3NDAA

Crystal structure of serpin from tick ixodes ricinus
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 134
Slipknot S -31

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Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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-31 235-344 110 345-377 1-221 222-234 221 32 slipknot
Chain Sequence
MQEEAKLTKANNRFGLRLLRALPSGPEKNVFFSPYSVSTAMGMAFAGARGQTQQELSQGLGFSDVDLTDAGVLDAYTHHTERLKSTPSNSTLDVANAAAIQRTLALLNSYESALQSSFGAELHKVDFAGEPQAAVDFVNNWVKRKTHDKIEKLFNEPLDPDTLLVLLNAIYFKGEWNTAFVKEHTEKRQFFNGGVTPVEVDTMRLEARIKYRFFDDLQVEVVELPYRGLDYTMAILLPKENTGVEGLKQNLTIDRFQNYLSDLRERKITVLLPKFKLETKYSLKAPLQSLGIKQIFESGADLSGINDGSLRVSAVEHKAVVEVNEEGTVAAATTGVVIVPY---PEPVVFRVDHPFLFFIRNTRTDDIFFVGQVNKL
Whole chain analysis

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Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


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Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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2.1m 226-341 116 1-220, 347-374 221-225, 342-346 220 28 slipknot
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3.1m 232-343 112 1-224, 354-374 225-231, 344-353 224 21 slipknot
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3.1m 233-371 139 372-374 1-226 227-232 226 2 slipknot
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2.1m 236-341 106 1-229, 347-374 230-235, 342-346 229 28 slipknot
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2.1m 237-342 106 1-235, 347-374 236-236, 343-346 235 28 slipknot
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3.1m 235-347 113 1-231, 353-374 232-234, 348-352 231 22 slipknot
sequence length 377
structure length 374
publication title A tick salivary protein targets cathepsin G and chymase and inhibits host inflammation and platelet aggregation.
pubmed doi rcsb
molecule tags Hydrolase inhibitor
molecule keywords Serpin-2
source organism Ixodes ricinus
missing residues 342-344
total genus Genus: 134
ec nomenclature
pdb deposition date 2010-06-07
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00079 Serpin Serpin (serine protease inhibitor)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.30.39.10 Mainly Beta Roll Alpha-1-antitrypsin; domain 1 Alpha-1-antitrypsin, domain 1 3ndaA02
3.30.497.10 Alpha Beta 2-Layer Sandwich Antithrombin; Chain I, domain 2 Antithrombin, subunit I, domain 2 3ndaA01
2WXZC 1BY7A 3NDAA
chains in the KnotProt database with same CATH superfamily
2WXZC 1BY7A 3NDAA
chains in the KnotProt database with same CATH topology
2WXZC 1BY7A 3NDAA
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 2WXZ C;  1BY7 A;  3NDA A; 
#chains in the KnotProt database with same CATH topology
 2WXZ C;  1BY7 A;  3NDA A; 
#chains in the KnotProt database with same CATH homology
 2WXZ C;  1BY7 A;  3NDA A;
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the KnotProt 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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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling