2LEN | Genus

Total Genus 50

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	50
Knots found	KnotProt 2.0: K -5₂ -3₁ -3₁
sequence length	231
structure length	231
Chain Sequence	MQLKPMEINPEMLNKVLYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQCRVDDKVNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTEREQGEVRFSAVALCKAALEHHHHHH

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

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The Resolver thinks Pdb

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reading 231 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

231 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 21 ms

Adding embedded #jmolscript: select ({0:230});backbone only;select *;

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

Genus data interpretation

Chord Diagram

molecule tags	Hydrolase
source organism	Homo sapiens
publication title	Backbone and side-chain (1)H, (15)N and (13)C resonance assignments of S18Y mutant of ubiquitin carboxy-terminal hydrolase L1 rcsb
molecule keywords	Ubiquitin carboxyl-terminal hydrolase isozyme L1
total genus	50
structure length	231
sequence length	231
other databases	KnotProt 2.0: K -5₂ -3₁ -3₁
ec nomenclature	ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date	2011-06-19

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	Class	Architecture	Topology	Homology	Domain
3.40.532.10	Alpha Beta	3-Layer(aba) Sandwich	Ubiquitin C-terminal Hydrolase UCH-l3	Peptidase C12, ubiquitin carboxyl-terminal hydrolase	2lenA00

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

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

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

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

...loading similar chains, please wait...
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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2LENA

Total Genus

Knots found

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations