5AKMA

The crystal structure of i-dmoi g20s in complex with its target dna in the presence of 2mm mg
Total Genus 56

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
56
sequence length
183
structure length
183
Chain Sequence
ENVSGISAYLLGLIISDGGLYKLKYKGNRSEYRVVITQKSENLIKQHIAPLMQFLIDELNVKSKIQIVKGDTRYELRVSSKKLYYYFANMLERIRLFNMREQIAFIKGLYVAEGDKTLKRLRIWNKNKALLEIVSRWLNNLGVRNTIHLDDHRHGVYVLNISLRDRIKFVHTILSSHLNPLPP

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 (7-21)AH4 (85-97)TIV2 (30-33)TIV1 (29-32)S2 (34-42)S4 (78-83)AH2 (45-49)EMPTYAH3 (51-63)S3 (69-73)TI1 (74-77)3H1 (98-100)TI4 (177-180)AH5 (103-117)AH7 (170-177)TVIII1 (122-125)TI2 (119-122)S7 (160-165)TIV3 (156-159)S6 (149-155)S5 (126-129)TI3 (155-158)3H2 (167-169)AH6 (132-145)TVIII2 (129-132)TVIII3 (153-156)S1 (22-28)Updating...
connected with : NaN
molecule tags Hydrolase
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 56
structure length 183
sequence length 183
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 5akmA01
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 5akmA02
2VBLB 2XE0B 2VS7A 5E67A 3R7PA 4UN8G 1T9IA 5AKMA 5AK9A 1U0DA 3C0WA 3MIPA 5AKFA 4Z1XA 4Z1ZA 4AABA 2FLDA 3MXBA 5A0MA 4UN7A 1JVAA 1G9YA 2VBOA 3MXAA 2I3QA 4EFJA 1N3EA 3MXBB 5A0MB 3MX9A 3OORA 1T9JA 4AAEA 5A0WA 4UT0A 4Z20A 4UN9A 2VS8A 2VBOB 5A77A 1BP7A 3OOLA 1VDEA 1U0CA 4YITA 2VBJA 4UNAA 4AQXA 1N3FA 1M5XA 4LQ0A 3KO2A 3UVFA 3MISA 4D6OA 2I3PA 5A78A 1LWTA 2AB5A 3C0XA 2VBJB 2DCHX 4D6NA 4UN7G 4AAGA 1LWSA 1EF0A 5A72A 2QOJZ 1G9ZA 4UN8A 3QQYA 3EH8A 5E63A 2O7MA 5A74A 2CW8A 4YISA 4AQUA 1R7MA 1B24A 1P8KZ 5AKNA 4UN9G 4AAFA 1MOWA 3E54A 2EX5A 4AADA 1UM2A 1AF5A 2VBNA 2VBLA 3HYIA 2XE0A 5E5OA 3FD2A 1DQ3A 1DFAA 4LOXA 2CW7A 3HYJA 4UNCA 5E5SA 4YHXA 2VBNB 4UNBA
chains in the Genus database with same CATH superfamily
2VBLB 2XE0B 2VS7A 5E67A 4KZSA 3R7PA 4UN8G 1T9IA 5AKMA 5AK9A 1U0DA 3C0WA 3MIPA 5AKFA 4Z1XA 4Z1ZA 4AABA 2FLDA 3MXBA 5A0MA 4UN7A 1JVAA 1G9YA 2VBOA 3MXAA 2I3QA 4EFJA 1N3EA 3MXBB 5A0MB 3MX9A 3OORA 1T9JA 4AAEA 5A0WA 4UT0A 4Z20A 4UN9A 2VS8A 2VBOB 5A77A 1BP7A 3OOLA 1VDEA 2F4LA 1U0CA 4YITA 2VBJA 4UNAA 4AQXA 1N3FA 1M5XA 4LQ0A 3KO2A 3UVFA 3MISA 4D6OA 2I3PA 5A78A 1LWTA 2AB5A 3C0XA 2VBJB 2DCHX 4D6NA 4UN7G 4AAGA 1LWSA 1EF0A 5A72A 2QOJZ 1G9ZA 4UN8A 3QQYA 3EH8A 5E63A 2O7MA 5A74A 2CW8A 4YISA 4AQUA 1R7MA 1B24A 1P8KZ 5AKNA 4UN9G 4AAFA 1MOWA 3E54A 2EX5A 4AADA 1UM2A 1AF5A 2VBNA 2VBLA 3HYIA 2XE0A 5E5OA 3FD2A 1DQ3A 1DFAA 4LOXA 2CW7A 3HYJA 4UNCA 5E5SA 4YHXA 2VBNB 4UNBA
chains in the Genus database with same CATH topology
2VBLB 2XE0B 2VS7A 5E67A 3R7PA 4UN8G 1T9IA 5AKMA 5AK9A 1U0DA 3C0WA 3MIPA 5AKFA 4Z1XA 4Z1ZA 4AABA 2FLDA 3MXBA 5A0MA 4UN7A 1JVAA 1G9YA 2VBOA 3MXAA 2I3QA 4EFJA 1N3EA 3MXBB 5A0MB 3MX9A 3OORA 1T9JA 4AAEA 5A0WA 4UT0A 4Z20A 4UN9A 2VS8A 2VBOB 5A77A 1BP7A 3OOLA 1VDEA 1U0CA 4YITA 2VBJA 4UNAA 4AQXA 1N3FA 1M5XA 4LQ0A 3KO2A 3UVFA 3MISA 4D6OA 2I3PA 5A78A 1LWTA 2AB5A 3C0XA 2VBJB 2DCHX 4D6NA 4UN7G 4AAGA 1LWSA 1EF0A 5A72A 2QOJZ 1G9ZA 4UN8A 3QQYA 3EH8A 5E63A 2O7MA 5A74A 2CW8A 4YISA 4AQUA 1R7MA 1B24A 1P8KZ 5AKNA 4UN9G 4AAFA 1MOWA 3E54A 2EX5A 4AADA 1UM2A 1AF5A 2VBNA 2VBLA 3HYIA 2XE0A 5E5OA 3FD2A 1DQ3A 1DFAA 4LOXA 2CW7A 3HYJA 4UNCA 5E5SA 4YHXA 2VBNB 4UNBA
chains in the Genus database with same CATH homology


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