-176)S1 (22-28)3H1 (98-100)S7 (149-155)Updating...
connected with : NaN
molecule tags Hydrolase/dna
source organism Desulfurococcus mobilis
publication title Engineering a Nickase on the Homing Endonuclease I-Dmoi Scaffold.
pubmed doi rcsb
molecule keywords HOMING ENDONUCLEASE I-DMOI
total genus 54
structure length 178
sequence length 178
chains with identical sequence F, K
ec nomenclature ec 3.1.-.-:
pdb deposition date 2015-03-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF14528 LAGLIDADG_3 LAGLIDADG-like domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 5aknA01
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 5aknA02
5A0MB 4Z20A 1JVAA 4YHXA 3EH8A 1T9IA 5A74A 2XE0A 3OOLA 2DCHX 3MIPA 2VBLA 4AQUA 2XE0B 4LOXA 1M5XA 4AADA 2VS7A 3UVFA 4LQ0A 5A0WA 1DFAA 2I3PA 4UN9A 2VBLB 1VDEA 1AF5A 2CW8A 2QOJZ 4EFJA 4UN8A 5AKMA 4D6NA 1N3FA 4YISA 1G9ZA 4Z1ZA 5E5OA 4UNAA 2VBJA 4UNBA 3HYJA 1MOWA 1LWTA 1U0DA 2FLDA 5AKNA 3MXAA 3HYIA 4AAEA 1T9JA 2VBJB 2O7MA 5E67A 1P8KZ 5A78A 3MXBA 4AAFA 4UN7A 3OORA 1DQ3A 5E63A 4UN9G 3MX9A 4AQXA 5AK9A 4UNCA 4AABA 3C0WA 4Z1XA 3QQYA 4D6OA 3MXBB 5A77A 5E5SA 2VBOA 3KO2A 5A72A 1BP7A 5AKFA 1EF0A 3C0XA 3E54A 2EX5A 2VBNA 2CW7A 2VBOB 1LWSA 1UM2A 1R7MA 1N3EA 4UT0A 1G9YA 2I3QA 4AAGA 2VBNB 4YITA 3MISA 3FD2A 5A0MA 2AB5A 1B24A 4UN7G 3R7PA 4UN8G 2VS8A 1U0CA
chains in the Genus database with same CATH superfamily
5A0MB 4Z20A 1JVAA 4YHXA 3EH8A 1T9IA 5A74A 2XE0A 3OOLA 4KZSA 2DCHX 3MIPA 2VBLA 2F4LA 4AQUA 2XE0B 4LOXA 1M5XA 4AADA 2VS7A 3UVFA 4LQ0A 5A0WA 1DFAA 2I3PA 4UN9A 2VBLB 1VDEA 1AF5A 2CW8A 2QOJZ 4EFJA 4UN8A 5AKMA 4D6NA 1N3FA 4YISA 1G9ZA 4Z1ZA 5E5OA 4UNAA 2VBJA 4UNBA 3HYJA 1MOWA 1LWTA 1U0DA 2FLDA 5AKNA 3MXAA 3HYIA 4AAEA 1T9JA 2VBJB 2O7MA 5E67A 1P8KZ 5A78A 3MXBA 4AAFA 4UN7A 3OORA 1DQ3A 5E63A 4UN9G 3MX9A 4AQXA 5AK9A 4UNCA 4AABA 3C0WA 4Z1XA 3QQYA 4D6OA 3MXBB 5A77A 5E5SA 2VBOA 3KO2A 5A72A 1BP7A 5AKFA 1EF0A 3C0XA 3E54A 2EX5A 2VBNA 2CW7A 2VBOB 1LWSA 1UM2A 1R7MA 1N3EA 4UT0A 1G9YA 2I3QA 4AAGA 2VBNB 4YITA 3MISA 3FD2A 5A0MA 2AB5A 1B24A 4UN7G 3R7PA 4UN8G 2VS8A 1U0CA
chains in the Genus database with same CATH topology
5A0MB 4Z20A 1JVAA 4YHXA 3EH8A 1T9IA 5A74A 2XE0A 3OOLA 2DCHX 3MIPA 2VBLA 4AQUA 2XE0B 4LOXA 1M5XA 4AADA 2VS7A 3UVFA 4LQ0A 5A0WA 1DFAA 2I3PA 4UN9A 2VBLB 1VDEA 1AF5A 2CW8A 2QOJZ 4EFJA 4UN8A 5AKMA 4D6NA 1N3FA 4YISA 1G9ZA 4Z1ZA 5E5OA 4UNAA 2VBJA 4UNBA 3HYJA 1MOWA 1LWTA 1U0DA 2FLDA 5AKNA 3MXAA 3HYIA 4AAEA 1T9JA 2VBJB 2O7MA 5E67A 1P8KZ 5A78A 3MXBA 4AAFA 4UN7A 3OORA 1DQ3A 5E63A 4UN9G 3MX9A 4AQXA 5AK9A 4UNCA 4AABA 3C0WA 4Z1XA 3QQYA 4D6OA 3MXBB 5A77A 5E5SA 2VBOA 3KO2A 5A72A 1BP7A 5AKFA 1EF0A 3C0XA 3E54A 2EX5A 2VBNA 2CW7A 2VBOB 1LWSA 1UM2A 1R7MA 1N3EA 4UT0A 1G9YA 2I3QA 4AAGA 2VBNB 4YITA 3MISA 3FD2A 5A0MA 2AB5A 1B24A 4UN7G 3R7PA 4UN8G 2VS8A 1U0CA
chains in the Genus database with same CATH homology


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