1J1M | Genus

Total Genus 87

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	87
sequence length	262
structure length	262
Chain Sequence	YPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLREDIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQF

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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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Viewer cachePut cache://localLOAD_/file/5cfae30fb8b44eac6f98219e/pdb.gz

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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

publication title	Ricin A-Chain (Recombinant) at 100K rcsb
molecule keywords	Ricin
molecule tags	Hydrolase
source organism	Ricinus communis
total genus	87
structure length	262
sequence length	262
ec nomenclature	ec 3.2.2.22: rRNA N-glycosylase.
pdb deposition date	2002-12-10

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00161	RIP	Ribosome inactivating protein

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.40.420.10	Alpha Beta	3-Layer(aba) Sandwich	Ricin (A subunit); domain 1	Ricin (A subunit), domain 1	1j1mA01
4.10.470.10	Few Secondary Structures	Irregular	Ricin (A Subunit), domain 2	Ricin (A Subunit), domain 2	1j1mA02

3HITA 1OQLA 2OQAA 3KU0A 3MVGA 1MRJA 4HV3A 4O8EA 1RL0A 5BOZA 3U6TA 1R4QA 2AAIA 4HUOX 5E1HA 1GIUA 2QESA 4DWMA 1D6AA 5ILXA 1AHAA 4KL4A 1HWNA 4Q2VA 4EB2A 3D7WA 3V2KA 4ZFYA 4HOAA 1BRYY 3CTKA 1IFUA 4FBBA 1ONKA 1PC8A 1R4PA 4FZ9A 4GUWA 5J57A 1NLIA 1IFTA 1DM0A 3N31A 1IL9A 3EJ5X 3N1NA 4ZLBA 1OBTA 2GA4A 4Z9WA 3SRPA 3V14A 2PQIA 5CSOA 1RZOA 2VS6A 3N2DA 1PAFA 2JDLA 1SZ6A 1J1MA 3NJSA 1CF5A 5GZ7A 2PJOA 1HWPA 1LP8A 4HUPX 1AHCA 1MRGA 3MRWA 4H0ZA 1UQ4A 4FBHA 1QCJA 3RTIA 1IL4A 1D8VA 4LWXA 3HISA 2Q8WA 1RTCA 2Q3NA 4FB9A 1YF8A 2PQGA 1J4GA 2R9KA 1APAA 1LLNA 1UQ5A 3N5DA 4FBAA 3MRYA 4P2CA 3N3XA 1MOMA 4KWNA 4Q9FA 4IMVA 1J1QA 1QCGA 3HIVA 4FBCA 1IFSA 4M5AA 1LPDA 2Z53A 3SJ6A 4EMRA 3NX9A 2VC4A 3U8FA 4ZU0A 1GGPA 1AHBA 3NFMA 1BR6A 3O5WA 4HR6B 1QI7A 4YP2B 1IL5A 4ZZ6A 2G5XA 3HIOA 2QETA 4O4QA 4HV7X 1QD2A 3N1DA 5GM7A 5CF9B 4ZFWA 4RZJA 3LE7A 1OBSA 1GIKA 4MX1A 3BJGA 4M1UA 1ABRA 3MK9A 4LT4A 4JTBA 2RG9A 1NIOA 3PX8X 5CIXA 2R2XA 4XY7A 3RTJA 3LC9A 4LGRA 2VC3A 5GU4A 1PUUA 2P8NA 3H5KA 1CE7A 1TCSA 3KTZA 4LROA 2JJRA 4ZBVA 5J56A 4JTPA 4LHQA 4KMKA 1PAGA 4L66A 4FXAA 1PUMA 1BR5A 5CSTA 1F8QA 4KPVA 3BWHA 4LGSA 3QJIA 1MRIA 4O0OA 4I47A 2VLCA 4F9NA 4ZGRA 1IL3A 1MRHA 2Z4UA 1M2TA 1HWMA 1J1SA 4Z9KA 2R3DA 3MY6A 3S9QA 1MRKA 4ESIA 2MLLA 2K6HA 4K2ZA 2B7UA 2ZR1A 1QCIA 4KUCA 4EMFA 3U70A 3HIQA 4ZFUA 3HIWA 1LPCA 2PQJA 5ILWA 4Z8SA 3U6ZA 1J1RA 4JKXA 4MX5X 4ZT8A 3Q4PA 1TFMA 5SV3B 3PX9X 5DDZA 4LGPA 4ZA3A 3RL9A 4LHJA 1GISA 1HWOA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 3HIT A;  1OQL A;  2OQA A;  3KU0 A;  3MVG A;  1MRJ A;  4HV3 A;  4O8E A;  1RL0 A;  5BOZ A;  3U6T A;  1R4Q A;  2AAI A;  4HUO X;  5E1H A;  1GIU A;  2QES A;  4DWM A;  1D6A A;  5ILX A;  1AHA A;  4KL4 A;  1HWN A;  4Q2V A;  4EB2 A;  3D7W A;  3V2K A;  4ZFY A;  4HOA A;  1BRY Y;  3CTK A;  1IFU A;  4FBB A;  1ONK A;  1PC8 A;  1R4P A;  4FZ9 A;  4GUW A;  5J57 A;  1NLI A;  1IFT A;  1DM0 A;  3N31 A;  1IL9 A;  3EJ5 X;  3N1N A;  4ZLB A;  1OBT A;  2GA4 A;  4Z9W A;  3SRP A;  3V14 A;  2PQI A;  5CSO A;  1RZO A;  2VS6 A;  3N2D A;  1PAF A;  2JDL A;  1SZ6 A;  1J1M A;  3NJS A;  1CF5 A;  5GZ7 A;  2PJO A;  1HWP A;  1LP8 A;  4HUP X;  1AHC A;  1MRG A;  3MRW A;  4H0Z A;  1UQ4 A;  4FBH A;  1QCJ A;  3RTI A;  1IL4 A;  1D8V A;  4LWX A;  3HIS A;  2Q8W A;  1RTC A;  2Q3N A;  4FB9 A;  1YF8 A;  2PQG A;  1J4G A;  2R9K A;  1APA A;  1LLN A;  1UQ5 A;  3N5D A;  4FBA A;  3MRY A;  4P2C A;  3N3X A;  1MOM A;  4KWN A;  4Q9F A;  4IMV A;  1J1Q A;  1QCG A;  3HIV A;  4FBC A;  1IFS A;  4M5A A;  1LPD A;  2Z53 A;  3SJ6 A;  4EMR A;  3NX9 A;  2VC4 A;  3U8F A;  4ZU0 A;  1GGP A;  1AHB A;  3NFM A;  1BR6 A;  3O5W A;  4HR6 B;  1QI7 A;  4YP2 B;  1IL5 A;  4ZZ6 A;  2G5X A;  3HIO A;  2QET A;  4O4Q A;  4HV7 X;  1QD2 A;  3N1D A;  5GM7 A;  5CF9 B;  4ZFW A;  4RZJ A;  3LE7 A;  1OBS A;  1GIK A;  4MX1 A;  3BJG A;  4M1U A;  1ABR A;  3MK9 A;  4LT4 A;  4JTB A;  2RG9 A;  1NIO A;  3PX8 X;  5CIX A;  2R2X A;  4XY7 A;  3RTJ A;  3LC9 A;  4LGR A;  2VC3 A;  5GU4 A;  1PUU A;  2P8N A;  3H5K A;  1CE7 A;  1TCS A;  3KTZ A;  4LRO A;  2JJR A;  4ZBV A;  5J56 A;  4JTP A;  4LHQ A;  4KMK A;  1PAG A;  4L66 A;  4FXA A;  1PUM A;  1BR5 A;  5CST A;  1F8Q A;  4KPV A;  3BWH A;  4LGS A;  3QJI A;  1MRI A;  4O0O A;  4I47 A;  2VLC A;  4F9N A;  4ZGR A;  1IL3 A;  1MRH A;  2Z4U A;  1M2T A;  1HWM A;  1J1S A;  4Z9K A;  2R3D A;  3MY6 A;  3S9Q A;  1MRK A;  4ESI A;  2MLL A;  2K6H A;  4K2Z A;  2B7U A;  2ZR1 A;  1QCI A;  4KUC A;  4EMF A;  3U70 A;  3HIQ A;  4ZFU A;  3HIW A;  1LPC A;  2PQJ A;  5ILW A;  4Z8S A;  3U6Z A;  1J1R A;  4JKX A;  4MX5 X;  4ZT8 A;  3Q4P A;  1TFM A;  5SV3 B;  3PX9 X;  5DDZ A;  4LGP A;  4ZA3 A;  3RL9 A;  4LHJ A;  1GIS A;  1HWO A; 
#chains in the Genus database with same CATH topology
 3HIT A;  1OQL A;  2OQA A;  3KU0 A;  3MVG A;  1MRJ A;  4HV3 A;  4O8E A;  1RL0 A;  5BOZ A;  3U6T A;  1R4Q A;  2AAI A;  4HUO X;  5E1H A;  1GIU A;  2QES A;  4DWM A;  1D6A A;  5ILX A;  1AHA A;  4KL4 A;  1HWN A;  4Q2V A;  4EB2 A;  3D7W A;  3V2K A;  4ZFY A;  4HOA A;  1BRY Y;  3CTK A;  1IFU A;  4FBB A;  1ONK A;  1PC8 A;  1R4P A;  4FZ9 A;  4GUW A;  5J57 A;  1NLI A;  1IFT A;  1DM0 A;  3N31 A;  1IL9 A;  3EJ5 X;  3N1N A;  4ZLB A;  1OBT A;  2GA4 A;  4Z9W A;  3SRP A;  3V14 A;  2PQI A;  5CSO A;  1RZO A;  2VS6 A;  3N2D A;  1PAF A;  2JDL A;  1SZ6 A;  1J1M A;  3NJS A;  1CF5 A;  5GZ7 A;  2PJO A;  1HWP A;  1LP8 A;  4HUP X;  1AHC A;  1MRG A;  3MRW A;  4H0Z A;  1UQ4 A;  4FBH A;  1QCJ A;  3RTI A;  1IL4 A;  1D8V A;  4LWX A;  3HIS A;  2Q8W A;  1RTC A;  2Q3N A;  4FB9 A;  1YF8 A;  2PQG A;  1J4G A;  2R9K A;  1APA A;  1LLN A;  1UQ5 A;  3N5D A;  4FBA A;  3MRY A;  4P2C A;  3N3X A;  1MOM A;  4KWN A;  4Q9F A;  4IMV A;  1J1Q A;  1QCG A;  3HIV A;  4FBC A;  1IFS A;  4M5A A;  1LPD A;  2Z53 A;  3SJ6 A;  4EMR A;  3NX9 A;  2VC4 A;  3U8F A;  4ZU0 A;  1GGP A;  1AHB A;  3NFM A;  1BR6 A;  3O5W A;  4HR6 B;  1QI7 A;  4YP2 B;  1IL5 A;  4ZZ6 A;  2G5X A;  3HIO A;  2QET A;  4O4Q A;  4HV7 X;  1QD2 A;  3N1D A;  5GM7 A;  5CF9 B;  4ZFW A;  4RZJ A;  3LE7 A;  1OBS A;  1GIK A;  4MX1 A;  3BJG A;  4M1U A;  1ABR A;  3MK9 A;  4LT4 A;  4JTB A;  2RG9 A;  1NIO A;  3PX8 X;  5CIX A;  2R2X A;  4XY7 A;  3RTJ A;  3LC9 A;  4LGR A;  2VC3 A;  5GU4 A;  1PUU A;  2P8N A;  3H5K A;  1CE7 A;  1TCS A;  3KTZ A;  4LRO A;  2JJR A;  4ZBV A;  5J56 A;  4JTP A;  4LHQ A;  4KMK A;  1PAG A;  4L66 A;  4FXA A;  1PUM A;  1BR5 A;  5CST A;  1F8Q A;  4KPV A;  3BWH A;  4LGS A;  3QJI A;  1MRI A;  4O0O A;  4I47 A;  2VLC A;  4F9N A;  4ZGR A;  1IL3 A;  1MRH A;  2Z4U A;  1M2T A;  1HWM A;  1J1S A;  4Z9K A;  2R3D A;  3MY6 A;  3S9Q A;  1MRK A;  4ESI A;  2MLL A;  2K6H A;  4K2Z A;  2B7U A;  2ZR1 A;  1QCI A;  4KUC A;  4EMF A;  3U70 A;  3HIQ A;  4ZFU A;  3HIW A;  1LPC A;  2PQJ A;  5ILW A;  4Z8S A;  3U6Z A;  1J1R A;  4JKX A;  4MX5 X;  4ZT8 A;  3Q4P A;  1TFM A;  5SV3 B;  3PX9 X;  5DDZ A;  4LGP A;  4ZA3 A;  3RL9 A;  4LHJ A;  1GIS A;  1HWO A; 
#chains in the Genus database with same CATH homology
 3HIT A;  1OQL A;  2OQA A;  3KU0 A;  3MVG A;  1MRJ A;  4HV3 A;  4O8E A;  1RL0 A;  5BOZ A;  3U6T A;  1R4Q A;  2AAI A;  4HUO X;  5E1H A;  1GIU A;  2QES A;  4DWM A;  1D6A A;  5ILX A;  1AHA A;  4KL4 A;  1HWN A;  4Q2V A;  4EB2 A;  3D7W A;  3V2K A;  4ZFY A;  4HOA A;  1BRY Y;  3CTK A;  1IFU A;  4FBB A;  1ONK A;  1PC8 A;  1R4P A;  4FZ9 A;  4GUW A;  5J57 A;  1NLI A;  1IFT A;  1DM0 A;  3N31 A;  1IL9 A;  3EJ5 X;  3N1N A;  4ZLB A;  1OBT A;  2GA4 A;  4Z9W A;  3SRP A;  3V14 A;  2PQI A;  5CSO A;  1RZO A;  2VS6 A;  3N2D A;  1PAF A;  2JDL A;  1SZ6 A;  1J1M A;  3NJS A;  1CF5 A;  5GZ7 A;  2PJO A;  1HWP A;  1LP8 A;  4HUP X;  1AHC A;  1MRG A;  3MRW A;  4H0Z A;  1UQ4 A;  4FBH A;  1QCJ A;  3RTI A;  1IL4 A;  1D8V A;  4LWX A;  3HIS A;  2Q8W A;  1RTC A;  2Q3N A;  4FB9 A;  1YF8 A;  2PQG A;  1J4G A;  2R9K A;  1APA A;  1LLN A;  1UQ5 A;  3N5D A;  4FBA A;  3MRY A;  4P2C A;  3N3X A;  1MOM A;  4KWN A;  4Q9F A;  4IMV A;  1J1Q A;  1QCG A;  3HIV A;  4FBC A;  1IFS A;  4M5A A;  1LPD A;  2Z53 A;  3SJ6 A;  4EMR A;  3NX9 A;  2VC4 A;  3U8F A;  4ZU0 A;  1GGP A;  1AHB A;  3NFM A;  1BR6 A;  3O5W A;  4HR6 B;  1QI7 A;  4YP2 B;  1IL5 A;  4ZZ6 A;  2G5X A;  3HIO A;  2QET A;  4O4Q A;  4HV7 X;  1QD2 A;  3N1D A;  5GM7 A;  5CF9 B;  4ZFW A;  4RZJ A;  3LE7 A;  1OBS A;  1GIK A;  4MX1 A;  3BJG A;  4M1U A;  1ABR A;  3MK9 A;  4LT4 A;  4JTB A;  2RG9 A;  1NIO A;  3PX8 X;  5CIX A;  2R2X A;  4XY7 A;  3RTJ A;  3LC9 A;  4LGR A;  2VC3 A;  5GU4 A;  1PUU A;  2P8N A;  3H5K A;  1CE7 A;  1TCS A;  3KTZ A;  4LRO A;  2JJR A;  4ZBV A;  5J56 A;  4JTP A;  4LHQ A;  4KMK A;  1PAG A;  4L66 A;  4FXA A;  1PUM A;  1BR5 A;  5CST A;  1F8Q A;  4KPV A;  3BWH A;  4LGS A;  3QJI A;  1MRI A;  4O0O A;  4I47 A;  2VLC A;  4F9N A;  4ZGR A;  1IL3 A;  1MRH A;  2Z4U A;  1M2T A;  1HWM A;  1J1S A;  4Z9K A;  2R3D A;  3MY6 A;  3S9Q A;  1MRK A;  4ESI A;  2MLL A;  2K6H A;  4K2Z A;  2B7U A;  2ZR1 A;  1QCI A;  4KUC A;  4EMF A;  3U70 A;  3HIQ A;  4ZFU A;  3HIW A;  1LPC A;  2PQJ A;  5ILW A;  4Z8S A;  3U6Z A;  1J1R A;  4JKX A;  4MX5 X;  4ZT8 A;  3Q4P A;  1TFM A;  5SV3 B;  3PX9 X;  5DDZ A;  4LGP A;  4ZA3 A;  3RL9 A;  4LHJ A;  1GIS A;  1HWO 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)

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#similar chains, but unknotted
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1J1MA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations