5IMYC

Trapped toxin
Total Genus 16
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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
16
sequence length
78
structure length
78
Chain Sequence
MLQCYNCPNPTADCKTAVNCSSDFDACLITKAGLQVYNKCWKFEHCNFNDVTTRLRENELTYYCCKKDLCNFNEQLEN
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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

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

Chord Diagram
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molecule tags Toxin/toxin receptor
molecule keywords Vaginolysin
publication title Structural Basis for Receptor Recognition by the Human CD59-Responsive Cholesterol-Dependent Cytolysins.
pubmed doi rcsb
source organism Gardnerella vaginalis
total genus 16
structure length 78
sequence length 78
chains with identical sequence D
ec nomenclature
pdb deposition date 2016-03-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
C PF00021 UPAR_LY6 u-PAR/Ly-6 domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.10.60.10 Mainly Beta Ribbon CD59 CD59 5imyC00
1VB0A 3NDSA 1IDGA 1IDHA 2BTXA 1JGKA 1ERGA 3NH7A 1CB9A 4UY2C 1NYUA 2CRSA 2GOOC 2QC1A 1I02A 4P7UA 1QKDA 2PJYB 2QJBC 4BIKB 1IDIA 1NTXA 1CDQA 1IQ9A 1LJZA 1KBAA 2CRTA 3KFDI 1QM7A 1TXBA 2VLWA 1CDTA 1LX5B 1BXPA 1FFJA 1L4WA 3EVSC 2MUOA 1XT3A 3U73U 2MUPA 3HH7A 4XJJA 1LSIA 2JQPA 1COEA 4FAOC 2HLQA 5IMTD 1IDLA 1TGXA 1RL5A 1JBDA 2H5FA 1HC9B 2H8UA 1MAHF 4QTIU 2NBTA 2QJAC 1IK8A 1LXHA 1M9ZA 6EBXA 2H64C 5EBXA 3FEVA 1BTEA 4IYEA 1KTZB 1V6PA 1LXGA 1F94A 1ABTA 2FD6U 4FAOE 1DRSA 1CVOA 1FF4A 1NTNA 2X8BB 1NEAA 2K3GA 2N99A 1JE9A 2UX2A 2ERAA 5DZ5A 1CREA 1HC9A 2H62C 1CTXA 2GOOB 4OM4A 1S4YA 1KFHA 1REWC 2J8BA 1ERAA 1HAJA 1TXAA 4EY8B 1KBTA 2MJ4A 3KFDE 2OFSA 1F8UB 1KC4A 1KS6A 4RUDA 2ABXA 1KU6B 1HOYA 1CCQA 1FSSB 1CRFA 1ES7B 1KL8A 4OM5A 2BHIA 1CXOA 1FSCA 1H0JA 2CCXA 1CHVS 1NXBA 4LFTA 1FRAA 5IMYC 2PJYC 1IKCA 1W6BA 3U74U 2MHYA 3PLCA 5DO6A 1CDSA 1KBSA 3BT1U 2JVEA 2CDXA 2H7ZB 2HLRA 2QJ9C 1YWHA 2LCRA 3EBXA 1NYSA 2MFAA 2H64B 4BDTB 3NEQA 1UG4A 2L03A 2L5SA 1CODA 1QKEA 1IJCA 1CXNA 1NORA 1CDRA 1MR6A 2H62D 1KXIA 2LA1A 2I9BE 2MJYA 1HAAA 1FASA 2CTXA 1TFSA 4AEAA 4DO8A 2H7ZA 5DU1A 3LAQU 1ZADA 3VTSA 3QB4B 4HQPF 1G6MA 1B41B 1ONJA 1RGJA 4ZQYA 1PLOA 3ERAA 2UWRA 2MJ0A 3BT2U
chains in the Genus database with same CATH superfamily
1VB0A 3NDSA 1IDGA 1IDHA 2BTXA 1JGKA 1ERGA 3NH7A 1CB9A 4UY2C 1NYUA 2CRSA 2GOOC 2QC1A 1I02A 4P7UA 1QKDA 2PJYB 2QJBC 4BIKB 1IDIA 1NTXA 1CDQA 1IQ9A 1LJZA 1KBAA 2CRTA 3KFDI 1QM7A 1TXBA 2VLWA 1CDTA 1LX5B 1BXPA 1FFJA 1L4WA 3EVSC 2MUOA 1XT3A 3U73U 2MUPA 3HH7A 4XJJA 1LSIA 2JQPA 1COEA 4FAOC 2HLQA 5IMTD 1IDLA 1TGXA 1RL5A 1JBDA 2H5FA 1HC9B 2H8UA 1MAHF 4QTIU 2NBTA 2QJAC 1IK8A 1LXHA 1M9ZA 6EBXA 2H64C 5EBXA 3FEVA 1BTEA 4IYEA 1KTZB 1V6PA 1LXGA 1F94A 1ABTA 2FD6U 4FAOE 1DRSA 1CVOA 1FF4A 1NTNA 2X8BB 1NEAA 2K3GA 2N99A 1JE9A 2UX2A 2ERAA 5DZ5A 1CREA 1HC9A 2H62C 1CTXA 2GOOB 4OM4A 1S4YA 1KFHA 1REWC 2J8BA 1ERAA 1HAJA 1TXAA 4EY8B 1KBTA 2MJ4A 3KFDE 2OFSA 1F8UB 1KC4A 1KS6A 4RUDA 2ABXA 1KU6B 1HOYA 1CCQA 1FSSB 1CRFA 1ES7B 1KL8A 4OM5A 2BHIA 1CXOA 4KSNA 1FSCA 1H0JA 2CCXA 1CHVS 1NXBA 4LFTA 1FRAA 5IMYC 2PJYC 1IKCA 1W6BA 3U74U 2MHYA 3PLCA 5DO6A 1CDSA 1KBSA 3BT1U 2JVEA 2CDXA 2H7ZB 2HLRA 2QJ9C 1YWHA 2LCRA 3EBXA 1NYSA 2MFAA 2H64B 4BDTB 3NEQA 1UG4A 2L03A 2L5SA 1CODA 1QKEA 1IJCA 1CXNA 1NORA 1CDRA 1MR6A 2H62D 1KXIA 2LA1A 2I9BE 2MJYA 1HAAA 1FASA 2CTXA 1TFSA 4AEAA 4DO8A 2H7ZA 5DU1A 3LAQU 1ZADA 3VTSA 3QB4B 4HQPF 1G6MA 1B41B 1ONJA 1RGJA 4ZQYA 1PLOA 3ERAA 2UWRA 2MJ0A 3BT2U
chains in the Genus database with same CATH topology
1VB0A 3NDSA 1IDGA 1IDHA 2BTXA 1JGKA 1ERGA 3NH7A 1CB9A 4UY2C 1NYUA 2CRSA 2GOOC 2QC1A 1I02A 4P7UA 1QKDA 2PJYB 2QJBC 4BIKB 1IDIA 1NTXA 1CDQA 1IQ9A 1LJZA 1KBAA 2CRTA 3KFDI 1QM7A 1TXBA 2VLWA 1CDTA 1LX5B 1BXPA 1FFJA 1L4WA 3EVSC 2MUOA 1XT3A 3U73U 2MUPA 3HH7A 4XJJA 1LSIA 2JQPA 1COEA 4FAOC 2HLQA 5IMTD 1IDLA 1TGXA 1RL5A 1JBDA 2H5FA 1HC9B 2H8UA 1MAHF 4QTIU 2NBTA 2QJAC 1IK8A 1LXHA 1M9ZA 6EBXA 2H64C 5EBXA 3FEVA 1BTEA 4IYEA 1KTZB 1V6PA 1LXGA 1F94A 1ABTA 2FD6U 4FAOE 1DRSA 1CVOA 1FF4A 1NTNA 2X8BB 1NEAA 2K3GA 2N99A 1JE9A 2UX2A 2ERAA 5DZ5A 1CREA 1HC9A 2H62C 1CTXA 2GOOB 4OM4A 1S4YA 1KFHA 1REWC 2J8BA 1ERAA 1HAJA 1TXAA 4EY8B 1KBTA 2MJ4A 3KFDE 2OFSA 1F8UB 1KC4A 1KS6A 4RUDA 2ABXA 1KU6B 1HOYA 1CCQA 1FSSB 1CRFA 1ES7B 1KL8A 4OM5A 2BHIA 1CXOA 4KSNA 1FSCA 1H0JA 2CCXA 1CHVS 1NXBA 4LFTA 1FRAA 5IMYC 2PJYC 1IKCA 1W6BA 3U74U 2MHYA 3PLCA 5DO6A 1CDSA 1KBSA 3BT1U 2JVEA 2CDXA 2H7ZB 2HLRA 2QJ9C 1YWHA 2LCRA 3EBXA 1NYSA 2MFAA 2H64B 4BDTB 3NEQA 1UG4A 2L03A 2L5SA 1CODA 1QKEA 1IJCA 1CXNA 1NORA 1CDRA 1MR6A 2H62D 1KXIA 2LA1A 2I9BE 2MJYA 1HAAA 1FASA 2CTXA 1TFSA 4AEAA 4DO8A 2H7ZA 5DU1A 3LAQU 1ZADA 3VTSA 3QB4B 4HQPF 1G6MA 1B41B 1ONJA 1RGJA 4ZQYA 1PLOA 3ERAA 2UWRA 2MJ0A 3BT2U
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1VB0 A;  3NDS A;  1IDG A;  1IDH A;  2BTX A;  1JGK A;  1ERG A;  3NH7 A;  1CB9 A;  4UY2 C;  1NYU A;  2CRS A;  2GOO C;  2QC1 A;  1I02 A;  4P7U A;  1QKD A;  2PJY B;  2QJB C;  4BIK B;  1IDI A;  1NTX A;  1CDQ A;  1IQ9 A;  1LJZ A;  1KBA A;  2CRT A;  3KFD I;  1QM7 A;  1TXB A;  2VLW A;  1CDT A;  1LX5 B;  1BXP A;  1FFJ A;  1L4W A;  3EVS C;  2MUO A;  1XT3 A;  3U73 U;  2MUP A;  3HH7 A;  4XJJ A;  1LSI A;  2JQP A;  1COE A;  4FAO C;  2HLQ A;  5IMT D;  1IDL A;  1TGX A;  1RL5 A;  1JBD A;  2H5F A;  1HC9 B;  2H8U A;  1MAH F;  4QTI U;  2NBT A;  2QJA C;  1IK8 A;  1LXH A;  1M9Z A;  6EBX A;  2H64 C;  5EBX A;  3FEV A;  1BTE A;  4IYE A;  1KTZ B;  1V6P A;  1LXG A;  1F94 A;  1ABT A;  2FD6 U;  4FAO E;  1DRS A;  1CVO A;  1FF4 A;  1NTN A;  2X8B B;  1NEA A;  2K3G A;  2N99 A;  1JE9 A;  2UX2 A;  2ERA A;  5DZ5 A;  1CRE A;  1HC9 A;  2H62 C;  1CTX A;  2GOO B;  4OM4 A;  1S4Y A;  1KFH A;  1REW C;  2J8B A;  1ERA A;  1HAJ A;  1TXA A;  4EY8 B;  1KBT A;  2MJ4 A;  3KFD E;  2OFS A;  1F8U B;  1KC4 A;  1KS6 A;  4RUD A;  2ABX A;  1KU6 B;  1HOY A;  1CCQ A;  1FSS B;  1CRF A;  1ES7 B;  1KL8 A;  4OM5 A;  2BHI A;  1CXO A;  1FSC A;  1H0J A;  2CCX A;  1CHV S;  1NXB A;  4LFT A;  1FRA A;  5IMY C;  2PJY C;  1IKC A;  1W6B A;  3U74 U;  2MHY A;  3PLC A;  5DO6 A;  1CDS A;  1KBS A;  3BT1 U;  2JVE A;  2CDX A;  2H7Z B;  2HLR A;  2QJ9 C;  1YWH A;  2LCR A;  3EBX A;  1NYS A;  2MFA A;  2H64 B;  4BDT B;  3NEQ A;  1UG4 A;  2L03 A;  2L5S A;  1COD A;  1QKE A;  1IJC A;  1CXN A;  1NOR A;  1CDR A;  1MR6 A;  2H62 D;  1KXI A;  2LA1 A;  2I9B E;  2MJY A;  1HAA A;  1FAS A;  2CTX A;  1TFS A;  4AEA A;  4DO8 A;  2H7Z A;  5DU1 A;  3LAQ U;  1ZAD A;  3VTS A;  3QB4 B;  4HQP F;  1G6M A;  1B41 B;  1ONJ A;  1RGJ A;  4ZQY A;  1PLO A;  3ERA A;  2UWR A;  2MJ0 A;  3BT2 U; 
#chains in the Genus database with same CATH topology
 1VB0 A;  3NDS A;  1IDG A;  1IDH A;  2BTX A;  1JGK A;  1ERG A;  3NH7 A;  1CB9 A;  4UY2 C;  1NYU A;  2CRS A;  2GOO C;  2QC1 A;  1I02 A;  4P7U A;  1QKD A;  2PJY B;  2QJB C;  4BIK B;  1IDI A;  1NTX A;  1CDQ A;  1IQ9 A;  1LJZ A;  1KBA A;  2CRT A;  3KFD I;  1QM7 A;  1TXB A;  2VLW A;  1CDT A;  1LX5 B;  1BXP A;  1FFJ A;  1L4W A;  3EVS C;  2MUO A;  1XT3 A;  3U73 U;  2MUP A;  3HH7 A;  4XJJ A;  1LSI A;  2JQP A;  1COE A;  4FAO C;  2HLQ A;  5IMT D;  1IDL A;  1TGX A;  1RL5 A;  1JBD A;  2H5F A;  1HC9 B;  2H8U A;  1MAH F;  4QTI U;  2NBT A;  2QJA C;  1IK8 A;  1LXH A;  1M9Z A;  6EBX A;  2H64 C;  5EBX A;  3FEV A;  1BTE A;  4IYE A;  1KTZ B;  1V6P A;  1LXG A;  1F94 A;  1ABT A;  2FD6 U;  4FAO E;  1DRS A;  1CVO A;  1FF4 A;  1NTN A;  2X8B B;  1NEA A;  2K3G A;  2N99 A;  1JE9 A;  2UX2 A;  2ERA A;  5DZ5 A;  1CRE A;  1HC9 A;  2H62 C;  1CTX A;  2GOO B;  4OM4 A;  1S4Y A;  1KFH A;  1REW C;  2J8B A;  1ERA A;  1HAJ A;  1TXA A;  4EY8 B;  1KBT A;  2MJ4 A;  3KFD E;  2OFS A;  1F8U B;  1KC4 A;  1KS6 A;  4RUD A;  2ABX A;  1KU6 B;  1HOY A;  1CCQ A;  1FSS B;  1CRF A;  1ES7 B;  1KL8 A;  4OM5 A;  2BHI A;  1CXO A;  4KSN A;  1FSC A;  1H0J A;  2CCX A;  1CHV S;  1NXB A;  4LFT A;  1FRA A;  5IMY C;  2PJY C;  1IKC A;  1W6B A;  3U74 U;  2MHY A;  3PLC A;  5DO6 A;  1CDS A;  1KBS A;  3BT1 U;  2JVE A;  2CDX A;  2H7Z B;  2HLR A;  2QJ9 C;  1YWH A;  2LCR A;  3EBX A;  1NYS A;  2MFA A;  2H64 B;  4BDT B;  3NEQ A;  1UG4 A;  2L03 A;  2L5S A;  1COD A;  1QKE A;  1IJC A;  1CXN A;  1NOR A;  1CDR A;  1MR6 A;  2H62 D;  1KXI A;  2LA1 A;  2I9B E;  2MJY A;  1HAA A;  1FAS A;  2CTX A;  1TFS A;  4AEA A;  4DO8 A;  2H7Z A;  5DU1 A;  3LAQ U;  1ZAD A;  3VTS A;  3QB4 B;  4HQP F;  1G6M A;  1B41 B;  1ONJ A;  1RGJ A;  4ZQY A;  1PLO A;  3ERA A;  2UWR A;  2MJ0 A;  3BT2 U; 
#chains in the Genus database with same CATH homology
 1VB0 A;  3NDS A;  1IDG A;  1IDH A;  2BTX A;  1JGK A;  1ERG A;  3NH7 A;  1CB9 A;  4UY2 C;  1NYU A;  2CRS A;  2GOO C;  2QC1 A;  1I02 A;  4P7U A;  1QKD A;  2PJY B;  2QJB C;  4BIK B;  1IDI A;  1NTX A;  1CDQ A;  1IQ9 A;  1LJZ A;  1KBA A;  2CRT A;  3KFD I;  1QM7 A;  1TXB A;  2VLW A;  1CDT A;  1LX5 B;  1BXP A;  1FFJ A;  1L4W A;  3EVS C;  2MUO A;  1XT3 A;  3U73 U;  2MUP A;  3HH7 A;  4XJJ A;  1LSI A;  2JQP A;  1COE A;  4FAO C;  2HLQ A;  5IMT D;  1IDL A;  1TGX A;  1RL5 A;  1JBD A;  2H5F A;  1HC9 B;  2H8U A;  1MAH F;  4QTI U;  2NBT A;  2QJA C;  1IK8 A;  1LXH A;  1M9Z A;  6EBX A;  2H64 C;  5EBX A;  3FEV A;  1BTE A;  4IYE A;  1KTZ B;  1V6P A;  1LXG A;  1F94 A;  1ABT A;  2FD6 U;  4FAO E;  1DRS A;  1CVO A;  1FF4 A;  1NTN A;  2X8B B;  1NEA A;  2K3G A;  2N99 A;  1JE9 A;  2UX2 A;  2ERA A;  5DZ5 A;  1CRE A;  1HC9 A;  2H62 C;  1CTX A;  2GOO B;  4OM4 A;  1S4Y A;  1KFH A;  1REW C;  2J8B A;  1ERA A;  1HAJ A;  1TXA A;  4EY8 B;  1KBT A;  2MJ4 A;  3KFD E;  2OFS A;  1F8U B;  1KC4 A;  1KS6 A;  4RUD A;  2ABX A;  1KU6 B;  1HOY A;  1CCQ A;  1FSS B;  1CRF A;  1ES7 B;  1KL8 A;  4OM5 A;  2BHI A;  1CXO A;  4KSN A;  1FSC A;  1H0J A;  2CCX A;  1CHV S;  1NXB A;  4LFT A;  1FRA A;  5IMY C;  2PJY C;  1IKC A;  1W6B A;  3U74 U;  2MHY A;  3PLC A;  5DO6 A;  1CDS A;  1KBS A;  3BT1 U;  2JVE A;  2CDX A;  2H7Z B;  2HLR A;  2QJ9 C;  1YWH A;  2LCR A;  3EBX A;  1NYS A;  2MFA A;  2H64 B;  4BDT B;  3NEQ A;  1UG4 A;  2L03 A;  2L5S A;  1COD A;  1QKE A;  1IJC A;  1CXN A;  1NOR A;  1CDR A;  1MR6 A;  2H62 D;  1KXI A;  2LA1 A;  2I9B E;  2MJY A;  1HAA A;  1FAS A;  2CTX A;  1TFS A;  4AEA A;  4DO8 A;  2H7Z A;  5DU1 A;  3LAQ U;  1ZAD A;  3VTS A;  3QB4 B;  4HQP F;  1G6M A;  1B41 B;  1ONJ A;  1RGJ A;  4ZQY A;  1PLO A;  3ERA A;  2UWR A;  2MJ0 A;  3BT2 U; 
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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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#similar chains in the pdb database (?% sequence similarity)
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