1DFA | Genus

Total Genus 83

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	83
sequence length	454
structure length	405
Chain Sequence	CFAKGTNVLMADGSIECIENIEVGNKVMGKDGRPREVIKLPRGRETMYSVVQKSQHRAHKSDSSREVPELLKFTCNATHELVVRTPRSVRRLSRTIKGVEYFEVITFEMGQKKAPDGRIVELVKEVSKSYPISEKAYFEWTIEARDLSLLGSHVRKATYQTYAPILYENDHFFDYMQLTIEGPKVLAYLLGLWIGDGLSDRATFSVDSRDTSLMERVTEYAEKLNLCAEYKNTENPLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNAEPAKVDMNGTKHKISYAIYMSGGDVLLNVLSKCAGSKKFRPAPAAAFARECRGFYFELQELKEDDYYGITLSDDSDHQFLLANQVVVHN

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Hydrolase
source organism	Saccharomyces cerevisiae
publication title	Probing the structure of the PI-SceI-DNA complex by affinity cleavage and affinity photocross-linking. pubmed doi rcsb
molecule keywords	PI-SCEI ENDONUCLEASE
total genus	83
structure length	405
sequence length	454
ec nomenclature	ec 7.1.2.2: H(+)-transporting two-sector ATPase.
pdb deposition date	1999-11-18

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	Class	Architecture	Topology	Homology	Domain
2.170.16.10	Mainly Beta	Beta Complex	Endonuclease - Pi-scei; Chain A, domain 1	Hedgehog/Intein (Hint) domain	1dfaA01
3.10.28.10	Alpha Beta	Roll	Endonuclease I-creI	Homing endonucleases	1dfaA02
3.10.28.10	Alpha Beta	Roll	Endonuclease I-creI	Homing endonucleases	1dfaA03

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

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

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

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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1DFAA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations