4JKJA

Crystal structure of the s18y variant of ubiquitin carboxy-terminal hydrolase l1
Total Genus 72
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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
72
Knots found
sequence length
223
structure length
223
Chain Sequence
MQLKPMEINPEMLNKVLYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTEREQGEVRFSAVALCKAA
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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 Crystal Structure of the S18Y Variant of Ubiquitin Carboxy-terminal Hydrolase L1
rcsb
source organism Homo sapiens
molecule tags Hydrolase
molecule keywords Ubiquitin carboxyl-terminal hydrolase isozyme L1
total genus 72
structure length 223
sequence length 223
chains with identical sequence B
other databases KnotProt 2.0: K -52 -31 -31
ec nomenclature ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date 2013-03-09

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 4jkjA00
3RISA 3RIIA 4UEMA 4UELA 2ETLA 3IRTA 3TB3A 1XD3A 3KW5A 2LENA 4IG7A 1UCHA 3IFWA 4JKJA 3IHRA 1CMXA 3KVFA 4I6NA 4DM9A 3A7SA
chains in the Genus database with same CATH superfamily
3RISA 3RIIA 4UEMA 4UELA 2ETLA 3IRTA 3TB3A 1XD3A 3KW5A 2LENA 4IG7A 1UCHA 3IFWA 4JKJA 3IHRA 1CMXA 3KVFA 4I6NA 4DM9A 3A7SA
chains in the Genus database with same CATH topology
3RISA 3RIIA 4UEMA 4UELA 2ETLA 3IRTA 3TB3A 1XD3A 3KW5A 2LENA 4IG7A 1UCHA 3IFWA 4JKJA 3IHRA 1CMXA 3KVFA 4I6NA 4DM9A 3A7SA
chains in the Genus database with same CATH homology


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