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


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