2CKH Hydrolase date Apr 18, 2006
title Senp1-Sumo2 Complex
authors L.N.Shen, C.Dong, H.Liu, R.T.Hay, J.H.Naismith
compound source
Molecule: Sentrin-Specific Protease 1
Chain: A
Fragment: Protease Domain, Residues 419-643
Synonym: Senterin Protease 1, Sentrinsumo-Specific Proteas
Ec: 3.4.22.-
Engineered: Yes
Other_details: Covalently Linked To Sumo
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet Derived

Molecule: Small Ubiquitin-Related Modifier 2
Chain: B
Synonym: Sumo2, Sumo-2, Ubiquitin-Like Protein Smt3b, Smt3 Sentrin-2, Hsmt3;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet Derived
symmetry Space Group: P 32 2 1
R_factor 0.245 R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
143.376 143.376 71.886 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.20 Å
ligand
enzyme Hydrolase E.C.3.4.22 BRENDA
note 2CKH supersedes 2BZO
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe structure of SENP1-SUMO-2 complex suggests a structural basis for discrimination between SUMO paralogues during processing., Shen LN, Dong C, Liu H, Naismith JH, Hay RT, Biochem J. 2006 Jul 15;397(2):279-88. PMID:16553580
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (2ckh.pdb1.gz) 50 Kb
  • CSU: Contacts of Structural Units for 2CKH
  • Likely Quarternary Molecular Structure file(s) for 2CKH
  • Structure Factors (200 Kb)
  • Retrieve 2CKH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2CKH from S2C, [Save to disk]
  • Re-refined 2ckh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2CKH in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2CKH
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2CKH, from MSDmotif at EBI
  • Fold representative 2ckh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ckh_A] [2ckh_B] [2ckh]
  • SWISS-PROT database: [Q9P0U3] [P61956]
  • Domain organization of [SENP1_HUMAN] [SUMO2_HUMAN] by SWISSPFAM
  • Domain found in 2CKH: [UBQ ] by SMART
  • Other resources with information on 2CKH
  • Community annotation for 2CKH at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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