3KVFA

Crystal structure of the i93m mutant of ubiquitin carboxy terminal hydrolase l1 bound to ubiquitin vinylmethylester
Total Genus 62
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
62
Knots found
sequence length
223
structure length
223
Chain Sequence
MQLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTMGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTEREQGEVRFSAVALCKAA
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Ubiquitin vinyl methyl ester binding orients the misaligned active site of the ubiquitin hydrolase UCHL1 into productive conformation.
pubmed doi rcsb
source organism Homo sapiens
molecule tags Hydrolase/signaling protein
molecule keywords Ubiquitin carboxyl-terminal hydrolase isozyme L1
total genus 62
structure length 223
sequence length 223
other databases KnotProt 2.0: K -52 -31 -31
ec nomenclature ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date 2009-11-30

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 Peptidase C12, ubiquitin carboxyl-terminal hydrolase 3kvfA00
4DM9A 4IG7A 1UCHA 4UEMA 4JKJA 1CMXA 3RIIA 3RISA 4UELA 2LENA 3KW5A 3IRTA 2ETLA 3A7SA 3KVFA 1XD3A 3IHRA 4I6NA 3TB3A 3IFWA
chains in the Genus database with same CATH superfamily
4DM9A 4IG7A 1UCHA 4UEMA 4JKJA 1CMXA 3RIIA 3RISA 4UELA 2LENA 3KW5A 3IRTA 2ETLA 3A7SA 3KVFA 1XD3A 3IHRA 4I6NA 3TB3A 3IFWA
chains in the Genus database with same CATH topology
4DM9A 4IG7A 1UCHA 4UEMA 4JKJA 1CMXA 3RIIA 3RISA 4UELA 2LENA 3KW5A 3IRTA 2ETLA 3A7SA 3KVFA 1XD3A 3IHRA 4I6NA 3TB3A 3IFWA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4DM9 A;  4IG7 A;  1UCH A;  4UEM A;  4JKJ A;  1CMX A;  3RII A;  3RIS A;  4UEL A;  2LEN A;  3KW5 A;  3IRT A;  2ETL A;  3A7S A;  3KVF A;  1XD3 A;  3IHR A;  4I6N A;  3TB3 A;  3IFW A; 
#chains in the Genus database with same CATH topology
 4DM9 A;  4IG7 A;  1UCH A;  4UEM A;  4JKJ A;  1CMX A;  3RII A;  3RIS A;  4UEL A;  2LEN A;  3KW5 A;  3IRT A;  2ETL A;  3A7S A;  3KVF A;  1XD3 A;  3IHR A;  4I6N A;  3TB3 A;  3IFW A; 
#chains in the Genus database with same CATH homology
 4DM9 A;  4IG7 A;  1UCH A;  4UEM A;  4JKJ A;  1CMX A;  3RII A;  3RIS A;  4UEL A;  2LEN A;  3KW5 A;  3IRT A;  2ETL A;  3A7S A;  3KVF A;  1XD3 A;  3IHR A;  4I6N A;  3TB3 A;  3IFW A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus 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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