1UM2A

Crystal structure of the vma1-derived endonuclease with the ligated extein segment
Total Genus 90
Loading diagram...

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
90
sequence length
454
structure length
417
Chain Sequence
SFAKGTNVLMADGSIECIENIEVGNKVMGKDGRPREVIKLPRGRETMYSVVQKSPELLKFTCNATNELVVRTPRSVRRLSRTIKGVEYFEVITFEMGQKKAPDGRIVELVKEVSKSYPISEGPERANELVESYRKASNKAYFEWTIEARDLSLLGSHVRKATYQTYAPILYENDHFFDYMQKSKFHLTIEGPKVLAYLLGLWIGDGLSDRATFSVDSRDTSLMERVTEYAEKLNLCAEYKDRKEPQVAKTVNLYSKENPLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNAEPISYAIYMSGGDVLLNVLSKCAGSKKFRPAPAAAFARECRGFYFELQELKEDDYYGITLSDDSDHQFLLANQVVVHN
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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
publication title Protein splicing of yeast VMA1-derived endonuclease via thiazolidine intermediates.
pubmed rcsb
molecule tags Hydrolase
source organism Saccharomyces cerevisiae
molecule keywords ENDONUCLEASE PI-SCEI
total genus 90
structure length 417
sequence length 454
chains with identical sequence B
ec nomenclature ec 7.1.2.2: H(+)-transporting two-sector ATPase.
pdb deposition date 2003-09-22

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 1um2A01
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 1um2A02
3.10.28.10 Alpha Beta Roll Endonuclease I-creI Homing endonucleases 1um2A03
2JNQA 5E63A 4Z20A 3HYJA 2VBJB 3MXBA 5AK9A 1AM2A 3UVFA 4YITA 3IFJA 1AF5A 3MXAA 3OOLA 3MISA 1LWSA 1DQ3A 1UM2A 4GIGA 3FD2A 2VBOB 2VBJA 5E67A 2EX5A 4AAEA 3R7PA 1G9YA 4AQXA 5K08A 4AQUA 4UN8G 4O1SA 2FLDA 3HYIA 5A78A 2VBOA 1T9JA 5A74A 5AKMA 1AT0A 2I3PA 3C0XA 5A0WA 2IN9A 2VS7A 4UNBA 3MX9A 1MI8A 1ZDEA 5E5OA 1LWTA 5A77A 2CW8A 4Z1XA 5A72A 4UN9G 4D6NA 1MOWA 1JVAA 5E5SA 3NZMA 4UNAA 4UT0A 4Z1ZA 1VDEA 2VBLB 4KL5A 1U0DA 4UN8A 4AAFA 1GPPA 3QQYA 1M5XA 4UN7G 2L8LA 3C0WA 5I0AA 2VBLA 2VBNB 1T9IA 2LQMA 3IGDA 2O7MA 3EH8A 2VS8A 4E2TA 4UN9A 1N3FA 4AAGA 4AADA 2CW7A 2VBNA 2AB5A 4EFJA 3OORA 4UNCA 1R7MA 2LWYA 4UN7A 4KL6A 1BP7A 2IN8A 4YISA 2XE0B 2JMZA 3E54A 5AKNA 2LCJA 2KEQA 2IN0A 2DCHX 4OZ6A 4E2UA 4O1RA 1U0CA 3KO2A 5A0MB 3MIPA 1ZD7A 2XE0A 4LQ0A 5AKFA 1P8KZ 4AABA 1N3EA 2IMZA 1EF0A 3MXBB 1G9ZA 5A0MA 2QOJZ 2I3QA 1B24A 4LOXA 1DFAA 4D6OA 4YHXA
chains in the Genus database with same CATH superfamily
2JNQA 5E63A 4Z20A 3HYJA 2VBJB 3MXBA 5AK9A 1AM2A 3UVFA 4YITA 3IFJA 1AF5A 3MXAA 3OOLA 3MISA 1LWSA 1DQ3A 1UM2A 4GIGA 3FD2A 2VBOB 2VBJA 5E67A 2EX5A 4AAEA 3R7PA 1G9YA 4AQXA 5K08A 4AQUA 4UN8G 4O1SA 2FLDA 3HYIA 5A78A 2VBOA 1T9JA 5A74A 5AKMA 1AT0A 2I3PA 4QFQA 5A0WA 3C0XA 2IN9A 2VS7A 4UNBA 3MX9A 1MI8A 1ZDEA 5E5OA 1LWTA 5A77A 2CW8A 4Z1XA 5A72A 4UN9G 4D6NA 1MOWA 1JVAA 5E5SA 3NZMA 4UNAA 4UT0A 4Z1ZA 1VDEA 2VBLB 4KL5A 1U0DA 4UN8A 4AAFA 1GPPA 3QQYA 1M5XA 4UN7G 2L8LA 3C0WA 5I0AA 2VBLA 2F4LA 2VBNB 1T9IA 2LQMA 3IGDA 2O7MA 3EH8A 2VS8A 4E2TA 4LX3A 4UN9A 1N3FA 4AAGA 4AADA 2CW7A 2VBNA 2AB5A 4EFJA 3OORA 4UNCA 1R7MA 2LWYA 4UN7A 4KL6A 1BP7A 2IN8A 4YISA 2XE0B 2JMZA 3E54A 5AKNA 2LCJA 4KZSA 2KEQA 2IN0A 2DCHX 4OZ6A 4E2UA 4O1RA 1U0CA 3KO2A 5A0MB 3MIPA 1ZD7A 2XE0A 4LQ0A 5AKFA 1P8KZ 4AABA 1N3EA 2IMZA 1EF0A 3MXBB 1G9ZA 5A0MA 2QOJZ 2I3QA 1B24A 4LOXA 1DFAA 4D6OA 4YHXA
chains in the Genus database with same CATH topology
2JNQA 5E63A 4Z20A 3HYJA 2VBJB 3MXBA 5AK9A 1AM2A 3UVFA 4YITA 3IFJA 1AF5A 3MXAA 3OOLA 3MISA 1LWSA 1DQ3A 1UM2A 4GIGA 3FD2A 2VBOB 2VBJA 5E67A 2EX5A 4AAEA 3R7PA 1G9YA 4AQXA 5K08A 4AQUA 4UN8G 4O1SA 2FLDA 3HYIA 5A78A 2VBOA 1T9JA 5A74A 5AKMA 1AT0A 2I3PA 3C0XA 5A0WA 2IN9A 2VS7A 4UNBA 3MX9A 1MI8A 1ZDEA 5E5OA 1LWTA 5A77A 2CW8A 4Z1XA 5A72A 4UN9G 4D6NA 1MOWA 1JVAA 5E5SA 3NZMA 4UNAA 4UT0A 4Z1ZA 1VDEA 2VBLB 4KL5A 1U0DA 4UN8A 4AAFA 1GPPA 3QQYA 1M5XA 4UN7G 2L8LA 3C0WA 5I0AA 2VBLA 2VBNB 1T9IA 2LQMA 3IGDA 2O7MA 3EH8A 2VS8A 4E2TA 4UN9A 1N3FA 4AAGA 4AADA 2CW7A 2VBNA 2AB5A 4EFJA 3OORA 4UNCA 1R7MA 2LWYA 4UN7A 4KL6A 1BP7A 2IN8A 4YISA 2XE0B 2JMZA 3E54A 5AKNA 2LCJA 2KEQA 2IN0A 2DCHX 4OZ6A 4E2UA 4O1RA 1U0CA 3KO2A 5A0MB 3MIPA 1ZD7A 2XE0A 4LQ0A 5AKFA 1P8KZ 4AABA 1N3EA 2IMZA 1EF0A 3MXBB 1G9ZA 5A0MA 2QOJZ 2I3QA 1B24A 4LOXA 1DFAA 4D6OA 4YHXA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...