2XTJA

The crystal structure of pcsk9 in complex with 1d05 fab
Warning
  • Chain breaks within knot 31 (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 83
Slipknot S +31

  Help Knotting data interpretation Full screen
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
+31 29-99 71 1-28 102-268 100-101 28 167 slipknot
Chain Sequence
PWN--------------------SLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDQASKCDSHGTHLAGVVSGRD------AGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLILFSAKD
Whole chain analysis

  Help Knotoid data interpretation Full screen
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


  Help Knotoid subchains data interpretation Full screen
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
2.1 10-69 60 1-9 78-242 70-77 9 165 slipknot
view details
1.1 15-70 56 1-9, 78-242 10-14, 71-77 9 165 slipknot
sequence length 268
structure length 242
publication title A Pcsk9-Binding Antibody that Structurally Mimics the Egf(A) Domain of Ldl-Receptor Reduces Ldl Cholesterol in Vivo.
pubmed doi rcsb
molecule tags Hydrolase/antibody
molecule keywords PROPROTEIN CONVERTASE SUBTILISIN/KEXIN TYPE 9
source organism Homo sapiens
missing residues 4-23, 59-64
total genus Genus: 83
ec nomenclature ec 3.4.21.-:
pdb deposition date 2010-10-10
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00082 Peptidase_S8 Subtilase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.50.200 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold Rossmann fold 2xtjA00
1DBIA 2XTJA
chains in the KnotProt database with same CATH superfamily
1QHIA 1YRLA 1KI3A 2XTJA 1E2PA 3KZOA 4JBYA 1JS1X 1KI6A 2G7MC 3KZMA 1OSNA 1P6XA 3KZNA 3L02A 1E2NA 1P7CA 3M4NA 1KI6B 3L04A 1YH1A 1E2MA 1DBIA 3RDPA 1E2LA 3FR8A 1VTKA 1KI4A 1R4MB 2KI5A 3M4JA 4IVPA 1E2KA 1KI2A 1II9A 3KZCA 3L05A 1YVEI 1P72A 1GKUB 1LNSA 1KIMA 1P73A 3F0TA 1E2HA 1OF1A 1E2JA 1P75A 3M5CA 2FG6C 3KZKA 3FSGA 1E2IA 3M5DA 1R4NB 1QMGA 3L06A 3FR7A 1F48A 4JBXA 4IVRA 1KI8A 4IVQA 2VTKA 1KI7A 3VTKA
chains in the KnotProt database with same CATH topology
2XTJA 3KZOA 3KZMA 2G7MC 1JS1X 3L02A 3KZNA 3M4NA 1YH1A 1DBIA 3M4JA 3KZCA 3L05A 1GKUB 1LNSA 3M5CA 2FG6C 3KZKA 3FSGA 3M5DA 3L06A 3L04A
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 1DBI A;  2XTJ A; 
#chains in the KnotProt database with same CATH topology
 1QHI A;  1YRL A;  1KI3 A;  2XTJ A;  1E2P A;  3KZO A;  4JBY A;  1JS1 X;  1KI6 A;  2G7M C;  3KZM A;  1OSN A;  1P6X A;  3KZN A;  3L02 A;  1E2N A;  1P7C A;  3M4N A;  1KI6 B;  3L04 A;  1YH1 A;  1E2M A;  1DBI A;  3RDP A;  1E2L A;  3FR8 A;  1VTK A;  1KI4 A;  1R4M B;  2KI5 A;  3M4J A;  4IVP A;  1E2K A;  1KI2 A;  1II9 A;  3KZC A;  3L05 A;  1YVE I;  1P72 A;  1GKU B;  1LNS A;  1KIM A;  1P73 A;  3F0T A;  1E2H A;  1OF1 A;  1E2J A;  1P75 A;  3M5C A;  2FG6 C;  3KZK A;  3FSG A;  1E2I A;  3M5D A;  1R4N B;  1QMG A;  3L06 A;  3FR7 A;  1F48 A;  4JBX A;  4IVR A;  1KI8 A;  4IVQ A;  2VTK A;  1KI7 A;  3VTK A; 
#chains in the KnotProt database with same CATH homology
 2XTJ A;  3KZO A;  3KZM A;  2G7M C;  1JS1 X;  3L02 A;  3KZN A;  3M4N A;  1YH1 A;  1DBI A;  3M4J A;  3KZC A;  3L05 A;  1GKU B;  1LNS A;  3M5C A;  2FG6 C;  3KZK A;  3FSG A;  3M5D A;  3L06 A;  3L04 A;
...loading similar chains, please wait...
similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...
How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling