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
b'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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publication title Structural Basis for Receptor Recognition by the Human CD59-Responsive Cholesterol-Dependent Cytolysins.
pubmed doi rcsb
molecule keywords Vaginolysin
source organism Gardnerella vaginalis
molecule tags Toxin/toxin receptor
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
4RUDA 2H64B 5IMYC 4LFTA 2UX2A 2MJYA 2JQPA 1KU6B 1LXGA 1RGJA 3LAQU 1ONJA 1HC9A 2CRSA 5IMTD 4BIKB 1CTXA 1REWC 4FAOC 1KBTA 1CODA 1M9ZA 3EBXA 3HH7A 4XJJA 3FEVA 2H8UA 1ES7B 2LCRA 2QJ9C 1RL5A 3PLCA 1UG4A 2CDXA 1KBSA 1FFJA 2CCXA 1PLOA 1NXBA 5DU1A 3NDSA 1CDQA 2HLQA 2MUOA 1CDSA 1IQ9A 1CXNA 1TGXA 1MAHF 2BHIA 5DO6A 1IJCA 1ERAA 1ZADA 1VB0A 1QM7A 2VLWA 1KC4A 2H5FA 2ERAA 3ERAA 1IKCA 1NTNA 2QJAC 1LXHA 2MHYA 1QKDA 2LA1A 4ZQYA 4IYEA 1TXBA 4BDTB 1HC9B 1CCQA 1I02A 2L5SA 2H62D 2OFSA 4P7UA 2CTXA 1BXPA 1ERGA 3KFDI 2K3GA 1W6BA 1LX5B 1KFHA 1JBDA 2UWRA 1KS6A 4HQPF 1CDTA 1LJZA 2MUPA 1KTZB 1CDRA 1H0JA 1CHVS 1NYUA 2QC1A 4QTIU 4DO8A 1DRSA 2J8BA 1FSCA 1QKEA 3NEQA 3NH7A 1FRAA 1FASA 2GOOC 1CXOA 1NYSA 2ABXA 3EVSC 1L4WA 1S4YA 2HLRA 4OM4A 5DZ5A 1F8UB 1ABTA 1KXIA 2L03A 1HOYA 1IDLA 3U73U 2H62C 3QB4B 6EBXA 1JE9A 1FF4A 1KL8A 1CB9A 3KFDE 4OM5A 1IDHA 2MJ0A 1HAAA 1XT3A 2NBTA 1IDGA 2H7ZA 4UY2C 4EY8B 1G6MA 2H7ZB 5EBXA 2I9BE 2N99A 1CVOA 4FAOE 1LSIA 1B41B 1V6PA 2JVEA 1HAJA 1CRFA 4AEAA 1FSSB 3BT1U 1F94A 1NEAA 1CREA 3BT2U 1TXAA 1TFSA 1BTEA 2GOOB 1NORA 3VTSA 2X8BB 2MJ4A 3U74U 2BTXA 1JGKA 1NTXA 2PJYC 2QJBC 2H64C 2MFAA 1KBAA 1MR6A 2CRTA 2FD6U 1YWHA 1IK8A 1IDIA 1COEA 2PJYB
chains in the Genus database with same CATH superfamily
4RUDA 2H64B 5IMYC 4LFTA 2UX2A 2MJYA 2JQPA 4KSNA 1KU6B 1LXGA 1RGJA 3LAQU 1ONJA 1HC9A 2CRSA 5IMTD 4BIKB 1CTXA 1REWC 4FAOC 1KBTA 1CODA 1M9ZA 3EBXA 3HH7A 4XJJA 3FEVA 2H8UA 1ES7B 2LCRA 2QJ9C 1RL5A 3PLCA 1UG4A 2CDXA 1KBSA 1FFJA 2CCXA 1PLOA 1NXBA 5DU1A 3NDSA 1CDQA 2HLQA 2MUOA 1CDSA 1IQ9A 1CXNA 1TGXA 1MAHF 2BHIA 5DO6A 1IJCA 1ERAA 1ZADA 1VB0A 1QM7A 2VLWA 1KC4A 2H5FA 2ERAA 3ERAA 1IKCA 1NTNA 2QJAC 1LXHA 2MHYA 1QKDA 2LA1A 4ZQYA 4IYEA 1TXBA 4BDTB 1HC9B 1CCQA 1I02A 2L5SA 2H62D 2OFSA 4P7UA 2CTXA 1BXPA 1ERGA 3KFDI 2K3GA 1W6BA 1LX5B 1KFHA 1JBDA 2UWRA 1KS6A 4HQPF 1CDTA 1LJZA 2MUPA 1KTZB 1CDRA 1H0JA 1CHVS 1NYUA 2QC1A 4QTIU 4DO8A 1DRSA 2J8BA 1FSCA 1QKEA 3NEQA 3NH7A 1FRAA 1FASA 2GOOC 1CXOA 1NYSA 2ABXA 3EVSC 1L4WA 1S4YA 2HLRA 4OM4A 5DZ5A 1F8UB 1ABTA 1KXIA 2L03A 1HOYA 1IDLA 3U73U 2H62C 3QB4B 6EBXA 1JE9A 1FF4A 1KL8A 1CB9A 3KFDE 4OM5A 1IDHA 2MJ0A 1HAAA 1XT3A 2NBTA 1IDGA 2H7ZA 4UY2C 4EY8B 1G6MA 2H7ZB 5EBXA 2I9BE 2N99A 1CVOA 4FAOE 1LSIA 1B41B 1V6PA 2JVEA 1HAJA 1CRFA 4AEAA 1FSSB 3BT1U 1F94A 1NEAA 1CREA 3BT2U 1TXAA 1TFSA 1BTEA 2GOOB 1NORA 3VTSA 2X8BB 2MJ4A 3U74U 2BTXA 1JGKA 1NTXA 2PJYC 2QJBC 2H64C 2MFAA 1KBAA 1MR6A 2CRTA 2FD6U 1YWHA 1IK8A 1IDIA 1COEA 2PJYB
chains in the Genus database with same CATH topology
4RUDA 2H64B 5IMYC 4LFTA 2UX2A 2MJYA 2JQPA 4KSNA 1KU6B 1LXGA 1RGJA 3LAQU 1ONJA 1HC9A 2CRSA 5IMTD 4BIKB 1CTXA 1REWC 4FAOC 1KBTA 1CODA 1M9ZA 3EBXA 3HH7A 4XJJA 3FEVA 2H8UA 1ES7B 2LCRA 2QJ9C 1RL5A 3PLCA 1UG4A 2CDXA 1KBSA 1FFJA 2CCXA 1PLOA 1NXBA 5DU1A 3NDSA 1CDQA 2HLQA 2MUOA 1CDSA 1IQ9A 1CXNA 1TGXA 1MAHF 2BHIA 5DO6A 1IJCA 1ERAA 1ZADA 1VB0A 1QM7A 2VLWA 1KC4A 2H5FA 2ERAA 3ERAA 1IKCA 1NTNA 2QJAC 1LXHA 2MHYA 1QKDA 2LA1A 4ZQYA 4IYEA 1TXBA 4BDTB 1HC9B 1CCQA 1I02A 2L5SA 2H62D 2OFSA 4P7UA 2CTXA 1BXPA 1ERGA 3KFDI 2K3GA 1W6BA 1LX5B 1KFHA 1JBDA 2UWRA 1KS6A 4HQPF 1CDTA 1LJZA 2MUPA 1KTZB 1CDRA 1H0JA 1CHVS 1NYUA 2QC1A 4QTIU 4DO8A 1DRSA 2J8BA 1FSCA 1QKEA 3NEQA 3NH7A 1FRAA 1FASA 2GOOC 1CXOA 1NYSA 2ABXA 3EVSC 1L4WA 1S4YA 2HLRA 4OM4A 5DZ5A 1F8UB 1ABTA 1KXIA 2L03A 1HOYA 1IDLA 3U73U 2H62C 3QB4B 6EBXA 1JE9A 1FF4A 1KL8A 1CB9A 3KFDE 4OM5A 1IDHA 2MJ0A 1HAAA 1XT3A 2NBTA 1IDGA 2H7ZA 4UY2C 4EY8B 1G6MA 2H7ZB 5EBXA 2I9BE 2N99A 1CVOA 4FAOE 1LSIA 1B41B 1V6PA 2JVEA 1HAJA 1CRFA 4AEAA 1FSSB 3BT1U 1F94A 1NEAA 1CREA 3BT2U 1TXAA 1TFSA 1BTEA 2GOOB 1NORA 3VTSA 2X8BB 2MJ4A 3U74U 2BTXA 1JGKA 1NTXA 2PJYC 2QJBC 2H64C 2MFAA 1KBAA 1MR6A 2CRTA 2FD6U 1YWHA 1IK8A 1IDIA 1COEA 2PJYB
chains in the Genus database with same CATH homology


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