1VDEA

Pi-scei, a homing endonuclease with protein splicing activity
Total Genus 115
50100150200250300350400020406080100120
Genus TraceResidueGenus

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
115
sequence length
454
structure length
429
Chain Sequence
CFAKGTNVLMADGSIECIENIEVGNKVMGKDGRPREVIKLPRGRETMYSVVQKSQHRAHKSDSSREVPELLKFTCNATHELVVRTPRSVRRLEVITFEMGQKKAPDGRIVELVKEVSKSYPISEGPERANELVESYRKASNKAYFEWTIEARDLSLLGSHVRKATYQTYAPILYENDHFFDYMQKSKFHLTIEGPKVLAYLLGLWIGDGLSDRATFSVDSRDTSLMERVTEYAEKLNLCAEYKDRKEPQVAKTVNLYSKVLNTENPLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNAEPATKHKISYAIYMSGGDVLLNVLSKCAGSKKFRPAPAAAFARECRGFYFELQELKEDDYYGITLSDDSDHQFLLANQVVVHN
Loading diagram...

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
EMPTYS6 (72-76)TII1 (3-6)S1 (7-9)S24 (421-432)S3 (25-28)TI1 (10-13)3H1 (18-20)S2 (15-17)TII2 (22-25)S4 (34-39)TI2 (29-32)S5 (42-52)TIV12 (401-404)TI3 (76-79)TIV1 (59-62)S19 (327-330)TIV5 (134-137)AH1 (138-149)S8 (88-90)TIV2 (91-104)S9 (104-113)S11 (154-160)TIV3 (114-117)TIV4 (131-134)3H2 (161-166)AH9 (388-396)AH2 (169-174)S17 (296-297)3H3 (305-309)AH4 (203-218)TIV7 (255-258)S16 (261-268)AH5 (233-246)S13 (219-220)TIV6 (220-223)S15 (248-254)TIV11 (368-377)O1 (223-225)S14 (225-229)TIV8 (257-260)AH7 (312-326)TII3 (281-284)AH6 (285-293)S20 (336-341)TVIII1 (294-297)S18 (300-301)S21 (360-366)TIV10 (331-334)S22 (380-386)TI5 (400-403)AH8 (344-357)S7 (80-86)S10 (119-128)S12 (177-179)AH3 (188-195)TIV9 (296-299)S23 (417-419)TI4 (229-232)Updating...
connected with : NaN
molecule tags Endonuclease
source organism Saccharomyces cerevisiae
publication title Crystal structure of PI-SceI, a homing endonuclease with protein splicing activity.
pubmed doi rcsb
molecule keywords PI-SCEI
total genus 115
structure length 429
sequence length 454
chains with identical sequence B
ec nomenclature ec 7.1.2.2: H(+)-transporting two-sector ATPase.
pdb deposition date 1997-04-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF05203 Hom_end_hint Hom_end-associated Hint
A PF05204 Hom_end Homing endonuclease
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.170.16.10 Mainly Beta Beta Complex Endonuclease - Pi-scei; Chain A, domain 1 Hedgehog/Intein (Hint) domain 1vdeA01
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 1vdeA02
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 1vdeA03
1AT0A 4Z1XA 2VBOA 5E5SA 5AKMA 2AB5A 5AKNA 3C0WA 3OORA 1T9JA 3NZMA 1U0DA 5A0MB 2VBJB 5A78A 1LWSA 5E63A 3MIPA 5A0MA 3E54A 1ZDEA 4UN8G 2VBJA 3IGDA 3HYIA 1G9ZA 2JMZA 4OZ6A 5K08A 2IN9A 4UN9G 3IFJA 4E2UA 4KL6A 4Z20A 1AF5A 2I3PA 1MOWA 2L8LA 1B24A 5E67A 2VBNB 1GPPA 2XE0B 4AABA 4AQUA 4O1RA 4YISA 2LWYA 2I3QA 4LOXA 4D6OA 3OOLA 2VBNA 2XE0A 5A74A 2QOJZ 3MX9A 3FD2A 4AAGA 4O1SA 4AQXA 2CW8A 4AAFA 3UVFA 4AADA 1AM2A 1M5XA 4UNCA 3HYJA 3MISA 3R7PA 4AAEA 3QQYA 5E5OA 1DQ3A 5A72A 1N3EA 2IN8A 4YITA 1JVAA 2LQMA 1DFAA 4UN7A 1BP7A 1ZD7A 1T9IA 4EFJA 2LCJA 5A77A 2KEQA 2VBLB 5AKFA 1LWTA 3MXBB 4KL5A 1N3FA 2EX5A 3C0XA 2IMZA 2VBLA 3MXBA 4Z1ZA 4UNBA 1MI8A 2DCHX 2IN0A 1G9YA 1UM2A 5A0WA 4E2TA 4D6NA 5AK9A 4UN8A 2FLDA 3MXAA 3KO2A 2CW7A 2VS7A 4LQ0A 1EF0A 2O7MA 1U0CA 1R7MA 4YHXA 2VS8A 4GIGA 3EH8A 4UN9A 2JNQA 1VDEA 5I0AA 4UT0A 4UN7G 2VBOB 4UNAA 1P8KZ
chains in the Genus database with same CATH superfamily
1AT0A 2F4LA 4Z1XA 5E5SA 2VBOA 5AKMA 2AB5A 5AKNA 3C0WA 3OORA 1T9JA 3NZMA 1U0DA 5A0MB 2VBJB 5A78A 1LWSA 5E63A 3MIPA 5A0MA 3E54A 1ZDEA 4UN8G 2VBJA 3IGDA 3HYIA 4LX3A 4KZSA 4QFQA 1G9ZA 2JMZA 4OZ6A 5K08A 2IN9A 4UN9G 3IFJA 4E2UA 4KL6A 4Z20A 1AF5A 2I3PA 1MOWA 2L8LA 1B24A 5E67A 2VBNB 1GPPA 2XE0B 4AABA 4AQUA 4O1RA 4YISA 2LWYA 2I3QA 4LOXA 4D6OA 3OOLA 2VBNA 2XE0A 5A74A 2QOJZ 3MX9A 3FD2A 4AAGA 4O1SA 4AQXA 2CW8A 4AAFA 3UVFA 4AADA 1AM2A 1M5XA 4UNCA 3HYJA 3MISA 3R7PA 4AAEA 3QQYA 5E5OA 1DQ3A 5A72A 1N3EA 2IN8A 4YITA 1JVAA 2LQMA 1DFAA 4UN7A 1BP7A 1ZD7A 1T9IA 4EFJA 2LCJA 5A77A 2KEQA 2VBLB 5AKFA 1LWTA 3MXBB 4KL5A 1N3FA 2EX5A 3C0XA 2IMZA 2VBLA 3MXBA 4Z1ZA 4UNBA 1MI8A 2DCHX 2IN0A 1G9YA 1UM2A 5A0WA 4E2TA 4D6NA 5AK9A 4UN8A 2FLDA 3MXAA 3KO2A 2CW7A 2VS7A 4LQ0A 1EF0A 2O7MA 1U0CA 1R7MA 4YHXA 2VS8A 4GIGA 3EH8A 4UN9A 2JNQA 1VDEA 5I0AA 4UT0A 4UN7G 2VBOB 4UNAA 1P8KZ
chains in the Genus database with same CATH topology
1AT0A 4Z1XA 2VBOA 5E5SA 5AKMA 2AB5A 5AKNA 3C0WA 3OORA 1T9JA 3NZMA 1U0DA 5A0MB 2VBJB 5A78A 1LWSA 5E63A 3MIPA 5A0MA 3E54A 1ZDEA 4UN8G 2VBJA 3IGDA 3HYIA 1G9ZA 2JMZA 4OZ6A 5K08A 2IN9A 4UN9G 3IFJA 4E2UA 4KL6A 4Z20A 1AF5A 2I3PA 1MOWA 2L8LA 1B24A 5E67A 2VBNB 1GPPA 2XE0B 4AABA 4AQUA 4O1RA 4YISA 2LWYA 2I3QA 4LOXA 4D6OA 3OOLA 2VBNA 2XE0A 5A74A 2QOJZ 3MX9A 3FD2A 4AAGA 4O1SA 4AQXA 2CW8A 4AAFA 3UVFA 4AADA 1AM2A 1M5XA 4UNCA 3HYJA 3MISA 3R7PA 4AAEA 3QQYA 5E5OA 1DQ3A 5A72A 1N3EA 2IN8A 4YITA 1JVAA 2LQMA 1DFAA 4UN7A 1BP7A 1ZD7A 1T9IA 4EFJA 2LCJA 5A77A 2KEQA 2VBLB 5AKFA 1LWTA 3MXBB 4KL5A 1N3FA 2EX5A 3C0XA 2IMZA 2VBLA 3MXBA 4Z1ZA 4UNBA 1MI8A 2DCHX 2IN0A 1G9YA 1UM2A 5A0WA 4E2TA 4D6NA 5AK9A 4UN8A 2FLDA 3MXAA 3KO2A 2CW7A 2VS7A 4LQ0A 1EF0A 2O7MA 1U0CA 1R7MA 4YHXA 2VS8A 4GIGA 3EH8A 4UN9A 2JNQA 1VDEA 5I0AA 4UT0A 4UN7G 2VBOB 4UNAA 1P8KZ
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1AT0 A;  4Z1X A;  2VBO A;  5E5S A;  5AKM A;  2AB5 A;  5AKN A;  3C0W A;  3OOR A;  1T9J A;  3NZM A;  1U0D A;  5A0M B;  2VBJ B;  5A78 A;  1LWS A;  5E63 A;  3MIP A;  5A0M A;  3E54 A;  1ZDE A;  4UN8 G;  2VBJ A;  3IGD A;  3HYI A;  1G9Z A;  2JMZ A;  4OZ6 A;  5K08 A;  2IN9 A;  4UN9 G;  3IFJ A;  4E2U A;  4KL6 A;  4Z20 A;  1AF5 A;  2I3P A;  1MOW A;  2L8L A;  1B24 A;  5E67 A;  2VBN B;  1GPP A;  2XE0 B;  4AAB A;  4AQU A;  4O1R A;  4YIS A;  2LWY A;  2I3Q A;  4LOX A;  4D6O A;  3OOL A;  2VBN A;  2XE0 A;  5A74 A;  2QOJ Z;  3MX9 A;  3FD2 A;  4AAG A;  4O1S A;  4AQX A;  2CW8 A;  4AAF A;  3UVF A;  4AAD A;  1AM2 A;  1M5X A;  4UNC A;  3HYJ A;  3MIS A;  3R7P A;  4AAE A;  3QQY A;  5E5O A;  1DQ3 A;  5A72 A;  1N3E A;  2IN8 A;  4YIT A;  1JVA A;  2LQM A;  1DFA A;  4UN7 A;  1BP7 A;  1ZD7 A;  1T9I A;  4EFJ A;  2LCJ A;  5A77 A;  2KEQ A;  2VBL B;  5AKF A;  1LWT A;  3MXB B;  4KL5 A;  1N3F A;  2EX5 A;  3C0X A;  2IMZ A;  2VBL A;  3MXB A;  4Z1Z A;  4UNB A;  1MI8 A;  2DCH X;  2IN0 A;  1G9Y A;  1UM2 A;  5A0W A;  4E2T A;  4D6N A;  5AK9 A;  4UN8 A;  2FLD A;  3MXA A;  3KO2 A;  2CW7 A;  2VS7 A;  4LQ0 A;  1EF0 A;  2O7M A;  1U0C A;  1R7M A;  4YHX A;  2VS8 A;  4GIG A;  3EH8 A;  4UN9 A;  2JNQ A;  1VDE A;  5I0A A;  4UT0 A;  4UN7 G;  2VBO B;  4UNA A;  1P8K Z; 
#chains in the Genus database with same CATH topology
 1AT0 A;  2F4L A;  4Z1X A;  5E5S A;  2VBO A;  5AKM A;  2AB5 A;  5AKN A;  3C0W A;  3OOR A;  1T9J A;  3NZM A;  1U0D A;  5A0M B;  2VBJ B;  5A78 A;  1LWS A;  5E63 A;  3MIP A;  5A0M A;  3E54 A;  1ZDE A;  4UN8 G;  2VBJ A;  3IGD A;  3HYI A;  4LX3 A;  4KZS A;  4QFQ A;  1G9Z A;  2JMZ A;  4OZ6 A;  5K08 A;  2IN9 A;  4UN9 G;  3IFJ A;  4E2U A;  4KL6 A;  4Z20 A;  1AF5 A;  2I3P A;  1MOW A;  2L8L A;  1B24 A;  5E67 A;  2VBN B;  1GPP A;  2XE0 B;  4AAB A;  4AQU A;  4O1R A;  4YIS A;  2LWY A;  2I3Q A;  4LOX A;  4D6O A;  3OOL A;  2VBN A;  2XE0 A;  5A74 A;  2QOJ Z;  3MX9 A;  3FD2 A;  4AAG A;  4O1S A;  4AQX A;  2CW8 A;  4AAF A;  3UVF A;  4AAD A;  1AM2 A;  1M5X A;  4UNC A;  3HYJ A;  3MIS A;  3R7P A;  4AAE A;  3QQY A;  5E5O A;  1DQ3 A;  5A72 A;  1N3E A;  2IN8 A;  4YIT A;  1JVA A;  2LQM A;  1DFA A;  4UN7 A;  1BP7 A;  1ZD7 A;  1T9I A;  4EFJ A;  2LCJ A;  5A77 A;  2KEQ A;  2VBL B;  5AKF A;  1LWT A;  3MXB B;  4KL5 A;  1N3F A;  2EX5 A;  3C0X A;  2IMZ A;  2VBL A;  3MXB A;  4Z1Z A;  4UNB A;  1MI8 A;  2DCH X;  2IN0 A;  1G9Y A;  1UM2 A;  5A0W A;  4E2T A;  4D6N A;  5AK9 A;  4UN8 A;  2FLD A;  3MXA A;  3KO2 A;  2CW7 A;  2VS7 A;  4LQ0 A;  1EF0 A;  2O7M A;  1U0C A;  1R7M A;  4YHX A;  2VS8 A;  4GIG A;  3EH8 A;  4UN9 A;  2JNQ A;  1VDE A;  5I0A A;  4UT0 A;  4UN7 G;  2VBO B;  4UNA A;  1P8K Z; 
#chains in the Genus database with same CATH homology
 1AT0 A;  4Z1X A;  2VBO A;  5E5S A;  5AKM A;  2AB5 A;  5AKN A;  3C0W A;  3OOR A;  1T9J A;  3NZM A;  1U0D A;  5A0M B;  2VBJ B;  5A78 A;  1LWS A;  5E63 A;  3MIP A;  5A0M A;  3E54 A;  1ZDE A;  4UN8 G;  2VBJ A;  3IGD A;  3HYI A;  1G9Z A;  2JMZ A;  4OZ6 A;  5K08 A;  2IN9 A;  4UN9 G;  3IFJ A;  4E2U A;  4KL6 A;  4Z20 A;  1AF5 A;  2I3P A;  1MOW A;  2L8L A;  1B24 A;  5E67 A;  2VBN B;  1GPP A;  2XE0 B;  4AAB A;  4AQU A;  4O1R A;  4YIS A;  2LWY A;  2I3Q A;  4LOX A;  4D6O A;  3OOL A;  2VBN A;  2XE0 A;  5A74 A;  2QOJ Z;  3MX9 A;  3FD2 A;  4AAG A;  4O1S A;  4AQX A;  2CW8 A;  4AAF A;  3UVF A;  4AAD A;  1AM2 A;  1M5X A;  4UNC A;  3HYJ A;  3MIS A;  3R7P A;  4AAE A;  3QQY A;  5E5O A;  1DQ3 A;  5A72 A;  1N3E A;  2IN8 A;  4YIT A;  1JVA A;  2LQM A;  1DFA A;  4UN7 A;  1BP7 A;  1ZD7 A;  1T9I A;  4EFJ A;  2LCJ A;  5A77 A;  2KEQ A;  2VBL B;  5AKF A;  1LWT A;  3MXB B;  4KL5 A;  1N3F A;  2EX5 A;  3C0X A;  2IMZ A;  2VBL A;  3MXB A;  4Z1Z A;  4UNB A;  1MI8 A;  2DCH X;  2IN0 A;  1G9Y A;  1UM2 A;  5A0W A;  4E2T A;  4D6N A;  5AK9 A;  4UN8 A;  2FLD A;  3MXA A;  3KO2 A;  2CW7 A;  2VS7 A;  4LQ0 A;  1EF0 A;  2O7M A;  1U0C A;  1R7M A;  4YHX A;  2VS8 A;  4GIG A;  3EH8 A;  4UN9 A;  2JNQ A;  1VDE A;  5I0A A;  4UT0 A;  4UN7 G;  2VBO B;  4UNA A;  1P8K Z; 
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similar chains in the Genus database (?% sequence similarity)
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