3C0XA

I-scei in complex with a top nicked dna substrate
Total Genus 67

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
67
sequence length
223
structure length
223
Chain Sequence
NIKKNQVMNLGPNSKLLKEYKSQLIELNIEQFEAGIGLILGDAYIRSRDEGKTYCMQFEWKNKAYMDHVCLLYDQWVLSPPHKKERVNHLGNLVITWGAQTFKHQAFNKLANLFIVNNKKTIPNNLVENYLTPMSLAYWFMDDGGKWDYNKNSTNKSIVLNTQSFTFEEVEYLVKGLRNKFQLNCYVKINKNKPIIYIDSMSYLIFYNLIKPYLIPQMMYKLP

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 (17-25)EMPTY3H2 (76-78)3H1 (6-8)TIV1 (9-12)TI1 (13-16)AH3 (65-75)AH2 (31-42)AH5 (127-132)S2 (56-62)S1 (46-48)TVIII1 (53-56)TIV2 (49-52)TIV3 (51-54)S4 (95-106)S3 (84-89)AH6 (135-145)AH4 (110-115)S6 (121-122)TIV4 (117-120)S8 (160-163)3H5 (218-223)S7 (146-148)TII1 (152-155)S10 (195-200)TI3 (164-167)TIV6 (191-194)S9 (187-192)3H4 (202-204)AH8 (205-213)TI4 (213-216)3H3 (107-109)TI2 (90-93)AH7 (169-183)TVIII2 (148-151)Updating...
connected with : NaN
molecule tags Hydrolase/dna
source organism Saccharomyces cerevisiae
publication title Crystal structures of I-SceI complexed to nicked DNA substrates: snapshots of intermediates along the DNA cleavage reaction pathway.
pubmed doi rcsb
molecule keywords DNA (5'-D(*DC*DAP*DCP*DGP*DCP*DTP*DAP*DGP*DGP*DGP*DAP*DTP*DA
total genus 67
structure length 223
sequence length 223
ec nomenclature ec 3.1.-.-:
pdb deposition date 2008-01-21

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03161 LAGLIDADG_2 LAGLIDADG DNA endonuclease family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 3c0xA01
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 3c0xA02
3R7PA 2I3QA 5A0MB 1MOWA 3C0XA 4LQ0A 1M5XA 3HYJA 4UNAA 3EH8A 2EX5A 5A78A 5AKNA 4UN8G 1N3EA 1DFAA 1UM2A 1T9JA 1P8KZ 2VBOA 1AF5A 4UN8A 2VBLA 2QOJZ 5E63A 4UN9A 5AKFA 2VBLB 2XE0A 5E67A 3OOLA 4UN7G 3MXAA 4AAFA 2CW8A 3QQYA 5E5SA 1DQ3A 2FLDA 3C0WA 4UN7A 4Z1XA 4AADA 1EF0A 1LWTA 1R7MA 5A0WA 4Z1ZA 1B24A 5AK9A 1LWSA 1T9IA 2CW7A 4LOXA 2VBOB 3MIPA 3MXBA 3OORA 2O7MA 4AAGA 3E54A 4Z20A 5A72A 3KO2A 1G9ZA 3MX9A 2XE0B 4UNCA 4D6NA 1N3FA 2DCHX 5A0MA 4AABA 4UNBA 4AQXA 1G9YA 3UVFA 2I3PA 4YITA 4YISA 3MISA 2VS8A 4EFJA 3HYIA 2VBNA 4YHXA 3MXBB 4AQUA 1JVAA 2VBNB 4AAEA 1BP7A 4UT0A 5E5OA 2VBJA 5A74A 4UN9G 4D6OA 1U0DA 5A77A 2VS7A 2AB5A 2VBJB 1VDEA 5AKMA 3FD2A 1U0CA
chains in the Genus database with same CATH superfamily
3R7PA 2I3QA 5A0MB 1MOWA 3C0XA 4LQ0A 1M5XA 3HYJA 2F4LA 4UNAA 3EH8A 2EX5A 5A78A 5AKNA 4UN8G 1N3EA 1DFAA 1UM2A 1T9JA 1P8KZ 2VBOA 1AF5A 4UN8A 2VBLA 2QOJZ 5E63A 4KZSA 4UN9A 5AKFA 2VBLB 2XE0A 5E67A 3OOLA 4UN7G 3MXAA 4AAFA 2CW8A 3QQYA 5E5SA 1DQ3A 2FLDA 3C0WA 4UN7A 4Z1XA 4AADA 1EF0A 1LWTA 1R7MA 5A0WA 4Z1ZA 1B24A 5AK9A 1LWSA 1T9IA 2CW7A 4LOXA 2VBOB 3MIPA 3MXBA 3OORA 2O7MA 4AAGA 3E54A 4Z20A 5A72A 3KO2A 1G9ZA 3MX9A 2XE0B 4UNCA 4D6NA 1N3FA 2DCHX 5A0MA 4AABA 4UNBA 4AQXA 1G9YA 3UVFA 2I3PA 4YITA 4YISA 3MISA 2VS8A 4EFJA 3HYIA 2VBNA 4YHXA 3MXBB 4AQUA 1JVAA 2VBNB 4AAEA 1BP7A 4UT0A 5E5OA 2VBJA 5A74A 4UN9G 4D6OA 1U0DA 5A77A 2VS7A 2AB5A 2VBJB 1VDEA 5AKMA 3FD2A 1U0CA
chains in the Genus database with same CATH topology
3R7PA 2I3QA 5A0MB 1MOWA 3C0XA 4LQ0A 1M5XA 3HYJA 4UNAA 3EH8A 2EX5A 5A78A 5AKNA 4UN8G 1N3EA 1DFAA 1UM2A 1T9JA 1P8KZ 2VBOA 1AF5A 4UN8A 2VBLA 2QOJZ 5E63A 4UN9A 5AKFA 2VBLB 2XE0A 5E67A 3OOLA 4UN7G 3MXAA 4AAFA 2CW8A 3QQYA 5E5SA 1DQ3A 2FLDA 3C0WA 4UN7A 4Z1XA 4AADA 1EF0A 1LWTA 1R7MA 5A0WA 4Z1ZA 1B24A 5AK9A 1LWSA 1T9IA 2CW7A 4LOXA 2VBOB 3MIPA 3MXBA 3OORA 2O7MA 4AAGA 3E54A 4Z20A 5A72A 3KO2A 1G9ZA 3MX9A 2XE0B 4UNCA 4D6NA 1N3FA 2DCHX 5A0MA 4AABA 4UNBA 4AQXA 1G9YA 3UVFA 2I3PA 4YITA 4YISA 3MISA 2VS8A 4EFJA 3HYIA 2VBNA 4YHXA 3MXBB 4AQUA 1JVAA 2VBNB 4AAEA 1BP7A 4UT0A 5E5OA 2VBJA 5A74A 4UN9G 4D6OA 1U0DA 5A77A 2VS7A 2AB5A 2VBJB 1VDEA 5AKMA 3FD2A 1U0CA
chains in the Genus database with same CATH homology


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