3KVFA

Crystal structure of the i93m mutant of ubiquitin carboxy terminal hydrolase l1 bound to ubiquitin vinylmethylester
Knot K -52 -31 -31
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 5-219 215 1-4, 220-223 4 4 knot
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-31 6-164 159 1-5 218-223 165-217 5 6 slipknot
Chain Sequence
MQLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTMGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTEREQGEVRFSAVALCKAA
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
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3.1m 6-165 160 1-5 177-223 166-176 5 47 slipknot
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2.1m 7-179 173 1-6 185-223 180-184 6 39 slipknot
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3.1m 5-184 180 1-4 196-223 185-195 4 28 slipknot
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3.1m 6-184 179 1-4, 194-223 5-5, 185-193 4 30 slipknot
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2.1m 8-201 194 1-7 215-223 202-214 7 9 slipknot
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3.1m 7-184 178 1-5, 193-223 6-6, 185-192 5 31 slipknot
sequence length 223
structure length 223
publication title Ubiquitin vinyl methyl ester binding orients the misaligned active site of the ubiquitin hydrolase UCHL1 into productive conformation.
pubmed doi rcsb
molecule tags Hydrolase/signaling protein
molecule keywords Ubiquitin carboxyl-terminal hydrolase isozyme L1
source organism Homo sapiens
total genus Genus: 62
ec nomenclature ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date 2009-11-30
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 3kvfA00
3RISA 3KW5A 3RIIA 4DM9A 2LENA 1CMXA 3IHRA 3IFWA 3IRTA 3KVFA 1UCHA 3A7SA 2ETLA 1XD3A
chains in the KnotProt database with same CATH superfamily
3RISA 3KW5A 3RIIA 4DM9A 2LENA 1CMXA 3IHRA 3IFWA 3IRTA 3KVFA 1UCHA 3A7SA 2ETLA 1XD3A
chains in the KnotProt database with same CATH topology
3RISA 3KW5A 3RIIA 4DM9A 2LENA 1CMXA 3IHRA 3IFWA 3IRTA 3KVFA 1UCHA 3A7SA 2ETLA 1XD3A
chains in the KnotProt database with same CATH homology


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