3RISA

Crystal structure of the catalytic domain of uchl5, a proteasome-associated human deubiquitinating enzyme, reveals an unproductive form of the enzyme
Warning
  • Chain breaks within knot 52 (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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
  • 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 69
Alphaknot: Q9Y5K5
Knot K -52 -31 -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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-52 6-218 213 1-5, 219-233 5 15 knot
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-31 6-159 154 1-5 214-233 160-213 5 20 slipknot
Chain Sequence
EWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGEEPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTK------DAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDDWISAVRPVIEKRIQKYSEGEIRFNLMAIVSDRKMIYEQKIAELQ
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 7-153 147 1-6 165-227 154-164 6 63 slipknot
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1.1m 4-164 161 1-3 169-227 165-168 3 59 slipknot
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3.1m 8-174 167 1-7 192-227 175-191 7 36 slipknot
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3.1m 4-191 188 1-3 206-227 192-205 3 22 slipknot
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2.1m 10-192 183 1-9 208-227 193-207 9 20 slipknot
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4.4m 9-213 205 214-227 1-1 2-8 1 13 slipknot
sequence length 233
structure length 227
publication title Crystal structure of the catalytic domain of UCHL5, a proteasome-associated human deubiquitinating enzyme, reveals an unproductive form of the enzyme.
pubmed doi rcsb
molecule tags Hydrolase
molecule keywords Ubiquitin carboxyl-terminal hydrolase isozyme L5
source organism Homo sapiens
missing residues 149-154
total genus Genus: 69
ec nomenclature ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date 2011-04-14
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01088 Peptidase_C12 Ubiquitin carboxyl-terminal hydrolase, family 1
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.532.10 Alpha Beta 3-Layer(aba) Sandwich Ubiquitin C-terminal Hydrolase UCH-l3 Ubiquitin C-terminal Hydrolase Uch-l3 3risA00
3KVFA 3A7SA 3IRTA 4DM9A 1XD3A 2LENA 3IHRA 3KW5A 3RIIA 3RISA 1CMXA 3IFWA 2ETLA 1UCHA
chains in the KnotProt database with same CATH superfamily
3KVFA 3A7SA 3IRTA 4DM9A 1XD3A 2LENA 3IHRA 3KW5A 3RIIA 3RISA 1CMXA 3IFWA 2ETLA 1UCHA
chains in the KnotProt database with same CATH topology
3KVFA 3A7SA 3IRTA 4DM9A 1XD3A 2LENA 3IHRA 3KW5A 3RIIA 3RISA 1CMXA 3IFWA 2ETLA 1UCHA
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 3KVF A;  3A7S A;  3IRT A;  4DM9 A;  1XD3 A;  2LEN A;  3IHR A;  3KW5 A;  3RII A;  3RIS A;  1CMX A;  3IFW A;  2ETL A;  1UCH A; 
#chains in the KnotProt database with same CATH topology
 3KVF A;  3A7S A;  3IRT A;  4DM9 A;  1XD3 A;  2LEN A;  3IHR A;  3KW5 A;  3RII A;  3RIS A;  1CMX A;  3IFW A;  2ETL A;  1UCH A; 
#chains in the KnotProt database with same CATH homology
 3KVF A;  3A7S A;  3IRT A;  4DM9 A;  1XD3 A;  2LEN A;  3IHR A;  3KW5 A;  3RII A;  3RIS A;  1CMX A;  3IFW A;  2ETL A;  1UCH 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