1CMXA

Structural basis for the specificity of ubiquitin c-terminal hydrolases
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Knot K -31
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 5-164 160 1-4, 165-229 4 65 knot
Chain Sequence
RAVVPIESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPIN---------------DVIWFKQSVKNACGLYAILHSLSNNQSLLEPGSDLDNFLKSQSDTSSSKNRFDDVTTDQFVLNVIKENVQTFSTGQSEAPEATADTNLHYITYVEENGGIFELDGRNLSGPLYLGKSDPTATDLIEQELVRVRVASYMENANEEDVLNFAMLGLGPN
Whole chain analysis
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
2.1m 7-151 145 1-6 161-214 152-160 6 54 slipknot
sequence length 229
structure length 214
publication title Structural basis for the specificity of ubiquitin C-terminal hydrolases.
pubmed doi rcsb
molecule tags Hydrolase
molecule keywords PROTEIN (UBIQUITIN YUH1-UBAL)
missing residues 58-72
total genus Genus: 69
ec nomenclature ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date 1999-05-12
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 1cmxA00
3RIIA 3IRTA 3KW5A 3IHRA 3RISA 4DM9A 3IFWA 1UCHA 2LENA 2ETLA 1CMXA 3KVFA 3A7SA 1XD3A
chains in the KnotProt database with same CATH superfamily
3RIIA 3IRTA 3KW5A 3IHRA 3RISA 4DM9A 3IFWA 1UCHA 2LENA 2ETLA 1CMXA 3KVFA 3A7SA 1XD3A
chains in the KnotProt database with same CATH topology
3RIIA 3IRTA 3KW5A 3IHRA 3RISA 4DM9A 3IFWA 1UCHA 2LENA 2ETLA 1CMXA 3KVFA 3A7SA 1XD3A
chains in the KnotProt database with same CATH homology


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

 
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#similar chains, but unknotted
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